PeakID (cmd=annotatePeaks.pl merged_SE_SSE2_MS9.GO0003677.bed mm10 -size given -wig ./mouse_H3K27ac_DM260TN_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_HZ490LymphE_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_HZ490LypmD_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_JT1232_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_JT1458_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_JT1458_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_JT1571_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KBc8513_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KL6663T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KL6668T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KL6835T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KL6948T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KN2147T3_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KN2182N_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KN2261N_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KR131_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_KRc1959_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_LX4143TN_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1458_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1459_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1459_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1461_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1462_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_RB1462_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig ./mouse_H3K27ac_TDc77_223_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig) Chr Start End Strand Peak Score Focus Ratio/Region Size Annotation Detailed Annotation Distance to TSS Nearest PromoterID Entrez ID Nearest Unigene Nearest Refseq Nearest Ensembl Gene Name Gene Alias Gene Description Gene Type ./mouse_H3K27ac_DM260TN_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_HZ490LymphE_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_HZ490LypmD_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_JT1232_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_JT1458_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_JT1458_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_JT1571_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KBc8513_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KL6663T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KL6668T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KL6835T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KL6948T_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KN2147T3_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KN2182N_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KN2261N_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KR131_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_KRc1959_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_LX4143TN_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1458_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1459_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1459_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1461_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1462_NewLib_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_RB1462_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp ./mouse_H3K27ac_TDc77_223_treat_rep1_p5_swig_treat_afterfiting_all.scaled.wig wig avg over given bp 127 chr1 134188041 134192655 + 0 NA TTS (NM_007695) TTS (NM_007695) -3100 NM_016749 53311 Mm.379067 NM_016749 ENSMUSG00000042451 Mybph AI385643|MyBP-H myosin binding protein H protein-coding 8.324 1.478 0.668 nan 5.734 4.928 5.238 3.264 3.153 4.019 8.761 2.086 4.649 6.090 4.087 6.019 2.766 4.863 1.443 1.091 1.169 1.081 1.712 1.681 nan 1801 chr19 47042302 47047843 + 0 NA intron (NR_133574, intron 5 of 9) B1_Mm|SINE|Alu 5834 NM_027654 71041 Mm.35413 NM_027654 ENSMUSG00000025050 Pcgf6 4933407A11Rik|AI604840|MBLR|Rnf134 polycomb group ring finger 6 protein-coding 2.844 3.027 1.984 nan 5.344 3.566 5.241 7.323 2.282 2.915 3.115 2.746 3.759 7.744 4.891 5.926 4.856 nan 3.333 3.884 2.699 4.344 5.046 3.529 3.589 71 chr1 72990673 72993120 + 0 NA Intergenic RMER15|LTR|ERVL 24003 NM_009407 21958 Mm.425024 NM_009407 ENSMUSG00000026182 Tnp1 Stp-1|TP1|Tp-1 transition protein 1 protein-coding 5.743 0.840 0.374 1.743 1.123 0.635 5.143 4.936 2.101 1.894 1.391 0.695 4.286 2.989 5.543 11.795 8.475 4.460 2.686 1.645 0.551 1.276 3.209 2.362 6.235 1648 chr18 55138249 55153123 + 0 NA Intergenic Intergenic -155506 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 10.497 nan 3.154 nan 7.985 4.385 8.535 nan 6.031 8.521 3.047 3.476 nan 10.137 6.608 8.981 8.526 nan nan 4.742 3.122 nan 6.391 5.282 nan 1481 chr17 32028953 32044220 + 0 NA exon (NM_028244, exon 1 of 16) exon (NM_028244, exon 1 of 16) 424 NM_028244 72462 Mm.102761 NM_028244 ENSMUSG00000058392 Rrp1b 2600005C20Rik|D030064A17|Kiaa0179|mKIAA0179 ribosomal RNA processing 1 homolog B (S. cerevisiae) protein-coding 4.763 1.801 0.936 6.872 6.194 4.227 5.906 3.907 4.921 7.011 5.687 3.096 4.658 7.145 4.105 nan 4.062 6.304 0.768 1.185 1.282 1.357 1.372 1.103 5.530 3596 chrX 137199402 137200402 + 0 NA Intergenic L1Md_A|LINE|L1 -79576 NM_007957 13984 Mm.8017 NM_007957 ENSMUSG00000023443 Esx1 Spx1 extraembryonic, spermatogenesis, homeobox 1 protein-coding 4.275 5.352 1.497 8.281 3.497 3.718 4.887 3.753 3.729 11.105 6.487 2.221 2.994 3.169 4.685 5.700 3.098 7.249 3.149 1.270 3.866 4.802 1.966 4.800 11.739 3074 chr7 25240987 25249695 + 0 NA exon (NM_010155, exon 4 of 4) exon (NM_010155, exon 4 of 4) 5417 NM_010155 13875 Mm.8068 NM_010155 ENSMUSG00000040857 Erf - Ets2 repressor factor protein-coding 8.789 2.610 0.942 6.751 6.855 4.400 5.467 10.145 5.363 5.672 6.294 4.313 4.657 8.864 5.286 5.678 4.149 6.993 1.224 2.016 1.563 1.365 1.206 1.080 6.990 3509 chr9 65756245 65758041 + 0 NA intron (NM_172536, intron 2 of 9) intron (NM_172536, intron 2 of 9) 70421 NM_172536 214812 Mm.139231 NM_172536 ENSMUSG00000040524 Zfp609 9830165N24|BC016271|Znf609|mKIAA0295 zinc finger protein 609 protein-coding 7.224 8.142 2.053 6.228 3.447 1.486 5.509 5.773 4.319 6.549 6.883 2.865 5.577 6.933 6.276 7.936 4.521 6.800 nan 2.452 2.976 5.737 3.723 2.495 12.121 2927 chr6 87859137 87867711 + 0 NA Intergenic Intergenic -12318 NM_001347325 12785 Mm.290251 NM_013493 ENSMUSG00000030057 Cnbp AA408710|Cnbp1|Znf9 cellular nucleic acid binding protein protein-coding 2.294 11.525 5.236 nan 1.727 1.183 2.840 4.056 1.919 2.711 1.403 1.370 2.552 2.854 3.245 3.786 2.488 nan nan 1.465 1.401 2.443 1.745 2.203 3.259 2266 chr3 96065527 96068370 + 0 NA Intergenic MTD|LTR|ERVL-MaLR -8493 NM_013841 22365 Mm.263185 NM_013841 ENSMUSG00000015747 Vps45 AI462172|AW554165|mVps45 vacuolar protein sorting 45 protein-coding 11.665 15.277 5.206 9.667 8.333 3.353 9.036 10.708 6.289 9.099 9.766 3.756 10.828 14.247 9.887 11.270 9.961 10.491 8.077 5.889 3.297 8.997 6.304 4.537 14.159 3163 chr7 116771673 116775394 + 0 NA Intergenic ORR1A1-int|LTR|ERVL-MaLR 269164 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 6.409 1.435 1.011 5.446 4.978 2.994 3.118 5.673 3.668 3.484 6.265 3.008 3.532 3.968 3.399 3.373 3.281 5.745 2.222 1.339 1.029 1.300 2.185 1.867 4.603 1178 chr15 81784163 81785894 + 0 NA intron (NM_001081016, intron 16 of 22) L2|LINE|L2 -17645 NM_153484 21685 Mm.270278 NM_017376 ENSMUSG00000022389 Tef 2310028D20Rik thyrotroph embryonic factor protein-coding 4.056 nan 0.682 2.463 3.221 3.052 6.563 6.229 4.284 nan nan 3.953 3.996 3.818 4.534 5.752 5.056 3.976 1.284 0.917 0.650 nan 0.663 1.007 5.189 2915 chr6 86504851 86508224 + 0 NA Intergenic Intergenic -18310 NR_040292 381792 Mm.333223 NR_040292 ENSMUSG00000101655 2310040G24Rik - RIKEN cDNA 2310040G24 gene ncRNA 5.240 1.347 1.145 3.219 5.891 5.414 9.638 4.422 6.189 5.279 4.060 2.017 7.407 9.586 5.378 7.688 7.819 4.867 nan 1.403 2.077 0.788 1.580 1.840 4.891 1387 chr16 96075717 96079426 + 0 NA intron (NM_001103179, intron 4 of 40) intron (NM_001103179, intron 4 of 40) 4857 NM_001103179 93871 Mm.240871 NM_145125 ENSMUSG00000022914 Brwd1 5330419I02Rik|D530019K20Rik|G1-403-16|Wdr9|repro5 bromodomain and WD repeat domain containing 1 protein-coding 5.416 0.950 0.668 4.072 4.139 2.314 4.407 4.450 nan 5.034 1.398 1.441 6.089 6.661 nan 7.876 5.631 6.465 4.412 3.034 2.536 3.718 6.174 4.194 5.079 512 chr11 82876209 82881222 + 0 NA non-coding (NR_102720, exon 9 of 9) non-coding (NR_102720, exon 9 of 9) -7505 NM_001164571 67338 Mm.341608 NM_026097 ENSMUSG00000020696 Rffl 1700051E09Rik|4930516L10Rik|BG080975|Carp2 ring finger and FYVE like domain containing protein protein-coding 9.546 13.264 5.312 5.809 4.115 2.387 nan 3.767 2.593 4.148 5.809 2.384 1.904 3.542 nan nan 2.294 nan 1.239 2.574 nan 0.655 0.780 0.527 3.578 1932 chr2 103226954 103231056 + 0 NA Intergenic Intergenic 74191 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 3.306 0.648 0.254 1.691 1.317 0.329 2.610 3.570 2.519 3.174 1.164 0.344 4.434 7.424 5.545 5.075 3.810 2.857 0.766 0.581 0.209 nan 0.506 0.238 5.743 463 chr11 69773889 69776559 + 0 NA intron (NM_029348, intron 1 of 3) intron (NM_029348, intron 1 of 3) 9312 NM_029348 75580 Mm.426361 NM_029348 ENSMUSG00000018750 Zbtb4 2310026P19Rik|9230111I22Rik|mKIAA1538 zinc finger and BTB domain containing 4 protein-coding 2.379 0.771 0.712 1.102 2.506 1.274 3.183 5.028 2.177 2.118 7.215 4.873 2.353 nan 2.713 2.708 2.028 2.678 1.076 0.790 0.942 0.599 nan 0.977 nan 517 chr11 85086424 85094828 + 0 NA intron (NM_001029934, intron 2 of 33) L1_Mur2|LINE|L1 49329 NM_001029934 237898 Mm.178524 NM_001029934 ENSMUSG00000000804 Usp32 2900074J03Rik|6430526O11Rik|AW045245 ubiquitin specific peptidase 32 protein-coding 4.281 0.623 0.463 nan 5.558 4.061 4.619 4.372 4.497 4.961 5.239 2.200 5.593 6.898 4.325 3.474 3.266 3.541 0.755 0.764 0.605 nan 1.129 0.605 nan 458 chr11 69691891 69695547 + 0 NA intron (NM_001034097, intron 3 of 12) intron (NM_001034097, intron 3 of 12) 2379 NM_011614 21944 Mm.8983 NM_011614 ENSMUSG00000097328 Tnfsf12 Apo3l|Dr3l|Dr3lg|Tweak tumor necrosis factor (ligand) superfamily, member 12 protein-coding 7.983 6.601 1.848 9.718 2.933 1.406 7.162 8.978 4.590 6.923 8.659 4.850 7.491 8.531 9.454 10.258 5.560 8.370 2.573 2.027 1.349 3.233 nan 1.449 11.818 2634 chr5 24565736 24578085 + 0 NA intron (NM_013853, intron 5 of 13) intron (NM_013853, intron 5 of 13) 5557 NM_013853 27407 Mm.21629 NM_013853 ENSMUSG00000028953 Abcf2 0710005O05Rik|Drr3|E430001O06 ATP-binding cassette, sub-family F (GCN20), member 2 protein-coding 6.457 1.182 0.401 5.485 3.329 1.803 7.330 7.148 5.669 8.495 0.677 1.086 8.549 9.797 7.977 8.289 6.046 8.128 2.863 1.343 0.824 3.520 3.908 2.821 8.291 1785 chr19 45153771 45155326 + 0 NA intron (NM_021901, intron 2 of 2) intron (NM_021901, intron 2 of 2) 3833 NM_021901 21908 Mm.391203 NM_021901 ENSMUSG00000025215 Tlx1 Hox-11|Hox11|Tlx-1 T cell leukemia, homeobox 1 protein-coding 2.761 1.767 0.505 4.290 1.840 0.664 3.343 2.195 1.943 3.304 1.213 1.571 2.692 4.325 5.138 4.702 1.554 3.295 1.497 1.065 1.045 2.839 1.124 1.197 6.617 1250 chr15 103140403 103141661 + 0 NA intron (NR_045743, intron 3 of 6) B3|SINE|B2 5796 NR_045743 432989 Mm.383979 NR_045743 ENSMUSG00000097003 D930007P13Rik - Riken cDNA D930007P13 gene ncRNA 4.959 2.183 1.359 1.268 2.312 1.242 4.332 4.700 nan 1.864 2.374 1.225 4.332 4.211 2.852 2.285 3.803 2.251 0.973 1.135 1.405 0.861 0.772 0.731 1.976 3588 chrX 106207778 106209658 + 0 NA intron (NM_001001176, intron 6 of 6) intron (NM_001001176, intron 6 of 6) 11124 NM_001001176 407786 Mm.19440 NM_001001176 ENSMUSG00000047242 Taf9b BC066223|Taf9l TATA-box binding protein associated factor 9B protein-coding 4.170 3.855 1.649 4.273 2.812 1.004 2.842 3.094 3.382 3.090 3.463 2.280 2.844 4.906 4.732 5.154 2.831 3.125 3.129 2.256 0.786 3.142 2.774 2.400 3.686 1363 chr16 87712817 87717798 + 0 NA intron (NM_007520, intron 1 of 4) intron (NM_007520, intron 1 of 4) 16353 NM_007520 12013 Mm.26147 NM_007520 ENSMUSG00000025612 Bach1 6230421P05Rik|AI323795 BTB and CNC homology 1, basic leucine zipper transcription factor 1 protein-coding 3.944 nan 0.505 4.252 1.938 0.930 1.284 4.705 3.453 3.169 1.885 1.291 2.742 4.129 3.192 4.504 2.392 5.811 1.159 0.989 0.382 nan 0.778 0.290 3.699 722 chr12 33677149 33687145 + 0 NA Intergenic (TA)n|Simple_repeat|Simple_repeat -246278 NM_033522 114712 Mm.204643 NM_033522 ENSMUSG00000046518 Ferd3l Mnato3|N-twist|Nato|Nato3|Ntwist|Ptfb|bHLHa31|fer3 Fer3-like (Drosophila) protein-coding 4.225 10.474 6.599 2.713 3.730 2.016 3.779 2.615 nan 3.295 1.251 0.942 4.516 4.858 4.343 5.604 4.167 4.883 nan 1.198 1.314 1.521 1.199 0.942 6.271 2507 chr4 133036061 133038218 + 0 NA intron (NM_146155, intron 2 of 6) MER33|DNA|hAT-Charlie 25633 NM_146155 230793 Mm.31816 NM_146155 ENSMUSG00000037692 Ahdc1 D030015G18Rik AT hook, DNA binding motif, containing 1 protein-coding 4.261 2.122 0.837 5.076 3.019 1.927 2.367 4.323 nan 4.717 5.605 1.859 1.894 4.916 3.268 3.134 1.033 4.884 2.574 0.684 0.604 2.870 nan 1.255 3.047 3051 chr7 3595421 3598725 + 0 NA Intergenic RMER3D-int|LTR|ERVK 19084 NM_175632 232790 Mm.358882 NM_175632 ENSMUSG00000054594 Oscar mOSCAR|mOSCAR-M1|mOSCAR-M2|mOSCAR-M3 osteoclast associated receptor protein-coding 7.050 9.612 3.368 7.619 3.907 2.609 6.113 6.811 4.283 8.790 5.266 3.557 5.977 7.873 6.830 7.004 5.714 6.977 4.845 3.408 2.582 5.263 3.781 3.956 10.062 1109 chr15 59355173 59359521 + 0 NA intron (NM_153548, intron 9 of 28) intron (NM_153548, intron 9 of 28) 16805 NM_153548 223593 Mm.218665 NM_153548 ENSMUSG00000022350 Washc5 AL022848|C76463|E430025E21Rik|Kiaa0196|mKIAA0196|strumpellin WASH complex subunit 5 protein-coding 3.422 8.906 3.884 2.762 2.401 1.084 nan 6.205 nan nan 4.188 4.180 5.034 3.842 5.258 3.280 2.668 4.975 4.664 1.729 0.986 3.555 2.482 1.510 2.452 2067 chr2 163445560 163447161 + 0 NA intron (NM_144891, intron 2 of 5) intron (NM_144891, intron 2 of 5) 7893 NM_144891 228858 Mm.102080 NM_144891 ENSMUSG00000017943 Gdap1l1 Gdap1l ganglioside-induced differentiation-associated protein 1-like 1 protein-coding 5.274 1.733 1.080 2.836 3.882 2.215 4.064 8.322 3.791 4.015 2.307 1.252 6.714 5.495 6.360 7.050 6.740 5.896 1.618 0.655 0.959 2.156 0.866 0.905 4.701 1630 chr18 42433416 42436311 + 0 NA Intergenic Intergenic 40266 NM_138945 18998 Mm.488204 NM_138945 ENSMUSG00000024497 Pou4f3 Brn3.1|Brn3c|ddl|dreidel POU domain, class 4, transcription factor 3 protein-coding 8.227 6.318 3.528 5.702 6.405 4.058 6.636 7.434 3.932 6.475 5.505 3.418 5.557 6.867 4.768 nan 5.564 6.011 3.529 4.770 4.714 3.984 5.117 5.555 9.426 3497 chr9 59500621 59512674 + 0 NA Intergenic ORR1A3-int|LTR|ERVL-MaLR 18854 NM_178388 73893 Mm.216135 NM_178388 ENSMUSG00000049526 Tmem202 4930425N13Rik transmembrane protein 202 protein-coding 7.651 5.572 2.243 4.493 4.441 2.876 5.075 7.213 4.832 5.883 6.653 4.551 4.700 7.730 5.969 6.167 3.570 5.963 3.226 2.434 1.737 3.372 2.184 1.623 6.984 1597 chr18 11020769 11021831 + 0 NA Intergenic Lx6|LINE|L1 -31210 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding 2.879 0.384 0.058 1.272 1.073 0.412 3.809 3.129 1.964 1.717 0.474 0.473 4.258 3.783 2.457 2.799 3.667 2.968 0.685 1.049 0.269 0.250 0.312 0.241 1.753 3185 chr7 127003128 127005836 + 0 NA intron (NM_080638, intron 1 of 14) PB1D10|SINE|Alu 10112 NM_080638 78388 Mm.228797 NM_080638 ENSMUSG00000030681 Mvp 2310009M24Rik|LRP|VAULT1 major vault protein protein-coding 6.320 3.496 1.646 4.531 3.073 1.735 2.580 4.446 4.546 3.572 4.954 2.976 2.328 2.873 3.721 5.874 3.170 6.128 1.108 1.152 0.456 1.338 0.646 0.619 5.251 3109 chr7 35811262 35812842 + 0 NA intron (NR_033567, intron 1 of 2) PB1D11|SINE|Alu -9063 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 4.117 2.276 0.413 3.129 0.967 0.471 3.112 4.611 2.132 2.876 0.513 0.702 3.869 3.612 3.633 3.895 2.517 3.574 0.884 0.229 0.363 0.880 0.450 0.394 5.827 728 chr12 36755524 36756786 + 0 NA Intergenic Intergenic -60050 NR_039558 100628578 NR_039558 ENSMUSG00000092998 Mir5099 mmu-mir-5099|mu-mir-5099 microRNA 5099 ncRNA 4.295 3.545 2.589 2.737 2.681 1.862 2.280 3.100 2.868 2.633 1.079 0.827 3.413 3.209 2.906 4.338 7.001 4.096 nan 1.547 1.610 0.785 1.451 1.115 4.208 1244 chr15 102486030 102488986 + 0 NA intron (NM_001103165, intron 10 of 14) intron (NM_001103165, intron 10 of 14) 16876 NM_001174073 18521 Mm.236513 NM_011042 ENSMUSG00000056851 Pcbp2 AW412548|Hnrpx|alphaCP-2 poly(rC) binding protein 2 protein-coding 7.205 1.189 0.605 2.819 1.326 0.482 8.901 7.174 4.181 2.699 3.912 1.257 5.578 3.488 6.407 6.171 7.539 4.733 0.830 0.846 0.465 0.887 0.809 0.643 7.433 2154 chr3 21850765 21855100 + 0 NA Intergenic ID_B1|SINE|B4 -223720 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 6.376 10.904 5.956 5.631 6.047 4.734 5.433 6.027 6.001 4.376 4.701 5.318 5.316 6.118 5.753 5.686 4.830 6.328 1.781 2.106 2.018 2.498 1.473 1.126 4.253 1638 chr18 53420018 53429247 + 0 NA Intergenic Intergenic -6625 NM_008908 19038 Mm.4587 NM_008908 ENSMUSG00000024538 Ppic CyP-20c peptidylprolyl isomerase C protein-coding 7.491 nan 0.785 4.439 6.383 3.630 4.293 4.292 4.989 5.618 4.089 3.040 6.350 6.425 4.726 5.754 5.021 6.373 nan 2.233 1.651 nan 1.524 1.168 5.762 742 chr12 53791813 53794547 + 0 NA intron (NM_013780, intron 4 of 11) intron (NM_013780, intron 4 of 11) 410694 NM_028133 112407 Mm.133037 NM_028133 ENSMUSG00000035105 Egln3 2610021G09Rik|AI505553|AI648162|Hif-p4h-3|Phd3|SM-20 egl-9 family hypoxia-inducible factor 3 protein-coding 0.479 nan 0.529 0.375 0.166 0.089 0.648 0.477 1.180 0.605 7.465 1.954 1.101 0.709 nan nan 0.251 nan 0.558 0.451 0.203 0.304 0.241 0.174 0.409 29 chr1 36327996 36333345 + 0 NA Intergenic PB1D11|SINE|Alu 18088 NR_105863 102465541 NR_105863 ENSMUSG00000098680 Mir6898 Gm27816|mmu-mir-6898 microRNA 6898 ncRNA 3.858 8.541 2.958 4.595 2.291 1.159 4.621 5.292 2.712 3.246 3.047 2.791 4.157 5.574 5.011 7.374 2.211 3.421 4.535 2.085 1.719 3.914 3.046 2.682 4.771 350 chr10 126562524 126567960 + 0 NA Intergenic Intergenic 145149 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 5.256 nan 1.429 2.897 5.801 3.664 4.270 2.317 2.777 3.377 4.578 3.440 4.506 5.327 3.211 3.849 5.182 3.955 1.198 1.152 1.446 0.797 nan 1.144 3.460 1969 chr2 122170512 122172480 + 0 NA intron (NM_080510, intron 3 of 6) intron (NM_080510, intron 3 of 6) 10796 NM_080510 70928 Mm.379188 NM_080510 ENSMUSG00000033368 Trim69 4921519C19Rik|Rnf36|Trif|Trimless tripartite motif-containing 69 protein-coding 2.455 0.661 0.131 1.613 0.243 0.120 0.731 1.277 1.565 1.746 7.467 2.082 2.280 2.070 1.562 1.731 0.988 4.424 0.370 0.388 0.125 0.650 0.310 0.091 7.515 1810 chr19 57942197 57943801 + 0 NA intron (NM_181415, intron 27 of 28) B3|SINE|B2 -108168 NR_049196 100885835 NR_049196 ENSMUSG00000093757 Mir5623 Gm26068|mir-5623|mmu-mir-5623 microRNA 5623 ncRNA 3.244 nan 0.527 2.749 1.587 0.843 4.314 1.956 2.441 4.045 0.827 0.432 4.265 5.584 3.878 4.551 5.418 3.388 0.949 0.963 0.475 1.143 0.870 0.838 nan 2203 chr3 87709161 87716372 + 0 NA intron (NM_001003912, intron 15 of 39) RSINE1|SINE|B4 35857 NM_028971 74485 Mm.474494 NM_028971 ENSMUSG00000023084 Lrrc71 4933430H15Rik leucine rich repeat containing 71 protein-coding 10.479 6.514 2.389 9.393 7.332 5.212 14.389 9.419 6.598 11.038 7.877 4.226 11.621 12.935 10.784 10.945 7.697 11.261 3.828 2.292 2.368 4.746 2.781 3.086 14.452 58 chr1 64162462 64169702 + 0 NA Intergenic Intergenic -44693 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 13.432 5.910 2.563 9.554 7.369 3.167 9.291 7.513 5.745 9.304 7.564 4.100 9.190 9.768 8.089 10.104 nan 9.181 7.457 5.351 4.363 7.055 6.939 5.102 10.142 153 chr1 137090792 137096924 + 0 NA Intergenic L1Md_A|LINE|L1 -133410 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 3.801 0.890 0.568 nan 1.465 1.374 2.631 4.583 2.632 2.297 2.868 4.039 4.171 nan 3.135 nan 3.349 2.559 8.694 5.265 6.013 10.297 7.266 7.851 nan 2932 chr6 88850455 88856809 + 0 NA intron (NM_001347327, intron 2 of 7) intron (NM_001347327, intron 2 of 7) 10778 NR_045880 100038356 Mm.442704 NR_045880 ENSMUSG00000085828 Gm15612 ENSMUSG00000072920|OTTMUSG00000024319 predicted gene 15612 ncRNA 5.819 6.360 1.734 nan 2.786 1.552 7.172 8.445 4.238 5.394 2.673 2.309 5.561 8.427 7.916 9.965 4.330 7.530 nan 1.214 1.235 4.277 2.131 1.657 9.391 2754 chr5 124423112 124433458 + 0 NA Intergenic B1_Mus1|SINE|Alu -2371 NM_001081203 243272 Mm.23879 NM_001081203 ENSMUSG00000038095 Sbno1 9330180L10Rik|AI849128|AW557836|BC021875|Sbno|mSno1|sno strawberry notch homolog 1 (Drosophila) protein-coding 6.580 8.435 3.967 7.606 4.176 2.687 5.416 7.113 5.311 7.325 4.429 2.831 7.613 7.863 7.428 8.045 5.277 8.120 nan 1.705 2.066 3.827 nan 2.633 7.230 2387 chr4 63008347 63009647 + 0 NA intron (NM_028326, intron 1 of 14) L1MC4|LINE|L1 43423 NM_028326 72701 Mm.26479 NM_028326 ENSMUSG00000028358 Zfp618 2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1 zinc finger protein 618 protein-coding 2.241 0.648 0.350 0.914 1.790 1.325 1.176 2.812 1.131 1.520 1.863 1.286 0.572 3.337 1.175 2.729 0.764 1.774 1.495 0.653 0.283 nan nan 0.757 2.524 1546 chr17 56629597 56630708 + 0 NA intron (NM_175350, intron 1 of 21) IAPLTR2a|LTR|ERVK 2009 NM_175350 106757 Mm.23401 NM_175350 ENSMUSG00000040828 Catsperd 4921529N20Rik|4933402B14Rik|619718|AW045609|Gm6095|Tmem146 catsper channel auxiliary subunit delta protein-coding 1.112 nan 0.356 1.329 2.981 1.239 5.149 4.326 1.722 2.478 1.622 0.313 2.134 4.441 3.558 4.080 1.761 1.785 1.225 0.434 0.824 1.072 0.677 2.439 101 chr1 92299413 92302811 + 0 NA Intergenic Intergenic -120771 NM_207225 208727 Mm.318567 NM_207225 ENSMUSG00000026313 Hdac4 4932408F19Rik|HD4 histone deacetylase 4 protein-coding 1.369 0.487 0.268 1.277 0.952 0.216 0.616 0.357 0.632 0.821 0.582 0.410 0.326 0.418 0.419 0.834 0.560 0.939 3.417 3.782 2.850 nan 8.308 7.477 0.684 2994 chr6 120419116 120423914 + 0 NA intron (NM_145997, intron 22 of 27) L1_Mus2|LINE|L1 -41682 NM_008359 16172 Mm.4481 NM_008359 ENSMUSG00000002897 Il17ra AW538159|Cdw217|Il17r|VDw217 interleukin 17 receptor A protein-coding 4.124 10.526 4.878 3.479 2.896 1.741 1.588 2.100 1.850 2.223 2.427 1.036 1.233 2.394 2.270 2.833 2.084 2.202 1.643 1.519 1.312 0.821 nan 0.478 3.670 340 chr10 118578692 118581869 + 0 NA Intergenic Intergenic -23755 NR_104123 103214 Mm.30529 NR_104123 Tmevpg1 AI447422 Theiler's murine encephalomyelitis virus persistence candidate gene 1 ncRNA 0.409 0.493 0.171 0.555 0.391 0.040 0.386 0.299 0.311 0.455 0.159 0.191 0.157 0.266 0.527 0.716 0.406 nan 4.889 2.848 1.726 5.200 3.966 2.581 0.492 3256 chr8 34950523 34954791 + 0 NA intron (NM_175091, intron 1 of 26) ORR1A1-int|LTR|ERVL-MaLR 13033 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 5.425 1.265 0.489 4.521 3.301 1.947 2.989 7.483 4.440 4.158 3.796 3.506 4.183 5.888 7.162 6.743 3.464 6.269 1.662 1.043 0.801 1.393 1.595 1.086 5.613 311 chr10 80759253 80763034 + 0 NA intron (NM_199322, intron 1 of 27) intron (NM_199322, intron 1 of 27) 5937 NM_199322 208266 Mm.152371 NM_199322 ENSMUSG00000061589 Dot1l A630076O07|AW907654|Dot1|KMT4|mDot1 DOT1-like, histone H3 methyltransferase (S. cerevisiae) protein-coding 8.915 21.825 7.113 9.709 3.403 1.507 2.619 5.285 3.931 4.832 4.739 3.075 2.623 5.026 5.271 5.450 2.866 6.210 nan 1.610 1.474 1.815 1.047 0.668 8.685 825 chr12 111435165 111436546 + 0 NA Intergenic ID_B1|SINE|B4 -6806 NM_009396 21928 Mm.255332 NM_009396 ENSMUSG00000021281 Tnfaip2 B94|Exoc3l3|M-sec|Tnfip2|tnfb94 tumor necrosis factor, alpha-induced protein 2 protein-coding 1.776 0.321 0.245 nan 0.691 0.310 2.446 nan nan nan 0.120 0.232 3.246 4.553 3.448 3.662 3.935 2.467 0.540 0.534 0.644 0.537 0.217 0.051 4.070 917 chr13 51166428 51169684 + 0 NA Intergenic Intergenic -2969 NM_029173 75124 Mm.179243 NM_029173 ENSMUSG00000021396 Nxnl2 4930519N16Rik|Rdcvf2 nucleoredoxin-like 2 protein-coding nan 3.051 1.882 nan 1.059 0.729 1.169 0.886 1.225 1.650 7.000 4.014 0.895 1.088 1.226 1.601 0.743 nan 0.779 nan 0.643 0.432 0.479 0.461 1.626 3431 chr9 21040030 21044886 + 0 NA Intergenic RMER15-int|LTR|ERVL -10130 NR_035438 100316681 NR_035438 ENSMUSG00000084663 Mir1900 Mirn1900|mmu-mir-1900 microRNA 1900 ncRNA 6.754 13.368 5.961 7.503 5.149 4.403 4.027 6.663 4.051 9.349 5.031 3.935 4.251 6.975 5.056 6.375 3.911 6.382 4.884 4.075 4.126 4.634 4.585 5.171 11.083 2425 chr4 108585179 108591669 + 0 NA intron (NM_011015, intron 1 of 16) B1_Mm|SINE|Alu 8970 NM_011015 18392 Mm.294154 NM_011015 ENSMUSG00000028587 Orc1 AA545195|MmORC1|Orc1l origin recognition complex, subunit 1 protein-coding 0.858 1.003 0.639 0.598 0.387 0.346 2.254 nan 1.173 0.782 0.540 1.716 1.236 1.736 2.163 1.307 0.897 nan 7.324 4.407 3.676 6.835 5.895 5.155 0.781 3536 chr9 99529488 99532922 + 0 NA intron (NM_028768, intron 6 of 21) B4A|SINE|B4 37694 NM_001166138 74125 Mm.234823 NM_028768 ENSMUSG00000032468 Armc8 1200015K23Rik|Gid5|HSPC056 armadillo repeat containing 8 protein-coding 4.443 1.289 0.496 4.218 1.627 0.998 4.418 2.642 3.514 3.936 4.257 3.292 5.408 5.923 4.884 5.755 3.864 3.730 0.837 0.921 0.920 1.109 1.041 0.862 9.077 495 chr11 75359945 75366848 + 0 NA intron (NM_001102611, intron 2 of 10) RLTR6-int|LTR|ERV1 14963 NM_001102611 319822 Mm.340377 NM_177009 ENSMUSG00000018809 Smyd4 G430029E23Rik SET and MYND domain containing 4 protein-coding 6.395 2.705 1.246 5.995 5.088 2.573 nan 2.802 3.693 4.687 2.537 1.804 1.837 4.321 3.774 4.868 2.985 6.013 2.465 2.503 nan 4.174 1.953 1.409 3.755 1703 chr18 83985964 83993444 + 0 NA Intergenic Intergenic 96858 NM_001081300 110796 Mm.102136 NM_001081300 ENSMUSG00000046982 Tshz1 5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1 teashirt zinc finger family member 1 protein-coding 7.556 0.512 0.310 2.370 4.844 2.158 2.068 3.321 5.947 7.049 1.518 1.128 3.596 4.009 2.439 2.457 2.608 6.152 0.773 0.442 0.370 0.664 0.499 0.489 4.563 3302 chr8 87823080 87826502 + 0 NA intron (NM_033327, intron 3 of 7) intron (NM_033327, intron 3 of 7) -20352 NM_001310520 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 6.575 6.691 3.515 5.598 5.947 4.858 6.710 5.134 nan 4.887 3.611 2.133 6.714 7.653 5.636 5.198 4.851 4.610 nan 3.847 4.575 5.073 3.093 3.326 6.864 2086 chr2 167565611 167570341 + 0 NA Intergenic MTD|LTR|ERVL-MaLR 29781 NM_011427 20613 Mm.2093 NM_011427 ENSMUSG00000042821 Snai1 Sna|Sna1|Snail|Snail1 snail family zinc finger 1 protein-coding 5.308 1.469 0.935 2.668 4.367 2.506 1.908 3.408 1.862 3.043 2.440 1.443 1.348 nan 1.721 2.383 2.151 nan nan 2.217 1.886 1.468 1.146 1.041 nan 1322 chr16 25802060 25807677 + 0 NA intron (NM_001127265, intron 1 of 8) intron (NM_001127265, intron 1 of 8) 2952 NM_001127264 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 3.084 0.815 0.462 1.342 0.780 0.321 1.596 3.659 0.872 0.871 9.096 3.107 nan 1.609 1.565 nan 2.018 1.715 0.688 0.705 0.436 0.768 nan 0.454 2.051 1816 chr2 9890586 9894627 + 0 NA Intergenic Intergenic -3066 NR_040511 77682 Mm.488621 NR_040511 ENSMUSG00000079602 9230102O04Rik - RIKEN cDNA 9230102O04 gene ncRNA 5.038 1.042 0.541 2.294 1.923 0.811 6.081 7.702 3.152 3.719 0.864 1.013 5.154 5.313 6.544 7.084 6.267 4.973 0.833 0.466 0.205 0.621 0.387 0.237 5.292 3571 chrX 71526248 71529003 + 0 NA Intergenic Intergenic -28292 NM_001293624 15354 Mm.336087 NM_008253 ENSMUSG00000015217 Hmgb3 Hmg2a|Hmg4 high mobility group box 3 protein-coding 6.243 7.282 1.645 5.733 3.231 0.897 3.854 5.406 3.985 5.058 5.229 2.937 5.121 8.186 6.617 7.770 3.204 5.606 3.997 2.504 1.168 4.851 2.298 1.405 8.714 2460 chr4 124792111 124794687 + 0 NA exon (NM_008385, exon 19 of 24) exon (NM_008385, exon 19 of 24) -9150 NM_008636 17764 Mm.272397 NM_008636 ENSMUSG00000028890 Mtf1 MTF-1|Thyls metal response element binding transcription factor 1 protein-coding 9.119 13.411 3.649 8.606 2.182 0.911 3.818 6.020 3.625 4.523 5.421 3.525 5.137 6.257 6.418 6.167 3.535 6.184 3.290 1.749 1.279 5.244 1.372 0.715 8.520 2510 chr4 133706842 133715332 + 0 NA intron (NM_001080819, intron 4 of 19) intron (NM_001080819, intron 4 of 19) 6021 NR_106086 102465707 NR_106086 ENSMUSG00000104566 Mir7227 mmu-mir-7227 microRNA 7227 ncRNA nan 1.064 0.918 2.829 3.707 2.862 2.567 0.851 nan 1.361 0.620 0.439 1.836 5.383 2.474 1.426 1.294 nan 1.270 0.974 0.535 1.130 nan 1.083 0.853 1172 chr15 79202077 79212395 + 0 NA intron (NR_029470, intron 2 of 4) B1_Mus1|SINE|Alu -21937 NM_008837 18693 Mm.259464 NM_008837 ENSMUSG00000068206 Pick1 Prkcabp protein interacting with C kinase 1 protein-coding nan nan 0.669 nan 1.507 0.887 nan 2.753 1.267 nan nan 0.760 0.965 nan 1.441 1.703 nan 2.168 4.912 3.093 2.832 nan 4.653 3.695 2.070 2699 chr5 105923650 105926493 + 0 NA Intergenic Intergenic 48503 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 6.752 5.067 2.055 5.298 4.282 2.271 8.684 5.633 6.353 9.734 3.666 2.167 5.532 5.329 7.643 11.257 6.811 8.280 nan 1.705 1.458 2.744 1.693 1.513 7.251 2458 chr4 123253829 123255546 + 0 NA Intergenic AT_rich|Low_complexity|Low_complexity 21131 NM_013905 56198 Mm.103615 NM_013905 ENSMUSG00000032744 Heyl Hey3|Hrt3|bHLHb33|hesr3 hairy/enhancer-of-split related with YRPW motif-like protein-coding 3.582 6.325 3.242 2.907 3.654 2.294 1.471 2.382 3.455 2.826 4.048 3.876 1.802 2.860 1.857 2.054 2.209 3.183 1.752 4.178 1.922 1.044 1.717 1.008 0.931 1259 chr16 8686497 8691741 + 0 NA 3' UTR (NM_001003918, exon 31 of 31) 3' UTR (NM_001003918, exon 31 of 31) 8349 NM_001324517 436336 Mm.357666 NM_001324517 Gm5767 EG436336 predicted gene 5767 protein-coding nan 1.282 1.030 0.878 0.282 0.119 nan 1.090 0.731 0.489 0.989 0.582 0.539 0.524 0.610 1.145 0.488 0.946 1.300 0.901 0.639 4.480 0.610 0.520 1.419 834 chr12 113187109 113192313 + 0 NA TTS (NM_153776) TTS (NM_153776) 3808 NM_153776 69195 Mm.313244 NM_153776 ENSMUSG00000049036 Tmem121 2410008J05Rik|Hole transmembrane protein 121 protein-coding nan 0.678 0.503 1.836 0.310 0.120 1.596 1.753 1.015 0.962 0.697 0.722 1.458 0.991 2.045 nan 1.215 1.556 3.069 1.799 1.418 6.138 2.512 1.916 nan 285 chr10 79510768 79518854 + 0 NA Intergenic L1_Mus4|LINE|L1 16279 NR_105874 102465548 NR_105874 ENSMUSG00000098414 Mir6909 Gm27727|mmu-mir-6909 microRNA 6909 ncRNA 9.870 4.290 1.441 9.123 7.151 4.905 7.036 7.515 6.032 9.962 5.737 3.041 6.036 12.202 7.751 9.123 6.366 8.391 nan 2.547 2.620 3.117 2.552 2.565 12.083 3574 chrX 93158438 93159915 + 0 NA Intergenic Intergenic 2955 NR_103799 100042663 Mm.291732 NR_103799 ENSMUSG00000095110 1700003E24Rik ENSMUSG00000067646|Gm14779|OTTMUSG00000017966 Gm5941 pseudogene pseudo 1.391 0.393 0.235 1.216 4.037 2.663 1.769 3.731 2.518 4.040 2.072 2.151 3.558 3.741 3.433 3.353 1.578 2.464 0.810 0.179 0.498 0.602 0.178 0.324 2.337 2976 chr6 113052501 113053915 + 0 NA intron (NM_008188, intron 3 of 9) intron (NM_008188, intron 3 of 9) 6881 NM_008188 14911 Mm.781 NM_008188 ENSMUSG00000030264 Thumpd3 AW556087|Gt(ROSA)26asSor|Gtrosa26as THUMP domain containing 3 protein-coding 3.228 2.308 3.024 1.716 4.220 2.777 3.046 5.234 1.971 1.966 1.895 1.238 2.686 4.315 2.419 2.651 4.233 2.458 1.491 1.761 0.749 0.850 1.733 1.061 1.254 2441 chr4 119206072 119213930 + 0 NA exon (NM_029198, exon 5 of 7) exon (NM_029198, exon 5 of 7) 8216 NM_029198 75180 Mm.179335 NM_029198 ENSMUSG00000028642 Tmem269 4930538K18Rik transmembrane protein 269 protein-coding 4.142 3.572 1.292 4.437 4.121 2.559 3.069 3.760 3.318 7.193 2.429 1.722 4.315 6.305 4.968 5.233 3.010 4.921 5.697 4.984 4.327 6.874 5.062 4.192 6.365 3475 chr9 40225299 40232322 + 0 NA Intergenic Intergenic 36494 NM_030713 80902 Mm.132196 NM_030713 ENSMUSG00000025602 Zfp202 C130037E22Rik|Znf202 zinc finger protein 202 protein-coding 5.561 2.687 1.370 4.038 3.330 2.466 3.670 5.999 3.244 3.903 0.883 0.472 6.329 7.762 6.226 7.644 5.483 5.717 nan 1.693 2.039 2.270 1.115 0.942 8.462 2414 chr4 97757397 97759770 + 0 NA intron (NM_001122952, intron 1 of 10) intron (NM_001122952, intron 1 of 10) -19043 NM_001122953 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 4.165 nan 0.807 4.576 3.350 0.876 1.536 1.542 nan 4.345 1.363 1.218 1.644 2.885 nan 2.326 1.251 3.367 1.425 1.412 1.446 nan 0.797 0.566 4.301 1216 chr15 100443513 100447256 + 0 NA Intergenic B1_Mus2|SINE|Alu 22191 NR_040351 432982 Mm.234608 NM_001034883 ENSMUSG00000087444 Gm5475 EG432982 predicted gene 5475 ncRNA 6.266 9.667 2.611 8.103 3.008 2.159 7.564 11.085 3.869 7.204 5.123 2.199 7.991 8.384 7.921 nan 6.962 5.529 3.866 1.412 2.141 5.091 2.562 2.809 11.517 3421 chr9 14520171 14525124 + 0 NA Intergenic Intergenic 22028 NM_023153 66070 Mm.245938 NM_023153 ENSMUSG00000004096 Cwc15 0610040D20Rik|2900052N06Rik|Ed1|c11orf5|mED1 CWC15 spliceosome-associated protein protein-coding 4.986 2.030 0.894 4.349 1.625 0.692 3.043 4.206 4.700 5.920 3.087 1.611 5.905 6.423 5.209 5.872 4.723 5.674 3.778 0.988 0.580 1.995 1.247 0.934 7.283 3238 chr8 23968762 23971114 + 0 NA intron (NM_001277239, intron 6 of 7) intron (NM_001277239, intron 6 of 7) 300277 NM_177086 320158 Mm.121274 NM_177086 ENSMUSG00000037492 Zmat4 9630048M01Rik zinc finger, matrin type 4 protein-coding 6.423 9.875 3.033 10.000 3.973 3.151 4.699 6.801 3.766 13.865 6.508 2.896 4.980 6.108 6.495 9.186 4.278 6.675 4.188 2.420 4.218 nan 2.998 4.501 13.512 2285 chr3 105977493 105978757 + 0 NA intron (NM_007696, intron 5 of 10) intron (NM_007696, intron 5 of 10) 4323 NM_007696 12659 Mm.431947 NM_007696 ENSMUSG00000074340 Ovgp1 120kDa|AU016433|AU019448|Chit5|MOGP|OGP|muc9 oviductal glycoprotein 1 protein-coding 3.813 1.045 0.792 2.638 13.540 13.341 6.083 2.318 4.643 3.247 1.025 0.548 5.867 6.990 2.812 3.316 5.815 3.135 0.754 1.973 2.773 0.230 0.950 1.816 1.817 2274 chr3 97599489 97602186 + 0 NA intron (NM_026539, intron 5 of 22) intron (NM_026539, intron 5 of 22) 9353 NM_026539 68058 Mm.31761 NM_026539 ENSMUSG00000028089 Chd1l 4432404A22Rik|Alc1|Snf2p chromodomain helicase DNA binding protein 1-like protein-coding 3.590 1.200 0.288 0.553 0.389 5.736 2.994 0.518 0.466 nan 0.640 3.989 2.152 5.540 nan 1.184 1.469 0.707 0.576 0.093 0.397 0.357 0.115 3.391 2194 chr3 62250229 62251951 + 0 NA Intergenic Lx3C|LINE|L1 -87687 NM_001081295 622434 Mm.153974 NM_001081295 ENSMUSG00000036885 Arhgef26 4631416L12Rik|8430436L14Rik|AI303572|AW491953|SGEF Rho guanine nucleotide exchange factor (GEF) 26 protein-coding 2.952 0.684 0.077 4.000 1.340 0.573 1.849 1.137 2.010 1.484 0.473 0.679 1.442 1.786 nan 2.128 1.134 4.200 0.648 0.871 0.268 1.135 0.502 0.281 1.810 3092 chr7 29754364 29757883 + 0 NA Intergenic Intergenic -12429 NM_023750 74352 Mm.251083 NM_023750 ENSMUSG00000046185 Zfp84 2210410P13Rik|4633401C23Rik|AI415447|BB081605|C86188|KRAB18|Zfp69 zinc finger protein 84 protein-coding 2.447 1.471 0.535 3.513 2.632 1.949 3.264 7.801 2.990 2.899 4.447 2.189 6.661 6.993 6.531 4.838 2.299 6.963 0.625 0.463 0.299 0.830 0.478 0.271 6.367 1135 chr15 75696543 75701269 + 0 NA Intergenic Intergenic -5382 NM_001163465 14787 Mm.57052 NM_008164 ENSMUSG00000022580 Rhpn1 BB023497|Grbp|Rhophilin|mKIAA1929 rhophilin, Rho GTPase binding protein 1 protein-coding nan nan 0.470 nan 0.444 0.502 nan 6.577 1.515 nan nan 1.936 1.763 nan 2.133 1.912 nan 1.758 0.688 0.413 0.624 nan 0.620 0.531 1.134 2002 chr2 152051948 152053609 + 0 NA Intergenic Intergenic -28751 NM_001160410 545474 Mm.214317 NM_001160410 ENSMUSG00000060257 Scrt2 AW060659 scratch family zinc finger 2 protein-coding 14.807 15.293 6.324 12.645 7.752 5.136 11.696 14.061 5.803 14.835 8.188 5.414 9.846 12.507 10.902 13.476 11.015 9.563 7.200 6.368 5.472 6.765 6.899 7.765 17.550 2864 chr6 48647336 48659406 + 0 NA intron (NM_001286629, intron 3 of 4) L1_Mus3|LINE|L1 6010 NM_212486 243374 Mm.86514 NM_212486 ENSMUSG00000064262 Gimap8 Gm457|IAN9|IMAP8 GTPase, IMAP family member 8 protein-coding 3.958 11.444 5.435 4.865 2.411 1.240 1.453 1.395 2.648 2.891 1.065 0.972 1.010 1.897 2.089 2.809 2.158 nan nan 1.931 1.402 0.656 0.585 0.469 1.936 1203 chr15 98783035 98784935 + 0 NA Intergenic B2_Mm2|SINE|B2 -5835 NM_011718 22410 Mm.4709 NM_011718 ENSMUSG00000022996 Wnt10b Wnt12 wingless-type MMTV integration site family, member 10B protein-coding 6.269 9.602 4.945 7.131 2.360 1.354 2.929 2.434 2.273 4.392 4.739 1.953 2.303 4.858 3.719 3.986 2.946 4.234 9.524 6.031 5.560 6.540 6.908 6.005 7.471 96 chr1 91431025 91435757 + 0 NA intron (NM_011066, intron 13 of 22) intron (NM_011066, intron 13 of 22) -20169 NM_019479 55927 Mm.280029 NM_019479 ENSMUSG00000067071 Hes6 AI326893|bHLHb41 hairy and enhancer of split 6 protein-coding 1.240 0.589 0.388 1.586 1.005 0.451 0.709 1.207 0.760 0.892 0.495 0.275 0.323 0.923 0.726 1.046 0.528 1.106 3.144 1.806 1.169 nan 2.588 1.325 1.150 2088 chr2 167582748 167588274 + 0 NA Intergenic Intergenic 46494 NM_001311146 66589 Mm.278783 NM_023230 ENSMUSG00000078923 Ube2v1 0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1 ubiquitin-conjugating enzyme E2 variant 1 protein-coding 6.268 3.454 1.089 6.796 3.835 1.857 2.183 4.586 3.346 4.479 4.174 2.640 2.370 4.268 3.414 4.718 2.246 nan nan 1.467 1.371 4.312 0.936 0.687 6.281 1068 chr15 10758312 10764820 + 0 NA intron (NR_045063, intron 2 of 6) intron (NR_045063, intron 2 of 6) 46666 NR_045065 75259 Mm.33928 NR_045063 ENSMUSG00000097058 4930556M19Rik 1700009D01Rik|C130022M03Rik RIKEN cDNA 4930556M19 gene ncRNA 4.355 0.765 0.588 2.657 4.151 2.012 7.099 8.026 4.046 5.657 1.007 1.596 7.870 7.301 6.799 6.127 5.510 5.547 0.544 0.571 0.417 0.365 0.450 0.188 2.739 1667 chr18 65959744 65963529 + 0 NA intron (NM_145493, intron 2 of 2) (TG)n|Simple_repeat|Simple_repeat 8542 NM_145493 225644 Mm.192285 NM_145493 ENSMUSG00000024519 Cplx4 A930004D23Rik|CPXIV|Gm957 complexin 4 protein-coding 8.614 14.329 9.270 6.001 5.959 4.052 7.076 7.659 5.723 6.266 8.033 3.842 8.255 5.249 6.450 8.248 9.358 6.111 3.587 3.799 3.382 2.657 4.494 3.875 8.314 2114 chr2 179767930 179771425 + 0 NA intron (NM_001316723, intron 2 of 5) intron (NM_001316723, intron 2 of 5) 206969 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 3.282 1.145 0.546 2.071 3.085 1.511 3.473 5.865 2.463 2.841 3.948 1.638 3.932 5.688 3.353 3.935 3.156 3.639 1.804 0.645 0.577 1.559 0.534 0.399 3.892 486 chr11 74966034 74967856 + 0 NA intron (NM_001002764, intron 8 of 18) B3A|SINE|B2 41073 NM_001002764 103677 Mm.288460 NM_001002764 ENSMUSG00000038290 Smg6 AI317223|AU041178 Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans) protein-coding 6.299 7.058 2.309 7.071 2.958 2.249 2.508 3.392 3.979 4.818 4.889 1.711 2.605 4.301 3.601 4.042 2.324 4.653 1.460 1.905 nan 1.719 0.916 0.493 4.700 2134 chr2 181253921 181261249 + 0 NA intron (NM_198169, intron 6 of 9) intron (NM_198169, intron 6 of 9) -15558 NM_183162 229003 Mm.315872 NM_183162 ENSMUSG00000027580 Helz2 PDIP1|Pric285|mKIAA1769|mPDIP1 helicase with zinc finger 2, transcriptional coactivator protein-coding 8.986 5.151 1.966 6.039 5.945 3.097 5.037 8.170 4.379 6.285 4.226 2.953 5.410 6.732 6.266 7.170 6.100 7.467 3.300 2.173 1.605 3.327 2.205 1.898 7.556 1354 chr16 76538414 76541723 + 0 NA Intergenic Intergenic -167019 NM_173440 268903 Mm.74711 NM_173440 ENSMUSG00000048490 Nrip1 6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140 nuclear receptor interacting protein 1 protein-coding 4.951 0.787 0.566 1.856 1.752 0.886 5.743 5.770 3.433 3.381 3.751 2.402 6.529 4.348 5.137 7.461 4.699 4.267 nan 0.525 0.321 0.949 0.539 0.480 2.661 569 chr11 96789132 96797644 + 0 NA intron (NM_007622, intron 1 of 5) intron (NM_007622, intron 1 of 5) 4252 NM_007622 12412 Mm.29055 NM_007622 ENSMUSG00000018666 Cbx1 Cbx|Cbx-rs2|E430007M08Rik|HP1B|Hp1beta|M31|MOD1 chromobox 1 protein-coding 10.232 nan 0.445 8.822 7.653 6.146 11.120 10.349 8.326 11.440 6.266 3.673 11.605 13.813 9.559 11.754 9.582 10.140 5.670 nan 3.880 3.918 nan nan 11.680 8 chr1 10221801 10224021 + 0 NA intron (NM_001102430, intron 1 of 37) intron (NM_001102430, intron 1 of 37) 9759 NM_001102430 211673 Mm.229141 NM_001102430 ENSMUSG00000067851 Arfgef1 ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200 ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited) protein-coding 12.843 12.417 3.608 8.098 4.267 3.979 9.799 9.431 5.998 14.006 6.837 3.857 9.892 8.115 10.925 14.855 7.854 10.327 6.903 3.152 3.672 6.943 6.026 6.954 18.136 3239 chr8 26120280 26127289 + 0 NA intron (NM_029965, intron 2 of 7) intron (NM_029965, intron 2 of 7) 4404 NM_029965 77733 Mm.291906 NM_029965 ENSMUSG00000013878 Rnf170 6720407G21Rik|AI481227 ring finger protein 170 protein-coding 14.199 7.263 6.316 6.743 10.594 7.622 8.119 10.447 7.041 7.729 5.539 5.797 8.135 10.767 8.180 8.960 9.154 9.829 1.673 2.442 2.807 nan 1.927 1.749 9.478 2359 chr4 43569376 43577275 + 0 NA intron (NM_172692, intron 3 of 16) RSINE1|SINE|B4 -5410 NM_172866 242406 Mm.259311 NM_172866 ENSMUSG00000028468 Rgp1 1110029E03Rik|AI527196|F730001J03|mKIAA0258 RAB6A GEF compex partner 1 protein-coding 10.817 nan 3.301 8.146 7.493 3.213 9.484 7.676 5.440 7.905 5.384 3.027 6.981 11.201 7.495 9.450 5.829 7.835 3.412 3.585 2.359 nan 2.735 1.996 11.545 3111 chr7 35869351 35872043 + 0 NA Intergenic B3A|SINE|B2 -67708 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 6.188 1.183 0.709 4.954 5.720 3.864 9.881 9.959 4.986 5.430 6.213 4.042 9.863 7.773 7.503 7.294 7.227 7.059 3.580 2.609 2.286 4.358 3.967 3.299 7.479 2045 chr2 160471212 160474237 + 0 NA Intergenic Intergenic -105659 NM_010658 16658 Mm.330745 NM_010658 ENSMUSG00000074622 Mafb Kreisler|Krml|Krml1|kr v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) protein-coding nan 14.060 5.209 14.754 7.976 6.553 10.272 10.778 nan nan 9.302 6.017 nan 10.273 10.420 12.732 11.784 nan nan 3.957 3.380 5.525 5.690 6.534 16.448 1396 chr17 4944436 4948706 + 0 NA Intergenic (CA)n|Simple_repeat|Simple_repeat -48503 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 6.768 1.173 1.011 3.777 4.507 2.532 8.685 6.108 4.760 5.513 2.149 1.590 6.970 7.978 7.516 10.131 9.763 6.835 nan 2.210 1.451 3.077 3.185 3.072 8.676 686 chr11 119675824 119680011 + 0 NA intron (NM_028898, intron 3 of 33) intron (NM_028898, intron 3 of 33) 75012 NM_028898 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 2.370 nan 0.434 2.853 1.628 0.558 nan nan 2.871 3.455 2.840 4.319 2.256 3.100 1.970 2.081 0.915 nan 4.457 nan 1.461 2.731 6.341 4.258 2.318 3149 chr7 107247020 107253945 + 0 NA Intergenic Intergenic 41037 NM_029660 76572 Mm.128134 NM_029660 ENSMUSG00000073894 Rbmxl2 1700012H05Rik|Hnrnpg-t RNA binding motif protein, X-linked-like 2 protein-coding 1.887 0.902 0.734 1.059 1.943 1.312 2.645 5.372 1.766 1.377 1.674 2.590 2.962 nan 2.647 nan 1.819 nan nan 0.917 0.619 0.875 1.423 0.959 1.700 1760 chr19 28084211 28087044 + 0 NA Intergenic BGLII_A|LTR|ERVK -74461 NM_011265 19726 Mm.313321 NM_011265 ENSMUSG00000040929 Rfx3 C230093O12Rik|MRFX3 regulatory factor X, 3 (influences HLA class II expression) protein-coding 9.246 14.202 5.717 10.811 4.589 3.030 6.554 8.956 6.343 13.675 nan 4.276 7.423 10.046 8.637 9.154 8.899 9.237 5.590 4.998 4.623 8.636 8.397 8.745 16.288 2033 chr2 156888695 156898815 + 0 NA Intergenic Intergenic -6677 NM_029983 77799 Mm.29264 NM_029983 ENSMUSG00000027636 Sla2 A930009E21Rik|AI430952|SLAP-2|SLAP2 Src-like-adaptor 2 protein-coding 6.706 1.936 0.670 7.999 3.764 1.855 3.956 3.275 nan 4.825 1.435 1.079 nan nan 3.727 4.108 2.139 7.128 nan 1.362 1.064 2.132 1.022 0.557 10.770 391 chr11 11613855 11621070 + 0 NA intron (NM_001305143, intron 2 of 3) L1Md_A|LINE|L1 10376 NM_001305143 102631730 Mm.159430 NM_001305143 ENSMUSG00000062511 4930512M02Rik - RIKEN cDNA 4930512M02 gene protein-coding nan 9.889 4.543 1.184 0.515 0.220 0.304 0.389 0.642 0.581 0.441 0.224 0.215 0.303 0.464 0.875 0.604 0.857 0.626 nan 0.663 0.849 0.373 0.319 0.726 943 chr13 63817420 63823165 + 0 NA intron (NM_001013608, intron 2 of 18) AT_rich|Low_complexity|Low_complexity 4958 NM_023507 76251 Mm.186610 NM_023507 ENSMUSG00000021470 Ercc6l2 0610007P08Rik|1700019D06Rik|9330134C04Rik|Rad26l|Sr278 excision repair cross-complementing rodent repair deficiency, complementation group 6 like 2 protein-coding 3.382 1.039 0.678 4.359 3.351 2.197 5.033 1.872 3.427 3.789 1.584 0.653 6.391 9.081 6.005 nan 2.672 6.808 1.349 0.909 0.420 0.980 0.858 0.476 8.915 2676 chr5 72591100 72595998 + 0 NA Intergenic Intergenic -5999 NM_001024147 545758 Mm.332426 NM_001024147 ENSMUSG00000060204 Gm5868 EG545758 predicted gene 5868 protein-coding 5.734 6.451 3.219 5.511 4.030 2.064 4.076 4.556 5.274 5.958 6.657 3.529 5.317 7.175 5.018 5.822 5.080 6.390 1.629 1.666 1.105 nan 1.224 0.619 4.008 1887 chr2 38841792 38844939 + 0 NA intron (NM_010264, intron 3 of 10) B4A|SINE|B4 -9370 NR_029568 387176 NR_029568 ENSMUSG00000065423 Mir181a-2 Mirn181|Mirn181a|Mirn181a-2|miR-181|mir-181a|mir-181a-2 microRNA 181a-2 ncRNA 2.355 1.375 0.703 2.237 1.254 0.779 2.004 3.103 2.703 nan 7.633 3.561 3.976 3.394 2.822 5.064 1.800 4.080 1.244 0.993 1.163 0.959 0.737 0.303 4.123 2907 chr6 83451368 83454096 + 0 NA intron (NM_001347313, intron 2 of 11) RSINE1|SINE|B4 3660 NM_001347313 194388 Mm.211030 NM_183138 ENSMUSG00000034832 Tet3 B430006D22Rik|BC037432|D230004J03Rik tet methylcytosine dioxygenase 3 protein-coding 3.385 3.023 1.571 5.394 1.921 1.042 1.022 2.014 1.976 2.323 5.425 2.084 1.139 3.452 1.757 2.210 1.817 3.069 nan 2.117 1.043 4.971 0.701 0.460 3.165 1375 chr16 92683540 92700655 + 0 NA intron (NM_001111023, intron 1 of 5) intron (NM_001111023, intron 1 of 5) 5232 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 8.042 nan 0.747 6.607 4.494 2.434 7.917 8.811 6.887 8.542 10.053 6.508 10.108 10.472 8.583 10.335 7.101 nan 1.443 1.220 0.879 nan 0.794 0.645 11.045 180 chr1 167888680 167891130 + 0 NA Intergenic Intergenic 200347 NM_033652 110648 Mm.330081 NM_033652 ENSMUSG00000026686 Lmx1a Lmx1.1|dr|dreher|sst LIM homeobox transcription factor 1 alpha protein-coding 0.904 7.476 6.561 nan 0.285 0.501 0.403 0.407 nan 0.377 0.320 0.163 nan 0.269 nan 0.687 0.836 0.845 0.737 0.565 0.150 nan nan 0.468 nan 1585 chr17 85423179 85427994 + 0 NA intron (NM_028576, intron 7 of 10) L1_Mus3|LINE|L1 192810 NR_038084 100043902 Mm.150838 NR_015385 ENSMUSG00000093460 Six3os1 D17Mgi26|E130112H22Rik|Rncr1|Six3os SIX homeobox 3, opposite strand 1 ncRNA 2.070 0.706 0.359 1.194 0.784 0.822 5.720 5.003 nan 2.908 0.648 0.865 3.842 4.538 4.087 3.199 2.945 2.595 0.812 0.542 0.320 0.914 0.600 0.397 1.697 2939 chr6 91554989 91556408 + 0 NA Intergenic B3|SINE|B2 39663 NM_026309 67678 Mm.246693 NM_026309 ENSMUSG00000034192 Lsm3 1010001J12Rik|2610005D18Rik|6030401D18Rik|SMX4|USS2 LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated protein-coding 1.404 0.536 0.596 nan 0.408 0.391 1.749 1.538 1.306 1.616 0.691 0.846 1.755 4.579 2.157 3.650 1.040 nan nan 0.454 0.086 1.617 0.548 0.271 1.587 1877 chr2 37602666 37606643 + 0 NA intron (NM_009261, intron 9 of 16) B1_Mur4|SINE|Alu 42631 NM_009261 20744 Mm.237095 NM_009261 ENSMUSG00000026915 Strbp 6430510M02Rik|AI852513|C230082I21Rik|C86322|Spnr spermatid perinuclear RNA binding protein protein-coding 1.096 1.924 0.953 0.772 0.258 0.160 1.584 5.283 0.558 nan 0.715 0.161 2.219 0.956 1.556 2.911 3.288 1.159 1.007 0.923 0.543 1.461 0.605 0.345 1.400 246 chr10 41402139 41403814 + 0 NA Intergenic Intergenic -47382 NM_001277229 268294 Mm.258475 NM_153398 ENSMUSG00000019826 Zbtb24 BC055367|Bif1|Bsg1|ZNF450 zinc finger and BTB domain containing 24 protein-coding 5.991 0.849 1.045 2.190 1.088 0.852 0.783 4.117 1.586 2.593 1.348 2.193 3.929 5.348 1.772 1.708 3.483 1.970 3.387 1.918 3.068 3.750 2.676 3.133 2.121 2705 chr5 106052001 106053402 + 0 NA Intergenic MTE2b|LTR|ERVL-MaLR 176133 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 4.223 4.019 0.968 2.985 2.008 0.758 1.461 1.179 2.300 1.761 0.739 0.464 2.136 3.650 2.865 2.338 1.170 2.700 nan 0.802 1.007 0.602 0.646 0.372 2.163 2227 chr3 89656235 89659037 + 0 NA intron (NM_080466, intron 5 of 7) B1_Mur2|SINE|Alu -57386 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 2.914 0.974 0.509 5.122 1.030 1.308 1.418 1.185 2.337 2.296 0.994 0.665 0.725 1.945 1.517 2.420 2.039 3.321 nan 0.964 0.962 3.344 1.646 1.794 2.881 690 chr11 119774693 119778484 + 0 NA intron (NM_028898, intron 6 of 33) PB1D7|SINE|Alu 57777 NR_045313 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 9.243 6.694 1.553 10.689 3.603 2.108 10.483 9.835 5.558 9.738 7.866 4.205 9.773 12.273 11.348 12.572 6.653 10.500 3.513 nan 1.812 5.712 1.584 1.526 15.267 3241 chr8 26197681 26201583 + 0 NA Intergenic Intergenic 41463 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 4.452 nan 1.534 2.787 2.259 1.680 2.087 5.230 2.473 2.437 3.963 2.833 2.468 2.887 2.405 2.534 1.613 2.202 0.524 1.605 1.110 nan 0.733 0.427 2.964 1168 chr15 79151253 79159590 + 0 NA 3' UTR (NM_011437, exon 4 of 4) 3' UTR (NM_011437, exon 4 of 4) 9069 NM_011437 20665 Mm.276739 NM_011437 ENSMUSG00000033006 Sox10 Dom|Sox21|gt SRY (sex determining region Y)-box 10 protein-coding 11.627 nan 2.782 7.726 7.687 4.365 15.207 18.667 6.510 8.867 6.990 4.820 12.123 13.021 10.700 10.608 12.234 9.191 5.905 5.791 3.854 nan 7.859 5.839 12.236 61 chr1 64350836 64352876 + 0 NA Intergenic ORR1D2|LTR|ERVL-MaLR -180948 NM_133828 12912 Mm.422634 NM_009952 ENSMUSG00000025958 Creb1 2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1 cAMP responsive element binding protein 1 protein-coding 10.116 3.151 1.620 5.655 5.308 2.668 6.307 4.760 4.951 6.424 8.066 4.597 6.915 7.980 5.068 nan 3.206 nan 2.340 1.844 1.330 3.410 1.778 2.225 5.806 536 chr11 94003669 94007673 + 0 NA intron (NM_001199203, intron 1 of 29) intron (NM_001199203, intron 1 of 29) 9580 NM_027569 70834 Mm.260737 NM_027569 ENSMUSG00000020859 Spag9 3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1 sperm associated antigen 9 protein-coding 2.569 nan 0.208 2.194 1.220 0.862 2.451 3.187 1.857 1.674 1.909 1.896 2.458 2.939 3.442 4.312 nan 2.983 5.490 4.652 3.864 8.479 nan nan 2.534 1767 chr19 29311359 29317745 + 0 NA Intergenic Intergenic 10766 NM_013754 27356 Mm.306511 NM_013754 ENSMUSG00000050957 Insl6 RIF1 insulin-like 6 protein-coding 4.660 3.262 1.996 nan 2.181 1.149 4.959 5.540 3.427 3.297 nan 2.251 4.837 7.280 2.800 3.847 4.862 5.752 nan 0.993 0.410 0.650 nan 0.483 4.518 1653 chr18 56777345 56780717 + 0 NA intron (NM_177115, intron 4 of 4) intron (NM_177115, intron 4 of 4) 71218 NM_010721 16906 Mm.4105 NM_010721 ENSMUSG00000024590 Lmnb1 - lamin B1 protein-coding 6.277 nan 0.988 nan 3.832 3.139 2.098 3.652 5.017 5.098 0.634 0.711 nan 5.556 3.673 3.596 2.624 nan nan 0.988 1.276 nan 1.088 1.007 4.658 3540 chr9 106182497 106184035 + 0 NA intron (NM_029896, intron 3 of 8) L1M5|LINE|L1 4426 NR_029526 387249 NR_029526 ENSMUSG00000065440 Mirlet7g Mirnlet7g|let-7g|mmu-let-7g microRNA let7g ncRNA 5.061 9.616 4.132 6.240 1.654 0.903 3.492 3.940 nan 4.256 6.290 3.566 5.334 5.017 4.785 6.122 4.535 4.644 3.436 1.188 1.016 3.626 2.019 1.594 8.127 2237 chr3 90340126 90345368 + 0 NA intron (NM_139304, intron 1 of 9) B1_Mus1|SINE|Alu 1093 NM_139304 229542 Mm.270999 NM_139304 ENSMUSG00000042390 Gatad2b AL118180|C430014D17Rik|P66beta|mKIAA1150 GATA zinc finger domain containing 2B protein-coding 4.443 1.073 0.819 5.800 5.161 2.261 7.240 5.689 3.496 4.283 6.632 3.368 4.998 8.261 5.298 5.002 3.702 5.248 8.011 3.839 2.415 5.518 6.309 4.281 5.718 1688 chr18 80614985 80617313 + 0 NA intron (NM_198429, intron 9 of 9) intron (NM_198429, intron 9 of 9) -71603 NR_028424 100039348 Mm.254722 NR_028424 Gm2176 A430076E10Rik glucosamine-6-phosphate deaminase 1 pseudogene pseudo 0.609 16.896 7.768 1.100 0.288 0.052 0.768 0.667 0.689 nan 0.466 0.347 0.343 0.496 0.652 0.704 0.585 0.724 0.557 nan 0.263 0.551 0.327 0.288 1.258 2394 chr4 70176255 70182138 + 0 NA Intergenic MLT1I|LTR|ERVL-MaLR 231239 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 2.346 0.761 0.473 1.621 1.122 0.841 1.545 1.424 1.869 1.655 0.795 0.549 1.722 1.841 1.544 nan 1.710 2.698 5.570 4.393 3.087 nan nan 2.114 nan 1266 chr16 10781161 10787909 + 0 NA exon (NM_001271603, exon 2 of 2) exon (NM_001271603, exon 2 of 2) 1001 NM_009896 12703 Mm.130 NM_009896 ENSMUSG00000038037 Socs1 Cish1|Cish7|JAB|SOCS-1|SSI-1 suppressor of cytokine signaling 1 protein-coding 5.829 14.256 3.999 6.365 1.880 1.419 nan 3.703 2.605 4.844 3.434 2.010 4.110 4.078 5.332 6.903 3.032 5.804 2.320 1.050 1.647 3.166 1.232 1.870 11.175 3419 chr9 14465787 14468186 + 0 NA intron (NM_173433, intron 1 of 1) intron (NM_173433, intron 1 of 1) 33496 NM_173433 244694 Mm.240457 NM_173433 ENSMUSG00000053914 Kdm4d 4932416A15|Jmjd2d lysine (K)-specific demethylase 4D protein-coding 0.591 0.648 0.380 0.482 0.196 0.255 0.573 0.325 0.432 7.883 3.004 0.162 0.381 0.325 0.691 0.427 0.719 0.490 0.341 0.204 0.504 0.319 0.198 0.677 3326 chr8 90785053 90799436 + 0 NA Intergenic RLTR35B_MM|LTR|ERVL -36591 NM_177224 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 4.040 1.053 0.525 3.888 3.639 2.711 2.740 1.100 nan 5.598 1.542 0.843 5.581 6.026 4.254 7.035 6.032 4.599 nan 1.374 1.612 2.448 0.722 0.800 6.986 2654 chr5 35340825 35343607 + 0 NA Intergenic MTD|LTR|ERVL-MaLR -19337 NR_046060 74429 Mm.399502 NR_046060 ENSMUSG00000106762 4930478P22Rik 4933405A14Rik RIKEN cDNA 4930478P22 gene ncRNA 2.057 2.717 1.271 2.442 1.190 0.846 1.258 2.798 1.804 1.042 10.257 4.835 0.827 1.574 nan 1.265 nan 1.834 0.887 0.537 0.357 1.014 0.219 0.333 1.358 3311 chr8 88370072 88372509 + 0 NA Intergenic Intergenic -9099 NM_012047 26992 Mm.5400 NM_012047 ENSMUSG00000031660 Brd7 BP75|CELTIX1|Ptpn13ip bromodomain containing 7 protein-coding 4.068 0.397 0.714 2.266 2.529 1.700 1.140 1.401 2.828 4.472 1.260 0.654 3.557 4.416 1.414 2.386 3.504 3.154 nan 2.155 0.532 1.001 3.072 1.478 2.128 2958 chr6 99139869 99144698 + 0 NA intron (NM_001347345, intron 5 of 19) intron (NM_001347345, intron 5 of 19) -113985 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 2.975 1.923 1.478 2.768 3.165 1.983 3.602 5.853 5.299 5.611 2.002 3.672 4.018 6.167 nan nan 3.164 4.259 nan nan 0.635 1.812 0.966 0.553 2.460 1458 chr17 28147214 28148805 + 0 NA intron (NM_001004366, intron 1 of 21) intron (NM_001004366, intron 1 of 21) 5483 NM_001004366 268935 Mm.258491 NM_001004366 ENSMUSG00000038677 Scube3 CEGF3|D030038I21Rik signal peptide, CUB domain, EGF-like 3 protein-coding 3.379 1.010 0.450 5.423 1.448 0.405 2.778 2.201 2.841 2.958 2.325 1.003 3.124 3.995 2.443 3.307 2.402 4.186 0.663 0.953 0.386 0.532 0.539 0.368 5.539 444 chr11 62454359 62456560 + 0 NA intron (NM_177229, intron 1 of 8) intron (NM_177229, intron 1 of 8) 1873 NM_177229 20185 Mm.271814 NM_011308 ENSMUSG00000018501 Ncor1 5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047 nuclear receptor co-repressor 1 protein-coding 4.158 1.743 1.319 3.235 2.549 1.417 3.215 3.976 3.692 3.294 0.894 1.681 3.531 4.752 4.170 4.774 4.579 3.997 3.692 3.838 3.034 4.120 2.264 2.590 3.776 508 chr11 79949910 79951088 + 0 NA intron (NM_144826, intron 10 of 18) B2_Mm2|SINE|B2 11888 NM_144826 216987 Mm.274961 NM_144826 ENSMUSG00000035575 Utp6 4732497O03Rik|HCA66 UTP6 small subunit processome component protein-coding 2.188 0.826 0.134 1.577 1.275 0.836 2.246 3.096 1.906 2.387 0.413 0.527 4.908 4.566 nan 3.482 2.216 3.208 0.666 0.256 nan 0.655 0.183 0.200 2.714 1336 chr16 38636266 38637357 + 0 NA intron (NM_020260, intron 3 of 11) intron (NM_020260, intron 3 of 11) 73997 NM_026407 67846 Mm.310476 NM_026407 ENSMUSG00000002845 Tmem39a 2610033C09Rik transmembrane protein 39a protein-coding 5.083 2.396 0.516 2.712 2.158 1.379 0.730 2.275 2.148 4.278 0.839 1.827 2.818 4.536 4.010 6.313 1.664 5.709 0.522 1.278 0.658 1.702 1.225 0.552 4.810 39 chr1 51534077 51536570 + 0 NA Intergenic RSINE1|SINE|B4 -56924 NM_001310549 109019 Mm.196290 NM_028696 ENSMUSG00000026107 Nabp1 4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2 nucleic acid binding protein 1 protein-coding 12.323 10.800 5.681 9.093 7.079 3.533 6.234 7.116 7.142 8.404 8.883 7.369 7.362 9.503 7.938 11.260 10.028 9.160 5.053 2.581 2.407 4.923 2.878 3.365 9.390 3260 chr8 35023863 35029941 + 0 NA Intergenic Intergenic -61212 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 4.129 1.000 0.881 4.380 4.468 3.309 3.232 6.839 3.800 3.323 3.319 2.583 4.316 5.365 4.854 5.467 4.576 5.327 2.845 1.363 1.236 2.056 2.394 2.163 4.682 1089 chr15 38380552 38390324 + 0 NA Intergenic Intergenic -84727 NM_001289471 21847 Mm.4292 NM_013692 ENSMUSG00000037465 Klf10 AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF Kruppel-like factor 10 protein-coding 8.522 2.377 1.157 6.639 5.607 3.585 7.615 12.436 4.889 5.369 5.844 4.098 7.409 9.045 6.880 6.339 5.933 7.233 2.563 1.590 1.264 nan 1.775 1.783 6.889 558 chr11 95636875 95641961 + 0 NA Intergenic Intergenic -27539 NM_008831 18673 Mm.263862 NM_008831 ENSMUSG00000038845 Phb Bap32 prohibitin protein-coding 7.430 nan 0.710 5.019 7.287 5.085 4.129 7.007 3.401 5.090 4.936 1.682 5.580 7.971 5.645 6.854 5.139 6.107 0.849 nan 1.218 0.626 nan nan 5.774 12 chr1 13362156 13364615 + 0 NA intron (NM_008678, intron 1 of 22) intron (NM_008678, intron 1 of 22) 9044 NM_001302702 17978 Mm.2537 NM_008678 ENSMUSG00000005886 Ncoa2 D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75 nuclear receptor coactivator 2 protein-coding 11.925 19.645 4.816 13.735 5.143 4.741 9.938 8.078 5.991 21.668 7.749 4.356 8.218 10.079 10.544 16.680 8.648 11.322 6.031 2.281 4.502 7.477 3.208 7.198 21.501 3200 chr7 136805284 136841213 + 0 NA Intergenic Intergenic -71363 NM_008598 17314 Mm.440219 NM_008598 ENSMUSG00000054612 Mgmt AGT|AI267024|Agat O-6-methylguanine-DNA methyltransferase protein-coding 3.706 nan 0.308 3.201 2.791 1.466 3.234 4.417 nan 5.343 1.431 1.101 4.606 5.994 6.600 7.765 4.613 6.777 0.679 0.636 0.462 0.934 0.623 0.413 6.642 3036 chr6 136751447 136763921 + 0 NA intron (NM_145067, intron 7 of 25) L1Md_F|LINE|L1 24058 NM_145067 14917 Mm.222729 NM_145067 ENSMUSG00000042638 Gucy2c AI893437|GC-C|Gcc guanylate cyclase 2c protein-coding 5.157 5.452 2.047 5.036 2.950 1.757 6.074 8.951 5.430 7.192 3.358 3.041 9.260 8.011 nan 9.003 7.721 7.071 nan 1.746 1.542 4.036 1.418 1.370 nan 1554 chr17 57243929 57253356 + 0 NA promoter-TSS (NM_001242389) promoter-TSS (NM_001242389) -809 NM_001242391 106628 Mm.37368 NM_134125 ENSMUSG00000019487 Trip10 AI646975|Cip4 thyroid hormone receptor interactor 10 protein-coding 7.545 nan 3.588 3.654 7.934 5.008 5.799 4.331 3.095 4.494 2.082 1.571 4.836 8.657 5.328 6.169 5.387 5.757 1.702 1.958 1.376 1.495 2.465 1.930 10.672 2168 chr3 30378572 30381465 + 0 NA intron (NM_021442, intron 1 of 2) intron (NM_021442, intron 1 of 2) 129469 NM_021442 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 3.453 0.622 0.764 5.038 5.480 4.428 nan 1.525 6.129 6.624 2.222 2.675 8.211 7.223 2.935 6.245 5.250 7.419 0.710 0.516 0.734 0.516 0.425 0.674 5.518 573 chr11 97010254 97012704 + 0 NA Intergenic Intergenic -2090 NM_031183 83395 Mm.156282 NM_031183 ENSMUSG00000038560 Sp6 1110025J03Rik|AA591031|AI592962|Epfn|Klf14 trans-acting transcription factor 6 protein-coding 9.015 3.524 1.145 8.597 3.573 2.890 5.064 6.629 3.519 9.348 2.695 1.418 4.028 5.645 5.355 7.049 nan 5.933 1.111 nan 2.154 1.502 nan nan 9.988 3518 chr9 72122280 72124429 + 0 NA Intergenic Intergenic -11535 NM_001253865 21406 Mm.171615 NM_011544 ENSMUSG00000032228 Tcf12 A130037E08Rik|ALF1|HEB|HEBAlt|HTF-4|HTF4|ME1|REB|bHLHb20 transcription factor 12 protein-coding 6.204 9.612 3.687 8.183 3.445 2.640 5.033 5.549 4.671 11.734 5.491 2.624 5.227 6.611 6.555 8.062 4.372 7.942 6.152 2.826 1.777 7.571 4.053 5.024 12.552 2710 chr5 106206505 106209082 + 0 NA Intergenic L2|LINE|L2 -113547 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 3.059 1.319 0.738 2.636 1.938 0.846 4.681 3.438 2.415 2.168 2.702 2.373 3.546 4.268 4.182 3.136 2.068 2.805 nan 1.202 0.495 1.363 0.951 0.580 2.188 1084 chr15 37239373 37252561 + 0 NA intron (NM_026496, intron 1 of 15) intron (NM_026496, intron 1 of 15) 12931 NM_026496 252973 Mm.244612 NM_026496 ENSMUSG00000022286 Grhl2 0610015A08Rik|BOM|Tcfcp2l3|clft3 grainyhead-like 2 (Drosophila) protein-coding 2.856 0.661 0.526 2.010 1.552 0.816 5.271 6.366 3.299 2.836 3.883 3.552 5.041 3.673 4.595 4.865 4.885 4.356 4.290 2.775 2.187 nan 3.353 2.704 nan 3413 chr9 7979370 7980340 + 0 NA intron (NM_009534, intron 2 of 7) L1M3|LINE|L1 24741 NM_001171147 22601 Mm.221992 NM_009534 ENSMUSG00000053110 Yap1 AI325207|Yap|Yap65|Yki|Yorkie yes-associated protein 1 protein-coding 2.520 nan 0.402 2.461 2.015 0.581 0.734 1.045 2.646 3.638 1.103 0.702 1.981 3.754 2.531 3.207 nan 4.484 nan 1.601 0.561 0.804 0.450 0.260 2.890 3343 chr8 108657182 108665244 + 0 NA Intergenic (CATA)n|Simple_repeat|Simple_repeat -53431 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 10.556 1.490 0.673 7.080 5.019 3.116 8.057 11.772 6.696 9.523 6.808 4.021 10.957 11.380 9.616 13.014 7.932 9.924 4.483 2.673 1.969 8.434 2.877 2.652 15.168 3446 chr9 22109196 22113226 + 0 NA intron (NR_030448, intron 3 of 4) intron (NR_030448, intron 3 of 4) 2802 NR_106052 102466221 NR_106052 ENSMUSG00000098646 Mir7084 Gm27978|mmu-mir-7084 microRNA 7084 ncRNA 7.537 4.227 2.201 4.820 2.154 1.004 3.007 3.641 3.324 6.286 4.833 1.842 4.945 6.767 4.906 5.996 2.900 5.059 2.485 1.683 1.671 1.919 2.023 1.948 12.175 638 chr11 109443974 109449943 + 0 NA intron (NR_040680, intron 1 of 1) B3|SINE|B2 6880 NR_040680 100503496 Mm.265874 NR_040680 LOC100503496 - uncharacterized LOC100503496 ncRNA 1.779 1.687 0.914 nan 0.872 0.669 2.277 1.816 nan nan 0.703 0.789 1.288 nan 1.686 2.442 1.968 nan 3.611 4.694 4.214 nan 3.624 2.433 2.103 2350 chr4 34829455 34830514 + 0 NA intron (NM_013889, intron 4 of 7) L1Md_A|LINE|L1 -51618 NM_025471 66291 Mm.28071 NM_025471 ENSMUSG00000028295 Smim8 1810030N24Rik|2810406B13Rik small integral membrane protein 8 protein-coding 9.635 15.975 4.415 11.557 6.189 5.005 8.480 9.785 5.921 27.060 9.095 5.768 8.884 9.823 10.575 12.521 5.668 11.364 8.856 2.220 6.266 8.096 4.399 7.834 24.464 875 chr13 37652376 37656029 + 0 NA Intergenic Intergenic -171836 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 4.686 2.420 0.754 3.956 2.456 1.008 3.188 4.863 3.935 5.758 2.977 1.897 3.729 6.535 4.029 5.629 2.950 nan 2.491 2.466 1.511 5.481 1.606 0.929 nan 3467 chr9 32545416 32549953 + 0 NA Intergenic Intergenic -6232 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 1.476 7.002 3.096 1.945 0.544 0.245 0.759 0.906 1.629 1.335 0.570 1.332 0.522 0.825 1.129 nan 0.809 1.890 0.957 0.981 0.344 0.889 0.591 0.213 1.182 2479 chr4 128639152 128641043 + 0 NA Intergenic Intergenic -14605 NM_001195130 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 3.240 3.369 1.416 5.886 4.836 4.373 2.516 1.201 2.145 6.019 1.501 1.605 3.318 6.820 nan 5.498 2.722 3.995 3.556 2.167 2.660 5.553 2.690 3.471 7.179 1522 chr17 46810183 46811772 + 0 NA intron (NM_001100452, intron 6 of 10) ID4|SINE|ID 20436 NM_001100452 210982 Mm.37642 NM_001100452 ENSMUSG00000036568 Gltscr1l mKIAA0240 GLTSCR1-like protein-coding 6.102 8.148 3.205 6.125 4.015 3.579 6.711 4.608 3.846 4.012 4.387 3.353 4.036 7.200 6.355 8.304 5.856 5.912 2.941 2.195 2.448 3.302 1.921 2.570 9.205 1 chr1 4481811 4483599 + 0 NA Intergenic Intergenic 14649 NM_001289464 20671 Mm.279103 NM_011441 ENSMUSG00000025902 Sox17 - SRY (sex determining region Y)-box 17 protein-coding 2.444 1.256 0.208 5.663 0.387 0.457 1.065 0.944 1.863 5.527 0.983 0.501 0.761 1.324 2.188 2.719 0.671 3.994 0.385 0.190 0.295 0.608 0.295 0.160 4.911 3218 chr8 11624828 11626026 + 0 NA intron (NM_001281975, intron 3 of 6) intron (NM_001281975, intron 3 of 6) 9609 NR_030781 102334 Mm.12459 NM_133971 ENSMUSG00000031508 Ankrd10 4833425P12Rik|AW549277 ankyrin repeat domain 10 protein-coding 2.910 1.624 0.296 1.865 1.305 1.109 2.388 3.443 2.119 2.104 0.983 1.677 2.548 2.869 3.708 3.166 2.732 4.054 1.688 0.777 0.261 1.156 0.770 0.243 3.390 506 chr11 78333809 78341812 + 0 NA exon (NM_201406, exon 8 of 12) exon (NM_201406, exon 8 of 12) -5685 NM_001313985 22248 Mm.284811 NM_011676 ENSMUSG00000002058 Unc119 D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h unc-119 lipid binding chaperone protein-coding 5.014 1.199 0.534 4.959 2.818 1.624 3.706 3.125 4.079 5.560 1.524 0.603 6.053 8.577 6.086 7.620 3.056 nan 0.771 0.595 nan 0.912 0.367 0.276 7.150 136 chr1 135105475 135112595 + 0 NA exon (NM_007955, exon 37 of 38) exon (NM_007955, exon 37 of 38) -3759 NM_001033409 329252 Mm.279594 NM_001033409 ENSMUSG00000042793 Lgr6 A530037C04Rik|D830026M09 leucine-rich repeat-containing G protein-coupled receptor 6 protein-coding 4.628 1.043 0.713 nan 1.315 0.909 4.892 6.542 1.534 1.512 1.442 2.057 5.111 4.672 3.984 5.292 3.098 3.251 1.768 0.754 0.746 2.108 1.817 1.282 4.132 116 chr1 127325080 127339530 + 0 NA intron (NM_145128, intron 4 of 17) MYSERV16_I-int|LTR|ERVK 127319 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 9.000 9.798 5.813 4.580 4.781 2.718 6.540 5.405 5.189 5.488 4.035 2.470 7.310 6.542 6.154 8.521 8.141 6.263 nan 2.298 1.651 1.286 1.791 1.509 5.488 1197 chr15 96289558 96292225 + 0 NA intron (NM_175251, intron 3 of 20) intron (NM_175251, intron 3 of 20) 3369 NM_175251 77044 Mm.17166 NM_175251 ENSMUSG00000033237 Arid2 1700124K17Rik|4432409D24Rik|zipzap/p200 AT rich interactive domain 2 (ARID, RFX-like) protein-coding 12.256 17.590 5.957 10.159 6.771 5.170 13.395 14.936 5.856 16.689 8.117 4.729 11.497 11.564 10.807 11.533 9.541 9.643 5.987 3.654 4.516 6.286 5.179 7.996 16.498 1580 chr17 84277423 84279790 + 0 NA intron (NM_183021, intron 29 of 37) intron (NM_183021, intron 29 of 37) -90659 NM_001001806 12193 Mm.259321 NM_001001806 ENSMUSG00000045817 Zfp36l2 Brf2|ERF2|Tis11d zinc finger protein 36, C3H type-like 2 protein-coding 1.042 0.849 0.797 1.217 1.228 0.881 1.220 0.534 nan 1.030 1.494 0.707 2.294 4.491 1.475 1.517 1.590 1.456 0.558 0.582 0.958 0.187 0.618 0.627 1.769 3274 chr8 74134526 74137792 + 0 NA Intergenic MT2C_Mm|LTR|ERVL -737015 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 6.739 8.162 2.438 7.504 2.914 2.088 nan 9.740 nan 7.822 4.408 2.154 7.223 6.081 7.164 11.216 5.365 7.459 2.195 1.670 1.776 nan 1.112 1.934 12.957 2937 chr6 91101727 91110594 + 0 NA intron (NM_018815, intron 1 of 39) ORR1C1|LTR|ERVL-MaLR 10666 NM_018815 54563 Mm.28162 NM_018815 ENSMUSG00000030091 Nup210 9830001L10|AI836801|Pom210|gp190|gp210 nucleoporin 210 protein-coding 1.110 2.008 0.726 nan 0.816 0.305 1.604 1.702 0.582 0.998 0.524 0.690 1.032 1.263 1.295 2.441 1.656 nan nan 3.084 2.216 6.955 5.036 3.894 1.569 2419 chr4 106891401 106894803 + 0 NA Intergenic RMER19B|LTR|ERVK -18368 NM_198438 72475 Mm.195635 NM_023672 ENSMUSG00000061887 Ssbp3 2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1 single-stranded DNA binding protein 3 protein-coding 0.716 0.712 0.530 0.860 0.522 0.424 0.873 nan 1.351 1.103 0.267 0.511 0.887 1.088 1.210 1.373 0.942 nan 2.682 2.280 2.038 4.842 3.793 3.152 1.661 2146 chr3 9663162 9671447 + 0 NA Intergenic Intergenic -57219 NM_133218 170753 Mm.212908 NM_133218 ENSMUSG00000040209 Zfp704 C030026M03|C030034L19Rik|Gig1|Znf704 zinc finger protein 704 protein-coding 7.092 2.778 1.912 4.344 6.423 3.646 13.987 7.940 6.551 8.171 1.367 1.709 12.423 12.233 10.574 10.298 8.092 9.214 2.248 1.583 1.228 1.715 2.594 1.924 10.841 661 chr11 116493423 116495433 + 0 NA Intergenic PB1D9|SINE|Alu -4082 NM_026364 67763 Mm.25125 NM_026364 ENSMUSG00000015869 Prpsap1 5730409F23Rik|PAP39 phosphoribosyl pyrophosphate synthetase-associated protein 1 protein-coding 2.280 nan 0.536 2.651 3.192 2.941 6.325 nan 2.637 nan 3.743 2.122 3.003 6.221 5.121 3.284 3.811 nan 0.472 nan 0.902 0.789 0.347 0.259 1.992 3157 chr7 116077905 116080587 + 0 NA Intergenic Intergenic 13903 NR_029433 69350 Mm.440425 NR_029433 ENSMUSG00000087621 1700003G18Rik 2610312K03Rik RIKEN cDNA 1700003G18 gene ncRNA 5.453 5.731 1.980 4.897 4.573 2.534 4.556 6.430 3.496 6.642 3.149 3.273 5.678 6.880 5.480 4.485 4.212 5.863 2.332 1.861 1.583 2.154 2.404 2.158 8.423 2845 chr6 35448561 35451420 + 0 NA Intergenic L1Md_T|LINE|L1 89898 NM_008098 14489 Mm.182746 NM_008098 ENSMUSG00000029840 Mtpn 5033418D15Rik|Gcdp|V1 myotrophin protein-coding 3.960 0.488 0.505 2.497 2.699 1.106 7.501 5.636 3.282 3.156 2.790 1.268 5.822 6.292 4.746 nan 7.208 nan nan 0.951 0.511 nan nan 0.369 nan 2482 chr4 128670082 128678872 + 0 NA intron (NM_001195130, intron 1 of 14) intron (NM_001195130, intron 1 of 14) -14261 NM_018774 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 1.803 3.682 1.669 2.637 2.541 1.302 1.818 1.401 1.341 1.700 1.671 1.173 1.430 2.129 nan 2.359 1.398 2.208 3.804 1.800 1.267 6.296 3.619 2.377 2.968 2719 chr5 109985371 109988414 + 0 NA Intergenic Intergenic -9635 NM_145563 69504 Mm.441438 NM_145563 ENSMUSG00000066613 Zfp932 2310001H12Rik|Znf431 zinc finger protein 932 protein-coding 4.909 10.622 2.570 6.014 2.272 0.920 nan 1.949 2.281 4.879 3.135 0.772 3.938 6.213 4.288 5.841 3.478 4.433 nan 1.668 1.560 1.861 1.689 1.514 7.394 1935 chr2 103300553 103302764 + 0 NA intron (NM_007914, intron 1 of 8) intron (NM_007914, intron 1 of 8) 1538 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 4.798 0.953 0.662 3.449 1.159 0.765 5.619 5.361 5.048 3.566 0.715 0.991 6.211 5.772 6.244 8.322 5.330 6.657 0.818 1.017 0.161 nan 0.393 0.294 4.316 2690 chr5 102306185 102308461 + 0 NA Intergenic B4A|SINE|B4 -174068 NM_146161 231532 Mm.440191 NM_029270 ENSMUSG00000057315 Arhgap24 0610025G21Rik Rho GTPase activating protein 24 protein-coding 2.199 0.510 0.171 1.611 1.459 0.497 2.628 2.444 2.509 3.897 0.390 0.431 2.523 3.696 3.906 3.568 2.568 3.770 0.750 0.432 0.333 0.888 0.448 0.233 3.206 581 chr11 98009906 98011710 + 0 NA intron (NM_001159319, intron 6 of 12) intron (NM_001159319, intron 6 of 12) 7564 NM_001159320 12295 Mm.41252 NM_031173 ENSMUSG00000020882 Cacnb1 CAB1|Cchb1|Cchlb1 calcium channel, voltage-dependent, beta 1 subunit protein-coding 10.964 11.581 2.751 13.730 7.390 5.667 10.418 11.216 6.490 16.967 6.058 4.701 8.348 13.940 11.333 12.974 6.192 9.499 3.730 2.772 3.642 5.794 nan 5.502 18.274 2727 chr5 115221415 115226134 + 0 NA Intergenic Intergenic -12077 NM_026398 117109 Mm.24636 NM_026398 ENSMUSG00000060152 Pop5 1500019J17Rik|2700077E03Rik|AW049989|Rnasep3 processing of precursor 5, ribonuclease P/MRP family (S. cerevisiae) protein-coding 8.048 11.035 3.758 9.074 3.478 2.415 5.637 5.544 4.718 11.312 6.179 3.587 5.164 7.168 7.504 8.039 4.449 7.320 4.927 nan 3.166 4.432 nan 4.045 12.247 308 chr10 80608382 80610230 + 0 NA promoter-TSS (NR_105877) promoter-TSS (NR_105877) 46 NR_105877 102465550 NR_105877 ENSMUSG00000099283 Mir6912 Gm27990|mmu-mir-6912 microRNA 6912 ncRNA 1.981 2.235 0.477 2.398 3.452 2.611 3.109 4.257 2.284 2.590 4.574 3.871 1.359 4.002 nan 2.100 1.355 2.176 nan 0.785 0.651 0.517 0.425 0.409 2.185 3485 chr9 51767496 51772751 + 0 NA intron (NM_175535, intron 1 of 14) intron (NM_175535, intron 1 of 14) 4771 NM_175535 244867 Mm.400352 NM_175535 ENSMUSG00000053199 Arhgap20 6530403F17Rik|A530023E23Rik|RARhoGAP|mKIAA1391 Rho GTPase activating protein 20 protein-coding 7.666 3.099 0.832 6.197 2.876 1.062 4.576 7.021 7.244 11.166 4.362 2.765 7.473 7.902 6.458 9.462 4.755 10.446 2.260 1.284 1.050 nan 1.811 1.484 9.147 678 chr11 118986894 118990649 + 0 NA exon (NM_001030291, exon 2 of 6) exon (NM_001030291, exon 2 of 6) 583 NM_001030291 238011 Mm.244114 NM_001030291 ENSMUSG00000046697 Enpp7 Alk-SMase|Gm254 ectonucleotide pyrophosphatase/phosphodiesterase 7 protein-coding 6.339 6.742 1.538 5.245 4.556 2.704 7.433 8.076 4.173 5.879 5.771 3.393 6.084 9.590 6.783 9.224 4.643 6.428 1.596 nan 1.148 2.488 1.056 0.714 9.048 1517 chr17 46338529 46340658 + 0 NA Intergenic Intergenic -11570 NM_170680 224814 Mm.76543 NM_145140 ENSMUSG00000032842 Abcc10 Mrp7|mFLJ00002 ATP-binding cassette, sub-family C (CFTR/MRP), member 10 protein-coding 6.098 13.421 4.262 7.308 3.013 1.213 6.861 5.432 3.868 5.065 4.935 3.079 4.789 nan 7.258 8.619 5.889 6.748 6.010 4.317 1.617 6.357 4.356 3.281 10.626 2808 chr5 151867037 151869268 + 0 NA Intergenic Intergenic -216944 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 6.597 0.858 0.402 nan 7.402 4.052 3.702 3.391 4.757 5.754 2.057 1.712 3.971 7.440 4.065 4.626 3.618 6.268 1.210 1.805 1.260 1.375 1.325 1.396 3.337 3025 chr6 134175916 134176732 + 0 NA intron (NM_001303102, intron 3 of 8) intron (NM_001303102, intron 3 of 8) 140624 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 2.748 5.752 2.865 2.113 0.787 0.296 4.650 3.650 1.888 1.379 1.773 1.164 3.626 4.412 7.294 4.301 1.870 2.707 1.180 0.932 0.659 1.031 0.378 0.699 3.533 3004 chr6 125044051 125048081 + 0 NA intron (NM_133345, intron 2 of 7) B1F1|SINE|Alu 3787 NR_130997 78202 Mm.445941 NR_130997 ENSMUSG00000108034 4930557K07Rik - RIKEN cDNA 4930557K07 gene ncRNA 8.663 8.585 3.183 7.967 6.233 4.423 10.927 10.302 3.800 8.941 5.326 2.985 6.005 10.541 7.445 9.690 7.887 6.256 4.925 4.708 4.642 4.265 6.860 5.601 11.845 1975 chr2 129000975 129005403 + 0 NA intron (NM_178404, intron 5 of 11) URR1B|DNA|hAT-Charlie 35787 NM_178404 78751 Mm.26377 NM_178404 ENSMUSG00000042851 Zc3h6 4631426G04Rik|4833425H18Rik|AU024389|AW060453|Zc3hdc6|mKIAA2035 zinc finger CCCH type containing 6 protein-coding 3.159 2.583 1.342 3.107 2.241 1.601 2.405 4.713 2.681 2.205 6.504 4.717 2.432 2.581 2.196 nan 2.190 3.344 nan 1.332 0.997 0.599 0.834 0.618 2.279 2910 chr6 85378567 85380155 + 0 NA Intergenic Intergenic -4727 NM_001003955 52055 Mm.220334 NM_177466 ENSMUSG00000051343 Rab11fip5 9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11 RAB11 family interacting protein 5 (class I) protein-coding 2.949 1.367 0.414 1.883 1.121 1.495 2.892 2.035 2.087 1.953 0.573 0.488 3.334 4.818 2.621 4.410 5.550 2.354 nan 0.517 0.308 0.357 0.539 0.268 2.731 1973 chr2 127476902 127482609 + 0 NA intron (NM_019789, intron 2 of 8) intron (NM_019789, intron 2 of 8) 2744 NM_001111331 56461 Mm.315292 NM_019789 ENSMUSG00000079056 Kcnip3 4933407H12Rik|AI413860|Csen|DREAM|KChIP3|R74849 Kv channel interacting protein 3, calsenilin protein-coding 3.205 0.546 0.185 3.625 2.362 0.953 5.046 5.483 4.400 5.091 2.468 1.600 6.443 7.911 6.773 10.077 5.858 6.816 nan 0.480 0.388 0.605 0.378 0.476 12.792 1991 chr2 148008010 148013345 + 0 NA Intergenic Intergenic 34787 NM_001291067 15376 Mm.938 NM_010446 ENSMUSG00000037025 Foxa2 HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b forkhead box A2 protein-coding 5.896 0.705 0.481 2.822 4.176 1.986 6.453 5.606 4.293 3.479 1.638 2.405 5.749 4.587 5.409 7.009 4.791 6.684 nan 0.800 0.353 2.374 0.900 0.463 5.345 3027 chr6 134211570 134214182 + 0 NA intron (NM_001303102, intron 3 of 8) intron (NM_001303102, intron 3 of 8) 177176 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 5.520 5.271 1.624 3.916 2.374 0.479 6.377 8.848 4.599 3.500 6.475 3.736 5.388 5.456 7.099 7.072 4.428 5.328 3.986 2.249 1.083 4.534 1.949 1.140 5.710 927 chr13 54682247 54684513 + 0 NA intron (NR_027395, intron 4 of 10) intron (NR_027395, intron 4 of 10) 4428 NM_001146025 105239 Mm.25366 NM_134064 ENSMUSG00000034928 Rnf44 AI854545|mKIAA1100 ring finger protein 44 protein-coding 3.587 1.210 0.243 3.467 1.824 0.743 3.856 5.906 2.886 3.419 2.081 2.712 4.645 5.871 3.675 5.091 2.740 4.783 1.704 1.095 1.136 3.286 1.098 0.970 4.644 301 chr10 80362822 80364255 + 0 NA intron (NM_183152, intron 12 of 14) B2_Mm2|SINE|B2 6099 NR_038088 100568459 NR_038088 Bc1 Gm24367 brain cytoplasmic RNA 1 ncRNA 6.679 10.217 2.804 7.012 3.240 3.445 5.073 5.118 3.629 6.821 4.912 3.160 4.344 5.343 5.746 6.892 4.688 4.927 3.671 1.181 3.535 3.924 3.136 4.049 11.736 3180 chr7 125675292 125681260 + 0 NA intron (NM_207239, intron 8 of 36) ORR1G|LTR|ERVL-MaLR 29412 NM_207239 233863 Mm.294173 NM_207239 ENSMUSG00000032777 Gtf3c1 - general transcription factor III C 1 protein-coding 7.124 2.740 1.161 5.862 5.843 3.192 5.892 9.112 6.301 8.586 2.681 3.025 9.938 11.171 6.896 7.083 8.578 7.746 2.113 1.257 0.924 1.743 1.268 1.123 4.059 2302 chr3 126329517 126334868 + 0 NA Intergenic Intergenic -31660 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 7.731 3.864 2.332 4.528 4.897 2.453 9.266 4.683 3.958 3.771 1.342 1.226 7.872 8.453 5.656 5.547 5.544 8.505 1.382 1.552 0.733 0.948 1.122 0.623 4.477 51 chr1 63157822 63164275 + 0 NA intron (NM_001160038, intron 9 of 19) intron (NM_001160038, intron 9 of 19) 15774 NM_145518 227197 Mm.290791 NM_145518 ENSMUSG00000025968 Ndufs1 5830412M15Rik|9930026A05Rik NADH dehydrogenase (ubiquinone) Fe-S protein 1 protein-coding 10.115 9.410 5.142 7.750 6.753 5.547 8.519 7.833 5.862 10.478 7.302 4.763 7.861 7.904 6.915 9.656 8.612 nan 5.718 4.381 4.705 5.657 6.531 8.457 9.343 1758 chr19 23128846 23137960 + 0 NA Intergenic Intergenic -7823 NM_010638 16601 Mm.291595 NM_010638 ENSMUSG00000033863 Klf9 2310051E17Rik|AA589643|BTEB-1|Bteb1|ENSMUSG00000055440|Gm9971 Kruppel-like factor 9 protein-coding nan 1.851 1.007 nan 6.769 4.002 4.930 7.557 4.592 6.344 nan 1.307 4.881 9.320 4.804 5.696 7.519 5.828 nan 1.447 0.867 1.500 nan 0.822 6.734 1822 chr2 20883278 20885936 + 0 NA intron (NM_001128084, intron 6 of 24) intron (NM_001128084, intron 6 of 24) 83114 NM_001081364 71435 Mm.28507 NM_001081364 ENSMUSG00000036591 Arhgap21 5530401C11Rik|AA416458|ARHGAP10 Rho GTPase activating protein 21 protein-coding 3.285 0.864 0.989 3.600 3.410 1.846 2.195 4.624 2.813 3.542 1.931 3.669 2.482 2.630 2.099 3.386 4.080 3.869 7.130 6.385 3.423 5.772 9.997 7.241 2.235 456 chr11 69614022 69619145 + 0 NA intron (NM_011367, intron 4 of 7) intron (NM_011367, intron 4 of 7) 1322 NM_011367 20415 Mm.1431 NM_011367 ENSMUSG00000005202 Shbg ABP sex hormone binding globulin protein-coding 5.568 4.871 1.527 5.665 2.436 1.395 4.455 7.964 2.653 5.475 3.100 2.615 4.428 7.426 5.716 7.136 4.831 5.125 2.416 1.587 1.340 2.925 nan 1.734 8.999 3063 chr7 16540046 16543234 + 0 NA intron (NM_172739, intron 3 of 6) intron (NM_172739, intron 3 of 6) -64860 NM_008718 18142 Mm.145821 NM_008718 ENSMUSG00000001988 Npas1 MOP5|bHLHe11 neuronal PAS domain protein 1 protein-coding 11.981 1.032 0.430 8.857 9.503 3.448 15.899 8.866 7.068 11.804 6.396 2.812 10.892 17.821 9.923 10.607 11.623 10.355 0.813 2.138 1.216 0.617 1.714 1.375 15.170 2745 chr5 123157228 123159557 + 0 NA intron (NM_001040398, intron 10 of 16) intron (NM_001040398, intron 10 of 16) 16199 NM_001040398 208043 Mm.250391 NM_177581 ENSMUSG00000038384 Setd1b AA516740|BC035291|KMT2G|mKIAA1076 SET domain containing 1B protein-coding 7.016 10.092 3.007 10.519 4.147 2.694 6.645 6.644 5.438 8.528 4.438 5.301 6.107 8.927 9.348 9.787 4.787 8.528 4.670 2.340 2.491 6.712 2.604 2.928 10.333 652 chr11 116053870 116061629 + 0 NA intron (NM_172569, intron 13 of 15) intron (NM_172569, intron 13 of 15) 20212 NM_001009573 70450 Mm.259460 NM_001009573 ENSMUSG00000057948 Unc13d 2610108D09Rik|Jinx|Munc13-4|mFLJ00067 unc-13 homolog D (C. elegans) protein-coding 6.675 nan 1.835 6.229 5.586 4.745 3.962 6.814 4.822 nan 3.474 3.741 5.354 6.815 5.224 5.823 4.402 5.473 4.536 nan 2.733 3.164 2.840 2.901 5.107 1033 chr14 79556544 79563524 + 0 NA intron (NM_001286411, intron 2 of 8) (TA)n|Simple_repeat|Simple_repeat -27657 NM_026474 67955 Mm.18972 NM_026474 ENSMUSG00000022024 Sugt1 2410174K12Rik|SGT1 SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae) protein-coding 3.134 0.794 0.536 4.257 3.408 1.761 2.231 2.305 5.350 7.978 1.114 0.837 3.116 7.868 4.313 4.429 1.459 7.222 1.294 0.786 0.388 1.316 0.684 0.531 4.315 2736 chr5 121995004 121996660 + 0 NA intron (NM_001312908, intron 2 of 22) L1MC5|LINE|L1 51993 NM_007804 13048 Mm.156172 NM_007804 ENSMUSG00000042589 Cux2 1700051K22Rik|Cutl2|Cux-2|ENSMUSG00000072641 cut-like homeobox 2 protein-coding 7.684 12.179 4.748 13.231 7.664 7.260 9.344 7.487 7.101 18.702 7.901 4.621 7.887 11.381 10.315 10.789 6.407 11.119 5.918 3.593 7.154 7.569 nan 10.577 13.850 2400 chr4 82348432 82354486 + 0 NA intron (NM_001113210, intron 5 of 11) intron (NM_001113210, intron 5 of 11) 154320 NM_001286127 18028 Mm.317947 NM_008687 ENSMUSG00000008575 Nfib 6720429L07Rik|CTF|E030026I10Rik|NF-I/B|NF1-B|NFI-B nuclear factor I/B protein-coding 0.424 0.520 0.325 0.319 0.214 0.144 0.289 0.326 0.365 0.323 0.142 0.235 0.183 0.267 0.328 0.602 0.354 0.416 nan 9.409 5.393 4.334 2.138 1.781 0.530 2258 chr3 95302093 95304889 + 0 NA intron (NM_001085383, intron 3 of 12) B2_Mm1t|SINE|B2 3313 NM_001085383 71790 Mm.218844 NM_023628 ENSMUSG00000015702 Anxa9 1110003P15Rik|2310069F17Rik annexin A9 protein-coding 5.632 1.112 0.671 2.345 2.148 1.337 1.614 1.148 1.376 2.108 nan 0.648 1.385 1.749 1.320 2.207 1.483 2.237 0.920 1.023 0.685 0.751 1.174 0.747 2.116 2034 chr2 157197670 157203649 + 0 NA intron (NM_011249, intron 1 of 21) B2_Mm2|SINE|B2 3875 NM_011249 19650 Mm.244671 NM_011249 ENSMUSG00000027641 Rbl1 AW547426|PRB1|p107 retinoblastoma-like 1 (p107) protein-coding nan 1.811 0.909 3.593 4.718 2.569 7.779 3.604 nan nan 2.476 3.038 nan nan 6.249 8.860 6.851 nan nan 0.743 0.604 0.532 0.646 0.377 nan 1539 chr17 56083340 56085834 + 0 NA intron (NM_001331053, intron 3 of 15) PB1D10|SINE|Alu 4956 NM_001304785 15193 Mm.12966 NM_008233 ENSMUSG00000002833 Hdgfrp2 HRP-2 hepatoma-derived growth factor, related protein 2 protein-coding nan 4.422 2.268 7.194 7.583 6.451 7.045 5.677 4.635 5.510 5.038 3.752 5.445 8.374 5.911 5.447 6.494 5.884 3.037 3.912 3.915 2.741 4.776 5.677 5.833 2029 chr2 156241598 156244348 + 0 NA intron (NM_172674, intron 2 of 17) B1F|SINE|Alu 46326 NM_172674 228829 Mm.427078 NM_172674 ENSMUSG00000038116 Phf20 6820402O20Rik PHD finger protein 20 protein-coding 6.712 0.584 0.286 3.133 3.493 1.042 2.913 7.333 3.073 4.583 2.263 1.245 6.014 7.783 4.457 6.453 3.822 5.308 nan 0.497 0.312 0.814 0.252 0.187 6.316 796 chr12 81111296 81113860 + 0 NA intron (NM_022316, intron 3 of 12) L1ME4c|LINE|L1 -53573 NR_037227 100526532 NR_037227 ENSMUSG00000092673 Mir3067 mir-3067|mmu-mir-3067 microRNA 3067 ncRNA 5.700 1.723 0.610 2.773 2.201 0.538 2.426 2.124 2.463 3.149 1.560 0.890 3.070 5.106 2.675 4.757 3.810 3.751 0.803 1.033 0.287 0.969 0.649 0.478 3.746 2349 chr4 32472596 32474715 + 0 NA intron (NM_001109661, intron 1 of 4) intron (NM_001109661, intron 1 of 4) 56220 NM_001109661 12014 Mm.491223 NM_007521 ENSMUSG00000040270 Bach2 E030004N02Rik BTB and CNC homology, basic leucine zipper transcription factor 2 protein-coding 3.391 1.758 0.573 4.741 1.817 1.001 2.511 0.799 2.451 2.362 2.283 1.669 2.160 2.816 2.339 2.954 1.543 3.795 1.490 0.747 0.826 1.133 0.422 0.391 3.887 3552 chr9 109019999 109024235 + 0 NA intron (NM_173019, intron 9 of 13) intron (NM_173019, intron 9 of 13) -16450 NM_025858 66940 Mm.196533 NM_025858 ENSMUSG00000025647 Shisa5 2310008D10Rik|6430628I05Rik|Scotin|mShisa5 shisa family member 5 protein-coding 1.611 0.860 0.496 2.521 1.678 1.895 2.175 4.796 nan 2.257 2.944 2.256 1.930 2.489 3.334 nan 1.044 nan 1.546 0.401 0.920 1.378 0.695 0.922 3.418 366 chr10 128002577 128004284 + 0 NA intron (NM_013786, intron 1 of 5) MERVL_2A-int|LTR|ERVL 4078 NM_013786 27400 Mm.26719 NM_013786 ENSMUSG00000025396 Hsd17b6 17betaHSD9|Hsd17b9|Rdh8 hydroxysteroid (17-beta) dehydrogenase 6 protein-coding 10.957 14.753 3.693 10.785 7.407 6.668 9.016 8.110 6.806 10.357 6.727 4.719 7.096 9.969 8.420 9.861 8.839 7.467 4.234 4.095 6.589 5.967 nan 6.429 13.815 844 chr13 5872337 5875358 + 0 NA Intergenic Intergenic 12358 NM_011803 23849 Mm.275036 NM_011803 ENSMUSG00000000078 Klf6 AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9 Kruppel-like factor 6 protein-coding 3.583 0.985 0.627 3.761 2.538 1.253 1.417 3.253 2.915 2.812 2.593 1.674 2.650 3.714 2.868 3.351 1.810 3.901 0.971 0.559 0.264 0.684 0.386 0.380 1.629 1541 chr17 56144228 56150230 + 0 NA Intergenic ID_B1|SINE|B4 -6886 NM_001130456 20359 Mm.8029 NM_013662 ENSMUSG00000001227 Sema6b Sema|Seman|VIb|semaZ sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B protein-coding 5.904 nan 1.646 6.121 3.733 2.972 7.210 5.702 3.961 4.996 3.594 2.724 4.767 7.071 7.620 9.000 6.513 5.621 3.601 2.436 2.467 4.053 3.190 3.151 9.663 2723 chr5 114292116 114294603 + 0 NA Intergenic Intergenic -19598 NM_148935 116810 Mm.17709 NM_148935 ENSMUSG00000042002 Foxn4 - forkhead box N4 protein-coding 2.930 3.478 1.368 3.372 2.080 0.791 1.126 0.912 1.518 1.628 6.870 2.076 0.466 0.912 1.215 2.230 1.471 2.306 nan nan 0.852 0.651 nan 0.536 2.288 272 chr10 67246914 67253150 + 0 NA intron (NM_207221, intron 24 of 25) intron (NM_207221, intron 24 of 25) 35249 NM_001036293 641340 Mm.136223 NM_001036293 ENSMUSG00000075000 Nrbf2 NRBF-2 nuclear receptor binding factor 2 protein-coding 6.031 0.726 0.542 2.929 3.854 1.834 5.123 6.097 4.400 4.834 1.488 1.360 5.002 6.249 5.833 4.804 4.418 5.368 0.634 0.986 0.457 0.676 0.526 0.385 4.040 3527 chr9 78058727 78062837 + 0 NA intron (NM_008103, intron 3 of 5) intron (NM_008103, intron 3 of 5) 8824 NM_008103 14531 Mm.1400 NM_008103 ENSMUSG00000023333 Gcm1 GCMa|Gcm-rs2|Gcm1-rs1|glide glial cells missing homolog 1 (Drosophila) protein-coding 5.404 0.679 0.547 3.787 3.880 3.080 6.851 8.054 5.099 4.114 8.574 4.356 7.335 8.285 6.895 7.365 4.789 7.267 0.678 nan 1.132 0.594 1.317 1.242 7.809 2343 chr4 13669225 13681882 + 0 NA Intergenic RLTRETN_Mm|LTR|ERVK -67749 NM_001111026 12395 Mm.4909 NM_009822 ENSMUSG00000006586 Runx1t1 Cbfa2t1h|ETO|MTG8 runt-related transcription factor 1; translocated to, 1 (cyclin D-related) protein-coding 0.801 1.043 0.578 1.521 0.306 0.176 0.374 0.424 0.558 0.622 0.396 0.343 0.264 0.343 0.416 0.688 0.413 0.933 9.711 4.135 2.660 6.354 5.694 4.478 0.683 775 chr12 74685096 74688656 + 0 NA Intergenic L1MB3|LINE|L1 389402 NM_198866 386753 Mm.341686 NM_198866 ENSMUSG00000029878 Dbpht2 Spot2 DNA binding protein with his-thr domain protein-coding 6.158 9.598 2.547 8.626 1.856 1.028 1.879 1.850 3.386 5.377 3.963 2.318 1.654 2.542 3.655 nan 2.248 5.581 2.839 1.797 1.279 3.643 1.596 1.882 6.783 2518 chr4 135049211 135051662 + 0 NA Intergenic L1MEc|LINE|L1 -70209 NM_019732 12399 Mm.378894 NM_019732 ENSMUSG00000070691 Runx3 AML2|Cbfa3|Pebp2a3 runt related transcription factor 3 protein-coding 6.201 7.117 2.769 6.728 3.925 2.424 5.967 7.539 4.447 5.165 3.398 2.491 5.031 7.735 5.490 7.838 5.642 5.685 7.991 5.856 4.212 7.677 nan 7.311 6.655 3044 chr6 145802814 145815858 + 0 NA intron (NM_027760, intron 1 of 3) ORR1E-int|LTR|ERVL-MaLR 953 NM_027760 71323 Mm.158669 NM_027760 ENSMUSG00000030259 Rassf8 5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1 Ras association (RalGDS/AF-6) domain family (N-terminal) member 8 protein-coding nan 3.241 1.056 nan 1.608 0.749 0.920 nan 1.698 nan 3.808 1.608 nan 2.780 2.426 nan 1.464 2.427 8.967 nan 2.576 nan 5.589 4.708 nan 2108 chr2 173104349 173109332 + 0 NA intron (NM_001081387, intron 7 of 10) intron (NM_001081387, intron 7 of 10) 12685 NM_001081387 664799 Mm.389396 NM_001081387 ENSMUSG00000070495 Ctcfl Boris|OTTMUSG00000016680 CCCTC-binding factor (zinc finger protein)-like protein-coding 3.642 1.338 0.578 3.650 2.290 0.894 4.715 8.091 3.963 5.177 3.139 1.291 5.568 5.425 5.113 8.084 4.680 4.091 0.862 0.654 0.492 1.186 0.516 0.409 7.983 20 chr1 20852522 20855183 + 0 NA Intergenic ORR1C2|LTR|ERVL-MaLR -33639 NM_008563 17215 Mm.4502 NM_008563 ENSMUSG00000041859 Mcm3 AL033361|C80350|Mcmd|P1|p1.m minichromosome maintenance complex component 3 protein-coding 9.147 0.526 0.338 3.732 4.952 3.385 8.198 4.933 5.858 6.735 3.035 4.786 8.493 7.660 5.892 10.866 9.721 7.174 0.653 1.170 0.875 0.612 0.794 0.538 4.749 2376 chr4 57928599 57930935 + 0 NA Intergenic Intergenic -13503 NM_178727 242484 Mm.23214 NM_178727 ENSMUSG00000052117 D630039A03Rik - RIKEN cDNA D630039A03 gene protein-coding 8.202 nan 0.744 3.534 3.117 1.505 nan 6.608 2.199 4.379 2.608 3.217 4.024 4.937 3.846 5.270 5.430 3.291 5.151 6.704 4.491 7.356 4.276 2.954 8.323 888 chr13 44702597 44703510 + 0 NA Intergenic B1_Mm|SINE|Alu -27721 NM_021878 16468 Mm.25059 NM_021878 ENSMUSG00000038518 Jarid2 Jmj|jumonji jumonji, AT rich interactive domain 2 protein-coding 2.130 1.783 0.239 nan 1.265 0.619 2.234 3.005 1.752 2.747 0.732 0.348 2.084 4.196 2.701 3.488 2.223 2.863 1.471 nan 0.246 1.973 1.745 0.512 3.401 1983 chr2 144034495 144036630 + 0 NA intron (NM_001044750, intron 1 of 2) MER3|DNA|hAT-Charlie 2460 NM_207275 403171 Mm.389362 NM_207275 ENSMUSG00000037307 Banf2 4930517K23Rik|Baf-L|Baf-like|Gm115 barrier to autointegration factor 2 protein-coding 4.960 1.398 0.433 1.873 1.854 1.456 4.034 3.271 3.338 4.246 1.115 0.573 3.000 2.423 2.591 4.396 4.355 2.935 nan 0.784 0.115 0.393 0.525 0.402 5.890 1011 chr14 55512215 55514595 + 0 NA exon (NM_009947, exon 5 of 17) exon (NM_009947, exon 5 of 17) 2045 NM_009947 12891 Mm.5249 NM_009947 ENSMUSG00000022212 Cpne6 AU067659|BB076446 copine VI protein-coding 7.299 9.772 3.300 7.532 4.934 2.996 6.983 nan 3.589 8.526 5.693 4.816 5.539 8.390 7.262 8.984 6.043 6.435 4.818 3.726 3.946 5.230 4.282 4.434 10.554 3100 chr7 30196400 30198381 + 0 NA Intergenic Intergenic -2342 NM_009795 12336 Mm.439782 NM_009795 ENSMUSG00000001794 Capns1 Capa-4|Capa4|Capn4|D7Ertd146e calpain, small subunit 1 protein-coding 4.759 0.661 0.266 4.910 3.261 1.546 9.123 9.175 5.565 8.439 1.150 2.466 6.686 7.502 7.744 8.892 4.853 7.345 7.475 5.841 4.882 9.440 8.851 6.391 8.081 1754 chr19 22990080 22992230 + 0 NA Intergenic Intergenic -150071 NM_010638 16601 Mm.291595 NM_010638 ENSMUSG00000033863 Klf9 2310051E17Rik|AA589643|BTEB-1|Bteb1|ENSMUSG00000055440|Gm9971 Kruppel-like factor 9 protein-coding 6.032 1.836 0.687 5.041 3.393 1.952 2.863 6.912 2.988 3.489 6.010 3.639 3.493 5.752 3.556 3.481 3.362 nan 1.391 1.994 1.537 2.941 2.431 1.584 4.429 3562 chrX 7782394 7784546 + 0 NA Intergenic B2_Mm2|SINE|B2 -6523 NM_001290455 54645 Mm.194811 NM_207670 ENSMUSG00000031153 Gripap1 AI854681|DXImx47e|GRASP-1|Sfc10|mKIAA1167 GRIP1 associated protein 1 protein-coding 2.783 0.927 0.633 2.984 1.629 0.662 2.734 2.927 3.860 4.103 2.518 2.085 3.272 4.490 2.672 4.076 2.268 2.541 1.295 0.619 0.562 1.164 0.877 0.892 5.150 1627 chr18 39347146 39348267 + 0 NA intron (NM_175164, intron 20 of 22) intron (NM_175164, intron 20 of 22) 139539 NM_008173 14815 Mm.129481 NM_008173 ENSMUSG00000024431 Nr3c1 GR|Grl-1|Grl1 nuclear receptor subfamily 3, group C, member 1 protein-coding 5.451 1.411 0.583 3.755 1.103 0.582 3.602 5.351 2.902 3.425 1.323 0.811 4.890 3.315 3.829 7.275 4.015 5.831 1.010 0.795 1.174 0.709 0.239 0.189 6.789 1161 chr15 76759249 76760625 + 0 NA intron (NM_198420, intron 2 of 10) ORR1E|LTR|ERVL-MaLR -36092 NM_176828 223665 Mm.291713 NM_145472 ENSMUSG00000033707 C030006K11Rik 1110033I13Rik RIKEN cDNA C030006K11 gene protein-coding 4.789 nan 0.819 nan 1.719 1.112 3.820 3.611 0.735 2.417 nan 0.444 4.597 5.148 2.192 1.607 3.264 1.581 0.923 0.648 0.925 nan 0.820 0.877 1.468 468 chr11 70385276 70388701 + 0 NA Intergenic Intergenic 23043 NM_029231 75273 Mm.340601 NM_029231 ENSMUSG00000018921 Pelp1 4930563C04Rik|MNAR proline, glutamic acid and leucine rich protein 1 protein-coding 2.022 1.413 0.653 2.040 2.701 1.456 1.902 4.315 2.761 2.086 7.079 3.747 2.928 4.380 2.003 1.942 1.939 2.508 0.743 0.641 0.361 0.631 nan 0.265 1.360 2093 chr2 167711561 167714106 + 0 NA Intergenic B2_Mm1t|SINE|B2 21656 NR_015500 329562 Mm.123101 NM_177851 ENSMUSG00000006462 A530013C23Rik - RIKEN cDNA A530013C23 gene ncRNA 8.012 2.311 0.911 5.712 3.265 1.484 6.438 7.853 3.858 5.721 3.885 2.192 5.653 7.525 6.519 8.653 7.499 6.038 nan 1.522 1.558 2.473 2.223 1.588 10.729 3030 chr6 134865631 134883927 + 0 NA intron (NM_001167699, intron 1 of 1) PB1D10|SINE|Alu 13006 NR_074084 14760 Mm.4787 NM_008157 ENSMUSG00000032641 Gpr19 - G protein-coupled receptor 19 protein-coding 5.249 7.744 3.201 5.798 3.916 2.281 5.352 7.242 4.576 6.170 6.645 4.390 7.349 7.027 nan 7.739 8.286 6.585 nan 6.560 4.704 8.229 8.909 7.086 nan 1019 chr14 61345895 61347765 + 0 NA intron (NM_026598, intron 2 of 3) B1_Mus1|SINE|Alu 13615 NM_026598 68177 Mm.22758 NM_026598 ENSMUSG00000021928 Ebpl 5730442K12Rik|EBRP emopamil binding protein-like protein-coding 3.246 2.606 0.855 1.906 1.134 0.132 0.929 6.077 1.608 1.350 2.258 1.724 1.976 3.516 2.233 3.343 1.909 2.729 1.053 0.577 0.785 1.328 0.423 0.151 2.298 700 chr11 120545338 120549166 + 0 NA intron (NM_001033231, intron 1 of 4) B1_Mus1|SINE|Alu 2475 NM_001033231 192173 Mm.262300 NM_001033231 ENSMUSG00000061111 Fam195b Mcrip1 family with sequence similarity 195, member B protein-coding 4.010 nan 0.211 5.258 2.506 0.754 4.635 5.086 2.462 3.631 1.592 0.948 6.688 7.763 4.787 6.114 5.465 6.662 1.594 nan 1.396 3.768 2.143 1.499 6.863 1927 chr2 101561524 101563958 + 0 NA intron (NM_026592, intron 6 of 6) intron (NM_026592, intron 6 of 6) -62007 NM_009020 19374 Mm.4988 NM_009020 ENSMUSG00000032864 Rag2 Rag-2 recombination activating gene 2 protein-coding 3.375 0.986 0.245 2.107 1.066 0.645 1.545 1.476 1.615 1.912 0.596 0.249 3.289 2.320 2.737 4.463 3.524 4.460 0.431 0.355 0.237 0.478 0.455 0.455 nan 78 chr1 74551456 74553943 + 0 NA intron (NM_001081456, intron 6 of 16) intron (NM_001081456, intron 6 of 16) 8339 NM_148937 18802 Mm.290731 NM_148937 ENSMUSG00000026173 Plcd4 4921507K24Rik phospholipase C, delta 4 protein-coding 11.192 10.412 4.130 7.060 5.117 3.386 7.852 7.860 4.970 6.600 6.425 3.488 7.069 8.269 8.449 13.391 8.450 nan 6.175 nan 4.443 7.799 nan 5.625 10.665 3369 chr8 121969983 121976961 + 0 NA intron (NM_016812, intron 1 of 13) intron (NM_016812, intron 1 of 13) -4552 NR_106096 102466915 NR_106096 ENSMUSG00000099140 Mir7237 Gm27482|mmu-mir-7237 microRNA 7237 ncRNA 0.590 0.981 0.444 0.604 0.429 0.281 0.365 0.754 0.431 0.749 0.445 0.257 0.300 0.497 0.573 nan 0.361 0.906 1.194 1.986 1.767 6.370 0.773 0.827 1.070 3406 chr8 126543825 126545729 + 0 NA Intergenic Intergenic 48659 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 6.787 12.232 2.658 8.306 3.125 2.645 5.579 8.040 4.288 10.210 5.269 3.485 7.421 6.285 8.826 11.776 6.224 8.341 4.736 1.737 3.729 8.512 2.274 4.201 14.717 2853 chr6 38744602 38746973 + 0 NA intron (NM_001294144, intron 4 of 14) intron (NM_001294144, intron 4 of 14) 82718 NM_001101507 665180 Mm.349066 NM_001101507 ENSMUSG00000079598 Clec2l AI414054|AW122724|Gm1064 C-type lectin domain family 2, member L protein-coding 2.372 1.211 0.220 3.198 2.063 0.940 1.539 1.797 2.638 2.293 0.618 0.817 2.564 4.932 2.722 4.964 3.216 4.755 nan 0.688 0.437 nan nan 0.247 3.688 1380 chr16 95441476 95447278 + 0 NA intron (NM_001302152, intron 3 of 10) intron (NM_001302152, intron 3 of 10) 14971 NM_001302154 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 8.211 0.966 0.411 5.103 5.613 2.739 5.924 5.421 6.428 9.248 2.639 0.964 9.941 11.949 nan 9.089 6.703 8.350 nan 0.835 0.552 1.093 1.080 0.687 7.218 990 chr14 25886868 25890676 + 0 NA intron (NM_207229, intron 3 of 3) intron (NM_207229, intron 3 of 3) 14121 NM_207229 211623 Mm.439926 NM_207229 ENSMUSG00000095304 Plac9a Plac9 placenta specific 9a protein-coding 1.185 0.600 0.444 0.511 0.300 0.228 1.163 2.104 1.236 1.405 0.648 0.849 1.234 1.386 1.540 nan nan nan 3.882 2.256 1.849 nan 2.598 2.464 1.889 413 chr11 51568861 51576131 + 0 NA exon (NM_153393, exon 21 of 29) exon (NM_153393, exon 21 of 29) -12261 NM_028398 72947 Mm.256875 NM_028398 ENSMUSG00000020359 Phykpl 2900006B13Rik|Agxt2l2 5-phosphohydroxy-L-lysine phospholyase protein-coding 4.792 10.467 7.776 5.264 5.602 4.576 4.796 nan 3.894 5.699 2.196 2.054 5.960 7.588 5.790 nan 5.181 nan nan 1.777 2.425 nan nan 1.626 5.876 294 chr10 79743263 79745593 + 0 NA intron (NM_172551, intron 2 of 20) intron (NM_172551, intron 2 of 20) 2153 NM_172551 216151 Mm.39001 NM_172551 ENSMUSG00000020329 Polrmt 1110018N15Rik|4932416K13 polymerase (RNA) mitochondrial (DNA directed) protein-coding 8.274 1.246 0.472 8.622 3.601 1.707 7.621 8.330 6.389 8.723 2.379 1.682 9.262 12.313 11.456 12.359 5.944 10.365 nan 0.568 0.262 1.600 0.205 0.188 16.562 2316 chr3 133204462 133209934 + 0 NA intron (NM_029953, intron 1 of 3) intron (NM_029953, intron 1 of 3) 27691 NM_029953 77669 Mm.98630 NM_029953 ENSMUSG00000040969 Arhgef38 9130221D24Rik|D630013G24Rik Rho guanine nucleotide exchange factor (GEF) 38 protein-coding 8.023 nan 2.052 5.202 4.780 3.062 8.963 7.068 5.074 7.810 6.798 4.635 7.170 8.429 7.160 7.301 6.942 7.560 3.387 2.808 2.781 3.488 3.565 3.944 8.307 2218 chr3 88896985 88897927 + 0 NA intron (NM_001242372, intron 22 of 32) B1_Mus2|SINE|Alu 16494 NM_144898 229524 Mm.440405 NM_144898 ENSMUSG00000068922 Msto1 BC008103|mst misato 1, mitochondrial distribution and morphology regulator protein-coding 1.503 1.416 1.302 1.976 0.929 0.613 1.225 2.827 1.115 2.747 0.739 0.429 1.112 4.097 2.006 2.152 2.353 1.687 nan 2.435 1.615 2.730 2.988 3.859 1.069 1614 chr18 36649687 36651054 + 0 NA intron (NM_175375, intron 29 of 33) intron (NM_175375, intron 29 of 33) -13690 NM_201256 108112 Mm.24790 NM_201256 ENSMUSG00000090264 Eif4ebp3 4e-bp3 eukaryotic translation initiation factor 4E binding protein 3 protein-coding 4.172 0.938 0.649 1.573 2.550 1.261 4.567 5.572 1.957 2.328 1.278 0.799 5.061 4.560 2.966 3.867 2.415 3.124 0.579 0.584 0.852 0.237 0.493 0.273 2.388 1442 chr17 26727302 26735175 + 0 NA intron (NM_029870, intron 1 of 8) intron (NM_029870, intron 1 of 8) 15588 NM_029870 77128 Mm.275414 NM_029870 ENSMUSG00000048249 Crebrf A930001N09Rik|LRF CREB3 regulatory factor protein-coding 4.954 2.455 0.808 4.756 4.757 2.494 2.174 6.128 3.606 3.071 2.655 1.547 2.799 5.826 2.753 nan 1.488 3.375 1.906 1.783 1.026 3.132 1.142 0.672 3.435 764 chr12 72931474 72935204 + 0 NA Intergenic L1VL2|LINE|L1 -6543 NM_011384 20476 Mm.57138 NM_011384 ENSMUSG00000021099 Six6 Optx2|Six9 sine oculis-related homeobox 6 protein-coding 4.981 5.369 1.487 7.668 2.359 1.099 2.710 2.706 4.004 6.741 3.376 1.939 3.874 3.755 5.031 nan 3.337 6.398 3.928 1.428 1.536 4.585 2.267 2.198 11.053 349 chr10 126516361 126519573 + 0 NA Intergenic Intergenic 192424 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 0.590 nan 0.448 1.129 0.324 0.319 0.668 0.518 0.751 1.163 0.198 0.326 0.336 0.652 0.767 0.741 0.382 0.837 1.700 0.496 0.873 3.126 nan 1.600 1.168 1743 chr19 10211179 10213656 + 0 NA intron (NM_001033481, intron 22 of 25) intron (NM_001033481, intron 22 of 25) 6384 NM_001163431 69038 Mm.375100 NM_026919 ENSMUSG00000036372 Tmem258 1810006K21Rik transmembrane protein 258 protein-coding 3.716 0.712 0.264 2.601 1.236 0.391 1.833 4.178 nan 1.388 8.064 2.042 1.623 2.314 2.378 2.786 1.833 3.571 0.538 0.703 0.346 0.910 0.421 0.245 2.965 3364 chr8 120807105 120810342 + 0 NA Intergenic Intergenic 70084 NM_001301811 15900 Mm.334861 NM_008320 ENSMUSG00000041515 Irf8 AI893568|ICSBP|IRF-8|Icsbp1|Myls interferon regulatory factor 8 protein-coding 1.697 0.521 0.163 1.559 1.653 1.423 3.112 1.924 2.344 3.054 4.860 3.696 1.014 3.912 1.776 nan 0.652 2.034 4.752 2.877 3.731 11.473 5.814 4.845 2.219 2075 chr2 164958755 164963335 + 0 NA Intergenic (CGGGG)n|Simple_repeat|Simple_repeat -6943 NM_020333 57138 Mm.252987 NM_020333 ENSMUSG00000017740 Slc12a5 KCC2|mKIAA1176 solute carrier family 12, member 5 protein-coding 0.313 0.735 0.214 0.366 0.204 0.108 0.269 0.365 0.284 0.343 0.228 0.178 0.145 nan 0.296 0.623 0.329 nan 4.392 2.775 2.884 5.697 4.519 4.234 nan 3251 chr8 34841033 34843918 + 0 NA intron (NM_175091, intron 21 of 26) intron (NM_175091, intron 21 of 26) 34865 NM_176933 319520 Mm.170276 NM_176933 ENSMUSG00000031530 Dusp4 2700078F24Rik|AI844617|BB104621|E130306H24Rik|MKP2 dual specificity phosphatase 4 protein-coding 5.748 6.052 2.325 5.020 2.941 2.535 4.436 7.530 3.532 5.863 6.444 3.201 4.504 6.025 5.192 6.546 5.528 4.787 2.562 2.347 1.705 4.705 1.904 1.650 7.111 1981 chr2 131020884 131033363 + 0 NA 3' UTR (NM_009730, exon 29 of 29) 3' UTR (NM_009730, exon 29 of 29) 13275 NR_105969 102465606 NR_105969 ENSMUSG00000098686 Mir6973b Gm27815|mmu-mir-6973b microRNA 6973b ncRNA 6.762 1.555 0.809 4.984 4.476 3.168 5.547 8.467 5.561 6.028 4.140 2.228 8.406 9.406 6.704 9.096 7.370 6.504 nan 1.511 1.385 1.926 1.569 1.312 8.802 3205 chr7 137361966 137366531 + 0 NA Intergenic Intergenic 46508 NM_029886 77252 Mm.29184 NM_029886 ENSMUSG00000040139 9430038I01Rik - RIKEN cDNA 9430038I01 gene protein-coding 2.485 nan 0.464 3.663 3.051 1.304 1.826 7.506 2.264 2.453 0.537 0.646 2.075 3.843 3.517 3.010 2.047 4.130 0.751 0.706 0.698 0.842 0.700 0.531 2.488 2081 chr2 166759291 166761151 + 0 NA Intergenic RMER4B|LTR|ERVK -33546 NM_023815 76367 Mm.330796 NM_023815 ENSMUSG00000042854 Trp53rkb 2810408M09Rik|4933401B08Rik|5630401H01Rik|Nori-2|PRPK|Tp53rk|Trp53rk|Trp53tk|mNori-2p transformation related protein 53 regulating kinase B protein-coding 4.644 1.311 0.514 2.887 2.063 1.046 3.689 3.662 3.270 5.096 1.144 0.778 6.198 5.664 4.923 6.589 4.441 4.627 2.986 0.415 0.938 2.654 2.005 1.597 6.224 1383 chr16 95496796 95498983 + 0 NA intron (NM_001302152, intron 3 of 10) intron (NM_001302152, intron 3 of 10) 32476 NM_001302179 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 6.450 1.564 1.186 3.722 4.872 3.578 3.586 5.884 3.625 4.288 6.654 1.241 6.053 7.133 3.837 5.015 4.726 5.660 nan 1.031 1.143 0.490 0.757 0.720 4.536 606 chr11 100840661 100842189 + 0 NA intron (NM_001113563, intron 1 of 18) intron (NM_001113563, intron 1 of 18) 9160 NM_001113563 20851 Mm.34064 NM_011489 ENSMUSG00000020919 Stat5b - signal transducer and activator of transcription 5B protein-coding 5.075 nan 0.887 5.215 6.127 4.932 5.268 5.633 5.399 4.586 3.013 2.313 4.063 6.391 4.847 5.515 3.706 4.872 1.251 nan 1.749 1.120 nan nan 2.878 137 chr1 135127762 135129529 + 0 NA intron (NM_007955, intron 3 of 37) intron (NM_007955, intron 3 of 37) 3930 NM_007955 13924 Mm.4450 NM_007955 Ptprv Esp|OST|OST-PTP|mOST-PTP protein tyrosine phosphatase, receptor type, V protein-coding 4.822 0.458 0.245 2.174 1.911 1.281 6.997 5.629 2.091 1.297 4.392 3.108 5.490 3.363 4.852 6.818 4.529 3.944 0.990 0.526 0.694 0.892 0.926 0.588 5.465 1414 chr17 21668631 21674696 + 0 NA Intergenic L1VL1|LINE|L1 -18549 NR_045766 100310809 Mm.293030 NR_045766 Gm10509 ENSMUSG00000073448 zinc finger protein 51 pseudogene pseudo 6.642 6.934 3.543 7.107 5.783 3.544 5.540 4.823 5.279 6.789 8.241 5.201 3.907 5.676 6.442 7.390 5.136 6.289 2.798 3.452 2.753 2.512 3.142 2.616 nan 3559 chr9 118440319 118442618 + 0 NA Intergenic B4A|SINE|B4 11629 NR_040716 71196 Mm.73218 NR_040716 ENSMUSG00000111843 4933432G23Rik - RIKEN cDNA 4933432G23 gene ncRNA 3.306 0.472 0.648 1.582 2.848 1.307 1.860 2.048 2.762 2.876 3.191 3.285 3.925 4.674 1.691 1.850 1.841 2.258 1.647 0.822 0.213 0.656 nan 0.759 3.381 2522 chr4 135584021 135588338 + 0 NA Intergenic Intergenic -12559 NM_001013756 230824 Mm.331972 NM_001013756 ENSMUSG00000037188 Grhl3 AI561912|Get1|Som|Tfcp2l4|ct grainyhead-like 3 (Drosophila) protein-coding 4.042 5.699 2.298 4.045 4.053 3.182 4.076 4.688 nan 3.193 3.553 1.781 2.436 4.137 3.439 3.433 2.929 3.071 3.997 4.134 4.624 7.425 nan 5.512 3.117 1855 chr2 32757641 32765489 + 0 NA TTS (NM_001290566) TTS (NM_001290566) 4331 NM_152800 30933 Mm.200695 NM_152800 ENSMUSG00000009563 Tor2a Prosalusin torsin family 2, member A protein-coding 4.818 1.337 0.538 5.823 3.546 2.285 3.612 4.905 nan 3.834 2.950 2.293 3.552 4.555 5.402 6.780 3.675 6.039 3.624 1.633 1.273 3.901 1.783 1.377 8.443 666 chr11 116951882 116957206 + 0 NA intron (NM_172948, intron 8 of 16) intron (NM_172948, intron 8 of 16) 35681 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 4.397 4.871 2.863 5.954 4.125 2.768 nan 2.142 3.658 2.803 1.423 3.094 2.086 2.666 2.539 2.893 1.960 nan 1.585 nan 1.894 1.430 1.342 1.578 2.852 432 chr11 59454511 59459833 + 0 NA non-coding (NR_037992, exon 6 of 6) non-coding (NR_037992, exon 6 of 6) 7127 NM_001205068 194952 Mm.295954 NM_178659 ENSMUSG00000036819 Jmjd4 6430559I23 jumonji domain containing 4 protein-coding 4.400 0.874 0.402 2.921 5.169 3.466 3.940 2.963 3.918 5.048 4.434 1.706 6.210 5.372 3.676 4.801 3.053 5.917 nan 1.194 1.148 0.974 0.981 0.965 5.013 1074 chr15 25300402 25316587 + 0 NA Intergenic L1_Mus4|LINE|L1 105270 NM_027395 70350 Mm.29586 NM_027395 ENSMUSG00000045763 Basp1 2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22 brain abundant, membrane attached signal protein 1 protein-coding 1.487 7.579 4.258 0.520 0.373 0.235 1.121 1.495 1.099 0.885 0.523 1.741 1.594 0.664 0.910 0.633 1.005 0.962 1.699 0.924 0.642 2.029 0.839 0.389 0.870 860 chr13 24704470 24708245 + 0 NA TTS (NM_001080381) TTS (NM_001080381) 55580 NM_020567 57441 Mm.12239 NM_020567 ENSMUSG00000006715 Gmnn AW546347|Gem geminin protein-coding 1.299 8.363 2.871 1.852 1.250 0.489 0.814 0.722 1.273 1.325 1.419 0.665 0.436 0.833 1.334 1.063 0.867 1.603 1.010 1.832 0.926 0.878 0.725 0.532 1.193 2308 chr3 127597185 127599801 + 0 NA intron (NM_197997, intron 15 of 25) intron (NM_197997, intron 15 of 25) -34652 NM_009718 11924 Mm.42017 NM_009718 ENSMUSG00000027967 Neurog2 Atoh4|Math4A|bHLHa8|ngn-2|ngn2 neurogenin 2 protein-coding 3.825 3.989 1.839 5.012 2.946 2.268 3.574 4.006 3.815 7.665 6.172 5.022 4.172 5.009 3.742 nan 3.646 nan 2.253 1.845 2.226 2.725 1.737 2.417 4.909 1567 chr17 71435361 71449345 + 0 NA intron (NM_028887, intron 8 of 47) intron (NM_028887, intron 8 of 47) 32990 NM_028887 74355 Mm.194450 NM_028887 ENSMUSG00000024054 Smchd1 4931400A14Rik|AW554188|MommeD1|mKIAA0650 SMC hinge domain containing 1 protein-coding 6.164 3.737 2.453 7.041 7.998 4.634 6.359 7.017 nan 8.992 2.732 2.339 8.190 nan 7.925 10.126 6.923 8.705 1.971 1.390 1.078 2.763 1.897 1.137 6.925 1063 chr15 10676790 10679337 + 0 NA intron (NM_001166408, intron 2 of 17) MER2|DNA|TcMar-Tigger 35477 NM_030690 75646 Mm.212395 NM_030690 ENSMUSG00000022246 Rai14 1700008J19Rik|1700020L11Rik|Ankycorbin|Norpeg|mKIAA1334 retinoic acid induced 14 protein-coding 4.121 1.349 0.614 3.632 3.721 1.596 9.682 5.514 3.359 4.725 2.266 2.273 8.087 8.179 6.942 4.578 3.858 5.751 0.845 0.783 0.372 0.549 0.519 0.173 2.723 1776 chr19 37452880 37457038 + 0 NA Intergenic Intergenic -10295 NR_131008 78640 Mm.234265 NR_131008 1700122C19Rik - RIKEN cDNA 1700122C19 gene ncRNA nan 3.406 3.424 0.872 1.889 1.206 3.300 2.267 1.283 1.027 0.837 0.804 1.963 1.336 1.422 1.558 nan 1.891 2.117 3.820 2.358 2.051 6.118 6.431 1.555 2565 chr4 148655656 148657675 + 0 NA intron (NM_001085505, intron 3 of 10) intron (NM_001085505, intron 3 of 10) 13348 NM_001085505 230909 Mm.332067 NM_001085505 ENSMUSG00000070577 Gm572 b2b1167Clo predicted gene 572 protein-coding 5.192 2.120 1.140 3.463 4.992 4.054 6.557 3.587 3.494 3.860 2.116 2.506 3.395 5.201 4.757 5.277 3.843 4.461 3.197 2.188 1.730 2.707 7.494 5.815 6.049 3047 chr6 145900663 145902568 + 0 NA Intergenic IAPEz-int|LTR|ERVK -30258 NM_001310837 16651 Mm.49689 NM_010656 ENSMUSG00000030255 Sspn Krag sarcospan protein-coding nan 1.199 0.321 nan 0.351 0.057 0.474 1.312 1.035 nan 5.377 2.407 nan 0.900 0.707 nan 0.488 1.377 2.005 nan 0.336 nan 0.447 0.473 nan 2158 chr3 21972189 21977421 + 0 NA Intergenic MTEa|LTR|ERVL-MaLR -101847 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 8.344 11.945 3.982 8.444 4.753 3.668 9.573 7.549 5.800 13.404 6.948 4.209 8.119 9.079 8.283 8.809 7.010 9.004 3.426 2.245 3.515 4.461 2.546 4.395 12.344 2576 chr4 150501879 150503428 + 0 NA intron (NM_001085492, intron 8 of 22) RSINE1|SINE|B4 149521 NM_173774 242773 Mm.29280 NM_173774 ENSMUSG00000039838 Slc45a1 C230078B22|Dnb5 solute carrier family 45, member 1 protein-coding 0.106 nan 0.062 0.512 0.179 0.112 0.353 0.210 0.292 0.107 0.130 0.179 0.035 0.292 0.268 0.135 0.149 6.202 1.122 1.087 9.813 2.166 3.336 0.420 3287 chr8 74841326 74847842 + 0 NA Intergenic B3|SINE|B2 -28590 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 5.113 nan 1.948 10.102 3.574 2.257 nan nan nan 5.615 1.996 1.521 3.372 4.858 4.770 nan 4.776 4.681 1.238 1.479 1.322 nan 1.060 1.377 8.074 2415 chr4 99602059 99604756 + 0 NA Intergenic Intergenic -52892 NM_010425 15221 Mm.4758 NM_010425 ENSMUSG00000067261 Foxd3 CWH3|Genesis|Hfh2 forkhead box D3 protein-coding 7.479 5.653 1.669 8.703 3.120 1.930 6.523 9.960 6.420 10.641 4.789 2.901 8.925 8.901 9.437 12.056 5.377 9.602 4.782 3.638 3.746 6.243 1.615 1.302 14.446 2362 chr4 44682986 44695789 + 0 NA intron (NM_008782, intron 3 of 9) MER102c|DNA|hAT-Charlie -13413 NR_073462 70602 Mm.491142 NR_073462 ENSMUSG00000103995 5730488B01Rik - RIKEN cDNA 5730488B01 gene ncRNA 0.266 12.016 5.781 0.560 0.163 0.087 0.233 0.222 0.475 0.647 0.283 0.167 0.138 0.212 0.364 0.487 0.350 nan 0.523 0.703 0.505 nan 0.288 0.424 0.568 708 chr11 121579786 121583249 + 0 NA intron (NM_029878, intron 22 of 38) intron (NM_029878, intron 22 of 38) -62175 NM_178763 319530 Mm.11395 NM_178763 ENSMUSG00000039238 Zfp750 A030007D23Rik|Znf750 zinc finger protein 750 protein-coding 5.087 0.932 0.540 3.975 6.103 2.720 3.718 4.887 6.027 6.095 2.709 1.438 5.353 6.989 5.497 7.543 2.792 6.853 1.010 nan 0.501 0.703 1.804 1.289 5.693 2583 chr4 151366689 151378125 + 0 NA intron (NM_001081557, intron 5 of 23) intron (NM_001081557, intron 5 of 23) 282837 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 3.954 nan 1.256 5.048 5.250 4.302 4.159 4.660 3.427 6.706 2.273 2.227 4.463 7.669 4.214 4.918 2.863 4.739 2.064 0.921 1.728 3.175 1.245 1.753 6.553 2796 chr5 145104429 145105630 + 0 NA intron (NM_019767, intron 8 of 9) intron (NM_019767, intron 8 of 9) -9227 NM_023142 11867 Mm.30010 NM_023142 ENSMUSG00000029622 Arpc1b 41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC actin related protein 2/3 complex, subunit 1B protein-coding 2.854 1.378 0.828 2.556 2.933 1.556 2.812 3.667 3.733 3.317 2.227 1.838 3.285 4.993 4.529 4.048 2.534 4.046 2.805 1.491 1.076 1.504 2.632 1.546 4.056 2589 chr4 151504765 151505899 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 356436 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 2.680 3.219 0.661 3.277 0.652 0.408 1.126 2.230 1.718 3.634 0.660 0.707 2.147 1.952 2.125 2.800 1.091 2.591 10.905 1.572 2.098 15.920 2.474 4.955 5.545 3286 chr8 74831498 74836246 + 0 NA Intergenic RLTR10D2|LTR|ERVK -39302 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 2.526 nan 1.677 2.214 3.248 3.319 nan nan nan 1.576 0.775 1.065 1.171 1.667 1.774 nan 1.774 1.865 0.991 1.407 1.333 nan 1.189 1.381 nan 1601 chr18 11558283 11559470 + 0 NA Intergenic Lx|LINE|L1 -74400 NM_001252495 225182 Mm.154275 NM_175458 ENSMUSG00000041238 Rbbp8 9930104E21Rik|CtIP|RBBP-8|RIM|SAE2 retinoblastoma binding protein 8 protein-coding 4.700 0.623 0.170 2.136 1.549 1.280 5.168 1.027 2.240 2.809 0.409 0.253 4.156 4.687 5.084 4.000 2.616 5.827 0.436 0.691 0.103 0.493 0.457 0.241 5.077 2814 chr5 151936883 151941072 + 0 NA Intergenic Intergenic -287769 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 5.291 2.248 1.713 4.959 3.580 2.158 4.733 3.011 nan 6.733 2.160 1.338 5.435 7.927 5.292 6.557 5.098 6.303 1.041 1.282 0.933 0.927 0.866 0.863 5.739 710 chr12 3758831 3761599 + 0 NA intron (NR_027869, intron 16 of 20) intron (NR_027869, intron 16 of 20) -46765 NM_007872 13435 Mm.5001 NM_007872 ENSMUSG00000020661 Dnmt3a MmuIIIA DNA methyltransferase 3A protein-coding 3.323 3.389 1.878 3.014 1.807 0.705 1.699 2.075 1.801 1.902 1.875 1.334 2.359 2.024 2.462 2.440 1.925 3.211 3.409 3.262 1.564 3.843 2.893 2.103 2.311 1656 chr18 60962020 60968552 + 0 NA intron (NM_177407, intron 13 of 17) intron (NM_177407, intron 13 of 17) 1732 NM_001286809 12322 Mm.131530 NM_009792 ENSMUSG00000024617 Camk2a CaMKII|R74975|mKIAA0968 calcium/calmodulin-dependent protein kinase II alpha protein-coding 12.555 16.124 7.895 7.597 5.118 2.964 10.001 11.300 6.870 8.367 2.245 1.072 nan 10.459 9.956 12.232 10.335 nan nan 1.431 1.703 nan 0.602 0.842 13.765 323 chr10 87790450 87820786 + 0 NA Intergenic MIRc|SINE|MIR -52647 NM_001314010 16000 Mm.268521 NM_010512 ENSMUSG00000020053 Igf1 C730016P09Rik|Igf-1|Igf-I insulin-like growth factor 1 protein-coding 11.256 2.347 1.336 6.261 8.091 5.879 11.362 7.308 9.069 12.417 3.942 1.914 11.121 12.515 9.542 10.720 10.522 nan 0.736 1.286 1.197 nan nan 0.795 11.141 856 chr13 23673436 23679192 + 0 NA Intergenic Intergenic 7645 NM_178189 319164 Mm.261973 NM_178189 ENSMUSG00000069270 Hist1h2ac - histone cluster 1, H2ac protein-coding 8.257 7.781 3.802 8.100 7.014 4.078 4.102 5.512 5.255 4.784 6.351 4.230 5.124 7.352 7.343 6.519 4.903 8.542 5.777 2.362 1.463 5.475 3.393 3.181 7.144 2142 chr2 181508730 181511898 + 0 NA intron (NM_001291204, intron 3 of 4) intron (NM_001291204, intron 3 of 4) -10171 NM_016775 13002 Mm.140761 NM_016775 ENSMUSG00000000826 Dnajc5 2610314I24Rik|AU018536|Csp DnaJ heat shock protein family (Hsp40) member C5 protein-coding 0.791 0.598 0.083 0.775 0.392 0.156 0.473 0.251 1.045 0.557 0.473 0.350 0.279 0.610 0.427 nan 0.825 nan 3.448 1.674 1.221 5.584 2.201 1.800 nan 1834 chr2 26457616 26466637 + 0 NA intron (NM_008714, intron 33 of 33) intron (NM_008714, intron 33 of 33) 7993 NR_105962 102465602 NR_105962 ENSMUSG00000098548 Mir6996 Gm27531|mmu-mir-6996 microRNA 6996 ncRNA 6.361 2.836 0.893 5.948 4.907 3.186 4.735 8.583 5.193 8.433 3.714 2.656 6.766 8.711 5.089 7.528 6.646 7.323 1.106 0.975 1.280 1.847 0.866 1.393 11.153 1664 chr18 65588794 65594093 + 0 NA intron (NM_207255, intron 2 of 5) intron (NM_207255, intron 2 of 5) 11213 NM_207255 328977 Mm.286232 NM_207255 ENSMUSG00000042439 Zfp532 C530030I18Rik|Znf532|mKIAA1629 zinc finger protein 532 protein-coding 9.935 7.910 2.717 7.702 9.494 6.066 4.603 6.958 6.565 11.113 4.820 1.708 7.960 7.208 6.001 5.889 4.552 10.564 1.870 1.402 1.486 1.952 1.402 1.878 8.395 112 chr1 122011975 122019540 + 0 NA Intergenic (TCC)n|Simple_repeat|Simple_repeat -447777 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 7.317 5.133 1.894 4.613 2.612 1.301 5.648 5.821 2.976 3.918 2.515 1.704 5.513 5.783 6.021 8.443 5.231 5.858 2.108 1.958 1.370 3.616 1.604 1.169 7.336 3211 chr7 141477662 141481119 + 0 NA intron (NM_001252588, intron 1 of 7) B1_Mus1|SINE|Alu 3010 NM_001252588 64540 Mm.489619 NM_053082 ENSMUSG00000025511 Tspan4 AI325509|AI746565|D130042I01Rik|NAG-2|Tm4sf7|Tspan-4 tetraspanin 4 protein-coding 5.591 nan 0.402 1.941 1.703 0.599 6.358 3.476 3.735 3.770 4.573 2.817 7.485 5.564 5.239 5.535 5.263 4.541 0.553 1.013 0.355 1.610 0.473 0.321 6.152 545 chr11 94953540 94957989 + 0 NA Intergenic Intergenic -11829 NM_018792 54388 Mm.30482 NM_018792 ENSMUSG00000038994 Hils1 H1.9|TISP64 histone H1-like protein in spermatids 1 protein-coding 0.956 nan 0.417 1.990 1.497 1.635 1.552 2.296 1.620 1.229 3.521 5.206 1.002 1.526 1.308 1.195 nan 1.385 1.586 nan 1.917 1.972 nan nan 0.907 191 chr1 173773818 173776213 + 0 NA Intergenic Intergenic -8096 NM_008329 15951 Mm.261270 NM_008329 ENSMUSG00000073489 Ifi204 Ifi16|p204 interferon activated gene 204 protein-coding 5.369 3.052 1.091 2.276 1.525 0.881 1.294 1.398 1.760 2.480 2.262 0.430 1.432 nan 1.835 2.164 1.443 1.884 0.780 1.691 0.578 0.658 0.649 0.347 1.535 2733 chr5 118750547 118753682 + 0 NA intron (NM_001347445, intron 25 of 30) intron (NM_001347445, intron 25 of 30) 191395 NM_172424 76199 Mm.206238 NM_172424 ENSMUSG00000018076 Med13l 2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025 mediator complex subunit 13-like protein-coding 2.678 0.586 0.401 0.688 0.491 0.157 3.007 1.089 2.741 2.531 1.449 0.536 1.568 0.913 1.999 3.401 2.507 2.077 nan nan 0.395 0.824 nan 0.563 1.817 2467 chr4 127004879 127010376 + 0 NA Intergenic AT_rich|Low_complexity|Low_complexity -13674 NR_045010 71514 Mm.257276 NM_023603 ENSMUSG00000028820 Sfpq 1110004P21Rik|2810416M14Rik|5730453G22Rik|9030402K04Rik|AU021830|D4Ertd314e|Gm12940|OTTMUSG00000009329|PSF|REP1 splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated) protein-coding 4.462 0.452 0.238 3.047 3.276 1.515 8.323 5.815 2.714 3.844 3.185 2.453 4.016 6.311 nan 6.055 3.789 5.467 1.758 0.914 0.757 0.760 1.283 1.135 12.531 187 chr1 173366375 173378899 + 0 NA Intergenic L2c|LINE|L2 -4942 NM_053199 94332 Mm.330524 NM_053199 ENSMUSG00000005338 Cadm3 BIgR|Igsf4b|Necl-1|Necl1|SynCAM3|Tsll1 cell adhesion molecule 3 protein-coding 9.939 1.655 1.052 5.376 6.329 4.660 7.286 6.439 4.480 5.057 4.127 3.090 6.703 8.320 6.069 9.431 6.947 6.730 3.543 4.254 3.435 3.450 3.532 2.743 6.820 588 chr11 98353485 98357545 + 0 NA intron (NM_144828, intron 5 of 6) intron (NM_144828, intron 5 of 6) 2768 NR_045477 69338 Mm.398308 NR_045477 ENSMUSG00000085944 1700003D09Rik - RIKEN cDNA 1700003D09 gene ncRNA 1.659 14.908 10.288 1.603 1.062 0.426 0.507 0.332 0.947 0.971 0.732 0.443 0.344 0.463 0.663 0.972 nan 0.854 0.690 nan 1.374 0.421 nan nan 0.800 1684 chr18 79151805 79152864 + 0 NA Intergenic Intergenic -42943 NM_053099 240427 Mm.312871 NM_053099 ENSMUSG00000024548 Setbp1 C130092E12|Seb|mKIAA0437 SET binding protein 1 protein-coding 4.083 1.343 0.493 1.063 0.804 0.228 2.982 3.936 1.870 nan 1.019 0.895 4.180 4.011 2.963 4.979 3.238 5.530 1.097 nan 0.446 0.491 0.234 0.372 6.160 756 chr12 57514407 57520584 + 0 NA Intergenic Intergenic 28626 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 4.704 nan 0.455 4.116 3.094 1.339 4.883 3.504 6.114 6.338 2.588 1.140 7.616 8.253 nan nan 5.395 9.144 1.859 1.117 0.632 1.653 0.979 0.532 5.619 2326 chr4 6807324 6812163 + 0 NA intron (NM_145711, intron 3 of 8) ORR1G|LTR|ERVL-MaLR 180980 NM_145711 252838 Mm.435828 NM_145711 ENSMUSG00000041272 Tox 1700007F02Rik thymocyte selection-associated high mobility group box protein-coding 0.665 2.670 0.910 1.301 0.374 0.216 0.405 nan 0.735 0.869 0.266 0.529 0.543 0.687 0.937 0.918 0.614 1.235 2.512 nan 0.731 5.315 1.399 0.654 0.709 1283 chr16 15988221 15993528 + 0 NA intron (NM_146068, intron 8 of 19) intron (NM_146068, intron 8 of 19) 103588 NM_007679 12609 Mm.347407 NM_007679 ENSMUSG00000071637 Cebpd c/EBPdelta CCAAT/enhancer binding protein (C/EBP), delta protein-coding 8.014 1.491 1.034 4.743 7.011 3.876 4.110 4.900 5.470 5.159 4.510 2.873 4.815 4.873 3.107 3.563 3.883 5.384 1.474 1.963 1.327 1.146 1.461 1.037 2.158 262 chr10 44717998 44723612 + 0 NA Intergenic Intergenic -262057 NM_007548 12142 Mm.4800 NM_007548 ENSMUSG00000038151 Prdm1 Blimp-1|Blimp1|PRDI-BF1|ZNFPR1A1|b2b1765Clo PR domain containing 1, with ZNF domain protein-coding 4.240 nan 1.806 2.938 2.929 1.665 4.040 2.793 3.244 4.130 2.342 0.812 3.314 5.440 4.677 4.987 4.034 4.347 nan 3.336 1.909 2.397 4.614 3.080 3.403 1944 chr2 119125818 119126986 + 0 NA intron (NM_011234, intron 5 of 9) intron (NM_011234, intron 5 of 9) 13585 NM_011234 19361 Mm.330492 NM_011234 ENSMUSG00000027323 Rad51 AV304093|Rad51a|Reca RAD51 recombinase protein-coding 5.104 6.738 1.191 8.784 1.094 0.652 2.524 5.815 2.833 3.222 1.653 1.050 2.766 3.011 3.411 4.305 3.221 6.005 2.071 1.721 1.181 6.636 2.457 1.716 6.652 3089 chr7 28953506 28955686 + 0 NA intron (NM_021895, intron 1 of 20) B1_Mus2|SINE|Alu 7684 NM_021895 60595 Mm.81144 NM_021895 ENSMUSG00000054808 Actn4 C77391 actinin alpha 4 protein-coding 8.856 8.701 3.696 8.187 4.221 1.880 7.084 9.580 5.070 7.464 6.197 4.625 7.603 10.304 8.907 9.743 8.539 7.493 4.940 3.356 2.070 5.808 3.157 2.711 11.140 212 chr1 191166448 191168577 + 0 NA Intergenic RSINE1|SINE|B4 -2695 NM_001109759 619288 Mm.61148 NM_001109759 ENSMUSG00000091017 Fam71a 4933417M04Rik|GARI-L4 family with sequence similarity 71, member A protein-coding 1.485 0.652 0.442 4.307 2.257 2.300 4.298 1.598 1.749 3.580 0.905 1.064 2.783 5.367 5.380 7.072 4.966 3.245 7.142 2.985 4.507 4.772 6.743 10.105 4.440 3384 chr8 122905499 122907742 + 0 NA intron (NR_037865, intron 4 of 13) intron (NR_037865, intron 4 of 13) 58246 NM_007662 12555 Mm.1976 NM_007662 ENSMUSG00000031962 Cdh15 AI323380|Cdh14|Mcad cadherin 15 protein-coding 1.121 1.222 0.289 2.746 1.591 0.822 1.831 3.040 1.010 1.951 1.120 0.558 1.512 2.664 1.800 2.915 1.386 1.966 3.255 4.406 2.711 9.390 3.471 2.190 3.115 2436 chr4 117794139 117797310 + 0 NA Intergenic L1MA7|LINE|L1 -30058 NM_029416 75753 Mm.3848 NM_029416 ENSMUSG00000048626 Klf17 7420700M05Rik|AA420409|AU043468|C85123|D4Ertd561e|Gzf|Zfp393 Kruppel-like factor 17 protein-coding 2.338 0.746 0.740 1.037 0.992 1.187 2.330 1.401 1.584 1.553 1.803 1.300 1.412 1.883 1.703 nan 1.262 2.016 4.465 5.000 3.918 4.909 4.320 3.679 4.907 1331 chr16 30112180 30116740 + 0 NA Intergenic Intergenic 49103 NM_008235 15205 Mm.390859 NM_008235 ENSMUSG00000022528 Hes1 Hry|bHLHb39 hairy and enhancer of split 1 (Drosophila) protein-coding 5.898 0.628 0.650 3.050 1.891 0.816 4.559 5.046 3.592 3.290 3.030 2.200 nan 5.386 5.892 nan 5.100 6.529 3.345 2.050 1.190 3.590 nan 2.965 9.187 2590 chr4 151526622 151528538 + 0 NA intron (NM_001081557, intron 4 of 23) ID_B1|SINE|B4 334188 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 4.765 2.671 1.427 4.060 1.943 1.625 2.642 2.922 2.654 3.182 1.093 1.547 2.146 4.046 3.146 2.981 2.478 1.790 1.962 1.739 1.145 4.181 2.266 2.819 3.134 2383 chr4 62258224 62260391 + 0 NA Intergenic Intergenic -27122 NM_025286 20530 Mm.292539 NM_025286 ENSMUSG00000066152 Slc31a2 AI604396|CTR2 solute carrier family 31, member 2 protein-coding 1.640 nan 1.207 1.338 2.242 1.665 nan 0.786 1.651 1.925 0.953 2.165 1.620 3.799 0.808 0.908 0.847 1.544 nan 1.471 1.764 1.597 0.900 0.883 2.267 542 chr11 94490600 94492608 + 0 NA exon (NM_027984, exon 9 of 10) exon (NM_027984, exon 9 of 10) -6294 NM_144827 217116 Mm.156123 NM_144827 ENSMUSG00000020867 Spata20 Tisp78 spermatogenesis associated 20 protein-coding 6.189 9.879 3.328 7.520 5.347 3.930 4.924 6.655 3.977 7.203 5.065 3.792 4.615 6.248 6.556 7.673 4.167 5.692 3.774 nan 4.746 4.111 nan 3.793 7.978 3114 chr7 35924809 35943475 + 0 NA Intergenic MTA_Mm-int|LTR|ERVL-MaLR -131153 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 4.229 1.610 0.655 3.982 3.051 1.493 8.395 9.010 4.098 5.906 2.083 1.532 7.523 9.247 7.391 7.222 4.568 5.584 1.104 0.843 0.513 1.239 1.678 1.251 9.036 1305 chr16 22407559 22414662 + 0 NA intron (NM_023794, intron 7 of 12) intron (NM_023794, intron 7 of 12) 28460 NM_023794 104156 Mm.155708 NM_023794 ENSMUSG00000013089 Etv5 1110005E01Rik|8430401F14Rik|ERM ets variant 5 protein-coding 2.936 0.769 0.433 1.417 2.805 1.554 2.725 3.231 1.846 nan 0.426 0.463 3.282 2.595 2.118 4.118 2.943 2.771 0.570 0.649 0.449 0.686 0.537 0.452 2.995 961 chr13 99246243 99248795 + 0 NA TTS (NM_001004149) TTS (NM_001004149) 62696 NM_001004149 238803 Mm.343207 NM_001004149 ENSMUSG00000050919 Zfp366 DC-SCRIPT|Znf366 zinc finger protein 366 protein-coding 3.306 0.440 0.049 1.524 2.381 0.744 1.881 1.582 2.096 2.397 0.893 0.982 3.321 3.203 2.730 1.655 nan 3.834 1.312 0.665 0.514 0.855 1.668 1.325 4.963 2686 chr5 92388906 92392850 + 0 NA intron (NM_001310665, intron 1 of 6) intron (NM_001310665, intron 1 of 6) 2744 NM_001310665 109979 Mm.263514 NM_181728 ENSMUSG00000034842 Art3 4930569O04Rik|ARTC3 ADP-ribosyltransferase 3 protein-coding 10.247 8.230 2.740 8.573 5.589 3.663 7.345 8.921 7.337 9.575 10.161 3.732 9.099 11.989 9.632 10.107 7.414 9.373 4.626 2.853 2.350 4.183 3.070 2.924 10.083 3234 chr8 23586705 23589218 + 0 NA Intergenic B1_Mus1|SINE|Alu -81700 NM_001277239 320158 Mm.121274 NM_177086 ENSMUSG00000037492 Zmat4 9630048M01Rik zinc finger, matrin type 4 protein-coding 9.519 12.048 4.470 9.047 6.151 3.159 6.023 9.842 4.750 14.375 7.601 4.533 8.761 10.516 9.057 11.481 8.837 8.018 3.923 2.652 3.401 5.702 2.133 4.133 13.478 2882 chr6 71924565 71927907 + 0 NA intron (NM_009088, intron 7 of 33) intron (NM_009088, intron 7 of 33) 17183 NM_009088 20019 Mm.135581 NM_009088 ENSMUSG00000049553 Polr1a 194kDa|3010014K16Rik|RPA194|Rpo1-4|mRPA1 polymerase (RNA) I polypeptide A protein-coding 1.455 0.973 0.595 2.083 2.679 0.631 3.563 4.590 3.214 3.562 0.622 0.791 3.804 5.294 4.215 3.927 2.136 5.023 0.626 0.346 0.469 0.444 0.183 0.370 2.778 2099 chr2 169432508 169434691 + 0 NA Intergenic Intergenic -200047 NM_080455 228911 Mm.315789 NM_080455 ENSMUSG00000047907 Tshz2 2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2 teashirt zinc finger family member 2 protein-coding 5.851 0.397 0.287 1.946 0.823 0.394 5.895 7.896 2.924 3.272 4.855 2.823 5.325 5.020 5.085 6.099 6.652 4.047 nan 1.062 0.730 0.512 1.241 0.783 5.999 1662 chr18 64345402 64348234 + 0 NA intron (NM_194268, intron 1 of 1) intron (NM_194268, intron 1 of 1) 6454 NM_194268 225631 Mm.234723 NM_194268 ENSMUSG00000045991 Onecut2 C730009D12|OC-2|Oc2 one cut domain, family member 2 protein-coding 2.645 0.399 0.257 0.198 0.203 0.087 1.221 4.102 1.956 0.838 2.554 4.419 1.423 0.821 0.888 0.774 1.279 1.147 0.903 0.495 0.390 0.334 0.400 0.548 0.995 2476 chr4 128594673 128596548 + 0 NA intron (NM_177758, intron 2 of 7) Lx8|LINE|L1 14488 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 6.176 0.515 0.281 6.059 2.972 1.620 10.501 4.137 3.705 5.913 1.179 0.686 5.772 6.839 nan 7.775 3.858 7.843 5.986 2.348 2.015 10.351 4.945 5.108 11.280 2988 chr6 117828702 117832722 + 0 NA Intergenic Intergenic -10469 NM_177684 232337 Mm.290847 NM_177684 ENSMUSG00000059689 Zfp637 AI646709|BC021601|Znf32 zinc finger protein 637 protein-coding 6.423 15.332 7.789 8.377 4.548 2.408 9.287 9.947 4.797 6.614 4.437 2.942 10.791 12.948 10.263 10.513 7.352 7.769 5.550 3.263 2.387 4.830 nan 2.397 9.344 574 chr11 97047888 97050395 + 0 NA TTS (NM_026154) TTS (NM_026154) -1487 NM_001310509 71240 Mm.190450 NM_001081434 ENSMUSG00000038534 Osbpl7 4933437E18Rik oxysterol binding protein-like 7 protein-coding 8.168 13.553 4.070 7.909 3.578 2.854 7.683 6.269 3.513 9.105 6.469 3.582 5.232 8.464 7.677 8.258 nan 6.805 6.060 nan 4.126 5.945 nan nan 10.726 170 chr1 166375111 166378011 + 0 NA Intergenic RMER6A|LTR|ERVK -2606 NM_030245 27878 Mm.100665 NM_030245 ENSMUSG00000026563 Tada1 2900026B15Rik|D1Ertd251e|Staf42|Tada1l transcriptional adaptor 1 protein-coding 3.559 0.695 0.312 2.215 5.898 3.457 2.712 2.945 2.771 3.702 0.976 0.614 4.104 4.572 nan 4.789 3.171 3.603 2.474 1.235 0.940 nan nan 2.057 nan 3397 chr8 124803788 124809490 + 0 NA intron (NM_198632, intron 1 of 9) intron (NM_198632, intron 1 of 9) 13620 NM_198632 330863 Mm.422769 NM_198632 ENSMUSG00000036913 Trim67 D130049O21Rik|TNL tripartite motif-containing 67 protein-coding 6.300 13.325 4.187 6.186 2.623 1.630 5.666 7.946 2.989 6.863 2.215 1.760 5.512 7.124 7.083 7.396 6.381 nan nan 2.135 2.491 5.590 1.978 nan 13.202 1921 chr2 92206138 92216286 + 0 NA intron (NM_001109691, intron 2 of 18) intron (NM_001109691, intron 2 of 18) -10350 NM_001109690 192285 Mm.330408 NM_138755 ENSMUSG00000058318 Phf21a 80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1 PHD finger protein 21A protein-coding 5.411 2.869 0.777 4.588 1.317 0.824 4.424 5.830 2.720 4.248 4.201 1.921 5.291 6.299 5.639 8.077 4.564 5.746 4.491 1.862 1.934 5.952 2.128 2.065 11.407 660 chr11 116475743 116486362 + 0 NA intron (NM_026364, intron 3 of 9) intron (NM_026364, intron 3 of 9) 9294 NM_026364 67763 Mm.25125 NM_026364 ENSMUSG00000015869 Prpsap1 5730409F23Rik|PAP39 phosphoribosyl pyrophosphate synthetase-associated protein 1 protein-coding 8.158 4.461 1.005 9.396 4.930 2.553 nan 7.184 4.364 6.642 4.249 2.530 6.002 9.370 7.639 9.548 5.370 8.315 1.160 nan 1.234 2.102 0.690 0.511 11.319 3217 chr8 9932577 9935955 + 0 NA Intergenic Lx9|LINE|L1 42057 NM_176953 319583 Mm.80584 NM_176953 ENSMUSG00000049717 Lig4 5830471N16Rik|tiny ligase IV, DNA, ATP-dependent protein-coding 7.050 0.818 0.252 3.320 2.542 1.112 4.139 5.067 4.679 4.809 0.669 1.016 7.066 6.005 6.266 8.381 5.713 7.329 1.625 0.946 0.605 2.257 1.030 0.721 7.476 26 chr1 33810812 33814993 + 0 NA intron (NM_001290699, intron 2 of 12) intron (NM_001290699, intron 2 of 12) 1693 NM_133817 98403 Mm.289103 NM_133817 ENSMUSG00000042197 Zfp451 4930515K21Rik|4933435G09Rik|AI596398|COASTER|Kiaa0576-hp|Znf451|mKIAA1702 zinc finger protein 451 protein-coding 8.217 2.498 0.828 2.950 1.250 0.996 5.762 5.668 2.475 3.759 4.345 1.825 5.850 5.521 7.382 10.849 4.410 6.391 1.565 0.387 0.432 2.581 0.532 0.524 8.315 2116 chr2 179804606 179808097 + 0 NA intron (NM_001316723, intron 4 of 5) MT2A|LTR|ERVL 170295 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 5.653 4.193 1.863 4.359 2.236 1.106 5.378 5.901 2.637 3.105 2.297 1.884 5.970 5.247 5.472 8.051 5.248 4.658 4.147 2.267 2.553 6.478 1.731 1.759 nan 977 chr14 21296618 21299475 + 0 NA intron (NM_001243041, intron 6 of 10) intron (NM_001243041, intron 6 of 10) -201724 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 8.143 7.194 3.629 7.785 5.464 3.172 5.388 9.498 nan 6.232 5.732 3.694 5.572 8.069 6.199 8.421 4.929 6.597 3.569 1.975 1.819 nan 2.635 1.917 7.815 2250 chr3 94944954 94946254 + 0 NA TTS (NM_009150) TTS (NM_009150) -9411 NM_017395 53970 Mm.24308 NM_017395 ENSMUSG00000005774 Rfx5 - regulatory factor X, 5 (influences HLA class II expression) protein-coding 7.299 13.776 8.549 5.087 3.479 2.971 2.052 2.309 3.937 3.787 3.114 2.217 1.805 3.854 3.249 3.313 2.861 3.273 1.178 3.667 2.510 0.824 1.165 0.867 4.750 566 chr11 96372014 96375298 + 0 NA Intergenic PB1D10|SINE|Alu 7898 NM_008266 15407 Mm.890 NM_008266 ENSMUSG00000018973 Hoxb1 Hox-2.9 homeobox B1 protein-coding 0.448 nan 0.507 0.234 0.256 0.076 0.424 0.311 0.254 0.338 0.229 0.211 0.034 0.222 0.177 0.393 nan 0.379 9.007 nan 1.979 5.844 7.400 nan 0.269 526 chr11 87387665 87389842 + 0 NA intron (NM_053269, intron 6 of 8) intron (NM_053269, intron 6 of 8) 15742 NM_053269 114714 Mm.37376 NM_053269 ENSMUSG00000007646 Rad51c R51H3|Rad51l2 RAD51 paralog C protein-coding 5.284 1.157 0.397 nan 3.047 1.679 4.706 5.093 2.442 3.135 0.608 0.225 3.120 5.446 4.997 5.808 2.261 4.797 1.015 0.525 0.207 nan 0.980 0.638 4.290 1901 chr2 70399708 70402373 + 0 NA intron (NM_177376, intron 32 of 34) intron (NM_177376, intron 32 of 34) -73883 NM_022435 64406 Mm.423397 NM_022435 ENSMUSG00000075304 Sp5 - trans-acting transcription factor 5 protein-coding 0.536 1.276 0.730 0.122 0.125 0.138 0.457 0.242 0.099 0.295 0.174 0.154 0.145 0.212 0.235 0.449 0.387 0.233 4.821 5.551 3.967 7.774 8.213 8.623 0.753 3500 chr9 62938575 62942653 + 0 NA intron (NM_019663, intron 2 of 13) ORR1B1|LTR|ERVL-MaLR 40265 NM_019663 56469 Mm.431253 NM_019663 ENSMUSG00000032405 Pias1 2900068C24Rik|Ddxbp1|GBP protein inhibitor of activated STAT 1 protein-coding 9.286 4.518 3.968 5.824 5.276 3.392 5.821 5.824 4.846 6.985 2.508 2.233 5.828 8.024 4.230 6.599 5.814 6.870 4.862 4.979 3.278 3.083 7.036 6.496 9.752 359 chr10 127313552 127320168 + 0 NA Intergenic B1_Mur1|SINE|Alu -5074 NM_001171582 216443 Mm.28173 NM_001003913 ENSMUSG00000040354 Mars Metrs|Mtrns methionine-tRNA synthetase protein-coding 9.019 nan 0.427 2.163 1.938 1.516 6.925 7.660 3.236 3.453 1.959 1.440 7.004 8.252 7.485 7.365 7.855 5.049 1.262 1.283 1.029 1.041 nan 1.929 8.328 2765 chr5 135151182 135154590 + 0 NA intron (NM_013763, intron 1 of 6) intron (NM_013763, intron 1 of 6) 3175 NM_013763 27368 Mm.36746 NM_013763 ENSMUSG00000005374 Tbl2 C76179|WS-bTRP transducin (beta)-like 2 protein-coding 5.563 5.454 1.557 6.567 2.844 1.301 2.765 7.178 3.350 4.595 1.730 1.212 2.826 6.385 5.169 3.880 2.026 3.997 1.401 1.698 1.330 1.930 nan 1.371 5.159 1229 chr15 101156048 101171368 + 0 NA Intergenic RMER17C2|LTR|ERVK -10417 NM_007395 11479 Mm.308467 NM_007395 ENSMUSG00000000532 Acvr1b 6820432J04|ActR-IB|ActRIB|Acvrlk4|Alk4|SKR2 activin A receptor, type 1B protein-coding 4.970 1.515 0.645 4.231 5.411 2.399 11.312 13.354 4.923 5.392 13.679 5.878 9.328 9.385 8.899 8.764 5.987 8.013 1.151 1.179 0.931 1.510 1.196 0.590 10.237 2299 chr3 122320566 122324507 + 0 NA Intergenic Intergenic -28833 NR_030439 791077 NR_030439 ENSMUSG00000076456 Mir760 Mirn760|mir-760|mmu-mir-760 microRNA 760 ncRNA 8.408 1.682 0.764 9.908 6.050 3.890 10.884 8.810 6.027 13.676 6.463 4.954 11.596 11.782 9.512 10.975 7.947 9.899 4.936 3.142 3.266 5.749 4.462 4.326 14.450 108 chr1 121957149 121961166 + 0 NA Intergenic Intergenic -391177 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 3.850 0.837 0.394 2.031 1.769 0.708 3.187 4.294 2.251 3.408 0.730 0.328 2.939 2.730 3.160 6.490 3.854 3.763 0.558 0.482 0.374 0.865 0.251 0.380 7.526 2820 chr5 152053286 152055043 + 0 NA Intergenic Intergenic -402956 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 2.055 0.854 0.430 nan 1.710 0.671 3.490 1.645 4.389 4.966 4.597 1.781 3.040 4.149 2.389 2.709 3.314 5.400 1.091 0.478 0.152 1.179 0.284 0.217 nan 604 chr11 100796018 100803075 + 0 NA intron (NM_001113563, intron 5 of 18) intron (NM_001113563, intron 5 of 18) 23024 NM_011489 20851 Mm.34064 NM_011489 ENSMUSG00000020919 Stat5b - signal transducer and activator of transcription 5B protein-coding 7.947 7.644 4.631 7.688 7.635 5.272 4.893 6.136 5.300 7.358 4.587 2.645 5.576 8.920 5.900 6.515 nan 5.706 4.488 nan 3.769 4.208 nan nan 6.011 2614 chr4 155204763 155206471 + 0 NA intron (NM_011385, intron 1 of 6) intron (NM_011385, intron 1 of 6) 16918 NM_011385 20481 Mm.28520 NM_011385 ENSMUSG00000029050 Ski 2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088 ski sarcoma viral oncogene homolog (avian) protein-coding 5.453 10.983 2.589 6.638 2.215 0.939 4.884 4.472 2.624 4.971 4.180 2.844 4.668 6.616 6.685 6.738 2.938 6.094 2.894 1.311 0.789 3.180 1.918 1.176 12.017 2608 chr4 154560600 154563835 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 74150 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 4.445 2.221 0.643 6.255 5.212 3.444 2.104 3.836 3.360 3.823 2.994 1.412 2.451 3.488 3.248 4.330 1.968 4.672 1.353 1.449 1.152 1.727 1.236 0.870 4.685 1001 chr14 47242995 47244295 + 0 NA intron (NM_172598, intron 24 of 24) B1_Mus2|SINE|Alu 33212 NM_172598 218973 Mm.265615 NM_172598 ENSMUSG00000037572 Wdhd1 A630092E18|AND-1|D630024B06Rik WD repeat and HMG-box DNA binding protein 1 protein-coding 5.231 0.630 0.336 0.949 1.586 1.426 5.864 2.684 1.522 1.609 1.365 0.770 3.247 3.333 3.533 4.432 1.918 2.338 0.395 1.074 1.128 0.842 0.440 0.416 5.173 232 chr10 19530803 19541036 + 0 NA Intergenic L1_Mus3|LINE|L1 -56030 NM_010511 15979 Mm.549 NM_010511 ENSMUSG00000020009 Ifngr1 CD119|IFN-gammaR|Ifgr|Ifngr|Nktar interferon gamma receptor 1 protein-coding 0.452 0.714 0.535 0.267 0.115 0.037 0.304 0.297 nan 0.279 0.413 0.247 0.113 nan 0.210 0.479 0.428 0.380 8.086 4.323 2.381 5.710 6.719 4.118 nan 477 chr11 70685397 70687180 + 0 NA intron (NM_178116, intron 2 of 22) intron (NM_178116, intron 2 of 22) 1817 NM_001190376 216874 Mm.473726 NM_178116 ENSMUSG00000040712 Camta2 Kiaa0909-hp|mKIAA0909 calmodulin binding transcription activator 2 protein-coding 2.717 0.896 0.964 2.327 3.261 1.359 2.352 2.184 3.163 2.737 1.877 3.196 2.667 4.643 2.607 1.807 1.640 2.764 1.445 1.510 1.169 1.526 nan 0.736 nan 1338 chr16 38700413 38704142 + 0 NA intron (NM_020260, intron 1 of 11) intron (NM_020260, intron 1 of 11) 10758 NM_020260 12549 Mm.370848 NM_020260 ENSMUSG00000022799 Arhgap31 5830477L08Rik|AU041750|Cdgap|D330026I07Rik Rho GTPase activating protein 31 protein-coding 3.646 0.723 0.627 3.523 5.049 2.697 0.965 1.140 2.350 2.775 0.821 1.123 1.577 nan 2.217 nan 2.186 3.400 0.495 0.999 0.942 0.804 0.719 0.598 nan 3458 chr9 31823261 31832452 + 0 NA Intergenic Intergenic 85429 NM_013800 12023 Mm.261044 NM_013800 ENSMUSG00000032033 Barx2 2310006E12Rik|Barx2b BarH-like homeobox 2 protein-coding 0.700 0.742 0.536 0.986 0.340 0.202 0.359 0.642 0.694 0.466 0.784 0.749 0.333 0.322 0.373 nan 0.482 0.774 4.106 3.499 2.447 6.374 3.837 2.833 0.559 3054 chr7 4923200 4924778 + 0 NA exon (NM_201355, exon 3 of 3) exon (NM_201355, exon 3 of 3) 1738 NM_201355 269854 Mm.42652 NM_201355 ENSMUSG00000035285 Nat14 BC047219 N-acetyltransferase 14 protein-coding 3.353 0.864 0.423 3.709 3.359 1.540 2.949 1.737 1.859 2.650 0.935 1.239 2.576 3.666 2.992 1.631 1.927 2.758 1.358 1.606 0.805 1.940 1.447 0.669 2.093 2623 chr5 20558370 20563369 + 0 NA intron (NM_001170746, intron 14 of 22) MIRc|SINE|MIR 321255 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 9.350 5.850 2.363 8.670 5.178 3.264 8.605 7.737 6.232 11.558 6.067 3.841 8.119 10.437 8.864 8.953 6.419 9.322 3.953 2.241 2.287 4.606 3.045 3.688 10.608 1182 chr15 81969959 81980202 + 0 NA Intergenic MMERVK9C_I-int|LTR|ERVK -5460 NM_025503 66346 Mm.54292 NM_025503 ENSMUSG00000061633 1700029P11Rik - RIKEN cDNA 1700029P11 gene protein-coding nan nan 2.286 nan 2.035 1.210 nan 9.794 2.907 nan nan 2.550 4.674 nan 6.853 5.031 nan 4.645 2.594 1.267 1.223 nan 1.800 1.760 5.068 225 chr1 195915388 195917979 + 0 NA Intergenic Intergenic -739968 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 5.958 0.453 0.348 1.983 2.657 1.494 5.706 4.109 5.411 4.654 2.142 4.906 6.395 4.385 5.019 6.565 6.465 5.469 0.835 0.420 0.163 0.443 nan 0.348 2.803 1447 chr17 26824622 26828215 + 0 NA Intergenic Intergenic 15147 NM_008700 18091 Mm.41974 NM_008700 ENSMUSG00000015579 Nkx2-5 Csx|Nkx-2.5|Nkx2.5|tinman NK2 homeobox 5 protein-coding 1.382 1.391 0.964 1.294 0.899 0.514 0.767 1.183 0.922 0.935 0.573 0.648 0.459 0.816 0.846 nan 0.863 1.106 3.306 1.956 1.620 4.230 2.289 1.881 1.253 330 chr10 101974172 101977508 + 0 NA intron (NM_001205098, intron 2 of 7) intron (NM_001205098, intron 2 of 7) -183018 NM_001162368 67569 Mm.25252 NM_026243 ENSMUSG00000019888 Mgat4c 9130411I17Rik|GntIVh MGAT4 family, member C protein-coding 11.484 0.579 0.472 4.714 2.908 1.745 5.057 6.372 4.156 4.484 nan 4.863 7.209 6.643 4.348 4.483 9.298 5.316 nan 2.355 2.112 nan 1.746 1.203 5.786 142 chr1 136056192 136067024 + 0 NA intron (NM_001081023, intron 2 of 43) intron (NM_001081023, intron 2 of 43) 8707 NM_014193 12292 Mm.4418 NM_014193 ENSMUSG00000026407 Cacna1s AW493108|Cav1.1|Cchl1a3|fmd|mdg|sj calcium channel, voltage-dependent, L type, alpha 1S subunit protein-coding 5.555 0.745 0.250 nan 3.285 1.882 5.430 3.447 2.762 3.609 0.655 0.771 3.910 nan 4.141 nan 5.559 3.867 0.560 0.764 0.623 0.742 0.769 0.537 nan 207 chr1 182458055 182461907 + 0 NA intron (NM_173378, intron 17 of 17) intron (NM_173378, intron 17 of 17) 50814 NM_173378 209456 Mm.287450 NM_173378 ENSMUSG00000026510 Trp53bp2 53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550 transformation related protein 53 binding protein 2 protein-coding 0.549 8.494 4.325 0.536 0.169 0.147 0.317 0.253 0.528 0.484 0.265 0.175 0.168 nan 0.235 0.881 0.499 0.688 0.586 0.468 0.543 0.469 0.407 0.290 0.613 1510 chr17 44870906 44873767 + 0 NA intron (NM_178652, intron 2 of 11) intron (NM_178652, intron 2 of 11) 8549 NM_029257 75341 Mm.386821 NM_029257 4930564C03Rik - RIKEN cDNA 4930564C03 gene protein-coding 5.963 11.387 2.266 6.949 2.791 2.087 4.915 1.979 2.996 8.058 8.627 4.988 2.907 5.735 4.932 4.527 nan 4.108 1.001 1.522 1.737 1.713 0.837 1.151 7.983 48 chr1 58479424 58481284 + 0 NA intron (NM_001025378, intron 6 of 14) intron (NM_001025378, intron 6 of 14) 21072 NM_001025378 18393 Mm.3411 NM_008765 ENSMUSG00000026037 Orc2 AU041563|Orc2l origin recognition complex, subunit 2 protein-coding 14.267 18.546 6.742 15.571 7.026 5.712 8.789 10.355 7.798 14.324 8.019 5.016 11.310 12.977 12.149 16.585 10.713 11.391 7.292 3.022 4.143 8.021 4.615 5.766 16.570 1857 chr2 33207665 33213224 + 0 NA intron (NM_001290572, intron 8 of 17) RMER1A|Other|Other -5517 NM_011923 26360 Mm.208919 NM_011923 ENSMUSG00000004105 Angptl2 AI593246|AW260363|Arp2 angiopoietin-like 2 protein-coding 1.445 0.983 0.794 1.347 1.891 1.380 0.829 nan 1.056 nan 1.494 0.821 0.568 1.150 0.758 1.397 1.086 1.243 2.551 2.486 1.941 3.674 2.871 2.696 1.286 360 chr10 127329220 127339273 + 0 NA exon (NM_010296, exon 10 of 13) exon (NM_010296, exon 10 of 13) 7333 NM_010296 14632 Mm.391450 NM_010296 ENSMUSG00000025407 Gli1 AV235269|Zfp-5|Zfp5 GLI-Kruppel family member GLI1 protein-coding 5.465 nan 0.324 1.451 0.792 0.451 4.266 6.023 2.572 2.005 2.552 1.922 5.346 4.264 5.460 5.420 4.632 4.158 0.978 0.777 0.388 1.172 nan 0.893 4.897 3585 chrX 101207463 101213850 + 0 NA intron (NM_001110311, intron 4 of 5) B1F2|SINE|Alu 11907 NM_001110311 55988 Mm.206949 NM_018875 ENSMUSG00000046032 Snx12 2610001F05Rik|AW045757|SDP8 sorting nexin 12 protein-coding 5.598 0.503 0.463 2.489 7.003 5.570 5.736 5.721 5.066 6.149 5.659 3.595 6.356 7.547 4.644 5.164 4.487 4.191 0.507 0.822 0.330 0.429 0.428 0.331 4.308 3416 chr9 13228319 13230102 + 0 NA Intergenic B1F1|SINE|Alu 16531 NM_001033181 77532 Mm.459434 NM_001033181 ENSMUSG00000079083 Jrkl C030035D04Rik|HHMJG Jrk-like protein-coding 5.218 1.713 1.055 5.466 3.651 0.919 4.117 4.354 4.235 4.247 4.529 3.910 4.614 4.011 4.828 5.179 2.231 5.691 1.531 0.733 0.540 1.709 1.446 0.621 5.449 3170 chr7 118081722 118088539 + 0 NA Intergenic Intergenic 31017 NM_170669 267019 Mm.288212 NM_170669 ENSMUSG00000008683 Rps15a A630031B11Rik ribosomal protein S15A protein-coding 5.706 1.312 0.741 5.221 5.479 3.000 6.134 6.798 5.378 7.276 3.310 1.273 7.422 nan 5.831 4.487 4.479 8.535 0.809 0.743 0.511 1.390 0.571 0.455 6.234 3160 chr7 116709840 116712917 + 0 NA Intergenic B3|SINE|B2 207009 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 4.753 0.760 0.507 4.503 3.983 2.868 3.168 6.321 4.133 4.766 4.270 3.109 5.353 5.124 3.352 4.420 3.294 5.751 2.382 1.795 1.119 3.183 2.140 1.896 4.867 3279 chr8 74657788 74662187 + 0 NA Intergenic Intergenic -213187 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 9.703 15.302 4.874 11.715 6.561 3.504 9.002 9.975 6.092 9.734 6.213 2.540 11.543 12.970 11.212 nan 7.539 9.392 3.606 3.025 3.052 nan 2.804 2.589 14.505 3377 chr8 122301230 122303705 + 0 NA intron (NM_009569, intron 1 of 9) intron (NM_009569, intron 1 of 9) 20326 NM_009569 22761 Mm.3105 NM_009569 ENSMUSG00000049577 Zfpm1 FOG|Fog1 zinc finger protein, multitype 1 protein-coding 7.652 6.668 2.641 6.521 4.183 1.511 4.500 8.265 3.299 5.159 4.692 2.413 4.568 8.131 5.998 8.055 6.077 5.524 3.000 2.958 2.126 5.160 3.064 2.332 10.344 2321 chr3 144229955 144239411 + 0 NA Intergenic Intergenic -29428 NM_010723 16911 Mm.29187 NM_010723 ENSMUSG00000028266 Lmo4 A730077C12Rik|Crp3|Etohi4 LIM domain only 4 protein-coding 6.021 3.578 1.070 5.199 2.684 1.607 6.233 3.086 4.330 6.144 3.952 1.903 7.672 7.595 6.708 6.372 4.757 7.448 2.674 1.502 1.518 2.817 1.632 1.816 7.050 1988 chr2 147187269 147194395 + 0 NA intron (NR_030769, intron 1 of 5) intron (NR_030769, intron 1 of 5) 3408 NR_108091 78068 Mm.261511 NR_108091 ENSMUSG00000053545 6430503K07Rik - RIKEN cDNA 6430503K07 gene ncRNA 0.142 0.365 0.311 0.221 0.065 0.069 0.213 0.221 0.133 0.163 0.117 0.024 0.085 0.106 0.231 0.422 0.278 0.180 nan 0.121 0.203 5.564 0.531 0.693 0.545 3135 chr7 79448793 79455749 + 0 NA intron (NM_017462, intron 18 of 22) intron (NM_017462, intron 18 of 22) 14002 NM_017462 18975 Mm.3616 NM_017462 ENSMUSG00000039176 Polg AA409516|PolgA polymerase (DNA directed), gamma protein-coding 1.312 3.875 1.453 nan 0.604 0.261 1.110 3.334 1.521 1.677 3.118 2.012 0.825 2.020 1.530 nan 0.392 1.598 5.669 2.377 1.583 5.305 3.786 2.262 nan 1076 chr15 25332073 25337281 + 0 NA Intergenic Intergenic 79087 NM_027395 70350 Mm.29586 NM_027395 ENSMUSG00000045763 Basp1 2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22 brain abundant, membrane attached signal protein 1 protein-coding 3.092 8.265 3.715 1.006 0.745 0.234 1.574 2.345 1.453 1.493 0.888 1.442 2.292 1.232 1.600 1.175 1.655 1.383 1.381 0.879 0.328 1.099 1.034 0.569 1.489 3082 chr7 27944667 27953837 + 0 NA Intergenic Intergenic -19822 NM_028538 73430 Mm.379224 NM_028538 ENSMUSG00000070709 Zfp974 1700049G17Rik|AV321011|BB026409 zinc finger protein 974 protein-coding 6.336 12.442 5.020 7.077 3.876 1.987 5.526 8.463 3.780 5.859 3.466 1.999 4.738 6.909 5.798 6.176 4.880 6.310 2.862 2.469 1.619 2.495 2.776 2.381 7.711 766 chr12 72963772 72975405 + 0 NA Intergenic Intergenic 29706 NM_011384 20476 Mm.57138 NM_011384 ENSMUSG00000021099 Six6 Optx2|Six9 sine oculis-related homeobox 6 protein-coding 1.853 9.590 5.292 2.021 1.460 0.656 0.715 0.679 1.815 1.848 1.278 0.897 1.283 1.720 1.232 nan 1.079 1.906 0.904 0.722 0.431 1.239 0.594 0.443 1.844 449 chr11 68934608 68937705 + 0 NA Intergenic Intergenic -9075 NM_145746 252868 Mm.76826 NM_145746 ENSMUSG00000032921 Odf4 Oppo1 outer dense fiber of sperm tails 4 protein-coding 7.537 7.894 3.969 7.472 5.697 4.270 4.423 6.319 4.280 9.248 5.274 3.451 4.626 8.518 5.980 7.490 6.950 5.725 4.006 4.399 4.046 4.126 5.029 4.681 8.593 1574 chr17 83674990 83678363 + 0 NA Intergenic RLTR14|LTR|ERV1 -29487 NM_001171054 116871 Mm.277668 NM_054082 ENSMUSG00000055817 Mta3 1110002J22Rik|mKIAA1266 metastasis associated 3 protein-coding 8.262 22.131 7.481 7.712 3.598 2.587 6.908 4.970 5.004 7.957 5.610 3.048 4.188 6.470 5.729 7.063 4.646 6.525 4.458 3.813 3.097 4.841 3.690 2.820 9.413 3506 chr9 65193411 65195425 + 0 NA Intergenic PB1D10|SINE|Alu -20272 NM_177460 214424 Mm.31129 NM_177460 ENSMUSG00000032392 Parp16 ARTD15|BC055447|C79952|PARP-16 poly (ADP-ribose) polymerase family, member 16 protein-coding 6.834 11.752 3.361 7.726 3.983 3.010 5.533 6.139 3.356 13.117 6.698 2.899 6.620 7.696 6.972 6.883 3.561 8.275 3.969 2.601 3.620 5.330 3.171 3.638 13.376 1579 chr17 84245116 84251512 + 0 NA intron (NM_183021, intron 31 of 37) intron (NM_183021, intron 31 of 37) -60367 NM_001001806 12193 Mm.259321 NM_001001806 ENSMUSG00000045817 Zfp36l2 Brf2|ERF2|Tis11d zinc finger protein 36, C3H type-like 2 protein-coding 1.562 14.743 6.795 1.584 0.627 0.432 0.657 0.931 nan 1.413 1.142 0.595 0.571 0.652 1.267 1.791 1.218 1.621 0.464 0.968 0.731 0.456 0.330 0.410 1.896 659 chr11 116378129 116385748 + 0 NA intron (NM_027258, intron 2 of 18) intron (NM_027258, intron 2 of 18) 31094 NM_027258 217340 Mm.426344 NM_027258 ENSMUSG00000052949 Rnf157 2610036E23Rik|A130073L17Rik|mKIAA1917 ring finger protein 157 protein-coding 3.481 nan 1.203 4.046 8.364 5.463 nan nan 3.931 nan 3.531 2.853 4.275 8.899 2.359 2.626 1.862 nan 0.747 nan 1.236 1.457 0.767 0.721 2.784 2774 chr5 136431987 136434026 + 0 NA intron (NM_001291239, intron 2 of 22) intron (NM_001291239, intron 2 of 22) -57203 NR_030500 723975 NR_030500 ENSMUSG00000106479 Mir721 Mirn721|miRY|mir-721|mmu-mir-721 microRNA 721 ncRNA 7.566 9.785 6.141 4.896 5.158 3.996 7.396 5.312 5.563 5.333 4.795 4.117 4.357 7.844 6.602 6.986 7.449 5.292 4.771 3.661 3.463 4.020 nan 4.135 5.969 2763 chr5 135087561 135092095 + 0 NA Intergenic CpG -11562 NM_001199677 194309 Mm.44356 NM_177574 ENSMUSG00000043614 Vps37d Wbscr24 vacuolar protein sorting 37D protein-coding 3.055 11.595 5.891 2.151 1.398 1.315 1.203 1.353 2.273 2.437 1.713 1.448 1.109 1.754 1.882 1.777 1.098 2.088 1.105 1.616 1.195 0.951 nan 0.682 2.612 1141 chr15 75898827 75900885 + 0 NA intron (NM_001285434, intron 2 of 7) intron (NM_001285434, intron 2 of 7) -5375 NM_172607 223646 Mm.288368 NM_172607 ENSMUSG00000022574 Naprt 9130210N20Rik|Naprt1 nicotinate phosphoribosyltransferase protein-coding 5.778 6.521 1.419 5.276 3.180 1.398 7.350 10.102 3.261 7.180 nan 2.526 6.881 6.231 5.601 7.589 4.257 6.142 4.120 2.842 2.532 6.088 3.993 3.526 10.547 682 chr11 119146980 119148202 + 0 NA exon (NM_172443, exon 12 of 12) exon (NM_172443, exon 12 of 12) 6546 NR_105899 102465563 NR_105899 ENSMUSG00000098704 Mir6934 Gm27523|mmu-mir-6934 microRNA 6934 ncRNA 1.760 nan 0.171 2.457 0.462 0.756 4.037 2.757 1.242 2.245 2.119 0.398 3.587 3.752 3.039 3.309 1.206 3.229 0.982 nan 0.470 1.042 0.326 0.249 3.830 2971 chr6 108651838 108657197 + 0 NA intron (NR_104577, intron 1 of 6) PB1D9|SINE|Alu -6112 NM_011498 20893 Mm.2436 NM_011498 ENSMUSG00000030103 Bhlhe40 Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14 basic helix-loop-helix family, member e40 protein-coding 4.663 1.623 1.066 3.037 7.618 7.223 7.296 6.787 4.557 4.041 3.351 4.539 6.319 6.681 4.682 5.834 4.999 4.696 nan 1.586 1.505 0.886 1.556 1.638 nan 353 chr10 126599470 126606136 + 0 NA Intergenic Intergenic 107588 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 9.708 11.614 4.150 7.740 3.559 1.895 8.195 6.278 4.013 8.397 7.380 2.820 8.859 9.910 8.608 8.943 6.904 9.217 5.746 3.176 2.563 4.265 nan 3.979 14.165 375 chr10 128401786 128408977 + 0 NA intron (NM_027257, intron 6 of 6) B1F1|SINE|Alu -4157 NM_001136237 72002 Mm.22983 NM_028051 ENSMUSG00000039878 Slc39a5 1810013D05Rik|2010205A06Rik|Zip5 solute carrier family 39 (metal ion transporter), member 5 protein-coding 3.531 nan 0.650 2.063 3.033 2.606 4.363 5.905 3.844 3.159 1.432 1.951 3.970 3.933 4.117 4.626 4.645 2.896 0.547 0.624 0.750 0.358 nan 0.487 2.476 2989 chr6 117854833 117860560 + 0 NA Intergenic B1_Mur2|SINE|Alu -5381 NM_008616 22685 Mm.249661 NM_008616 ENSMUSG00000042097 Zfp239 Mok-2|Mok2|Znf239 zinc finger protein 239 protein-coding 6.238 12.007 5.859 8.478 6.889 4.888 12.448 9.521 3.682 6.810 4.654 2.822 9.514 10.743 9.765 11.283 7.623 6.389 4.636 3.348 3.429 4.361 nan 4.240 10.942 984 chr14 21513217 21516784 + 0 NA intron (NM_017479, intron 1 of 16) Tigger7|DNA|TcMar-Tigger 15215 NM_017479 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 4.400 8.780 2.545 7.829 3.063 1.533 4.451 6.852 4.042 7.370 4.429 2.453 4.368 7.150 7.804 7.988 3.019 5.841 4.655 1.632 1.351 4.948 2.084 2.872 10.644 2833 chr6 22293548 22295002 + 0 NA intron (NM_053116, intron 3 of 3) intron (NM_053116, intron 3 of 3) 6048 NM_053116 93735 Mm.137403 NM_053116 ENSMUSG00000029671 Wnt16 E130309I19Rik wingless-type MMTV integration site family, member 16 protein-coding 2.885 nan 0.587 1.929 1.275 0.277 6.966 6.778 2.201 1.699 0.471 1.510 6.612 5.074 5.566 7.766 4.987 4.201 1.482 1.077 0.470 1.436 1.372 1.108 2.705 2409 chr4 97490820 97492956 + 0 NA Intergenic Intergenic -90055 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 2.826 nan 0.622 2.806 2.593 0.456 1.740 2.629 2.656 2.990 1.127 1.798 1.570 3.747 nan 2.901 2.111 3.070 1.026 0.726 1.065 nan 0.292 0.415 1.958 1155 chr15 76506683 76516236 + 0 NA intron (NM_010046, intron 1 of 16) intron (NM_010046, intron 1 of 16) 359 NM_010046 13350 Mm.22633 NM_010046 ENSMUSG00000022555 Dgat1 ARAT|C75990|D15Ertd23e|Dgat diacylglycerol O-acyltransferase 1 protein-coding 6.034 nan 1.271 3.676 3.461 2.517 8.376 9.945 4.482 nan nan 1.972 8.396 8.469 6.116 6.259 9.062 5.881 2.361 1.690 1.958 nan 2.633 2.639 6.307 3372 chr8 122096088 122099533 + 0 NA Intergenic L1MEc|LINE|L1 119786 NR_106096 102466915 NR_106096 ENSMUSG00000099140 Mir7237 Gm27482|mmu-mir-7237 microRNA 7237 ncRNA 3.232 3.565 0.998 4.680 1.792 1.540 2.249 3.857 2.891 4.053 2.369 1.740 4.024 3.810 4.651 6.465 3.157 4.534 4.105 1.689 1.528 4.924 2.470 2.993 6.631 1485 chr17 33639834 33643066 + 0 NA non-coding (NR_028279, exon 2 of 10) non-coding (NR_028279, exon 2 of 10) 3355 NR_028279 378460 Mm.272606 NM_001002842 ENSMUSG00000032739 Pram1 AY665714 PML-RAR alpha-regulated adaptor molecule 1 protein-coding 5.161 1.261 1.058 3.888 3.919 2.837 5.866 3.691 3.166 4.660 1.535 0.696 4.777 6.314 3.174 5.724 6.390 3.645 0.491 1.733 1.138 0.302 0.753 0.672 4.451 788 chr12 80685397 80691947 + 0 NA intron (NR_037995, intron 1 of 1) B3|SINE|B2 3794 NR_037995 68354 Mm.46194 NR_037995 Plekhd1os 0610009B14Rik pleckstrin homology domain containing, family D (with coiled-coil domains) member 1, opposite strand ncRNA 6.478 0.867 0.695 3.805 4.407 2.656 7.997 3.960 7.473 7.925 2.482 1.535 10.777 8.111 7.208 6.816 8.242 6.405 0.810 0.855 0.817 0.700 0.697 0.409 6.627 128 chr1 134208290 134211032 + 0 NA intron (NM_001291930, intron 1 of 1) L2a|LINE|L2 16213 NM_016749 53311 Mm.379067 NM_016749 ENSMUSG00000042451 Mybph AI385643|MyBP-H myosin binding protein H protein-coding 4.666 4.514 1.781 nan 2.148 1.734 2.352 2.718 2.165 2.645 3.473 0.680 2.576 4.564 3.108 3.676 2.309 2.850 1.133 1.611 0.549 0.895 1.072 0.557 2.432 501 chr11 77976588 77980629 + 0 NA 3' UTR (NM_021286, exon 17 of 17) 3' UTR (NM_021286, exon 17 of 17) -4208 NM_174852 268448 Mm.274329 NM_174852 ENSMUSG00000037791 Phf12 2410142K10Rik|F630045O13|PF1|mKIAA1523 PHD finger protein 12 protein-coding 9.125 13.438 3.894 10.005 3.306 2.343 11.120 9.898 7.210 12.247 10.948 5.763 9.691 12.167 12.345 14.204 6.927 11.516 5.753 3.002 nan 7.646 3.058 4.112 16.995 2944 chr6 97240906 97245815 + 0 NA intron (NM_001081157, intron 2 of 2) intron (NM_001081157, intron 2 of 2) 9420 NM_001081157 320502 Mm.68163 NM_001081157 ENSMUSG00000044086 Lmod3 5430424A14Rik leiomodin 3 (fetal) protein-coding 6.176 1.867 0.714 4.935 4.521 1.826 8.558 10.666 6.476 6.209 5.077 4.320 9.463 10.403 10.581 11.643 6.246 8.248 nan nan 0.364 1.655 0.836 0.538 7.452 1313 chr16 23121088 23125507 + 0 NA intron (NM_145480, intron 3 of 10) MTE-int|LTR|ERVL-MaLR 4433 NM_145480 106344 Mm.386835 NM_145480 ENSMUSG00000022881 Rfc4 A1|AI894123|AU040575|RFC37 replication factor C (activator 1) 4 protein-coding 3.965 0.910 0.766 2.681 4.726 3.524 2.068 1.003 4.483 5.272 0.601 0.584 4.661 3.032 1.530 nan 3.397 3.490 0.696 0.783 0.750 0.503 nan 0.706 1.712 278 chr10 67586699 67592331 + 0 NA Intergenic Intergenic -40560 NM_001005419 211488 Mm.297250 NM_001005419 ENSMUSG00000057134 Ado Gm237 2-aminoethanethiol (cysteamine) dioxygenase protein-coding 5.752 1.553 0.872 3.134 1.643 0.733 2.672 3.763 2.931 2.667 1.053 1.006 4.691 4.661 3.840 5.072 3.865 4.998 1.119 0.685 0.435 0.957 0.395 0.320 2.560 1617 chr18 37977672 37980424 + 0 NA intron (NM_001205336, intron 23 of 32) intron (NM_001205336, intron 23 of 32) -4431 NR_105947 102466779 NR_105947 ENSMUSG00000098608 Mir6981 Gm27609|mmu-mir-6981 microRNA 6981 ncRNA 1.828 1.105 0.525 1.803 1.784 0.659 3.679 2.954 1.432 2.114 0.858 0.367 2.887 3.572 3.126 4.235 2.150 2.505 0.932 0.531 0.713 1.310 0.755 0.587 1.930 3521 chr9 72507162 72515695 + 0 NA Intergenic Intergenic -19469 NM_009359 21778 Mm.14485 NM_009359 ENSMUSG00000090626 Tex9 Gm19407|tsec-1 testis expressed gene 9 protein-coding 5.509 2.788 1.579 4.904 3.809 2.443 6.815 5.737 4.082 6.178 4.182 2.805 6.241 7.548 nan 6.662 5.178 5.502 nan 2.289 3.093 3.776 3.628 3.803 7.891 3144 chr7 104228195 104232534 + 0 NA intron (NM_001013616, intron 4 of 7) ID4|SINE|ID 11569 NM_001013616 94088 Mm.274843 NM_001013616 ENSMUSG00000072244 Trim6 C430046K18Rik|D7Ertd684e tripartite motif-containing 6 protein-coding 6.704 4.222 1.170 9.179 4.597 3.009 2.604 4.120 3.800 9.291 3.607 2.039 3.193 nan 4.986 nan 2.817 6.753 nan 1.962 2.311 3.657 2.028 2.878 8.966 490 chr11 75135323 75137461 + 0 NA intron (NM_001002764, intron 13 of 18) intron (NM_001002764, intron 13 of 18) 31760 NM_001098203 15248 Mm.57250 NM_010430 ENSMUSG00000043099 Hic1 AA408311|HIC-1 hypermethylated in cancer 1 protein-coding nan 2.080 1.063 1.064 0.785 0.473 nan 0.635 0.868 0.720 1.175 0.885 0.604 nan nan nan 1.350 nan 4.156 3.481 nan 2.722 5.330 4.781 0.764 2650 chr5 34124271 34126092 + 0 NA intron (NM_181857, intron 4 of 24) intron (NM_181857, intron 4 of 24) 6441 NR_040703 75357 Mm.410806 NR_040703 ENSMUSG00000106902 4930557J02Rik - RIKEN cDNA 4930557J02 gene ncRNA 4.465 8.983 1.514 8.572 1.968 1.761 3.750 4.495 3.805 7.618 3.113 2.255 3.483 5.830 7.536 8.096 nan 7.261 4.138 1.154 1.422 5.018 2.068 3.149 10.713 1843 chr2 30052899 30064211 + 0 NA Intergenic L1M5|LINE|L1 -3441 NM_023871 56086 Mm.326055 NM_023871 ENSMUSG00000054766 Set 2610030F17Rik|5730420M11Rik|AA407739|I-2PP2A|StF-IT-1|TAF-I SET nuclear oncogene protein-coding 3.472 1.690 0.671 2.916 3.311 2.120 3.919 9.493 nan 3.384 1.520 1.688 4.803 4.728 4.560 6.036 4.941 4.043 2.845 1.973 1.862 2.637 2.516 2.441 4.106 155 chr1 137144247 137159467 + 0 NA Intergenic L1Md_A|LINE|L1 -191409 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 7.539 0.706 0.465 nan 5.370 3.480 6.837 7.254 4.744 5.586 3.897 3.553 8.137 7.530 6.344 nan 6.303 6.379 5.323 2.726 2.547 6.285 4.226 2.985 7.993 387 chr11 6480025 6489274 + 0 NA Intergenic Intergenic -8573 NM_011221 19291 Mm.296150 NM_011221 ENSMUSG00000094483 Purb 2310015K15Rik|AA114818|Cager-2|D11Bwg0414e purine rich element binding protein B protein-coding nan 9.701 5.174 1.164 0.982 0.460 0.702 0.725 1.234 1.142 0.721 0.842 0.493 0.668 1.224 1.245 0.962 1.330 3.495 nan 2.036 3.598 0.662 0.575 1.126 2626 chr5 20690564 20700012 + 0 NA intron (NM_001170746, intron 22 of 22) (TG)n|Simple_repeat|Simple_repeat 186836 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 9.243 4.747 2.600 6.299 5.204 2.271 8.377 5.155 6.634 8.056 4.111 2.061 7.774 9.935 8.405 9.221 7.446 9.410 1.817 1.990 1.490 2.158 1.977 1.540 8.349 1913 chr2 91148285 91150551 + 0 NA intron (NM_001177720, intron 27 of 34) Lx5c|LINE|L1 29903 NM_001177720 228355 Mm.36410 NM_145527 ENSMUSG00000040687 Madd 9630059K23Rik|IG20 MAP-kinase activating death domain protein-coding 2.128 1.703 0.819 2.094 0.826 0.611 1.104 0.954 1.584 0.768 0.550 0.958 1.685 1.071 1.529 2.063 1.997 2.236 4.009 3.748 4.071 5.083 3.283 3.158 1.800 1112 chr15 61970343 61971427 + 0 NA Intergenic Intergenic -14456 NM_001177354 17869 Mm.2444 NM_010849 ENSMUSG00000022346 Myc AU016757|Myc2|Niard|Nird|bHLHe39 myelocytomatosis oncogene protein-coding 4.006 5.502 2.024 3.736 2.007 0.968 2.935 4.726 3.152 3.994 2.753 3.417 2.013 4.197 3.888 3.380 1.734 3.213 0.789 0.466 0.226 1.995 0.481 0.347 3.700 626 chr11 101843705 101846662 + 0 NA Intergenic RMER19B|LTR|ERVK 49171 NM_010791 17285 Mm.3404 NM_010791 ENSMUSG00000001493 Meox1 AI385561|D330041M02Rik|Mox-1|Mox1 mesenchyme homeobox 1 protein-coding 6.333 4.175 1.144 8.875 2.863 1.364 1.968 2.989 3.505 5.865 1.706 1.263 2.602 4.368 4.779 6.090 nan 5.841 2.278 nan 0.726 3.075 nan nan 7.371 1294 chr16 17944648 17947065 + 0 NA Intergenic Intergenic -17637 NM_153150 13358 Mm.229291 NM_153150 ENSMUSG00000003528 Slc25a1 1300019P08Rik|2610100G11Rik|AI194714|Ctp|Dgsj|Slc20a3 solute carrier family 25 (mitochondrial carrier, citrate transporter), member 1 protein-coding 4.351 0.514 0.825 3.927 4.445 4.107 2.976 4.158 3.957 4.040 1.738 1.660 6.268 7.628 5.106 6.887 5.154 5.265 0.655 1.121 1.463 0.632 0.801 0.770 5.539 461 chr11 69725600 69728424 + 0 NA Intergenic B1_Mur3|SINE|Alu -30914 NM_001159503 619441 Mm.8983 NM_001034097 ENSMUSG00000018752 Tnfsfm13 Tnfsf12-Tnfsf13|Tnfsf12Tnfsf13|Tnfsf12tnfsf13|Twe-pril tumor necrosis factor (ligand) superfamily, membrane-bound member 13 protein-coding 5.747 8.641 2.010 6.707 3.148 2.012 5.272 5.731 3.395 7.621 3.452 1.926 6.418 7.619 7.085 8.571 4.624 6.378 2.502 1.393 1.866 3.443 nan 1.427 8.939 2712 chr5 106216555 106225822 + 0 NA Intergenic Intergenic -100152 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 3.372 1.203 0.685 3.868 2.116 1.113 5.771 5.177 2.893 2.744 1.612 1.864 5.453 6.167 5.803 4.972 2.536 4.288 nan 1.016 0.688 2.337 1.877 1.587 4.235 1562 chr17 66262016 66266133 + 0 NA Intergenic B1_Mur1|SINE|Alu 140554 NM_001003919 320209 Mm.259605 NM_001003919 ENSMUSG00000035842 Ddx11 4732462I11Rik|CHL1|CHLR1|KRG2|essa15a DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 protein-coding 2.017 1.140 0.733 2.868 2.125 1.584 1.611 3.389 nan 2.730 7.373 2.701 1.438 3.034 2.365 3.606 1.488 2.972 1.243 0.945 1.119 1.341 0.723 0.590 2.555 1426 chr17 24869504 24878052 + 0 NA Intergenic RLTR20C|LTR|ERVK -4992 NM_008340 16005 Mm.3135 NM_008340 ENSMUSG00000046070 Igfals ALS|Albs|mKIAA4111 insulin-like growth factor binding protein, acid labile subunit protein-coding 3.977 2.760 1.315 4.131 3.310 2.074 4.484 6.884 2.943 3.661 3.037 1.515 3.058 5.181 5.946 nan 4.109 4.572 3.673 2.176 2.477 3.482 2.985 2.410 7.116 257 chr10 42606612 42618686 + 0 NA Intergenic (TCCC)n|Simple_repeat|Simple_repeat -29061 NM_152229 21907 Mm.287100 NM_152229 ENSMUSG00000019803 Nr2e1 Mtl1|Mtll|TLL|Tlx|XTLL|fierce|frc|tailless nuclear receptor subfamily 2, group E, member 1 protein-coding 0.756 2.873 1.035 0.771 0.456 0.122 0.318 0.844 1.060 0.563 0.409 0.429 0.192 0.270 0.666 0.987 0.908 0.916 4.875 5.008 2.642 7.227 6.121 4.406 0.769 3451 chr9 22271630 22273223 + 0 NA intron (NR_030448, intron 1 of 4) PB1D10|SINE|Alu -12531 NM_181419 235048 Mm.292381 NM_181419 ENSMUSG00000062794 Zfp599 6720416P20 zinc finger protein 599 protein-coding 7.917 11.542 4.275 8.476 2.985 1.832 5.840 7.119 4.946 12.379 6.065 4.133 6.184 8.308 8.059 9.211 5.513 8.520 7.147 4.778 4.115 7.745 6.554 6.654 14.076 1358 chr16 85128290 85135938 + 0 NA intron (NM_007471, intron 1 of 15) intron (NM_007471, intron 1 of 15) 41593 NM_001198825 11820 Mm.277585 NM_007471 ENSMUSG00000022892 App Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp amyloid beta (A4) precursor protein protein-coding 7.131 nan 0.458 4.555 4.851 2.275 5.356 7.655 4.469 3.903 4.488 2.412 6.409 7.524 5.865 7.110 5.580 6.806 1.430 1.312 0.878 nan 1.329 0.838 5.624 951 chr13 74438878 74439982 + 0 NA Intergenic Lx4B|LINE|L1 32365 NR_109835 735288 NR_109835 ENSMUSG00000094403 Mir692-2 Mir692-2a|Mir692-3|Mirn692-2|Mirn692-2a|mir-692-2|mmu-mir-692-2 microRNA 692-2 ncRNA 2.354 0.769 0.234 2.157 3.435 1.800 2.468 4.230 2.489 2.659 5.839 2.403 2.292 4.834 2.245 3.844 0.839 2.971 0.796 0.325 0.222 0.651 0.159 0.519 3.194 782 chr12 80138105 80144290 + 0 NA Intergenic Intergenic -8353 NR_033514 69548 Mm.269712 NR_033514 ENSMUSG00000097729 2310015A10Rik 5330419I17Rik RIKEN cDNA 2310015A10 gene ncRNA 4.701 0.609 0.421 1.870 3.101 1.446 4.735 6.772 2.880 2.461 4.454 3.185 4.420 6.178 4.470 5.616 4.517 3.624 1.070 0.870 0.634 0.754 0.982 0.709 3.739 85 chr1 82828179 82829573 + 0 NA Intergenic Intergenic -10584 NM_001310713 15463 Mm.392569 NM_010472 ENSMUSG00000026159 Agfg1 AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip ArfGAP with FG repeats 1 protein-coding 5.103 12.855 2.856 2.640 2.559 0.948 4.342 6.019 3.029 2.826 2.350 3.434 4.603 3.940 5.178 6.745 2.619 4.274 nan nan 0.257 1.327 nan 0.308 3.591 809 chr12 85568450 85571371 + 0 NA Intergenic Intergenic -29195 NM_001205052 81703 Mm.103560 NM_030887 ENSMUSG00000034271 Jdp2 Jundm2|Jundp2|TIF Jun dimerization protein 2 protein-coding 0.777 0.713 0.485 0.711 0.903 0.725 0.716 0.675 0.646 0.478 1.212 1.466 0.394 0.540 0.552 nan 1.090 0.782 5.090 2.879 4.566 5.186 3.790 4.175 nan 2200 chr3 84192198 84193882 + 0 NA intron (NM_001271725, intron 4 of 11) intron (NM_001271725, intron 4 of 11) 18402 NR_036654 624713 Mm.442604 NR_036654 Gm6525 EG624713 ribosomal protein L36a pseudogene pseudo 2.802 2.471 1.410 1.992 2.146 1.432 2.523 3.063 3.720 2.330 4.736 3.292 3.042 4.114 1.986 3.973 3.750 3.345 nan 0.509 0.801 0.834 1.351 1.121 1.361 1156 chr15 76524283 76528957 + 0 NA Intergenic Intergenic -4491 NM_130893 170729 Mm.218747 NM_130893 ENSMUSG00000048385 Scrt1 - scratch family zinc finger 1 protein-coding nan 2.534 0.604 4.251 1.411 1.004 nan 12.401 2.427 nan nan 1.860 6.504 6.778 5.717 7.355 nan 5.134 1.668 0.879 0.901 nan 0.723 0.520 5.782 2281 chr3 105627679 105630282 + 0 NA intron (NM_001039347, intron 2 of 6) MTB_Mm|LTR|ERVL-MaLR 58591 NM_017397 53975 Mm.272826 NM_017397 ENSMUSG00000027905 Ddx20 GEMIN3|dp103 DEAD (Asp-Glu-Ala-Asp) box polypeptide 20 protein-coding 3.764 5.423 4.173 4.115 4.449 2.361 3.023 1.442 2.644 3.560 1.046 1.165 3.715 4.830 3.124 2.924 1.926 3.543 1.097 1.251 0.826 0.757 0.737 0.344 3.189 1557 chr17 66011004 66018136 + 0 NA intron (NM_001025572, intron 8 of 12) intron (NM_001025572, intron 8 of 12) 62476 NM_001025572 106585 Mm.34706 NM_001025572 ENSMUSG00000034647 Ankrd12 2900001A12Rik|AI447928|ANCO-2|AV347965|GAC-1|mKIAA0874 ankyrin repeat domain 12 protein-coding 4.658 0.648 0.363 5.663 7.955 4.021 4.493 4.814 4.792 6.620 1.746 2.651 4.647 9.365 5.935 6.449 4.128 8.520 1.346 0.895 0.772 0.895 1.611 1.171 4.533 1486 chr17 33891668 33898461 + 0 NA Intergenic ORR1A2-int|LTR|ERVL-MaLR -4431 NM_001195298 100502766 Mm.335713 NM_001195298 ENSMUSG00000079553 Kifc1 100042970|Gm4137|HSET|KNSL2|Kifc5a|Knsl2a|Tctex-7|Tctex-7A|Tctex7|Tctex7a kinesin family member C1 protein-coding nan 3.948 1.818 5.542 4.234 2.739 5.469 7.236 4.797 5.623 3.291 1.979 5.498 7.507 6.285 7.294 4.819 6.464 2.161 1.789 1.859 2.132 1.938 1.874 8.563 425 chr11 57797111 57798713 + 0 NA intron (NR_131042, intron 1 of 3) intron (NR_131042, intron 1 of 3) 3555 NR_131042 76516 Mm.28485 NR_131042 ENSMUSG00000087165 2010001A14Rik - RIKEN cDNA 2010001A14 gene ncRNA 2.692 0.869 0.273 1.289 1.230 1.334 4.723 2.427 1.839 1.808 1.382 0.757 3.938 3.684 4.123 4.308 3.209 2.897 nan 0.458 0.561 0.642 0.779 0.526 5.724 3057 chr7 4964583 4968821 + 0 NA 3' UTR (NM_001200041, exon 4 of 4) 3' UTR (NM_001200041, exon 4 of 4) -2354 NM_001146329 381836 Mm.297829 NM_001146329 ENSMUSG00000030433 Sbk2 Gm1079|Sgk069 SH3-binding domain kinase family, member 2 protein-coding 7.686 7.391 2.964 6.894 4.064 2.309 6.499 9.622 3.722 7.385 5.389 2.028 8.293 9.854 7.112 7.898 7.189 6.747 3.314 2.451 1.629 3.924 3.012 2.599 9.588 2056 chr2 163027842 163030410 + 0 NA intron (NM_172150, intron 6 of 12) Lx5b|LINE|L1 11654 NM_172150 245866 Mm.34034 NM_172150 ENSMUSG00000017858 Ift52 BC037708|NGD5 intraflagellar transport 52 protein-coding 1.639 9.185 2.415 5.831 0.551 0.339 0.185 0.720 1.784 3.058 0.522 0.366 0.413 nan 1.065 1.825 0.344 nan nan 0.666 0.952 1.253 2.001 1.558 2.296 736 chr12 52455305 52456751 + 0 NA Intergenic ORR1A2|LTR|ERVL-MaLR 24581 NR_136881 102638611 Mm.363799 NR_136881 Gm35135 - predicted gene, 35135 ncRNA 6.869 1.097 0.906 1.745 2.912 3.197 7.111 4.162 2.776 1.891 2.144 2.033 3.372 4.668 4.619 4.249 3.199 3.555 0.500 0.174 0.182 0.502 0.452 0.203 3.199 2876 chr6 67110098 67113395 + 0 NA Intergenic Intergenic -74339 NM_007836 13197 Mm.72235 NM_007836 ENSMUSG00000036390 Gadd45a AA545191|Ddit1|GADD45 growth arrest and DNA-damage-inducible 45 alpha protein-coding 4.391 0.896 0.500 3.208 2.816 2.382 3.477 6.080 3.220 5.260 4.900 1.670 4.066 7.917 4.397 5.919 5.518 5.237 1.649 1.455 0.891 1.329 1.631 1.043 2.584 539 chr11 94196537 94209517 + 0 NA Intergenic B2_Mm1a|SINE|B2 -8427 NM_009427 22057 Mm.259673 NM_009427 ENSMUSG00000037573 Tob1 Tob|Trob transducer of ErbB-2.1 protein-coding 4.947 nan 0.664 5.596 4.384 2.853 5.868 6.519 5.517 6.041 2.070 2.054 6.875 8.521 6.467 8.001 5.485 7.401 3.021 nan 1.258 2.622 nan nan 6.055 3428 chr9 20895243 20897307 + 0 NA intron (NM_016876, intron 5 of 10) intron (NM_016876, intron 5 of 10) 2315 NM_016876 53356 Mm.427309 NM_016876 ENSMUSG00000070319 Eif3g 44kDa|D0Jmb4|Eif3s4|TU-189B2|eIF3-p44|p44 eukaryotic translation initiation factor 3, subunit G protein-coding 6.920 9.803 4.831 6.010 4.073 4.581 5.674 6.163 4.064 5.585 4.464 3.228 4.571 6.709 6.029 7.002 5.271 5.514 5.353 4.698 4.811 5.287 5.217 5.533 8.709 781 chr12 80080802 80082731 + 0 NA Intergenic Intergenic 31247 NM_007564 12192 Mm.235132 NM_007564 ENSMUSG00000021127 Zfp36l1 AW742437|AW743212|Berg36|Brf1|D530020L18Rik|ERF1|TIS11b|cMG1 zinc finger protein 36, C3H type-like 1 protein-coding 6.348 12.715 7.306 5.784 4.640 3.566 2.973 2.490 3.585 4.072 3.649 2.247 2.031 2.918 2.619 3.461 2.219 3.981 2.983 3.261 2.997 1.875 4.100 4.268 5.868 2847 chr6 37347911 37353324 + 0 NA intron (NM_178661, intron 8 of 11) intron (NM_178661, intron 8 of 11) -50641 NM_001347104 320127 Mm.119469 NM_001081206 ENSMUSG00000038665 Dgki C130010K08Rik diacylglycerol kinase, iota protein-coding 2.603 1.443 0.591 2.142 2.002 1.134 4.156 3.602 2.206 2.042 2.144 1.844 3.910 4.152 3.658 3.978 3.029 nan nan 2.134 1.165 3.718 nan 2.698 2.514 3233 chr8 23167824 23171568 + 0 NA Intergenic Intergenic 16425 NM_029002 74561 Mm.290028 NM_029002 ENSMUSG00000063672 Nkx6-3 9130417I07Rik|Nkx6.3 NK6 homeobox 3 protein-coding 3.007 nan 0.713 2.968 1.059 0.633 3.343 7.346 4.562 4.313 1.008 1.662 5.341 4.535 5.582 6.934 3.834 4.941 1.192 0.979 0.624 nan 0.955 0.777 4.933 3015 chr6 128384614 128389893 + 0 NA Intergenic L1MB4|LINE|L1 11743 NM_027697 71149 Mm.483176 NM_027697 ENSMUSG00000079304 4933413G19Rik - RIKEN cDNA 4933413G19 gene protein-coding 6.251 nan 1.135 5.959 2.717 1.878 12.661 10.276 3.692 6.903 3.927 1.936 10.176 12.228 12.427 14.568 9.669 8.380 3.127 2.242 1.896 3.995 2.617 2.991 13.068 3339 chr8 106897545 106900884 + 0 NA intron (NM_011574, intron 4 of 16) MTD|LTR|ERVL-MaLR 5574 NM_011574 21771 Mm.10665 NM_011574 ENSMUSG00000041438 Cirh1a Cirhin|Naic|Teg-292|Tex292|Utp4 cirrhosis, autosomal recessive 1A (human) protein-coding 3.079 1.658 0.839 3.115 2.811 1.759 5.030 10.737 1.855 1.795 1.404 1.726 4.754 5.816 5.494 4.623 5.367 3.933 3.699 4.051 2.272 5.411 3.510 3.400 3.061 1950 chr2 119500065 119502241 + 0 NA Intergenic B4A|SINE|B4 -23524 NM_026574 68142 Mm.330496 NM_026574 ENSMUSG00000034154 Ino80 2310079N15Rik|4632409L19Rik|Inoc1 INO80 complex subunit protein-coding 8.925 8.057 2.981 8.455 5.147 3.800 6.508 9.103 4.872 7.648 5.756 3.470 nan 8.364 6.243 9.290 7.428 7.338 3.532 3.915 2.918 4.006 4.584 4.453 12.135 2865 chr6 51416243 51422148 + 0 NA Intergenic Intergenic -13475 NM_010903 18025 Mm.42138 NM_010903 ENSMUSG00000029832 Nfe2l3 Nrf3 nuclear factor, erythroid derived 2, like 3 protein-coding 9.792 14.603 5.792 11.118 4.662 2.760 11.500 10.531 7.541 11.937 8.276 5.763 12.153 11.699 12.087 12.658 10.989 10.450 8.758 3.295 3.568 7.226 4.277 4.977 13.577 1698 chr18 82705685 82708376 + 0 NA Intergenic Intergenic -13251 NR_039572 100628586 NR_039572 ENSMUSG00000092638 Mir5112 mmu-mir-5112|mu-mir-5112 microRNA 5112 ncRNA 2.652 nan 7.462 1.599 2.006 1.438 1.123 1.584 1.837 nan 2.057 1.230 1.233 1.271 1.281 1.292 1.308 1.316 1.246 nan 1.376 1.277 1.696 1.276 1.379 520 chr11 85834982 85836834 + 0 NA exon (NM_009324, exon 3 of 7) exon (NM_009324, exon 3 of 7) 3293 NM_009324 21385 Mm.287052 NM_009324 ENSMUSG00000000093 Tbx2 - T-box 2 protein-coding 5.305 0.866 0.384 2.589 2.317 1.786 4.043 2.073 2.698 4.114 0.935 0.348 3.885 5.229 4.159 5.104 4.463 2.963 0.439 0.515 0.265 nan 0.457 0.491 4.456 2782 chr5 138068745 138075805 + 0 NA Intergenic MERVL-int|LTR|ERVL -12809 NM_133906 74570 Mm.213114 NM_029869 ENSMUSG00000029729 Zkscan1 5930429A01Rik|9130423L19Rik|9230118B16Rik|AI646829|AI788588|C87323|KOX18|PHZ-37|ZNF139 zinc finger with KRAB and SCAN domains 1 protein-coding 8.908 9.916 3.508 8.534 5.535 2.880 7.330 7.904 5.023 7.715 7.615 3.838 7.718 11.645 7.590 8.718 6.117 8.372 2.593 2.568 1.752 2.245 nan 2.137 10.463 2037 chr2 157242608 157262713 + 0 NA intron (NM_001039557, intron 8 of 24) RMER6A|LTR|ERVK -26438 NM_019642 20014 Mm.22130 NM_019642 ENSMUSG00000027642 Rpn2 1300012C06Rik|AV261018|Rpn-2 ribophorin II protein-coding 6.797 2.046 0.681 4.737 4.026 2.501 6.484 8.892 nan nan 5.437 3.192 5.572 7.582 6.447 8.533 5.212 6.608 nan 1.134 1.124 1.646 1.204 1.375 9.725 532 chr11 90402668 90404803 + 0 NA Intergenic Intergenic -12818 NM_172563 217082 Mm.158903 NM_172563 ENSMUSG00000003949 Hlf E230015K02Rik hepatic leukemia factor protein-coding nan 0.718 0.685 nan 0.476 0.087 0.537 0.643 0.462 0.393 0.569 0.861 0.145 0.418 0.499 0.644 0.748 0.911 2.731 4.554 1.515 3.623 2.898 1.204 nan 1193 chr15 85440014 85446863 + 0 NA intron (NM_016843, intron 10 of 11) intron (NM_016843, intron 10 of 11) 59789 NM_001256072 328577 Mm.212960 NM_001256072 ENSMUSG00000096607 7530416G11Rik - RIKEN cDNA 7530416G11 gene protein-coding 8.112 1.938 0.484 nan 2.896 1.404 nan 13.887 nan 7.846 7.428 3.328 10.519 12.392 10.725 9.725 nan nan nan 3.760 2.997 9.133 4.870 3.772 13.155 2455 chr4 120867252 120869521 + 0 NA Intergenic MER5A1|DNA|hAT-Charlie -9483 NM_182929 242662 Mm.192502 NM_182929 ENSMUSG00000032890 Rims3 A730060M23Rik|Nim3|Rim3|mKIAA0237 regulating synaptic membrane exocytosis 3 protein-coding 2.190 6.289 5.726 1.389 2.325 2.647 0.821 0.920 1.075 1.214 3.165 2.331 0.606 1.111 0.857 nan 1.269 1.274 3.062 2.318 2.003 1.072 2.970 2.721 0.954 55 chr1 64135313 64137029 + 0 NA Intergenic Intergenic -14782 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 5.551 1.541 0.511 5.109 1.814 1.631 2.781 3.298 2.587 2.505 2.415 2.207 1.969 3.336 2.745 3.609 nan 5.050 5.490 4.807 1.680 3.562 6.170 3.808 3.337 3592 chrX 136331886 136335269 + 0 NA Intergenic ORR1A0-int|LTR|ERVL-MaLR 63324 NM_001110234 12070 Mm.90787 NM_009750 ENSMUSG00000046432 Bex3 AL033356|DXWsu67e|Gcap27|Nade|Ngfrap1 brain expressed X-linked 3 protein-coding 2.869 0.567 0.274 1.174 0.781 0.365 2.325 2.972 2.269 1.936 5.459 3.654 2.537 3.284 2.349 2.789 2.028 1.376 1.220 0.805 0.424 1.135 1.172 0.787 2.843 1890 chr2 44381652 44382652 + 0 NA intron (NM_001301831, intron 13 of 14) intron (NM_001301831, intron 13 of 14) -316828 NR_040622 320872 Mm.445023 NR_040622 ENSMUSG00000085089 Arhgap15os A430092G05Rik Rho GTPase activating protein 15, opposite strand ncRNA 4.326 1.238 0.263 2.112 1.080 0.125 4.130 5.344 1.683 1.853 3.301 1.554 4.132 3.392 5.109 3.859 5.671 2.907 1.204 1.139 0.543 1.140 1.521 1.296 3.317 1681 chr18 76256643 76259175 + 0 NA intron (NM_010754, intron 1 of 10) intron (NM_010754, intron 1 of 10) -3212 NM_001252481 17126 Mm.152699 NM_010754 ENSMUSG00000024563 Smad2 7120426M23Rik|Madh2|Madr2|Smad-2|mMad2 SMAD family member 2 protein-coding 1.976 nan 0.934 1.733 2.422 1.223 3.058 5.596 1.988 nan 2.340 1.504 3.877 5.919 4.333 3.401 2.058 2.013 0.706 nan 0.804 0.727 0.972 0.565 3.134 57 chr1 64150980 64154069 + 0 NA Intergenic MTA_Mm-int|LTR|ERVL-MaLR -31135 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 5.812 1.006 1.010 3.255 3.251 1.549 4.293 4.217 3.217 3.724 1.533 1.451 5.474 6.045 4.313 7.103 4.560 4.980 1.635 1.323 0.710 1.110 1.203 0.924 4.305 2642 chr5 31930666 31933368 + 0 NA intron (NM_144541, intron 7 of 11) intron (NM_144541, intron 7 of 11) -204455 NM_008037 14284 Mm.24684 NM_008037 ENSMUSG00000029135 Fosl2 Fra-2 fos-like antigen 2 protein-coding 4.085 0.959 0.373 3.758 3.887 2.258 2.600 2.509 2.234 2.465 5.306 1.428 1.681 5.765 3.525 3.024 1.443 4.200 0.694 0.725 0.363 1.041 0.717 0.401 3.791 872 chr13 31898547 31901016 + 0 NA intron (NM_146041, intron 9 of 10) intron (NM_146041, intron 9 of 10) 93135 NM_008592 17300 Mm.12949 NM_008592 ENSMUSG00000050295 Foxc1 FREAC3|Fkh1|Mf1|Mf4|ch|fkh-1|frkhda forkhead box C1 protein-coding 1.194 1.776 0.441 2.904 0.618 0.698 0.576 0.729 1.597 4.002 6.613 6.527 0.406 1.133 1.153 1.258 0.645 1.266 4.300 1.460 3.863 8.556 4.138 9.149 2.318 2354 chr4 40719736 40721478 + 0 NA non-coding (NR_077226, exon 3 of 3) non-coding (NR_077226, exon 3 of 3) 1710 NR_077221 622208 Mm.471544 NR_077221 Gm6297 - predicted gene 6297 ncRNA 3.993 2.452 2.004 2.252 1.914 1.293 3.307 4.033 2.566 2.925 5.113 2.527 2.492 4.350 2.650 nan 3.107 nan 2.354 1.431 1.186 1.114 1.744 1.317 2.139 3479 chr9 44375376 44379150 + 0 NA Intergenic B2_Mm2|SINE|B2 -2227 NM_021395 12282 Mm.116721 NM_021395 ENSMUSG00000032115 Hyou1 AI415631|CBP-140|Cab140|Grp170|Orp150 hypoxia up-regulated 1 protein-coding 5.335 9.365 6.994 3.983 3.962 3.061 3.236 4.121 4.256 4.341 2.406 1.674 2.797 4.848 nan nan 2.809 3.910 2.587 2.713 3.362 nan 3.314 2.809 nan 3435 chr9 21523000 21525415 + 0 NA Intergenic B2_Mm1t|SINE|B2 -1970 NM_206536 382062 Mm.325205 NM_206536 ENSMUSG00000057191 AB124611 Gm1706 cDNA sequence AB124611 protein-coding 1.983 1.180 1.404 1.292 1.840 1.404 0.848 1.835 1.445 1.689 1.293 1.931 1.192 1.217 0.934 1.237 1.158 1.293 4.210 5.041 7.145 3.789 4.763 5.164 1.055 1146 chr15 76022724 76039181 + 0 NA Intergenic Lx8|LINE|L1 -16616 NM_134087 105732 Mm.267178 NM_134087 ENSMUSG00000046761 Fam83h AA409316 family with sequence similarity 83, member H protein-coding 9.264 4.983 1.097 9.099 4.097 2.013 9.209 14.148 4.343 7.148 nan 3.704 8.997 10.181 8.677 9.401 nan 7.915 2.847 1.910 1.647 nan 2.098 1.529 11.915 395 chr11 11662433 11664176 + 0 NA Intergenic Intergenic -22621 NM_009578 22778 Mm.103545 NM_009578 ENSMUSG00000018654 Ikzf1 5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227 IKAROS family zinc finger 1 protein-coding nan 8.922 4.807 1.686 0.742 0.499 0.634 0.477 0.865 1.133 0.784 0.116 0.476 0.779 0.752 1.161 0.688 1.102 0.830 nan 0.406 0.331 0.582 0.188 0.817 89 chr1 88254797 88257477 + 0 NA exon (NM_001281466, exon 35 of 42) exon (NM_001281466, exon 35 of 42) 13271 NR_040291 78605 Mm.384762 NR_040291 6430706D22Rik - RIKEN cDNA 6430706D22 gene ncRNA 9.328 14.515 4.464 7.270 5.233 3.883 8.905 6.942 3.677 7.784 7.320 4.477 6.497 7.313 8.095 12.980 7.359 7.015 4.714 3.385 3.831 6.296 3.562 4.632 12.364 175 chr1 167546579 167549959 + 0 NA Intergenic RMER10A|LTR|ERVL -50093 NM_009107 20183 Mm.3475 NM_009107 ENSMUSG00000015843 Rxrg Nr2b3 retinoid X receptor gamma protein-coding 5.569 0.966 0.246 nan 3.836 2.342 1.425 4.048 nan 1.804 1.035 1.554 nan 2.297 nan 2.157 1.659 2.740 3.433 3.594 3.223 4.809 nan 3.287 nan 584 chr11 98253145 98255748 + 0 NA TTS (NM_001109626) TTS (NM_001109626) -8160 NR_039579 100628613 NR_039579 ENSMUSG00000093176 Mir5119 mmu-mir-5119|mu-mir-5119 microRNA 5119 ncRNA 5.745 nan 0.324 3.960 2.744 1.256 7.602 7.659 2.754 4.790 3.935 2.305 7.370 10.165 8.091 8.325 5.186 5.198 1.599 nan 0.959 1.262 nan nan 10.112 3307 chr8 88005630 88007044 + 0 NA Intergenic L1MA6|LINE|L1 -46742 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 6.209 1.520 0.793 3.020 3.572 1.758 6.408 7.201 2.333 2.110 2.612 0.559 5.636 5.026 4.601 6.118 6.972 3.626 3.636 3.317 2.954 6.230 3.461 3.982 4.388 988 chr14 21621740 21626554 + 0 NA intron (NM_017479, intron 6 of 16) intron (NM_017479, intron 6 of 16) 90429 NM_001013826 435391 Mm.295860 NM_001013826 ENSMUSG00000063821 Dupd1 EG435391 dual specificity phosphatase and pro isomerase domain containing 1 protein-coding 5.003 1.390 0.709 3.547 2.769 1.449 4.688 4.539 nan 3.401 7.025 2.889 4.216 6.795 6.595 6.231 4.058 4.908 1.019 0.686 0.666 nan 0.413 0.434 7.162 35 chr1 38683147 38685587 + 0 NA Intergenic L1M5|LINE|L1 -57123 NM_001290814 16764 Mm.336679 NM_010678 ENSMUSG00000037138 Aff3 3222402O04Rik|A730046J16|LAF-4|Laf4 AF4/FMR2 family, member 3 protein-coding 1.302 1.457 0.475 6.249 0.624 0.602 0.407 0.336 1.081 2.057 0.426 0.327 0.339 0.552 0.869 nan 0.308 2.566 2.530 0.906 1.859 2.882 2.638 5.747 1.636 3584 chrX 100709951 100712126 + 0 NA intron (NM_008446, intron 19 of 29) Lx8b|LINE|L1 -18809 NM_023608 71584 Mm.283495 NM_023608 ENSMUSG00000019359 Gdpd2 9130017L10Rik|Gde3|Obdpf glycerophosphodiester phosphodiesterase domain containing 2 protein-coding 1.393 0.344 0.310 1.038 1.013 0.649 2.198 4.156 1.451 1.864 2.455 1.716 1.866 1.760 1.416 1.853 4.454 1.562 0.478 1.016 0.771 0.505 0.576 0.451 0.776 2453 chr4 120261182 120263007 + 0 NA Intergenic Intergenic 25167 NM_194060 329934 Mm.277090 NM_194060 ENSMUSG00000052135 Foxo6 - forkhead box O6 protein-coding 0.684 3.206 1.194 1.331 0.782 0.069 0.655 1.098 1.614 1.892 0.931 0.329 1.188 2.282 1.002 1.361 1.054 2.620 4.044 2.757 1.614 4.728 3.190 2.151 7.189 2295 chr3 121908932 121915459 + 0 NA Intergenic Intergenic -41131 NM_172525 214137 Mm.229287 NM_172525 ENSMUSG00000039831 Arhgap29 6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1 Rho GTPase activating protein 29 protein-coding 2.532 1.107 0.734 1.393 0.890 0.579 2.158 5.013 1.182 nan 6.875 3.451 3.231 1.592 1.816 nan 2.155 2.354 0.938 0.945 0.703 1.092 nan 0.595 nan 1882 chr2 38373925 38376338 + 0 NA Intergenic Intergenic 23823 NM_010710 16870 Mm.142856 NM_010710 ENSMUSG00000000247 Lhx2 LH2A|Lh-2|Lim2|ap|apterous LIM homeobox protein 2 protein-coding 6.162 1.642 0.214 3.970 3.130 1.906 3.618 5.972 4.610 4.271 1.845 1.842 4.883 4.446 4.913 7.793 3.821 5.996 0.951 0.784 0.447 0.967 0.317 0.239 6.496 1550 chr17 57015854 57017731 + 0 NA Intergenic Intergenic -5504 NM_133801 98053 Mm.24632 NM_133801 ENSMUSG00000002658 Gtf2f1 2810405L04Rik|C76800|RAP74 general transcription factor IIF, polypeptide 1 protein-coding 2.996 nan 0.472 2.276 4.665 4.247 5.175 3.761 3.078 3.114 5.141 2.483 3.484 5.612 3.158 4.228 2.284 3.210 1.182 0.995 0.907 1.271 0.636 0.546 4.321 1454 chr17 27915447 27917465 + 0 NA intron (NM_001286040, intron 1 of 24) intron (NM_001286040, intron 1 of 24) 7150 NM_181413 224650 Mm.32556 NM_181413 ENSMUSG00000024219 Anks1 Anks1a|mKIAA0229 ankyrin repeat and SAM domain containing 1 protein-coding 3.237 1.113 1.034 2.623 2.585 2.689 2.563 3.547 2.610 3.066 5.519 4.183 2.594 4.901 2.423 4.058 3.529 4.111 1.175 1.085 0.799 0.933 1.037 1.113 4.133 1421 chr17 24769005 24775702 + 0 NA Intergenic Lx|LINE|L1 19350 NM_001012402 328779 Mm.328848 NM_001012402 ENSMUSG00000039628 Hs3st6 3-OST-6 heparan sulfate (glucosamine) 3-O-sulfotransferase 6 protein-coding 5.539 2.747 0.921 7.779 2.292 1.621 8.054 4.713 6.281 8.308 2.601 1.644 6.649 8.990 7.887 10.324 5.365 8.356 2.548 1.057 0.777 2.282 1.186 1.377 11.932 2827 chr6 15133858 15138787 + 0 NA intron (NM_053242, intron 3 of 18) B2_Mm2|SINE|B2 -49184 NM_212435 114142 Mm.332919 NM_053242 ENSMUSG00000029563 Foxp2 2810043D05Rik|AI449000|CAG-16|D0Kist7 forkhead box P2 protein-coding 3.017 nan 0.527 1.879 3.598 1.278 3.778 1.098 nan 2.017 0.418 0.851 7.518 4.124 4.129 3.329 6.954 6.436 3.740 0.628 0.274 1.671 4.999 2.717 1.819 665 chr11 116948337 116949768 + 0 NA intron (NM_172948, intron 8 of 16) intron (NM_172948, intron 8 of 16) 30189 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 5.619 2.781 1.152 5.008 3.293 1.824 2.787 2.774 4.082 3.222 1.084 1.063 2.808 3.195 3.134 3.879 2.834 4.290 1.080 nan 0.871 1.115 0.652 0.518 4.601 3021 chr6 134093530 134095325 + 0 NA intron (NM_001303102, intron 2 of 8) intron (NM_001303102, intron 2 of 8) 58727 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 5.032 3.129 1.253 3.720 2.598 0.829 4.224 4.998 3.132 3.410 3.194 2.592 2.094 3.852 5.303 4.987 3.497 4.430 2.824 1.572 1.047 2.227 2.062 1.465 4.855 2758 chr5 124890941 124905277 + 0 NA Intergenic Intergenic 35404 NM_001081750 269704 Mm.138617 NM_001081750 ENSMUSG00000079215 Zfp664 AW060232|D930038J03Rik|ZFOC1|Znf664 zinc finger protein 664 protein-coding 4.447 2.858 1.232 3.897 3.820 2.821 5.073 5.671 2.713 nan 3.270 2.597 4.248 6.498 nan 4.561 nan nan nan 2.136 2.443 4.687 nan 2.498 nan 1476 chr17 31962753 31965080 + 0 NA intron (NM_028902, intron 7 of 7) L1_Mur2|LINE|L1 70592 NM_028902 74377 Mm.75856 NM_028902 ENSMUSG00000002076 Hsf2bp 4932437G14Rik heat shock transcription factor 2 binding protein protein-coding 3.550 4.166 1.683 5.675 4.687 1.962 2.682 2.508 4.008 7.105 9.102 2.237 2.065 5.499 3.888 5.124 2.687 5.648 2.091 1.352 1.209 4.182 1.347 1.149 6.165 2533 chr4 140622743 140623931 + 0 NA intron (NM_001290803, intron 1 of 28) intron (NM_001290803, intron 1 of 28) 25419 NM_001112723 72754 Mm.29329 NM_172415 ENSMUSG00000040964 Arhgef10l 2810441C07Rik Rho guanine nucleotide exchange factor (GEF) 10-like protein-coding nan 1.060 0.230 2.388 0.736 0.487 2.129 1.628 nan 1.068 0.208 0.481 0.992 3.732 3.080 2.498 0.447 2.798 3.063 0.507 0.762 3.649 1.149 0.488 3.895 1207 chr15 99124331 99126750 + 0 NA Intergenic Intergenic -1305 NM_139140 72572 Mm.276650 NM_139140 ENSMUSG00000051934 Spats2 2700012F11Rik|59kDa|Scr59|p59 spermatogenesis associated, serine-rich 2 protein-coding 5.742 4.543 2.833 5.536 4.208 3.737 6.531 7.311 3.402 5.450 1.740 3.025 6.428 7.581 5.537 6.052 6.839 5.376 4.073 2.506 3.992 4.132 3.327 4.872 6.904 2641 chr5 31453487 31457491 + 0 NA intron (NM_172993, intron 2 of 13) intron (NM_172993, intron 2 of 13) 3053 NM_172993 269639 Mm.259127 NM_172993 ENSMUSG00000062761 Zfp512 2500002M11Rik|AI450173|D230008H22|Znf512 zinc finger protein 512 protein-coding 6.025 3.314 1.605 nan 2.713 1.630 6.468 7.184 4.523 3.861 2.038 1.973 5.104 6.265 7.201 6.412 4.154 6.651 1.888 1.019 1.237 3.171 1.459 1.389 6.937 2670 chr5 64769080 64773768 + 0 NA Intergenic MER47B|DNA|TcMar-Tigger -32099 NM_008453 16599 Mm.392759 NM_008453 ENSMUSG00000029178 Klf3 9930027G08Rik|AL024007|Bklf|Tef-2 Kruppel-like factor 3 (basic) protein-coding 6.439 3.567 1.418 5.700 4.495 2.515 4.649 4.339 3.618 3.865 4.357 2.931 2.980 4.734 4.387 4.910 4.193 4.268 1.608 1.361 0.986 nan 1.361 1.570 4.224 3007 chr6 125298503 125306998 + 0 NA Intergenic Intergenic 11120 NM_010736 17000 Mm.3122 NM_010736 ENSMUSG00000030339 Ltbr AI256028|CD18|LTbetaR|Ltar|TNF-R-III|TNFCR|TNFR-RP|TNFR2-RP|TNFRrp|Tnfbr|Tnfrsf3 lymphotoxin B receptor protein-coding 11.067 nan 1.519 10.451 7.192 3.823 10.635 12.354 5.617 7.889 7.246 3.326 7.846 11.916 9.114 nan 7.791 8.005 4.554 4.247 2.995 5.486 4.809 3.408 12.383 1584 chr17 84831018 84836279 + 0 NA Intergenic Intergenic -42862 NM_028233 72416 Mm.217027 NM_028233 ENSMUSG00000024120 Lrpprc 3110001K13Rik|C76645|Gp130|Lrp130|Lsfc leucine-rich PPR-motif containing protein-coding 1.094 7.844 5.787 1.572 1.049 0.657 1.091 0.984 nan 1.065 0.486 0.309 0.973 1.005 1.013 1.452 1.387 1.256 0.722 0.703 0.761 0.614 0.398 0.386 1.174 904 chr13 46789886 46795805 + 0 NA intron (NM_010617, intron 21 of 37) MTD|LTR|ERVL-MaLR -64996 NM_175749 218210 Mm.255398 NM_175749 ENSMUSG00000021374 Nup153 B130015D15Rik|C88147 nucleoporin 153 protein-coding 5.068 1.347 0.988 nan 1.970 1.310 4.261 3.022 3.278 2.894 2.073 0.954 4.185 3.245 3.009 3.123 3.222 4.974 1.128 nan 0.470 0.538 0.649 0.402 nan 930 chr13 55106077 55107611 + 0 NA intron (NM_012017, intron 1 of 6) intron (NM_012017, intron 1 of 6) 1535 NM_012017 26919 Mm.22795 NM_012017 ENSMUSG00000021481 Zfp346 Jaz|Znf346 zinc finger protein 346 protein-coding 2.750 0.742 0.086 1.226 0.424 0.242 2.817 6.359 1.913 3.262 0.576 0.858 3.902 4.582 2.124 3.891 1.485 2.473 2.147 0.640 1.215 2.800 0.996 0.859 5.615 1675 chr18 73730599 73735414 + 0 NA Intergenic L1MB8|LINE|L1 21473 NM_053255 114615 Mm.50642 NM_053255 ENSMUSG00000036941 Elac1 2610018O07Rik|8430417G19Rik elaC ribonuclease Z 1 protein-coding 9.974 10.643 3.092 8.368 6.086 4.632 7.886 8.477 5.109 nan 5.186 3.091 7.589 9.215 7.702 8.915 6.749 9.224 4.790 nan 2.855 4.685 3.311 4.584 15.264 649 chr11 115990712 115993738 + 0 NA intron (NM_001005608, intron 23 of 39) intron (NM_001005608, intron 23 of 39) 17500 NM_133663 192897 Mm.213873 NM_133663 ENSMUSG00000020758 Itgb4 AA407042|C230078O20|CD104 integrin beta 4 protein-coding 6.500 12.068 3.253 10.918 5.467 4.635 4.935 5.865 5.833 8.897 6.501 3.765 5.494 7.081 8.011 8.431 4.345 7.955 4.146 nan 3.853 5.247 2.851 4.036 9.745 2972 chr6 108774569 108778060 + 0 NA Intergenic Intergenic -6745 NM_026011 67166 Mm.271178 NM_026011 ENSMUSG00000030105 Arl8b 2610313E07Rik|3100002J04Rik|Arl10c|gie1 ADP-ribosylation factor-like 8B protein-coding 3.177 9.011 5.383 2.119 2.312 1.460 1.988 2.483 2.085 2.433 1.235 1.032 2.194 3.226 3.304 3.716 2.667 3.304 nan 1.137 1.057 1.038 0.729 0.616 2.029 2150 chr3 21532504 21534467 + 0 NA Intergenic RMER17C-int|LTR|ERVK -543167 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 1.411 nan 0.629 3.762 2.383 1.367 4.881 1.319 4.697 5.933 4.180 2.771 7.127 6.393 3.472 1.239 1.323 4.470 0.742 0.466 0.263 0.550 0.401 0.345 2.047 1318 chr16 24162942 24175765 + 0 NA Intergenic B4A|SINE|B4 -180741 NM_009744 12053 Mm.347398 NM_009744 ENSMUSG00000022508 Bcl6 Bcl5 B cell leukemia/lymphoma 6 protein-coding 1.398 9.321 5.014 1.296 0.801 0.396 1.058 1.870 1.223 1.245 1.383 1.402 nan 1.390 1.666 nan 1.235 2.012 0.919 0.607 0.415 0.950 nan 0.622 1.873 648 chr11 115946822 115950725 + 0 NA intron (NM_020483, intron 3 of 10) intron (NM_020483, intron 3 of 10) 15114 NM_020483 57230 Mm.267810 NM_020483 ENSMUSG00000020755 Sap30bp 2700016D05Rik|Hcngp SAP30 binding protein protein-coding 7.240 5.375 3.145 4.984 3.976 2.028 4.964 6.663 4.484 nan 3.977 2.474 6.057 7.529 5.557 6.976 5.940 nan 2.978 nan 3.128 3.502 3.477 2.591 5.396 642 chr11 112961090 112965201 + 0 NA Intergenic Intergenic -138017 NR_130164 76393 Mm.86795 NR_130164 1700012H19Rik - RIKEN cDNA 1700012H19 gene ncRNA 5.317 2.639 1.055 nan 3.246 2.060 8.589 6.921 nan 6.489 3.664 2.336 6.077 6.760 7.166 7.089 5.799 5.716 2.590 2.412 1.343 nan 2.080 1.729 6.654 2006 chr2 152182942 152190509 + 0 NA Intergenic Intergenic -40115 NM_007788 12995 Mm.23692 NM_007788 ENSMUSG00000074698 Csnk2a1 Csnk2a1-rs4 casein kinase 2, alpha 1 polypeptide protein-coding 3.525 1.352 0.770 2.100 2.410 1.705 3.696 8.402 2.207 1.869 1.069 1.025 3.638 3.193 3.018 4.411 3.859 2.345 nan 1.418 1.907 2.534 2.045 1.827 3.386 2245 chr3 94787593 94789591 + 0 NA Intergenic Intergenic -2077 NM_001037711 70737 Mm.87634 NM_001037711 ENSMUSG00000068876 Cgn 6330408J11Rik cingulin protein-coding 2.241 1.225 0.691 3.509 2.241 1.409 3.726 3.778 2.118 2.624 nan 0.541 4.303 6.359 3.857 5.297 3.643 3.705 0.784 0.478 0.203 0.827 0.491 0.160 6.071 3178 chr7 125629340 125641671 + 0 NA Intergenic Intergenic 32076 NM_021887 60504 Mm.155643 NM_021887 ENSMUSG00000030745 Il21r NILR interleukin 21 receptor protein-coding 5.139 1.819 0.541 6.308 3.292 1.601 6.126 9.011 4.667 5.522 3.695 3.638 5.964 5.622 nan 6.147 4.058 6.010 1.233 1.030 0.911 1.533 0.919 0.828 5.102 1764 chr19 28749606 28755162 + 0 NA Intergenic Intergenic -72307 NM_175459 226075 Mm.223508 NM_175459 ENSMUSG00000052942 Glis3 4833409N03Rik|E330013K21Rik GLIS family zinc finger 3 protein-coding 4.714 1.795 0.659 nan 1.145 0.745 1.167 9.276 2.231 3.268 nan 2.116 4.223 5.071 3.942 3.731 2.260 4.004 nan 0.651 0.865 2.512 nan 1.584 7.126 3348 chr8 108787400 108797623 + 0 NA exon (NM_007496, exon 2 of 10) exon (NM_007496, exon 2 of 10) 77867 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 0.901 0.847 0.411 0.824 0.385 0.246 1.106 3.113 1.686 1.065 0.560 1.041 1.149 1.371 1.780 2.335 0.831 2.324 4.340 1.957 1.258 7.983 2.688 1.907 1.842 2130 chr2 180935684 180937856 + 0 NA intron (NM_021426, intron 5 of 6) intron (NM_021426, intron 5 of 6) 7747 NM_001163247 329581 Mm.187879 NM_001163247 ENSMUSG00000038840 Birc7 E130019N06|KIAP|Livin|ML-IAP baculoviral IAP repeat-containing 7 (livin) protein-coding 6.540 1.567 1.187 3.684 4.007 2.014 4.344 9.991 3.533 5.524 1.399 0.373 5.168 10.377 3.704 5.354 6.325 5.107 0.516 0.832 0.692 0.756 0.640 0.494 6.840 1908 chr2 73287434 73298695 + 0 NA intron (NM_025854, intron 7 of 9) B4A|SINE|B4 19528 NM_025854 66935 Mm.292140 NM_025854 ENSMUSG00000041777 Cir1 1700023B02Rik|2810021A19Rik|Cicr|Cir corepressor interacting with RBPJ, 1 protein-coding nan 12.825 6.136 nan 1.330 0.547 0.931 1.189 1.335 1.398 0.721 0.536 0.894 0.995 nan nan 1.280 1.547 0.808 1.538 0.858 0.651 0.698 0.475 nan 1028 chr14 76269505 76271403 + 0 NA Intergenic MIRb|SINE|MIR -144507 NM_001310646 21807 Mm.153272 NM_009366 ENSMUSG00000022010 Tsc22d1 AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22 TSC22 domain family, member 1 protein-coding 2.023 0.836 0.610 1.089 1.592 1.286 4.049 3.108 1.607 2.160 2.258 1.311 2.751 3.775 3.127 2.480 2.868 1.111 0.923 0.655 1.229 0.700 1.317 0.923 2.676 1589 chr17 87700776 87706985 + 0 NA intron (NM_008628, intron 8 of 15) intron (NM_008628, intron 8 of 15) 31323 NM_008628 17685 Mm.4619 NM_008628 ENSMUSG00000024151 Msh2 AI788990 mutS homolog 2 protein-coding 8.901 1.992 1.292 6.241 6.410 3.696 12.014 7.809 6.470 8.176 8.653 2.898 8.669 12.633 9.454 12.105 7.930 8.565 2.913 2.729 2.189 2.131 2.517 2.102 14.017 198 chr1 179370571 179377762 + 0 NA intron (NM_027188, intron 5 of 11) intron (NM_027188, intron 5 of 11) 143837 NM_027188 69726 Mm.222338 NM_027188 ENSMUSG00000055067 Smyd3 2410008A19Rik|Zmynd1 SET and MYND domain containing 3 protein-coding 6.444 3.535 1.175 4.745 4.499 2.402 5.062 4.340 4.365 8.087 3.494 2.488 5.181 nan 5.605 6.978 3.963 6.681 7.785 4.693 3.524 9.317 3.580 4.198 6.611 2792 chr5 139846171 139866248 + 0 NA Intergenic L1MB7|LINE|L1 -29366 NM_025604 66506 Mm.29070 NM_025604 ENSMUSG00000029551 Psmg3 1810042K04Rik|4930403H09Rik|AI303239 proteasome (prosome, macropain) assembly chaperone 3 protein-coding 8.439 5.217 1.369 10.408 4.126 2.578 6.241 6.276 5.664 7.236 3.140 2.095 5.638 8.398 7.961 8.685 4.986 8.298 3.575 2.283 2.199 4.636 nan 1.972 9.286 2550 chr4 141776826 141778630 + 0 NA intron (NM_172338, intron 4 of 14) B2_Mm2|SINE|B2 12916 NM_172338 214063 Mm.39102 NM_172338 ENSMUSG00000040697 Dnajc16 2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962 DnaJ heat shock protein family (Hsp40) member C16 protein-coding 2.798 1.193 0.210 2.763 0.427 0.186 3.019 2.389 nan 1.850 1.419 1.323 2.603 1.672 3.315 4.045 1.802 4.715 0.895 0.339 0.164 1.219 nan 0.416 5.386 1718 chr19 5477237 5478151 + 0 NA intron (NM_001164352, intron 4 of 9) intron (NM_001164352, intron 4 of 9) 2959 NM_001164352 58859 Mm.276367 NM_021474 ENSMUSG00000024909 Efemp2 0610011K11Rik|Fbln4|MBP1 epidermal growth factor-containing fibulin-like extracellular matrix protein 2 protein-coding 1.414 0.470 0.389 2.012 1.060 2.110 2.081 2.242 2.112 2.839 1.281 1.033 1.563 4.566 2.293 1.416 1.795 2.238 1.258 1.045 1.067 5.215 1.132 1.169 3.605 1098 chr15 57721234 57725396 + 0 NA intron (NM_199449, intron 1 of 3) ORSL|DNA|hAT-Tip100 28648 NM_199449 387609 Mm.36557 NM_199449 ENSMUSG00000071757 Zhx2 Afr-1|Afr1|Raf|mKIAA0854 zinc fingers and homeoboxes 2 protein-coding 7.526 10.172 4.078 6.250 3.755 1.219 6.140 9.115 nan nan 3.445 2.219 7.598 7.700 6.863 6.596 6.611 6.055 4.047 4.155 1.958 4.030 3.526 2.469 6.793 1059 chr15 10612068 10613473 + 0 NA intron (NM_001166408, intron 3 of 17) intron (NM_001166408, intron 3 of 17) 12477 NR_033541 100038608 Mm.450744 NR_033541 Gm10389 ENSMUSG00000072658 predicted gene 10389 ncRNA 3.985 1.486 1.381 0.914 1.827 1.605 1.887 5.269 3.416 2.806 2.578 1.421 2.009 3.117 2.194 2.712 3.262 1.845 0.625 0.985 0.459 0.382 0.491 0.193 2.557 2683 chr5 91117798 91119726 + 0 NA Intergenic Intergenic -20837 NM_009704 11839 Mm.8039 NM_009704 ENSMUSG00000029378 Areg AR|Mcub|Sdgf amphiregulin protein-coding 4.363 1.409 0.764 2.518 3.767 2.392 4.971 5.168 3.798 4.412 10.700 5.639 5.642 8.285 6.405 4.815 2.833 3.654 1.446 1.789 0.720 2.161 0.866 0.981 3.665 3003 chr6 124989039 124991816 + 0 NA Intergenic Intergenic -6293 NM_175696 319352 Mm.295327 NM_175696 ENSMUSG00000030329 Pianp AI255183|AU067746|C530028O21Rik|Panp PILR alpha associated neural protein protein-coding 7.645 nan 2.482 3.944 6.551 5.739 9.858 10.549 3.855 3.538 3.563 2.778 5.278 5.712 6.821 8.889 7.597 4.866 3.047 3.100 2.663 2.905 3.974 3.340 4.719 3349 chr8 108800277 108805403 + 0 NA intron (NM_007496, intron 3 of 9) intron (NM_007496, intron 3 of 9) 88196 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 3.242 0.877 0.434 1.071 1.163 0.651 2.939 8.324 3.444 2.380 1.959 3.722 4.297 4.493 4.701 5.715 2.809 4.318 4.185 2.206 1.176 5.162 3.294 2.196 3.298 913 chr13 48476813 48481753 + 0 NA Intergenic Intergenic 34127 NM_001164575 67911 Mm.251375 NM_026450 ENSMUSG00000050954 Zfp169 1700025J14Rik|4930429A13Rik|BE688704 zinc finger protein 169 protein-coding nan 0.568 0.252 nan 0.139 0.138 0.358 0.342 0.251 0.227 0.320 0.312 0.127 0.316 0.243 0.481 0.277 nan 7.646 nan 3.221 10.345 4.436 3.344 nan 2019 chr2 155395646 155403210 + 0 NA intron (NM_001242558, intron 11 of 12) intron (NM_001242558, intron 11 of 12) 17572 NM_178111 68728 Mm.293605 NM_178111 ENSMUSG00000038375 Trp53inp2 1110029F20Rik|Tp53inp2 transformation related protein 53 inducible nuclear protein 2 protein-coding nan 0.972 0.556 3.465 3.005 2.007 3.058 3.751 nan nan 1.809 2.147 nan nan 3.784 3.692 3.259 nan nan 1.030 0.705 1.913 0.911 0.581 nan 2665 chr5 53601068 53607026 + 0 NA intron (NM_001277116, intron 3 of 12) intron (NM_001277116, intron 3 of 12) 13561 NM_001080927 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 3.146 0.581 0.241 1.694 1.674 0.875 4.243 4.550 2.418 4.159 1.219 1.454 2.838 4.114 4.157 nan 3.403 3.242 6.227 3.890 3.683 6.257 6.208 5.898 5.206 202 chr1 179553078 179554250 + 0 NA intron (NM_146105, intron 1 of 10) intron (NM_146105, intron 1 of 10) 7135 NM_146105 226744 Mm.87662 NM_146105 ENSMUSG00000038949 Cnst 9630058J23Rik consortin, connexin sorting protein protein-coding 3.277 1.595 0.337 4.069 2.688 1.056 5.182 3.844 4.109 2.742 4.545 4.201 4.156 4.269 6.049 5.543 1.959 3.989 1.103 0.863 0.671 2.293 0.751 0.690 3.471 361 chr10 127360805 127363181 + 0 NA intron (NM_010565, intron 1 of 1) B2_Mm2|SINE|B2 8555 NM_010565 16325 Mm.2594 NM_010565 ENSMUSG00000025405 Inhbc - inhibin beta-C protein-coding 3.850 nan 0.697 2.132 1.699 0.931 3.429 3.628 2.129 1.998 8.513 3.586 3.627 2.546 2.879 2.915 4.221 3.116 1.536 1.601 0.886 2.594 nan 1.040 2.154 2468 chr4 128404035 128408827 + 0 NA intron (NM_001281955, intron 22 of 70) intron (NM_001281955, intron 22 of 70) 145387 NR_130980 75242 Mm.488254 NR_130980 Hmgb4os 4930546G22Rik high-mobility group box 4, opposite strand ncRNA 8.756 9.636 2.154 11.237 6.146 3.455 10.618 8.694 7.472 12.236 9.202 5.709 8.959 11.451 10.528 11.287 4.273 10.246 6.886 3.718 2.696 10.054 4.864 4.291 13.033 184 chr1 168308361 168310947 + 0 NA intron (NM_008783, intron 2 of 7) intron (NM_008783, intron 2 of 7) 122515 NM_001291508 18514 Mm.43358 NM_008783 ENSMUSG00000052534 Pbx1 2310056B04Rik|D230003C07Rik|Pbx-1 pre B cell leukemia homeobox 1 protein-coding 8.805 10.442 3.246 nan 4.497 3.292 6.950 5.680 nan 9.833 6.045 3.589 nan 7.110 nan 12.325 5.601 8.071 4.213 3.004 2.991 nan nan 3.586 13.258 3282 chr8 74735891 74738181 + 0 NA Intergenic Intergenic -136138 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 0.921 nan 0.973 1.220 1.429 0.846 nan 1.700 nan 1.003 4.732 2.697 0.874 1.167 0.991 nan 1.300 0.944 4.789 5.723 6.981 4.974 7.173 6.689 nan 776 chr12 76408956 76411930 + 0 NA Intergenic B3|SINE|B2 6073 NM_008301 15512 Mm.296181 NM_008301 ENSMUSG00000059970 Hspa2 70kDa|HSP70.2|HSP70A2|Hsp70-2 heat shock protein 2 protein-coding 4.109 2.715 0.631 6.832 1.375 0.369 1.748 1.673 2.261 2.535 1.095 0.945 0.994 nan 1.864 3.317 1.618 3.355 2.971 0.919 1.192 4.673 0.922 0.694 4.095 2183 chr3 51606237 51617633 + 0 NA Intergenic Intergenic -49244 NM_174995 211666 Mm.24679 NM_174995 ENSMUSG00000074604 Mgst2 GST2|MGST-II microsomal glutathione S-transferase 2 protein-coding 0.769 0.643 0.438 0.891 0.473 0.239 0.522 0.545 0.674 0.494 0.476 0.424 0.374 0.527 0.572 0.770 0.623 1.003 5.098 3.479 2.485 6.854 4.137 2.878 0.746 1819 chr2 17975961 17981497 + 0 NA Intergenic RLTR13D3|LTR|ERVK 18229 NM_026627 68231 Mm.23887 NM_026627 ENSMUSG00000062651 H2afb1 1700113O17Rik|H2A.Bbd|H2al2|TSEG-1|Tseg1 H2A histone family, member B1 protein-coding 7.917 8.313 3.557 8.411 4.921 2.868 10.469 10.817 6.416 10.827 9.011 4.710 9.534 11.768 9.503 10.472 12.212 9.161 5.826 3.677 3.222 6.111 4.287 3.690 9.483 1459 chr17 28149428 28152380 + 0 NA intron (NM_001004366, intron 1 of 21) intron (NM_001004366, intron 1 of 21) 8378 NM_001004366 268935 Mm.258491 NM_001004366 ENSMUSG00000038677 Scube3 CEGF3|D030038I21Rik signal peptide, CUB domain, EGF-like 3 protein-coding 8.303 4.746 1.790 7.551 4.899 2.382 9.231 5.837 6.047 6.185 6.834 3.413 6.066 7.519 7.470 9.718 6.613 8.361 0.740 1.606 1.774 1.077 0.729 0.857 10.876 1570 chr17 71517978 71520313 + 0 NA intron (NM_023294, intron 5 of 16) intron (NM_023294, intron 5 of 16) 7712 NM_023294 67052 Mm.225956 NM_023294 ENSMUSG00000024056 Ndc80 2610020P18Rik|AV139730|HEC|HEC1|Kntc2 NDC80 kinetochore complex component protein-coding 2.831 1.362 1.389 4.427 2.725 1.206 2.839 2.853 nan 2.846 0.974 0.494 2.430 4.088 1.977 2.626 1.708 3.720 0.596 0.556 0.309 0.488 0.544 0.261 1.878 2673 chr5 67066495 67068266 + 0 NA Intergenic RMER6A|LTR|ERVK 31746 NM_008888 18935 Mm.62505 NM_008888 ENSMUSG00000012520 Phox2b Dilp1|NBPhox|Pmx2b|Px2b paired-like homeobox 2b protein-coding 0.748 0.658 0.494 1.107 0.797 0.440 1.060 0.426 0.607 0.988 0.321 0.055 0.412 0.699 0.523 0.997 0.314 1.268 6.096 3.226 2.333 5.108 3.859 3.893 1.055 1984 chr2 144092398 144097092 + 0 NA Intergenic Intergenic 61643 NM_207275 403171 Mm.389362 NM_207275 ENSMUSG00000037307 Banf2 4930517K23Rik|Baf-L|Baf-like|Gm115 barrier to autointegration factor 2 protein-coding 8.235 12.992 5.482 7.422 3.638 2.396 6.072 7.476 5.715 7.994 4.540 3.743 6.729 6.126 7.131 8.589 6.422 8.554 nan 2.963 2.948 4.320 2.376 3.404 8.549 1269 chr16 10979293 10984261 + 0 NA intron (NM_019980, intron 1 of 3) intron (NM_019980, intron 1 of 3) 11344 NM_019980 56722 Mm.294753 NM_019980 ENSMUSG00000022500 Litaf 3222402J11Rik|C85531|N4WBP3|TBX1 LPS-induced TN factor protein-coding 5.476 3.185 1.497 3.025 2.537 1.759 nan 4.013 3.676 3.320 3.824 3.353 4.122 3.557 2.797 4.292 2.763 4.670 3.308 2.760 3.379 3.959 3.414 3.074 3.598 181 chr1 167927564 167929333 + 0 NA Intergenic Intergenic 238890 NM_033652 110648 Mm.330081 NM_033652 ENSMUSG00000026686 Lmx1a Lmx1.1|dr|dreher|sst LIM homeobox transcription factor 1 alpha protein-coding 1.843 4.643 2.528 3.625 1.175 0.361 0.660 1.672 nan 1.792 1.901 1.596 2.509 1.594 nan 2.006 1.482 3.089 1.058 0.792 0.416 nan nan 0.162 1.040 412 chr11 51075671 51078857 + 0 NA Intergenic Intergenic -7823 NR_045865 619293 Mm.387061 NM_001033798 ENSMUSG00000072982 9230009I02Rik - RIKEN cDNA 9230009I02 gene ncRNA 11.666 12.703 5.309 10.293 8.499 6.638 8.338 9.269 7.645 10.753 6.874 4.069 8.986 12.242 9.481 11.543 7.674 8.800 6.134 4.365 5.321 6.743 nan 5.311 12.133 307 chr10 80595591 80605983 + 0 NA Intergenic ZP3AR|Satellite|Satellite -2093 NM_001100606 100113398 Mm.273170 NM_001100606 ENSMUSG00000035370 Adat3 A430024H01Rik adenosine deaminase, tRNA-specific 3 protein-coding 7.933 9.257 3.492 9.329 4.744 3.936 6.685 7.030 4.880 9.031 5.993 4.820 5.539 8.141 nan 8.188 5.985 6.857 nan 1.629 3.125 3.475 2.177 3.141 11.460 3472 chr9 37165784 37168613 + 0 NA Intergenic B3|SINE|B2 -19876 NM_001029838 208076 Mm.260335 NM_148950 ENSMUSG00000035934 Pknox2 D230005H23Rik|Prep2 Pbx/knotted 1 homeobox 2 protein-coding 4.666 1.432 1.003 3.783 1.604 0.453 3.102 1.377 3.207 3.255 0.849 0.617 4.621 3.815 3.740 5.903 3.731 6.023 nan 0.878 0.393 0.420 0.609 0.489 6.316 1671 chr18 69586675 69589242 + 0 NA intron (NM_013685, intron 8 of 19) intron (NM_013685, intron 8 of 19) 242237 NM_001083967 21413 Mm.4269 NM_013685 ENSMUSG00000053477 Tcf4 5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19 transcription factor 4 protein-coding 3.563 0.879 0.576 5.154 1.575 0.489 1.009 0.986 2.615 2.600 1.773 1.463 1.050 1.569 1.810 2.400 1.562 3.734 1.842 1.179 0.839 2.801 0.704 0.735 1.812 2041 chr2 158560059 158562257 + 0 NA Intergenic Intergenic 48362 NM_001145015 545481 Mm.125371 NM_001145015 ENSMUSG00000074625 Arhgap40 C20orf95|Gm14203|OTTMUSG00000015933 Rho GTPase activating protein 40 protein-coding 3.240 17.607 6.512 4.503 1.460 0.812 0.729 0.887 2.138 2.569 1.118 0.635 nan nan 2.225 2.291 1.192 nan nan 1.567 1.155 1.525 0.711 0.711 2.757 1467 chr17 28484971 28489543 + 0 NA Intergenic B2_Mm2|SINE|B2 -1108 NM_010220 14229 Mm.276405 NM_010220 ENSMUSG00000024222 Fkbp5 D17Ertd592e|Dit1|FKBP-5|FKBP51 FK506 binding protein 5 protein-coding 6.009 2.721 0.566 7.941 4.252 2.907 7.717 6.684 3.924 8.903 5.804 3.184 5.652 8.297 8.284 9.269 5.532 7.795 1.957 1.167 1.469 3.335 0.978 1.530 15.307 1463 chr17 28359666 28361113 + 0 NA intron (NM_021478, intron 8 of 14) MLT1F|LTR|ERVL-MaLR 4754 NM_021478 22157 Mm.42102 NM_021478 ENSMUSG00000037446 Tulp1 Tulp1l tubby like protein 1 protein-coding 4.539 8.550 3.159 5.900 2.715 0.760 6.437 5.207 3.748 6.321 6.133 2.988 4.578 4.165 6.087 6.201 3.730 4.765 5.341 2.538 3.559 5.937 4.749 5.722 9.227 830 chr12 113042362 113049971 + 0 NA intron (NM_001291444, intron 3 of 23) MTE2b|LTR|ERVL-MaLR -28336 NM_029381 75671 Mm.23377 NM_029381 ENSMUSG00000012211 Tex22 1700028O09Rik|AV210422|Tep22 testis expressed gene 22 protein-coding nan 1.805 0.646 1.127 0.485 0.209 0.934 1.145 0.831 0.685 0.656 0.384 0.770 0.799 1.212 nan 1.121 0.812 3.796 1.875 2.901 5.816 1.735 2.236 nan 154 chr1 137120667 137126421 + 0 NA Intergenic RMER13B|LTR|ERVK -163096 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 6.794 0.742 0.555 nan 2.980 1.484 6.065 6.509 4.843 5.867 3.683 3.612 8.018 5.609 5.330 nan 5.895 7.210 6.602 2.718 1.918 6.938 4.372 2.958 nan 2893 chr6 72363491 72372949 + 0 NA 3' UTR (NM_001080742, exon 4 of 4) 3' UTR (NM_001080742, exon 4 of 4) -1248 NM_001331167 66510 Mm.170023 NM_025607 ENSMUSG00000055850 Rnf181 1700047F16Rik|2500002L14Rik|6230415N01Rik|C77350 ring finger protein 181 protein-coding 5.939 1.837 1.087 3.571 3.434 2.461 9.142 9.678 3.540 4.013 2.038 1.442 8.194 9.682 6.712 9.013 7.479 5.432 1.691 1.486 1.062 1.384 2.120 1.594 5.663 2062 chr2 163364559 163367846 + 0 NA intron (NM_021566, intron 2 of 5) Tigger7|DNA|TcMar-Tigger 31771 NM_021566 59091 Mm.34459 NM_021566 ENSMUSG00000017817 Jph2 1110002E14Rik|JP-2|Jp2 junctophilin 2 protein-coding 1.967 0.855 0.436 1.011 0.459 0.148 3.611 6.036 0.880 0.646 0.300 0.338 2.678 2.790 3.632 5.468 1.955 2.202 nan 0.542 0.233 1.117 1.202 0.803 1.524 1101 chr15 58020771 58028693 + 0 NA intron (NM_029418, intron 5 of 5) intron (NM_029418, intron 5 of 5) 9562 NM_029418 75758 Mm.455792 NM_029418 ENSMUSG00000101892 9130401M01Rik AI849328 RIKEN cDNA 9130401M01 gene protein-coding 0.829 1.095 0.660 nan 0.274 0.235 nan nan nan nan 0.496 0.417 0.392 0.506 0.788 nan 0.880 0.606 5.747 2.964 2.102 5.692 3.686 2.798 0.575 2801 chr5 147103915 147107813 + 0 NA intron (NM_181730, intron 2 of 2) intron (NM_181730, intron 2 of 2) 28518 NM_009087 20018 Mm.317557 NM_009087 ENSMUSG00000029642 Polr1d 1110003G10Rik|AC19|RPA16|Rpo1-3 polymerase (RNA) I polypeptide D protein-coding 7.418 1.059 0.545 4.527 3.633 2.374 10.197 6.349 6.573 6.675 1.145 0.982 9.725 8.560 10.721 9.917 7.708 8.588 2.075 1.678 1.019 1.702 1.923 1.781 7.504 704 chr11 120681749 120687137 + 0 NA intron (NM_198223, intron 3 of 14) intron (NM_198223, intron 3 of 14) 7782 NM_001164224 68938 Mm.294020 NM_026877 ENSMUSG00000025142 Aspscr1 1190006K01Rik|ASPC|ASPCR1|ASPL|ASPS|RCC17|TUG alveolar soft part sarcoma chromosome region, candidate 1 (human) protein-coding 5.450 nan 1.452 6.763 2.002 0.957 5.417 6.300 4.937 10.376 3.409 1.818 6.825 7.690 8.414 9.784 3.488 9.097 3.786 nan 2.001 5.282 1.738 2.134 12.918 326 chr10 87866468 87877766 + 0 NA intron (NM_001314010, intron 3 of 4) intron (NM_001314010, intron 3 of 4) 11006 NM_001111276 16000 Mm.268521 NM_010512 ENSMUSG00000020053 Igf1 C730016P09Rik|Igf-1|Igf-I insulin-like growth factor 1 protein-coding nan 9.952 6.756 1.143 1.713 1.139 0.805 1.304 1.239 1.125 1.343 0.821 0.711 nan 1.034 1.280 1.242 nan 0.671 0.776 0.781 nan nan 0.471 1.121 1462 chr17 28344275 28346805 + 0 NA intron (NM_011566, intron 1 of 12) intron (NM_011566, intron 1 of 12) 4806 NM_001204156 21678 Mm.6655 NM_011566 ENSMUSG00000002249 Tead3 DTEF-1|ETFR-1|TEAD-3|TEF-5|Tcf13r2 TEA domain family member 3 protein-coding 6.894 17.899 4.833 7.322 1.799 1.045 4.355 5.774 3.269 5.617 8.993 3.408 4.701 4.262 6.023 7.047 4.387 4.302 3.483 2.022 2.187 5.268 1.035 1.392 9.714 1165 chr15 78938150 78940509 + 0 NA intron (NM_133800, intron 4 of 5) ID_B1|SINE|B4 4396 NM_133800 97961 Mm.157216 NM_133800 ENSMUSG00000033099 Nol12 C78541|Nop25 nucleolar protein 12 protein-coding 7.720 9.680 1.932 8.345 4.682 4.663 8.720 12.313 3.777 10.982 8.380 3.811 6.604 8.427 7.309 7.308 6.649 6.341 4.219 2.775 2.549 nan 2.392 3.545 11.150 2886 chr6 72202675 72203951 + 0 NA Intergenic Intergenic 32264 NM_153778 71093 Mm.87449 NM_153778 ENSMUSG00000037621 Atoh8 4933425C05Rik|Hath6|Math6|bHLHa21|okadin atonal bHLH transcription factor 8 protein-coding 1.545 0.580 0.919 1.307 1.501 1.310 4.150 5.835 2.245 1.642 1.398 1.675 2.478 4.039 3.792 3.839 2.445 3.168 0.505 1.001 0.937 1.252 0.738 0.545 2.420 2543 chr4 141421481 141431694 + 0 NA Intergenic Intergenic 5808 NM_013868 29818 Mm.46181 NM_013868 ENSMUSG00000006221 Hspb7 27kDa|Hsp25-2|cvHsp heat shock protein family, member 7 (cardiovascular) protein-coding 6.322 6.185 2.086 8.494 5.339 3.516 4.177 6.459 nan 8.377 6.118 2.882 6.024 9.762 6.582 7.541 3.720 7.727 4.256 2.386 2.207 6.721 nan 3.864 11.041 681 chr11 119132078 119133609 + 0 NA Intergenic Intergenic 21294 NR_105899 102465563 NR_105899 ENSMUSG00000098704 Mir6934 Gm27523|mmu-mir-6934 microRNA 6934 ncRNA 1.704 nan 0.490 0.864 1.859 1.811 3.906 1.202 1.456 nan 1.251 0.515 3.063 3.627 1.892 3.212 2.199 2.554 0.398 nan 0.572 0.543 0.562 0.934 2.372 335 chr10 116130239 116132234 + 0 NA intron (NM_011217, intron 2 of 13) intron (NM_011217, intron 2 of 13) -12662 NM_001161837 19279 Mm.336316 NM_011217 ENSMUSG00000020151 Ptprr Gmcp1|PTP-SL|PTPBR7|RPTPRR|mPTP213 protein tyrosine phosphatase, receptor type, R protein-coding 1.339 0.542 0.449 1.016 1.285 0.748 1.559 0.784 1.089 0.996 6.818 4.116 1.022 2.034 1.057 0.901 1.114 1.586 0.605 0.351 0.259 0.595 0.377 0.411 0.818 3062 chr7 16528503 16531704 + 0 NA intron (NM_172739, intron 3 of 6) RSINE1|SINE|B4 -53323 NM_008718 18142 Mm.145821 NM_008718 ENSMUSG00000001988 Npas1 MOP5|bHLHe11 neuronal PAS domain protein 1 protein-coding 3.809 4.961 2.505 4.639 3.273 3.099 3.886 4.925 3.220 4.775 9.701 3.641 4.052 4.316 4.850 5.093 4.331 4.088 2.814 1.901 2.468 2.996 2.017 2.885 5.864 1029 chr14 76548920 76553123 + 0 NA intron (NM_001160326, intron 1 of 2) RLTR20C1_MM|LTR|ERVK 5666 NM_001160326 72661 Mm.320384 NM_001160326 ENSMUSG00000052584 Serp2 2810032E02Rik stress-associated endoplasmic reticulum protein family member 2 protein-coding 5.938 6.687 3.095 6.505 2.937 1.273 3.620 7.200 3.287 4.745 3.156 1.965 4.788 7.353 5.046 4.826 3.495 4.660 3.141 1.719 1.454 4.090 1.772 1.366 7.182 3531 chr9 96279683 96285368 + 0 NA intron (NM_001184711, intron 2 of 10) PB1D9|SINE|Alu 23277 NM_001184710 211586 Mm.17977 NM_178667 ENSMUSG00000032411 Tfdp2 1110029I05Rik|A330080J22Rik|DP-3|DP3 transcription factor Dp 2 protein-coding 3.882 0.834 0.633 3.624 2.913 2.079 4.111 3.298 3.274 3.915 10.425 3.284 5.180 6.528 3.130 3.571 3.006 4.402 0.628 0.928 0.724 0.911 0.744 0.689 4.264 2715 chr5 106257830 106259459 + 0 NA Intergenic Intergenic -62696 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 2.694 0.928 0.605 3.805 2.383 1.308 2.951 2.161 3.121 2.979 1.572 1.036 4.189 4.702 3.901 3.894 2.587 3.617 nan 0.667 0.527 1.386 0.458 0.220 2.848 5 chr1 9737296 9738945 + 0 NA intron (NM_173443, intron 1 of 2) intron (NM_173443, intron 1 of 2) -9528 NR_040462 73331 Mm.460470 NR_040462 1700034P13Rik - RIKEN cDNA 1700034P13 gene ncRNA 8.993 15.934 4.068 9.701 3.474 1.822 6.676 6.934 3.949 7.749 5.125 2.249 6.555 7.007 8.421 12.609 5.026 8.377 4.143 2.117 2.792 5.288 2.834 2.727 13.782 3292 chr8 77607008 77609735 + 0 NA intron (NM_145599, intron 1 of 9) intron (NM_145599, intron 1 of 9) 2282 NM_145599 234463 Mm.273578 NM_145599 ENSMUSG00000031617 Tmem184c 8430433H16Rik|AI645453|AL033298|BC004056|Tmem34 transmembrane protein 184C protein-coding 8.126 3.063 1.980 3.666 6.078 4.184 3.113 6.069 nan 3.291 2.683 2.366 3.496 5.875 3.291 4.230 4.152 4.110 1.750 1.764 2.851 nan 1.934 1.488 3.131 2694 chr5 102980044 102981053 + 0 NA intron (NM_001318131, intron 6 of 11) intron (NM_001318131, intron 6 of 11) 77844 NM_001310686 26414 Mm.39253 NM_009158 ENSMUSG00000046709 Mapk10 C230008H04Rik|JNK3|JNK3B1|JNK3B2|SAPK(beta)|Serk2|p493F12|p54bSAPK mitogen-activated protein kinase 10 protein-coding 5.288 0.747 0.758 1.384 2.314 1.100 6.801 1.952 1.956 2.703 0.996 0.708 3.507 3.936 3.029 4.012 3.263 2.772 0.950 1.331 0.703 1.024 1.927 1.497 4.505 2105 chr2 170156835 170159379 + 0 NA Intergenic Intergenic -15432 NM_001159683 228913 Mm.22858 NM_001033299 ENSMUSG00000052056 Zfp217 4933431C08Rik|AW987152|Gm562|ZABC1|Znf217 zinc finger protein 217 protein-coding 1.697 0.996 1.125 0.819 0.991 1.112 2.240 1.036 1.434 0.784 0.945 1.709 1.329 1.789 1.019 1.620 1.262 nan 5.299 7.658 7.865 5.629 5.420 5.491 nan 3455 chr9 31018535 31020149 + 0 NA Intergenic Intergenic -11302 NM_001115130 235132 Mm.239355 NM_172765 ENSMUSG00000047412 Zbtb44 6030404E16Rik|Btbd15|E230011F09 zinc finger and BTB domain containing 44 protein-coding 5.897 7.025 1.299 9.639 1.366 1.618 4.314 5.395 3.879 13.681 4.576 3.479 3.755 3.966 7.209 9.384 2.851 8.454 4.085 1.405 2.527 6.837 2.302 4.482 15.622 2791 chr5 139839643 139844259 + 0 NA Intergenic Intergenic -15108 NM_025604 66506 Mm.29070 NM_025604 ENSMUSG00000029551 Psmg3 1810042K04Rik|4930403H09Rik|AI303239 proteasome (prosome, macropain) assembly chaperone 3 protein-coding 6.514 3.983 1.061 8.068 2.672 1.477 3.486 2.891 3.296 3.920 2.790 1.260 2.948 3.848 4.661 5.291 3.064 5.388 3.484 1.959 2.005 4.952 nan 2.076 6.945 1957 chr2 119885048 119887943 + 0 NA Intergenic MTD|LTR|ERVL-MaLR -10733 NM_001164274 29808 Mm.87532 NM_013720 ENSMUSG00000033943 Mga AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5 MAX gene associated protein-coding 4.606 0.833 0.344 3.752 1.154 0.681 3.196 5.493 1.849 3.639 1.781 0.385 4.179 5.297 4.130 6.638 5.055 4.358 1.205 0.616 0.472 1.457 0.327 0.295 9.966 554 chr11 95315964 95317618 + 0 NA Intergenic Intergenic -6545 NM_001195003 217127 Mm.90213 NM_177619 ENSMUSG00000038909 Kat7 Hbo1|Hboa|Myst2 K(lysine) acetyltransferase 7 protein-coding 5.562 nan 1.492 3.108 6.505 5.268 4.620 4.713 4.173 4.121 2.698 2.462 4.826 5.039 3.353 3.701 5.106 4.422 1.172 nan 1.455 0.653 nan nan 2.665 2657 chr5 35375486 35381217 + 0 NA Intergenic Intergenic -10766 NM_010445 15371 Mm.358606 NM_010445 ENSMUSG00000067438 Hmx1 Nkx5-3 H6 homeobox 1 protein-coding 3.041 1.247 0.361 3.894 1.724 0.523 2.248 3.593 3.108 2.836 7.383 2.892 2.145 2.604 nan 2.925 nan nan 0.727 0.461 0.341 1.420 0.573 0.249 3.360 552 chr11 95269918 95271894 + 0 NA TTS (NM_001195004) TTS (NM_001195004) 9377 NM_053093 93670 Mm.40085 NM_053093 ENSMUSG00000020872 Tac4 AW489379|PPT-C tachykinin 4 protein-coding 3.186 nan 0.976 2.830 2.451 2.734 4.004 2.893 3.868 3.006 1.093 2.261 3.229 4.442 2.863 3.560 3.732 3.606 0.783 nan 1.051 0.554 nan nan 2.664 1867 chr2 34914871 34918826 + 0 NA Intergenic ORR1A4-int|LTR|ERVL-MaLR -2872 NM_028716 74016 Mm.65691 NM_028716 ENSMUSG00000026873 Phf19 3110009G19Rik|3321402G02Rik PHD finger protein 19 protein-coding 6.349 0.761 0.798 4.643 3.101 2.311 1.690 3.678 6.888 8.166 0.865 1.871 6.556 5.818 4.877 9.261 7.567 9.444 0.859 1.031 0.784 0.469 0.532 0.748 4.884 1623 chr18 39035874 39046101 + 0 NA intron (NM_175164, intron 1 of 22) intron (NM_175164, intron 1 of 22) 47842 NM_175164 71302 Mm.329396 NM_175164 ENSMUSG00000036452 Arhgap26 1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621 Rho GTPase activating protein 26 protein-coding 4.341 0.820 0.545 3.386 2.552 0.986 4.456 3.339 2.975 3.081 1.629 1.070 3.643 nan 3.868 nan 2.164 5.109 2.746 2.578 1.018 4.051 2.982 1.357 3.400 2505 chr4 132740052 132742606 + 0 NA intron (NM_133888, intron 4 of 7) MIR|SINE|MIR -8783 NM_201368 381560 Mm.44558 NM_201368 ENSMUSG00000037752 Xkr8 4931440N07Rik|AI597014|Gm1031|XRG8|mXkr8 X-linked Kx blood group related 8 protein-coding 7.188 3.895 1.790 5.776 6.491 2.073 6.495 5.082 4.055 6.654 4.527 1.592 5.846 9.460 nan 6.277 4.105 5.223 5.557 3.882 1.883 7.703 3.631 2.640 7.543 74 chr1 74279968 74288249 + 0 NA promoter-TSS (NM_025580) promoter-TSS (NM_025580) 630 NM_146110 227290 Mm.379371 NM_146110 ENSMUSG00000006299 Aamp AU040907|Aamp-rs angio-associated migratory protein protein-coding 10.074 10.762 5.709 7.764 6.506 4.832 7.882 8.082 7.038 8.222 6.188 5.030 8.443 9.244 8.444 12.793 8.964 9.625 nan nan 2.687 3.086 nan 3.251 8.791 3533 chr9 96682173 96683829 + 0 NA Intergenic Intergenic 48674 NM_175537 245007 Mm.485954 NM_175537 ENSMUSG00000040433 Zbtb38 A930014K01Rik|CIBZ zinc finger and BTB domain containing 38 protein-coding 3.088 1.456 0.716 1.165 2.600 1.060 2.804 2.854 1.066 2.516 3.445 1.100 1.239 3.395 2.267 1.170 0.826 1.163 1.524 0.709 0.762 0.886 1.244 1.050 1.522 2936 chr6 90505382 90506796 + 0 NA Intergenic Intergenic 43463 NM_023184 66277 Mm.38343 NM_023184 ENSMUSG00000030087 Klf15 1810013I09Rik|AV048136|AW494632|CKLF|KKLF Kruppel-like factor 15 protein-coding 1.185 0.673 0.564 nan 2.137 1.779 2.345 1.420 1.298 1.230 0.540 0.788 2.017 3.701 1.259 2.559 2.061 nan nan 1.009 1.505 0.860 1.435 1.774 1.294 890 chr13 44796460 44798529 + 0 NA intron (NM_001205044, intron 2 of 18) intron (NM_001205044, intron 2 of 18) 66223 NM_001205043 16468 Mm.25059 NM_021878 ENSMUSG00000038518 Jarid2 Jmj|jumonji jumonji, AT rich interactive domain 2 protein-coding nan 0.632 0.478 nan 0.647 0.785 0.678 0.945 0.938 0.775 0.545 1.107 0.477 0.581 0.457 0.683 0.458 nan 4.032 4.663 5.882 4.138 6.588 8.366 0.723 440 chr11 60742178 60756296 + 0 NA exon (NM_009410, exon 13 of 19) exon (NM_009410, exon 13 of 19) 20574 NR_039559 100628625 NR_039559 ENSMUSG00000092734 Mir5100 mir-5100|mmu-mir-5100|mu-mir-5100 microRNA 5100 ncRNA 4.730 4.034 1.364 5.531 3.307 1.963 5.006 5.933 3.113 3.996 3.396 1.998 4.285 6.455 5.716 6.446 3.364 5.429 nan 1.394 1.416 3.204 1.389 1.203 nan 1926 chr2 101553077 101557658 + 0 NA Intergenic B3|SINE|B2 -69381 NM_009020 19374 Mm.4988 NM_009020 ENSMUSG00000032864 Rag2 Rag-2 recombination activating gene 2 protein-coding nan 0.641 0.617 2.999 1.723 1.238 4.536 3.189 2.834 3.509 0.620 0.547 6.301 5.779 4.779 7.207 7.921 6.687 0.795 0.506 0.428 0.574 0.372 0.544 6.489 1289 chr16 17553759 17555469 + 0 NA intron (NM_029053, intron 4 of 8) RMER17A2|LTR|ERVK 6633 NM_029053 74685 Mm.38634 NM_029053 ENSMUSG00000022759 Lrrc74b 4930451C15Rik|mCG12354|mCP17390 leucine rich repeat containing 74B protein-coding 5.382 5.419 1.835 4.749 3.136 2.706 4.749 5.686 2.559 4.037 0.915 1.778 5.560 6.180 6.879 9.925 5.910 5.959 2.134 1.659 1.425 1.525 2.607 1.632 9.573 299 chr10 80048929 80053035 + 0 NA intron (NR_110342, intron 2 of 6) intron (NR_110342, intron 2 of 6) -2506 NM_008162 625249 Mm.332810 NM_008162 ENSMUSG00000075706 Gpx4 GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx glutathione peroxidase 4 protein-coding 5.109 7.061 2.563 6.262 3.722 2.521 3.447 4.101 2.927 5.427 2.785 1.537 2.364 4.298 4.288 5.237 3.135 5.059 nan 1.743 1.973 1.845 1.348 1.500 6.991 2024 chr2 156102907 156105452 + 0 NA intron (NM_029397, intron 1 of 2) intron (NM_029397, intron 1 of 2) 7786 NM_170598 75710 Mm.27660 NM_029397 ENSMUSG00000089824 Rbm12 5730420G12Rik|9430070C08Rik|AI852903|SWAN|mKIAA0765 RNA binding motif protein 12 protein-coding 4.695 2.046 0.851 4.446 3.892 2.214 4.392 6.782 3.446 3.859 2.657 1.383 5.893 5.503 3.849 5.620 4.203 5.686 nan 1.381 1.220 2.232 2.328 1.650 3.892 2525 chr4 136297507 136300485 + 0 NA Intergenic CT-rich|Low_complexity|Low_complexity -11946 NM_001277122 74326 Mm.31051 NM_028871 ENSMUSG00000066037 Hnrnpr 2610003J05Rik|2610528B01Rik|Hnrpr heterogeneous nuclear ribonucleoprotein R protein-coding nan 0.566 0.138 0.876 0.330 0.208 0.419 0.717 nan 0.959 0.614 0.528 0.186 0.387 0.619 0.608 0.109 nan 4.218 2.708 1.491 7.005 3.928 3.694 1.029 1282 chr16 15983317 15987549 + 0 NA intron (NM_146068, intron 8 of 19) intron (NM_146068, intron 8 of 19) 98147 NM_007679 12609 Mm.347407 NM_007679 ENSMUSG00000071637 Cebpd c/EBPdelta CCAAT/enhancer binding protein (C/EBP), delta protein-coding 7.889 2.712 1.348 6.701 6.112 3.652 4.081 6.234 6.042 5.259 5.074 3.438 4.965 4.967 4.419 4.683 3.207 6.202 1.962 1.290 1.680 3.017 1.830 1.868 2.799 1694 chr18 82644112 82646764 + 0 NA intron (NM_177832, intron 9 of 29) L1_Mus1|LINE|L1 47296 NM_177832 329002 Mm.34438 NM_177832 ENSMUSG00000041258 Zfp236 AI447957|Gm335 zinc finger protein 236 protein-coding 8.497 11.614 3.430 7.438 3.000 1.852 6.322 10.856 4.207 6.484 5.250 3.034 7.111 8.086 7.554 9.547 4.463 8.688 6.499 nan 3.643 7.435 5.526 4.698 14.869 841 chr13 5835914 5837307 + 0 NA Intergenic Intergenic 21482 NR_045891 71867 Mm.179181 NR_045891 ENSMUSG00000100625 1700016G22Rik - RIKEN cDNA 1700016G22 gene ncRNA 4.435 0.835 0.797 4.234 4.138 2.197 2.796 4.438 5.020 3.658 4.764 3.369 3.821 5.468 3.891 3.039 1.749 5.893 1.466 0.730 0.140 0.835 0.488 0.199 1.752 1898 chr2 68973053 68977794 + 0 NA intron (NM_172856, intron 3 of 9) intron (NM_172856, intron 3 of 9) 113982 NM_001347161 241447 Mm.222222 NM_172856 ENSMUSG00000027035 Cers6 4732462C07Rik|AW544719|Lass6|T1L ceramide synthase 6 protein-coding 4.822 1.413 0.619 4.822 1.653 0.575 1.740 3.789 3.289 3.794 1.972 1.551 2.219 2.261 2.489 3.675 2.265 4.713 1.161 1.197 0.686 1.936 0.862 0.623 2.892 1044 chr14 100249392 100250527 + 0 NA Intergenic IAPEz-int|LTR|ERVK -100163 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 4.030 nan 0.464 3.357 1.923 0.645 2.786 2.496 6.090 4.706 0.421 1.703 4.028 3.479 3.161 6.291 3.251 6.009 0.577 0.779 0.531 0.770 0.666 0.514 5.187 3513 chr9 69284032 69285039 + 0 NA intron (NM_013646, intron 2 of 10) intron (NM_013646, intron 2 of 10) -5306 NM_001289916 19883 Mm.378450 NM_013646 ENSMUSG00000032238 Rora 9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26 RAR-related orphan receptor alpha protein-coding 1.946 0.348 0.096 2.990 0.607 0.358 1.429 5.143 2.675 2.256 0.691 0.606 2.757 3.033 3.156 2.594 3.036 4.531 nan 0.359 0.199 0.583 0.519 0.186 1.443 1350 chr16 64774679 64776278 + 0 NA Intergenic RMER6C|LTR|ERVK -4539 NM_026273 67609 Mm.212157 NM_026273 ENSMUSG00000059920 4930453N24Rik AI649104|din RIKEN cDNA 4930453N24 gene protein-coding 4.798 0.742 0.560 2.070 5.331 2.967 2.898 4.283 2.587 3.013 2.740 1.495 4.403 7.331 2.771 4.097 2.000 5.157 0.626 0.325 0.210 0.308 0.761 0.191 3.513 1751 chr19 21200650 21202796 + 0 NA Intergenic RSINE1|SINE|B4 -70555 NM_009551 22682 Mm.292405 NM_009551 ENSMUSG00000024750 Zfand5 2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216 zinc finger, AN1-type domain 5 protein-coding 3.458 1.344 0.778 2.244 2.094 0.783 1.196 3.689 2.106 2.124 5.248 1.522 1.095 2.086 1.753 1.917 1.413 nan 0.958 0.740 0.567 1.716 0.942 0.634 1.448 91 chr1 90985402 90993235 + 0 NA Intergenic MMERVK10C-int|LTR|ERVK -9409 NM_001111312 16978 Mm.45039 NM_008515 ENSMUSG00000026305 Lrrfip1 AU024550|Fliiap1 leucine rich repeat (in FLII) interacting protein 1 protein-coding 5.974 0.909 0.331 3.280 2.182 0.879 4.381 4.274 2.604 2.616 2.214 1.558 4.675 3.761 4.095 7.448 3.927 5.516 2.208 1.374 0.881 nan 1.559 0.755 6.079 2137 chr2 181330993 181336903 + 0 NA intron (NR_030710, intron 7 of 32) B2_Mm1a|SINE|B2 13142 NR_030710 269400 Mm.11333 NM_001001882 ENSMUSG00000038685 Rtel1 AI451565|AW540478|Rtel regulator of telomere elongation helicase 1 protein-coding 6.921 5.853 1.724 5.674 3.117 1.722 6.600 8.977 4.081 6.024 4.533 2.461 6.828 7.904 7.684 nan 6.899 nan 5.574 2.562 2.182 5.914 3.570 3.206 11.438 3183 chr7 125756377 125758850 + 0 NA intron (NM_001081022, intron 3 of 27) intron (NM_001081022, intron 3 of 27) 49737 NM_001081022 233865 Mm.274389 NM_001081022 ENSMUSG00000032743 D430042O09Rik Kiaa0556 RIKEN cDNA D430042O09 gene protein-coding 3.084 0.526 0.586 0.548 0.476 0.482 3.593 4.894 0.870 0.949 1.143 1.863 3.298 1.386 nan 2.278 1.686 1.706 0.821 0.850 0.580 1.547 0.976 0.697 3.950 1240 chr15 102346620 102350415 + 0 NA intron (NM_153416, intron 2 of 15) (GAAA)n|Simple_repeat|Simple_repeat 2242 NM_153416 223921 Mm.352946 NM_153416 ENSMUSG00000036678 Aaas AAA|ADRACALA|D030041N15Rik|GL003 achalasia, adrenocortical insufficiency, alacrimia protein-coding 8.039 10.185 3.959 6.800 3.363 1.333 7.662 8.642 4.033 6.613 5.346 2.884 7.052 8.773 7.351 7.797 6.153 6.667 6.246 4.336 3.116 5.636 4.752 4.752 9.496 2815 chr5 151943600 151949315 + 0 NA Intergenic Intergenic -295249 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 4.922 1.450 0.597 5.434 4.609 2.328 4.241 3.355 5.211 6.228 2.677 2.353 4.531 7.459 4.616 nan 4.263 7.141 4.091 3.205 2.268 4.500 4.070 3.555 5.143 3079 chr7 25756144 25757688 + 0 NA 3' UTR (NM_001190974, exon 19 of 19) 3' UTR (NM_001190974, exon 19 of 19) -2196 NM_144922 232989 Mm.254223 NM_144922 ENSMUSG00000040725 Hnrnpul1 E130317O14Rik|E1B-AP5|E1BAP5|Hnrnpul|Hnrpul1 heterogeneous nuclear ribonucleoprotein U-like 1 protein-coding 9.528 11.177 1.717 12.421 3.323 2.148 7.767 12.440 4.494 9.436 4.853 2.733 9.250 13.010 11.031 11.178 5.404 9.866 3.949 1.824 1.471 5.045 2.664 1.781 14.865 467 chr11 69813511 69815434 + 0 NA Intergenic Intergenic 3968 NM_175368 108803 Mm.73263 NM_175368 ENSMUSG00000044084 4933402P03Rik - RIKEN cDNA 4933402P03 gene protein-coding 6.425 8.189 3.065 6.431 4.079 2.703 5.268 5.409 3.280 7.690 3.930 2.410 4.515 8.224 5.989 7.092 4.945 5.438 3.680 4.130 2.896 4.621 6.147 4.052 8.291 2121 chr2 179904260 179910260 + 0 NA Intergenic RMER19B|LTR|ERVK 69386 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 5.303 3.684 1.185 4.592 3.248 2.022 5.646 7.100 3.848 6.432 3.781 2.255 5.173 6.658 5.727 nan 4.705 nan 2.143 1.007 1.144 2.491 1.190 1.465 9.064 474 chr11 70480725 70484115 + 0 NA Intergenic Intergenic -22436 NM_023158 66102 Mm.425692 NM_023158 ENSMUSG00000018920 Cxcl16 0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo chemokine (C-X-C motif) ligand 16 protein-coding 11.279 11.236 4.247 9.206 4.989 2.097 10.252 9.525 6.151 8.767 6.231 4.016 10.103 14.836 11.696 12.285 9.884 9.712 5.079 4.943 3.081 5.382 nan 3.077 13.337 481 chr11 74802805 74804948 + 0 NA exon (NM_026197, exon 7 of 10) exon (NM_026197, exon 7 of 10) -27048 NM_010813 17428 Mm.3759 NM_010813 ENSMUSG00000000282 Mnt Rox|bHLHd3 max binding protein protein-coding 3.301 1.360 0.651 3.928 1.798 0.641 2.018 3.148 1.630 2.026 0.841 1.203 1.598 2.073 nan 2.836 2.281 2.900 1.179 1.704 nan 2.125 0.874 0.268 3.409 867 chr13 31622882 31624265 + 0 NA Intergenic Intergenic -2243 NM_010225 14238 Mm.125548 NM_010225 ENSMUSG00000038402 Foxf2 FREAC2|Fkh20|LUN forkhead box F2 protein-coding 3.327 1.313 1.295 1.037 0.735 0.178 1.957 4.278 2.412 2.350 1.611 1.780 3.450 4.227 2.818 4.109 1.697 3.148 1.117 1.145 0.089 2.066 1.019 0.485 3.384 3563 chrX 7799959 7801430 + 0 NA intron (NM_207670, intron 8 of 24) intron (NM_207670, intron 8 of 24) 10701 NM_207670 54645 Mm.194811 NM_207670 ENSMUSG00000031153 Gripap1 AI854681|DXImx47e|GRASP-1|Sfc10|mKIAA1167 GRIP1 associated protein 1 protein-coding 1.998 0.823 0.283 1.539 3.183 1.914 1.754 1.403 2.329 2.122 1.408 0.549 1.560 3.560 1.645 3.094 1.447 1.088 0.466 0.506 0.526 0.453 0.369 0.391 2.731 3355 chr8 112098181 112104849 + 0 NA Intergenic Intergenic 90156 NM_020584 57321 Mm.213064 NM_020584 ENSMUSG00000033430 Terf2ip Rap1 telomeric repeat binding factor 2, interacting protein protein-coding 4.238 1.239 0.344 4.395 4.194 1.866 5.812 5.996 4.573 6.256 2.825 1.699 10.469 9.567 5.777 9.244 7.222 5.957 0.989 1.330 1.026 nan 0.811 0.539 5.185 1976 chr2 130921834 130922772 + 0 NA intron (NM_009730, intron 1 of 28) intron (NM_009730, intron 1 of 28) 15808 NM_009730 11990 Mm.119936 NM_009730 ENSMUSG00000027312 Atrn AW558010|Mgca|mg attractin protein-coding 15.322 2.199 2.629 5.034 8.849 5.824 17.619 13.477 4.356 6.557 5.692 8.230 6.936 9.283 4.859 6.385 9.015 4.684 4.968 7.136 4.852 2.885 7.494 5.770 5.616 3442 chr9 21668208 21672023 + 0 NA intron (NM_001174079, intron 21 of 33) intron (NM_001174079, intron 21 of 33) -53461 NM_001252658 16835 Mm.3213 NM_010700 ENSMUSG00000032193 Ldlr Hlb301 low density lipoprotein receptor protein-coding 1.830 0.982 0.324 2.271 1.253 1.342 1.402 1.104 1.694 1.606 1.071 1.077 0.705 1.003 1.096 1.641 0.918 1.788 2.917 4.356 5.006 4.747 3.514 3.447 1.730 817 chr12 86712634 86724138 + 0 NA intron (NM_144524, intron 5 of 9) intron (NM_144524, intron 5 of 9) -7921 NR_136890 102635405 NR_136890 Gm32755 - predicted gene, 32755 ncRNA 7.996 2.950 1.730 5.389 7.242 6.019 4.442 5.632 5.069 5.999 3.047 3.154 5.837 7.729 5.250 6.482 7.261 5.830 1.907 1.961 2.258 1.723 2.165 1.965 nan 563 chr11 96159849 96190999 + 0 NA Intergenic Intergenic -18937 NM_008267 15408 Mm.57221 NM_008267 ENSMUSG00000049604 Hoxb13 - homeobox B13 protein-coding 2.402 nan 0.974 3.903 1.853 0.939 1.301 0.718 1.392 1.818 0.914 0.915 0.752 1.571 1.074 1.482 nan 1.623 9.654 nan 3.812 7.565 10.649 nan 1.658 2751 chr5 124120180 124123719 + 0 NA exon (NM_001289472, exon 23 of 25) exon (NM_001289472, exon 23 of 25) 5841 NM_144509 65105 Mm.29430 NM_144509 ENSMUSG00000029404 Arl6ip4 AA408210|AA408365|Aip-4|Srp25 ADP-ribosylation factor-like 6 interacting protein 4 protein-coding 4.327 2.455 1.222 6.349 3.323 2.672 3.864 4.949 3.643 nan 2.455 1.881 4.211 4.886 nan 5.131 nan nan nan 1.941 1.973 3.985 nan 2.252 nan 3470 chr9 32731761 32736138 + 0 NA exon (NM_001038642, exon 5 of 7) exon (NM_001038642, exon 5 of 7) 37907 NM_001038642 23871 Mm.292415 NM_011808 ENSMUSG00000032035 Ets1 AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs E26 avian leukemia oncogene 1, 5' domain protein-coding 1.847 6.102 1.841 1.929 0.794 0.394 0.410 0.428 1.426 1.134 0.742 0.649 0.536 0.646 1.067 nan 0.665 1.571 1.423 1.530 0.625 1.018 1.699 0.935 0.838 3248 chr8 27099032 27101261 + 0 NA intron (NM_054044, intron 2 of 18) B1_Mus1|SINE|Alu 14305 NM_054044 78560 Mm.87046 NM_054044 ENSMUSG00000031486 Adgra2 8430414O08Rik|9530074E10Rik|Gpr124|Tem5|mKIAA1531 adhesion G protein-coupled receptor A2 protein-coding 4.350 nan 0.851 2.327 2.015 1.046 6.303 3.819 1.857 2.124 0.912 0.544 4.510 6.731 7.572 6.419 6.303 4.364 0.497 0.793 0.652 nan 0.202 0.127 6.105 2919 chr6 86563807 86566209 + 0 NA TTS (NR_037961) TTS (NR_037961) 37607 NR_037961 72012 Mm.349174 NR_037960 ENSMUSG00000097048 1600020E01Rik - RIKEN cDNA 1600020E01 gene ncRNA 2.477 1.705 0.730 3.506 1.753 0.850 3.840 3.475 2.504 3.072 3.696 1.304 4.065 6.176 3.829 4.786 2.791 3.653 nan 1.010 0.371 1.104 0.623 0.117 3.387 2953 chr6 99006022 99008347 + 0 NA intron (NM_001347345, intron 9 of 19) intron (NM_001347345, intron 9 of 19) 21114 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 4.249 5.935 3.999 3.578 5.712 2.731 4.828 3.227 3.138 4.626 2.964 1.400 3.498 5.556 4.992 8.304 5.069 5.234 nan nan 1.288 0.983 1.038 0.838 4.528 229 chr10 19297045 19298721 + 0 NA Intergenic Intergenic -58656 NM_053008 94222 Mm.156946 NM_053008 ENSMUSG00000045591 Olig3 Bhlhb7|bHLHe20|oligo3 oligodendrocyte transcription factor 3 protein-coding 3.648 5.507 1.410 1.307 0.433 0.287 0.637 0.985 2.352 2.284 5.091 1.581 1.909 1.737 1.664 2.189 1.613 2.138 0.825 0.692 0.371 0.720 0.224 0.112 nan 673 chr11 118766192 118773457 + 0 NA intron (NM_001039168, intron 2 of 14) intron (NM_001039168, intron 2 of 14) -8783 NM_001285438 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 0.158 nan 0.269 0.277 0.066 0.031 nan nan 0.144 nan 0.193 0.136 0.045 0.087 0.073 0.343 0.142 nan 1.411 nan 2.109 7.330 0.706 0.581 0.325 3489 chr9 53191515 53194886 + 0 NA intron (NM_029936, intron 13 of 17) B1_Mur1|SINE|Alu 54912 NM_029936 77591 Mm.133560 NM_029936 ENSMUSG00000053289 Ddx10 4632415A01Rik|AI646054 DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 protein-coding 9.298 3.151 0.949 7.997 3.238 1.929 6.163 7.898 6.102 11.230 6.635 4.840 7.304 8.786 7.986 8.607 5.819 9.219 3.043 2.705 2.096 4.032 2.741 2.475 11.546 3322 chr8 89886765 89888208 + 0 NA Intergenic RMER15|LTR|ERVL 460766 NM_172913 244579 Mm.302755 NM_172913 ENSMUSG00000043668 Tox3 500-9|BC052044|C230068E13|CAGF9|Tnrc9 TOX high mobility group box family member 3 protein-coding 1.216 0.300 0.210 0.252 0.327 0.095 3.425 6.612 nan 1.537 0.232 0.194 3.924 2.645 2.066 1.586 2.238 1.843 nan 0.407 0.601 0.383 0.758 0.775 0.299 68 chr1 69730389 69735577 + 0 NA Intergenic L1Md_F2|LINE|L1 -47023 NM_011770 22779 Mm.106343 NM_011770 ENSMUSG00000025997 Ikzf2 A730095J18Rik|Helios|Zfpn1a2|Znfn1a2 IKAROS family zinc finger 2 protein-coding 5.522 2.956 1.911 3.284 2.142 1.187 3.122 5.952 2.668 3.483 10.560 6.572 5.526 nan 4.327 nan 5.802 nan 0.974 2.209 0.899 0.996 1.005 0.831 1.755 2059 chr2 163291531 163293794 + 0 NA intron (NM_001098799, intron 3 of 8) B4A|SINE|B4 67208 NM_001098799 269389 Mm.207709 NM_001098799 ENSMUSG00000074607 Tox2 AI851523|AV026525|BI987407|Gcx1|RxHMG1 TOX high mobility group box family member 2 protein-coding 1.682 0.731 0.615 1.696 2.625 1.577 1.308 3.799 2.564 2.241 1.544 1.365 1.941 2.458 2.522 4.286 3.559 3.669 nan 0.640 0.812 0.697 0.488 0.892 4.317 315 chr10 81057862 81066490 + 0 NA Intergenic Intergenic -2022 NM_024499 52551 Mm.30068 NM_024499 ENSMUSG00000004937 Sgta 5330427H01Rik|AI194281|D10Ertd190e|Sgt|Stg small glutamine-rich tetratricopeptide repeat (TPR)-containing, alpha protein-coding 6.084 1.391 0.892 nan 2.566 2.424 6.456 5.251 3.445 5.108 1.410 1.425 5.344 6.974 nan 6.360 6.110 4.224 nan 2.336 2.862 2.839 3.416 3.871 7.791 2514 chr4 134258478 134260721 + 0 NA Intergenic ID_B1|SINE|B4 -5493 NM_001099296 72690 Mm.100168 NM_001099296 ENSMUSG00000050105 Grrp1 2810043G13Rik|Fam110d glycine/arginine rich protein 1 protein-coding 5.250 4.261 1.287 8.566 2.767 1.914 5.825 3.627 nan 11.057 2.231 2.096 3.034 5.700 5.080 5.113 1.774 nan 6.786 1.794 3.990 7.777 nan 6.622 11.615 1827 chr2 26155339 26157346 + 0 NA Intergenic Intergenic -15836 NM_001256521 109299 Mm.389259 NM_001256521 C330006A16Rik AI551216 RIKEN cDNA C330006A16 gene protein-coding 2.817 0.801 0.293 2.428 1.307 0.516 2.197 2.842 nan 1.861 0.734 0.600 1.955 2.221 2.938 3.501 3.367 1.751 2.120 1.190 1.349 3.459 0.883 1.055 5.656 2501 chr4 132311577 132314316 + 0 NA intron (NM_027925, intron 8 of 8) B1_Mm|SINE|Alu 2243 NR_028537 100217437 NR_028537 Snord99 MBII-420 small nucleolar RNA, C/D box 99 snoRNA 2.086 3.123 1.371 2.435 2.364 1.796 3.214 3.270 2.320 3.207 2.264 1.251 5.293 7.773 nan 2.228 2.615 2.131 1.962 2.401 1.718 3.307 1.198 1.187 2.598 2366 chr4 48055008 48059590 + 0 NA TTS (NM_001307989) TTS (NM_001307989) 6053 NM_001307989 18124 Mm.247261 NM_015743 ENSMUSG00000028341 Nr4a3 AI573420|CHN|CSMF|MINOR|NOR-1|Nor1|TEC nuclear receptor subfamily 4, group A, member 3 protein-coding 4.850 10.029 3.386 7.652 3.648 2.045 2.246 3.752 4.070 8.515 2.594 1.838 3.093 4.679 6.429 7.977 2.954 6.044 4.524 1.594 1.981 4.594 1.761 1.957 9.061 1947 chr2 119372144 119375967 + 0 NA 3' UTR (NM_026574, exon 36 of 36) 3' UTR (NM_026574, exon 36 of 36) 22813 NM_026929 69065 Mm.35083 NM_026929 ENSMUSG00000027313 Chac1 1810008K03Rik ChaC, cation transport regulator 1 protein-coding 8.794 4.030 1.266 6.396 3.736 2.151 5.775 9.686 5.616 6.612 6.177 2.813 7.241 8.336 7.278 9.477 7.511 9.181 2.779 1.849 1.717 3.156 1.997 1.960 7.830 1347 chr16 50429693 50431815 + 0 NA intron (NM_001347240, intron 1 of 16) intron (NM_001347240, intron 1 of 16) 1635 NM_027444 70508 Mm.28940 NM_027444 ENSMUSG00000022641 Bbx 5530401J07Rik|5730403O13Rik bobby sox HMG box containing protein-coding 11.368 7.640 4.420 4.571 5.264 3.303 4.158 9.789 2.316 5.873 4.243 2.023 3.969 4.396 4.008 6.528 6.564 5.019 4.427 4.956 5.172 3.825 6.863 6.678 9.775 222 chr1 195275016 195279141 + 0 NA Intergenic Intergenic -100363 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 2.249 0.835 0.476 1.009 0.913 0.446 4.561 1.706 2.087 1.890 0.603 0.923 2.559 2.015 3.513 7.652 4.068 3.030 1.022 0.699 0.407 0.820 nan 1.024 4.401 3350 chr8 108822641 108827390 + 0 NA intron (NM_007496, intron 3 of 9) intron (NM_007496, intron 3 of 9) 110371 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 0.727 0.695 0.710 0.625 0.586 0.582 0.498 1.438 0.981 0.768 0.333 0.800 0.516 0.623 0.746 0.959 1.027 0.999 3.926 2.918 2.210 5.875 3.271 3.850 0.868 2911 chr6 85381506 85385002 + 0 NA Intergenic Intergenic -8620 NM_001003955 52055 Mm.220334 NM_177466 ENSMUSG00000051343 Rab11fip5 9130206P09Rik|C75969|D6Ertd32e|GAF1|RIP11 RAB11 family interacting protein 5 (class I) protein-coding 6.330 6.724 3.809 3.488 3.954 2.621 5.256 3.570 2.622 3.691 1.991 1.219 4.593 6.229 4.902 7.623 6.556 4.989 nan 1.688 1.275 1.279 1.192 1.145 6.255 1504 chr17 35948136 35953920 + 0 NA intron (NR_028278, intron 3 of 5) B1F|SINE|Alu 3874 NR_028278 667766 Mm.29385 NR_028278 Gm8801 - protein phosphatase 1, regulatory subunit 10 pseudogene pseudo 8.230 2.456 1.097 7.887 6.681 4.037 7.702 10.316 5.617 6.371 6.321 6.044 7.198 10.698 6.710 7.272 5.114 7.558 1.722 1.879 2.097 3.320 0.965 0.784 7.549 25 chr1 33789769 33791979 + 0 NA intron (NM_133817, intron 3 of 14) intron (NM_133817, intron 3 of 14) 23721 NM_133817 98403 Mm.289103 NM_133817 ENSMUSG00000042197 Zfp451 4930515K21Rik|4933435G09Rik|AI596398|COASTER|Kiaa0576-hp|Znf451|mKIAA1702 zinc finger protein 451 protein-coding 5.122 0.828 0.610 2.227 3.393 1.827 4.530 3.701 2.526 2.024 0.765 0.557 6.075 5.202 4.286 6.208 3.288 4.108 0.975 0.749 0.308 1.006 1.265 0.600 3.894 2270 chr3 96374645 96376602 + 0 NA Intergenic Intergenic 39210 NR_001579 21748 NR_001579 ENSMUSG00000064796 Terc mTER|mTR telomerase RNA component ncRNA 5.798 4.111 2.127 7.468 4.478 3.966 3.207 4.417 4.195 4.363 2.004 2.151 3.981 4.928 4.243 4.193 2.938 5.318 1.296 2.177 2.810 2.026 1.082 1.297 5.762 2418 chr4 106881462 106890467 + 0 NA Intergenic Intergenic -25506 NM_198438 72475 Mm.195635 NM_023672 ENSMUSG00000061887 Ssbp3 2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1 single-stranded DNA binding protein 3 protein-coding 2.620 1.044 0.474 3.124 1.335 0.666 2.913 3.167 3.263 4.474 0.495 0.723 3.767 4.494 3.237 3.972 2.528 4.412 2.987 2.743 1.917 6.464 3.542 2.584 5.341 3132 chr7 73519374 73522497 + 0 NA intron (NM_001081345, intron 2 of 38) intron (NM_001081345, intron 2 of 38) 20811 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 7.515 4.236 1.711 nan 6.929 3.777 8.571 8.996 6.015 6.576 6.212 3.879 10.680 12.002 7.725 7.961 5.948 7.893 1.551 1.434 1.004 1.647 1.590 1.099 9.399 305 chr10 80422796 80428794 + 0 NA intron (NM_001164148, intron 3 of 18) B1_Mus2|SINE|Alu 7858 NM_001164150 21423 Mm.3406 NM_011548 ENSMUSG00000020167 Tcf3 A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21 transcription factor 3 protein-coding 5.721 2.840 1.290 7.134 3.480 2.240 3.117 4.893 3.480 3.973 2.550 1.556 3.946 6.727 nan 5.604 3.801 5.536 nan 2.717 3.078 8.135 4.143 3.652 5.964 1253 chr16 4159900 4161632 + 0 NA intron (NM_001025432, intron 2 of 30) intron (NM_001025432, intron 2 of 30) 52638 NM_001025432 12914 Mm.132238 NM_001025432 ENSMUSG00000022521 Crebbp AW558298|CBP|CBP/p300|KAT3A|p300/CBP CREB binding protein protein-coding 5.865 0.736 0.577 2.529 4.704 3.541 nan 6.204 3.058 2.553 1.432 1.050 4.004 4.044 2.864 4.173 3.287 3.877 3.984 4.660 4.496 5.126 3.165 2.820 2.835 928 chr13 54705802 54713622 + 0 NA intron (NM_001033364, intron 1 of 31) intron (NM_001033364, intron 1 of 31) 8249 NM_001033364 268663 Mm.315382 NM_001033364 ENSMUSG00000034918 Cdhr2 Gm624|PC-LKC|Pcdh24 cadherin-related family member 2 protein-coding nan 2.661 1.134 6.959 4.058 2.848 3.764 5.922 4.852 6.358 6.582 4.244 4.421 nan 5.115 nan 2.613 nan 3.299 1.419 1.455 3.411 1.821 1.858 nan 1644 chr18 55064841 55071615 + 0 NA Intergenic MER2|DNA|TcMar-Tigger -78048 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 6.331 nan 1.357 nan 4.553 1.692 8.258 5.193 5.363 5.877 4.037 3.915 9.551 7.464 6.490 9.194 5.612 nan nan 1.076 0.926 nan 1.746 0.938 6.195 1526 chr17 47292444 47293697 + 0 NA intron (NM_001097623, intron 5 of 19) intron (NM_001097623, intron 5 of 19) 62840 NM_172622 224829 Mm.260989 NM_172622 Trerf1 9430096I18Rik|AI429294|B830015H24|RAPA|Trep-132|Trep132 transcriptional regulating factor 1 protein-coding 3.280 5.071 2.664 3.921 1.046 1.069 2.584 1.353 1.881 2.158 0.589 0.263 2.164 3.802 3.471 4.034 2.860 2.257 1.235 0.872 1.471 0.981 0.588 0.224 4.410 3245 chr8 26345954 26351889 + 0 NA Intergenic Intergenic 190752 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 5.649 nan 0.901 4.486 5.675 5.642 3.392 6.307 3.361 3.694 1.144 1.126 3.061 5.603 4.033 4.143 3.376 3.562 0.637 1.369 1.776 nan 0.951 0.930 4.376 217 chr1 193141352 193143490 + 0 NA Intergenic ID_B1|SINE|B4 -10691 NM_016851 54139 Mm.273695 NM_016851 ENSMUSG00000026638 Irf6 AI876454|E230028I05Rik|mirf6 interferon regulatory factor 6 protein-coding 6.178 3.252 1.335 6.449 4.195 1.700 4.818 3.717 2.519 7.737 2.734 1.346 4.209 5.289 5.134 nan 4.935 4.851 3.543 2.605 3.496 4.253 nan 3.745 9.021 2648 chr5 34030682 34033927 + 0 NA intron (NM_181857, intron 19 of 24) intron (NM_181857, intron 19 of 24) 36320 NM_001001985 269642 Mm.274610 NM_001001985 ENSMUSG00000048142 Nat8l 1110038O08Rik|Shati N-acetyltransferase 8-like protein-coding 2.726 1.352 0.363 8.125 1.050 0.378 0.699 1.360 1.566 2.545 1.318 0.448 0.641 2.019 2.240 2.467 nan 3.563 0.554 0.353 0.810 1.305 0.588 0.367 2.229 1730 chr19 6362305 6365798 + 0 NA non-coding (NR_122118, exon 1 of 12) non-coding (NR_122118, exon 1 of 12) 361 NR_122118 22668 Mm.256422 NM_011750 ENSMUSG00000024949 Sf1 BBP|MZFM|WBP4|Zfp162 splicing factor 1 protein-coding 6.408 11.778 3.598 8.881 3.577 2.986 7.303 9.046 4.986 10.462 5.222 3.036 6.126 7.973 7.626 9.467 7.340 8.093 3.314 1.756 2.090 5.903 2.714 3.261 11.338 158 chr1 137305201 137311569 + 0 NA Intergenic Intergenic -347937 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 5.940 0.983 0.852 3.133 4.819 3.078 5.555 4.081 2.941 3.013 1.315 1.602 4.766 5.552 5.037 6.264 5.131 4.983 0.891 1.060 0.702 0.911 0.618 0.755 nan 281 chr10 67907838 67909899 + 0 NA intron (NM_178679, intron 2 of 4) intron (NM_178679, intron 2 of 4) 3794 NM_178679 216049 Mm.268346 NM_178679 ENSMUSG00000037855 Zfp365 AI839779|AV340892|DBZ|Su48|Znf365|talanin zinc finger protein 365 protein-coding 8.169 8.052 4.338 4.079 2.556 1.510 4.413 6.234 4.002 3.132 3.204 2.104 3.432 4.265 4.468 4.844 5.327 nan 6.155 4.200 2.842 5.510 3.414 2.825 4.523 46 chr1 56867833 56870794 + 0 NA intron (NM_139146, intron 7 of 10) intron (NM_139146, intron 7 of 10) 102021 NM_139146 212712 Mm.145599 NM_139146 ENSMUSG00000038331 Satb2 mKIAA1034 special AT-rich sequence binding protein 2 protein-coding 4.553 0.847 0.437 0.523 0.630 0.165 4.621 5.469 2.063 1.304 0.823 0.735 6.008 1.800 4.138 nan 3.888 3.827 0.897 0.408 0.127 0.874 1.515 0.770 2.142 3412 chr8 126763005 126767384 + 0 NA Intergenic B4A|SINE|B4 -171758 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 2.741 2.943 1.016 3.473 2.384 1.142 4.544 5.081 2.906 2.846 2.584 1.943 3.737 3.899 nan 5.938 2.882 3.735 nan 0.777 0.482 nan 0.447 nan 6.226 1851 chr2 32388713 32395672 + 0 NA Intergenic Intergenic -3698 NM_133783 96979 Mm.28048 NM_133783 ENSMUSG00000026820 Ptges2 0610038H10Rik|C79137|Gbf1|Mpges2|Pges2 prostaglandin E synthase 2 protein-coding 6.767 10.178 3.000 6.994 3.023 1.606 7.495 9.942 nan 7.392 6.776 4.307 7.450 7.702 7.973 10.838 7.286 7.315 2.519 1.903 1.516 3.265 1.647 1.792 11.869 1316 chr16 24034720 24036740 + 0 NA Intergenic Tigger1|DNA|TcMar-Tigger -47118 NM_009744 12053 Mm.347398 NM_009744 ENSMUSG00000022508 Bcl6 Bcl5 B cell leukemia/lymphoma 6 protein-coding 4.961 1.070 1.043 2.365 2.391 2.130 6.800 7.629 4.579 3.601 1.192 1.440 9.075 6.570 5.324 7.974 7.388 4.695 0.811 0.763 0.485 0.670 nan 0.937 4.645 3327 chr8 90862571 90866733 + 0 NA intron (NM_177224, intron 2 of 39) intron (NM_177224, intron 2 of 39) 35817 NM_177224 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 5.338 0.832 0.499 3.680 6.962 5.413 2.847 1.879 3.352 4.353 2.076 1.206 6.024 8.213 3.487 5.373 4.714 5.258 nan 1.239 1.031 1.098 0.802 0.435 4.662 2630 chr5 20803458 20806266 + 0 NA intron (NM_172992, intron 5 of 17) intron (NM_172992, intron 5 of 17) 77262 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 0.626 0.818 0.630 0.663 0.564 0.359 0.741 0.516 0.815 0.673 0.459 0.465 0.335 0.627 0.578 0.719 1.008 0.732 1.944 1.403 0.879 4.232 1.108 0.994 0.664 2373 chr4 55153648 55156568 + 0 NA Intergenic Intergenic -194934 NM_009011 19359 Mm.196846 NM_009011 ENSMUSG00000028426 Rad23b 0610007D13Rik|AV001138|HR23B|mHR23B|p58 RAD23 homolog B, nucleotide excision repair protein protein-coding 4.361 nan 0.606 1.106 1.817 0.976 4.260 2.859 2.303 3.095 1.638 0.961 4.021 3.535 3.072 3.639 1.637 4.060 nan 1.231 1.169 3.563 1.213 1.382 4.326 1418 chr17 24590988 24592873 + 0 NA exon (NM_013630, exon 38 of 46) exon (NM_013630, exon 38 of 46) 40697 NM_011647 22084 Mm.30435 NM_011647 ENSMUSG00000002496 Tsc2 Nafld|Tcs2 tuberous sclerosis 2 protein-coding 8.809 9.062 2.829 7.360 6.056 5.225 10.697 6.399 4.113 8.148 4.710 2.672 8.427 10.207 7.930 9.468 6.532 6.533 4.927 3.349 5.451 5.086 4.126 4.629 10.801 36 chr1 39243128 39244739 + 0 NA intron (NM_008719, intron 1 of 20) intron (NM_008719, intron 1 of 20) 49661 NM_008719 18143 Mm.2380 NM_008719 ENSMUSG00000026077 Npas2 MOP4|bHLHe9 neuronal PAS domain protein 2 protein-coding 11.338 0.888 0.547 1.824 4.668 2.530 6.165 5.645 2.265 4.355 3.613 1.622 5.682 5.687 4.017 8.298 6.675 5.515 1.089 0.995 0.906 1.263 0.762 0.867 5.625 2263 chr3 95446500 95451855 + 0 NA intron (NM_009709, intron 2 of 20) intron (NM_009709, intron 2 of 20) 14787 NM_001037737 11863 Mm.250265 NM_009709 ENSMUSG00000015522 Arnt D3Ertd557e|Drnt|ESTM42|Hif1b|W08714|bHLHe2|mKIAA4051 aryl hydrocarbon receptor nuclear translocator protein-coding 3.822 3.829 3.690 3.283 4.350 4.807 2.104 2.702 3.208 2.371 nan 2.309 1.720 2.574 1.926 nan 1.990 2.735 1.024 1.656 1.866 0.604 1.073 1.141 2.181 3386 chr8 122939436 122953164 + 0 NA intron (NM_001081379, intron 2 of 12) intron (NM_001081379, intron 2 of 12) 95984 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 3.121 1.116 0.323 3.315 1.168 0.781 2.726 3.959 2.232 2.992 0.820 0.888 3.896 4.092 4.457 nan 2.852 4.140 3.448 2.714 2.489 7.780 2.338 1.700 7.154 1368 chr16 91600872 91602536 + 0 NA Intergenic MTE2a|LTR|ERVL-MaLR -4024 NM_030018 77975 Mm.290341 NM_030018 ENSMUSG00000022964 Tmem50b AU015466|AU019872|B230114J08Rik transmembrane protein 50B protein-coding 4.021 nan 0.517 2.928 1.400 0.893 2.660 2.562 3.952 4.014 1.113 0.688 6.063 6.266 5.422 7.086 4.624 4.478 0.815 0.725 0.420 nan 0.625 0.477 5.325 748 chr12 56573254 56576495 + 0 NA Intergenic B2_Mm2|SINE|B2 -16185 NR_046003 97836 Mm.410567 NR_046002 ENSMUSG00000092515 C87198 - expressed sequence C87198 ncRNA 6.019 nan 1.626 6.504 4.130 1.919 1.897 4.410 3.631 3.224 3.049 2.200 1.774 4.011 2.928 3.477 1.879 4.387 1.120 1.549 0.928 1.637 0.978 0.753 4.229 472 chr11 70428018 70429226 + 0 NA Intergenic RLTR17B_Mm|LTR|ERVK -3958 NM_001271360 216869 Mm.203747 NM_145429 ENSMUSG00000060216 Arrb2 AI326910|AW122872 arrestin, beta 2 protein-coding 5.213 6.904 2.508 4.711 1.305 0.266 2.392 4.211 2.739 3.431 1.559 1.159 2.567 4.067 4.054 4.625 2.974 3.931 2.152 1.242 0.743 4.122 1.418 0.554 5.194 3505 chr9 63897215 63899148 + 0 NA Intergenic Intergenic 123878 NM_008542 17130 Mm.325757 NM_008542 ENSMUSG00000036867 Smad6 Madh6|b2b390Clo SMAD family member 6 protein-coding 6.882 5.309 2.496 7.196 3.941 2.629 6.768 7.092 3.779 5.675 3.463 3.243 6.737 9.069 8.234 8.123 4.921 6.482 4.382 2.809 2.675 4.962 2.607 2.479 10.129 1655 chr18 60903227 60914147 + 0 NA Intergenic (TG)n|Simple_repeat|Simple_repeat -3553 NM_001038499 545260 Mm.20147 NM_001038499 ENSMUSG00000036412 Arsi BC020108 arylsulfatase i protein-coding 6.734 5.191 1.590 8.334 7.910 4.937 4.789 5.131 5.236 9.640 5.277 2.618 6.147 7.929 5.577 6.728 4.835 6.896 nan 2.160 1.959 nan 1.987 2.078 7.968 1943 chr2 119086966 119090157 + 0 NA intron (NM_029617, intron 14 of 23) PB1D11|SINE|Alu -24256 NM_011234 19361 Mm.330492 NM_011234 ENSMUSG00000027323 Rad51 AV304093|Rad51a|Reca RAD51 recombinase protein-coding 3.939 0.564 0.683 1.656 1.531 0.679 2.344 5.508 1.114 1.286 3.773 1.586 2.727 3.083 3.021 nan 2.746 2.286 2.871 1.975 1.653 2.479 2.551 1.246 nan 317 chr10 82223151 82227359 + 0 NA exon (NM_001105557, exon 4 of 4) exon (NM_001105557, exon 4 of 4) 16020 NM_001105557 237411 NM_172789 ENSMUSG00000062931 Zfp938 B230315N10Rik zinc finger protein 938 protein-coding 5.754 7.298 2.145 nan 3.642 2.323 4.884 6.849 4.434 8.635 3.464 2.567 5.866 6.376 5.849 6.039 4.499 6.277 5.197 2.708 1.692 5.550 3.865 3.188 9.333 711 chr12 3853527 3857310 + 0 NA intron (NM_007872, intron 3 of 22) intron (NM_007872, intron 3 of 22) 6826 NR_045884 100038522 Mm.417270 NR_045884 ENSMUSG00000073242 Dnmt3aos ENSMUSG00000073242|Gm10485 DNA methyltransferase 3A, opposite strand ncRNA 6.630 7.366 3.433 4.969 4.446 3.406 5.048 3.441 3.569 4.606 1.819 2.024 7.159 7.572 4.196 5.315 5.400 4.908 2.132 2.565 1.925 2.326 1.528 1.506 7.042 132 chr1 134266996 134272612 + 0 NA Intergenic B1_Mur2|SINE|Alu -20200 NM_031189 17928 Mm.16528 NM_031189 ENSMUSG00000026459 Myog MYF4|bHLHc3|myo myogenin protein-coding 3.883 2.387 0.831 6.227 0.927 0.417 1.678 1.777 2.429 2.178 2.058 1.805 1.854 2.487 2.936 3.677 1.948 4.547 4.912 2.459 1.341 5.556 3.339 2.084 3.299 1791 chr19 46403013 46404440 + 0 NA intron (NM_001025391, intron 2 of 11) B1F|SINE|Alu 6830 NM_015752 24069 Mm.41210 NM_015752 ENSMUSG00000025231 Sufu Su(fu) suppressor of fused homolog (Drosophila) protein-coding 4.446 8.763 2.008 8.025 2.217 1.816 5.502 7.922 2.941 8.498 4.675 2.916 3.742 5.425 8.246 8.633 4.362 7.036 2.291 1.379 2.181 6.820 2.188 4.287 15.619 1254 chr16 4548570 4550858 + 0 NA intron (NM_031182, intron 4 of 6) intron (NM_031182, intron 4 of 6) 10006 NM_031182 83383 Mm.273210 NM_031182 ENSMUSG00000005718 Tfap4 AI642933|AP-4|D930048N17Rik|Tcfap4|bHLHc41 transcription factor AP4 protein-coding nan 1.515 1.630 0.777 0.886 0.689 nan 1.112 0.838 0.609 0.497 0.749 0.526 0.808 0.737 0.974 1.249 0.604 6.347 5.538 6.443 3.701 9.092 9.843 0.850 1642 chr18 55055670 55057205 + 0 NA Intergenic Intergenic -66257 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding nan nan 0.560 2.068 1.336 0.587 2.134 nan 2.420 2.558 2.653 1.283 4.410 3.781 3.090 3.402 1.811 nan nan 0.358 0.055 nan 0.359 0.278 2.656 892 chr13 45598271 45600741 + 0 NA intron (NM_001199304, intron 5 of 6) B4|SINE|B4 92062 NM_025508 66355 Mm.290802 NM_025508 ENSMUSG00000000253 Gmpr 2310004P21Rik|AV028449|GMPR 1 guanosine monophosphate reductase protein-coding 2.401 0.431 0.405 nan 3.654 2.385 1.971 1.603 3.324 2.760 0.627 0.329 2.996 5.412 4.093 5.492 2.677 2.684 0.572 nan 0.558 0.510 0.427 0.578 5.122 2180 chr3 51361471 51364864 + 0 NA Intergenic MTC|LTR|ERVL-MaLR -22523 NM_023502 69257 Mm.131038 NM_023502 ENSMUSG00000037174 Elf2 2610036A20Rik|A230104O07Rik|AW111824|BB183398|EU32|NERF|NERF-1A|NERF-1B|NERF-2 E74-like factor 2 protein-coding 7.784 7.914 4.029 9.466 5.466 4.571 7.578 6.620 4.315 8.582 4.695 4.278 7.508 8.982 6.865 7.058 6.664 7.600 6.281 4.513 4.254 5.542 6.832 8.194 10.874 2769 chr5 136177517 136179748 + 0 NA Intergenic Intergenic -7976 NM_178751 269717 Mm.308396 NM_178751 ENSMUSG00000039747 Orai2 A730041O15Rik|Tmem142b ORAI calcium release-activated calcium modulator 2 protein-coding 5.885 5.984 1.516 6.617 4.838 3.057 4.777 5.075 4.760 5.970 5.585 3.301 3.794 5.204 5.910 6.890 4.440 5.466 1.103 1.390 0.976 0.985 nan 0.953 5.158 2071 chr2 164372969 164377788 + 0 NA Intergenic Intergenic -18871 NM_011414 20568 Mm.371583 NM_011414 ENSMUSG00000017002 Slpi - secretory leukocyte peptidase inhibitor protein-coding 5.477 0.623 0.434 4.807 5.738 4.595 8.129 9.395 4.481 4.754 1.116 2.632 9.696 11.369 7.220 9.673 8.269 6.624 2.466 1.009 1.114 2.377 1.929 1.537 7.946 1428 chr17 25560735 25564131 + 0 NA Intergenic Intergenic 8253 NM_011447 20681 Mm.258220 NM_011447 ENSMUSG00000024176 Sox8 - SRY (sex determining region Y)-box 8 protein-coding 0.555 0.800 0.278 0.380 0.195 0.111 0.563 0.541 0.347 0.164 0.220 0.119 0.611 0.895 0.527 nan 0.371 0.271 4.834 1.835 1.252 3.491 2.924 1.696 0.680 546 chr11 94959639 94960479 + 0 NA Intergenic MTB_Mm|LTR|ERVL-MaLR -7534 NM_018792 54388 Mm.30482 NM_018792 ENSMUSG00000038994 Hils1 H1.9|TISP64 histone H1-like protein in spermatids 1 protein-coding 1.305 nan 0.342 2.266 1.878 1.280 2.900 2.239 1.087 1.346 3.496 6.546 2.075 3.181 1.915 1.663 nan 2.145 1.436 nan 1.219 1.983 nan nan 1.759 537 chr11 94008662 94011029 + 0 NA intron (NM_001199203, intron 1 of 29) L1MA4A|LINE|L1 13754 NM_027569 70834 Mm.260737 NM_027569 ENSMUSG00000020859 Spag9 3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1 sperm associated antigen 9 protein-coding 1.664 nan 0.547 3.149 1.325 0.797 1.988 3.130 1.820 2.368 0.833 2.420 1.995 3.253 3.081 4.619 2.788 3.046 6.655 6.468 5.980 9.137 6.499 7.238 4.528 1018 chr14 61315060 61316869 + 0 NA Intergenic Intergenic 6211 NM_177337 219144 Mm.206566 NM_177337 ENSMUSG00000043157 Arl11 ARLTS1|C730007L20Rik ADP-ribosylation factor-like 11 protein-coding 1.248 nan 0.307 0.970 0.192 0.139 1.600 3.181 1.151 2.007 1.831 0.947 3.055 4.488 1.886 2.568 1.535 2.263 0.476 0.256 0.068 0.500 0.192 0.205 2.316 1125 chr15 73076022 73078015 + 0 NA Intergenic Intergenic -13394 NM_053068 93696 Mm.23095 NM_053068 ENSMUSG00000068391 Chrac1 2410152E03Rik|2810406L04Rik|YCL1 chromatin accessibility complex 1 protein-coding 6.463 nan 0.990 2.880 2.640 1.321 3.960 4.484 2.565 2.720 4.760 3.418 4.056 2.567 2.529 1.950 4.668 2.577 1.781 1.692 1.347 nan 1.192 0.763 1.926 2279 chr3 103806170 103807172 + 0 NA intron (NR_040412, intron 4 of 4) B3|SINE|B2 2716 NM_133865 140917 Mm.374850 NM_133865 ENSMUSG00000027845 Dclre1b AI452214|Apollo|SNMIB|mSNM1B DNA cross-link repair 1B protein-coding 2.479 1.652 0.677 1.132 2.440 0.850 2.640 1.168 2.144 1.842 0.593 0.818 2.984 4.173 2.796 4.537 4.537 2.424 0.708 0.298 0.143 0.760 0.490 0.321 3.411 1007 chr14 54839981 54856031 + 0 NA Intergenic Intergenic 12484 NM_183174 239099 Mm.280994 NM_183174 ENSMUSG00000057156 Homez mKIAA1443 homeodomain leucine zipper-encoding gene protein-coding 2.749 12.226 4.901 2.622 2.955 1.701 2.748 nan 2.411 3.140 3.012 2.502 2.306 3.475 2.987 2.595 1.419 2.510 0.833 1.066 0.924 1.081 0.488 0.375 2.464 1443 chr17 26737596 26740373 + 0 NA intron (NM_029870, intron 2 of 8) B1_Mm|SINE|Alu 23334 NM_029870 77128 Mm.275414 NM_029870 ENSMUSG00000048249 Crebrf A930001N09Rik|LRF CREB3 regulatory factor protein-coding 5.161 1.876 0.516 6.472 3.446 1.183 3.410 5.966 3.552 3.671 4.063 2.261 2.885 5.310 4.095 3.670 1.681 5.286 1.123 0.894 0.673 2.154 0.851 0.237 4.342 741 chr12 53735935 53738445 + 0 NA intron (NM_013780, intron 4 of 11) intron (NM_013780, intron 4 of 11) 466684 NM_028133 112407 Mm.133037 NM_028133 ENSMUSG00000035105 Egln3 2610021G09Rik|AI505553|AI648162|Hif-p4h-3|Phd3|SM-20 egl-9 family hypoxia-inducible factor 3 protein-coding 1.497 nan 0.925 1.553 1.159 0.476 1.314 0.857 1.247 0.734 5.354 2.167 0.869 1.184 nan 1.113 1.038 nan 0.735 0.795 0.244 0.557 0.547 0.600 1.063 3298 chr8 84131759 84133808 + 0 NA TTS (NM_145970) TTS (NM_145970) 6794 NM_001013384 244550 Mm.334654 NM_001013384 ENSMUSG00000012889 Podnl1 5832418A03Rik|Gm506 podocan-like 1 protein-coding 5.678 1.392 0.467 2.053 2.299 2.435 3.356 2.571 nan 3.599 0.535 0.766 4.533 3.972 5.026 6.193 5.938 6.370 nan 0.973 0.602 0.904 0.598 0.678 3.729 1833 chr2 26425231 26444137 + 0 NA intron (NM_153125, intron 3 of 29) intron (NM_153125, intron 3 of 29) 10532 NM_153125 227648 Mm.206371 NM_153125 ENSMUSG00000026924 Sec16a AU024582|C230052J16Rik SEC16 homolog A, endoplasmic reticulum export factor protein-coding 4.187 1.522 0.421 7.281 1.704 0.900 1.990 1.873 nan 3.506 1.272 0.713 1.505 2.792 2.499 3.834 1.674 4.587 0.879 0.988 0.969 1.808 0.556 0.533 4.909 1186 chr15 83303262 83305648 + 0 NA intron (NM_025445, intron 14 of 15) B4A|SINE|B4 45792 NM_025445 66251 Mm.258910 NM_025445 ENSMUSG00000054277 Arfgap3 0610009H19Rik|1810004P07Rik|1810035F16Rik|9130416J18Rik|Arfgap1 ADP-ribosylation factor GTPase activating protein 3 protein-coding 5.859 2.287 1.316 3.134 4.165 3.041 7.424 10.482 nan 3.739 4.802 3.719 5.324 5.892 4.952 5.832 3.792 4.977 nan 3.100 3.472 nan 3.380 3.502 nan 998 chr14 32594264 32595400 + 0 NA Intergenic Intergenic -4576 NM_001347590 107751 Mm.119274 NM_001001796 ENSMUSG00000041730 Prrxl1 Drg11|Drgx paired related homeobox protein-like 1 protein-coding 5.581 3.009 1.834 4.200 3.365 0.863 3.222 3.906 4.009 4.801 3.513 2.785 3.876 4.424 4.318 4.617 2.311 4.196 2.248 1.372 1.291 nan 1.121 0.563 3.613 3119 chr7 71039774 71074701 + 0 NA Intergenic Intergenic -690491 NM_183261 11819 Mm.158143 NM_009697 ENSMUSG00000030551 Nr2f2 2700033K02Rik|9430015G03Rik|ARP-1|Aporp1|COUP-TF2|COUP-TFII|COUPTFB|EAR3|SVP40|Tcfcoup2 nuclear receptor subfamily 2, group F, member 2 protein-coding 8.407 5.684 2.224 10.091 6.997 4.544 5.061 9.332 6.600 7.414 4.724 2.561 6.644 10.529 6.021 7.390 4.932 8.377 2.211 1.823 1.542 2.416 1.933 1.521 7.985 2806 chr5 151851741 151853560 + 0 NA Intergenic Intergenic -201442 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 2.441 1.140 0.501 5.120 2.553 1.418 1.096 1.306 1.887 1.971 0.919 0.639 1.007 1.588 1.786 2.229 0.741 3.057 0.746 0.830 0.595 0.764 0.641 0.428 2.211 3032 chr6 136480404 136481713 + 0 NA Intergenic RMER19A|LTR|ERVK -37793 NM_019426 54343 Mm.173271 NM_019426 ENSMUSG00000030213 Atf7ip 2610204M12Rik|AM|Mcaf1 activating transcription factor 7 interacting protein protein-coding 4.795 3.561 1.421 5.628 3.741 1.020 4.485 6.967 5.399 6.349 5.849 4.382 6.410 7.911 9.074 6.973 6.140 7.116 2.773 1.462 0.508 2.936 0.818 0.366 4.729 1789 chr19 46378280 46380710 + 0 NA intron (NM_016860, intron 8 of 10) (A)n|Simple_repeat|Simple_repeat 16240 NM_016860 54130 Mm.3118 NM_016860 ENSMUSG00000025228 Actr1a Arp1|alpha-Arp1 ARP1 actin-related protein 1A, centractin alpha protein-coding 8.761 18.100 5.971 12.999 5.155 2.813 7.995 10.888 5.063 8.277 9.103 3.953 6.170 9.034 9.087 12.233 7.441 8.663 1.899 2.054 1.668 3.912 2.149 2.107 15.906 3566 chrX 12249991 12251394 + 0 NA Intergenic LTR67B|LTR|ERVL -90337 NM_001168321 71458 Mm.196328 NM_029510 ENSMUSG00000040363 Bcor 2900008C10Rik|5830466J11Rik|8430401K06Rik|BcorR|D930024N20Rik|mKIAA1575 BCL6 interacting corepressor protein-coding 4.699 6.163 1.476 5.339 1.880 0.934 2.633 5.406 3.328 4.985 3.820 2.365 4.064 5.626 3.946 6.508 3.240 4.503 3.817 1.964 1.119 4.638 2.300 1.431 6.525 2240 chr3 93309380 93313469 + 0 NA Intergenic RMER19B2|LTR|ERVK -8325 NM_133698 68723 Mm.208047 NM_133698 ENSMUSG00000041991 Hrnr 1110033K19Rik|A530063N20Rik|S100a18 hornerin protein-coding 4.667 2.157 0.943 2.927 2.858 1.874 5.665 4.082 3.670 3.213 7.047 3.985 6.056 4.815 4.080 4.160 5.150 4.826 0.595 1.086 0.520 0.626 0.454 0.316 3.859 3192 chr7 135380387 135383545 + 0 NA Intergenic Intergenic -28401 NM_183193 270004 Mm.132547 NM_183193 ENSMUSG00000048377 Foxi2 B130055A05Rik forkhead box I2 protein-coding 7.325 9.626 2.056 9.276 2.477 1.188 7.343 7.686 4.979 8.949 5.350 2.154 9.082 9.223 9.217 9.527 5.385 8.528 3.340 1.115 0.991 4.089 1.392 0.960 13.062 2076 chr2 165337237 165339925 + 0 NA Intergenic B3A|SINE|B2 -12102 NM_207706 140579 Mm.35064 NM_080287 ENSMUSG00000017670 Elmo2 1190002F24Rik|CED-12 engulfment and cell motility 2 protein-coding 3.474 0.506 0.825 1.775 3.373 1.905 6.812 9.272 1.864 2.042 0.508 0.711 4.364 7.582 3.848 4.195 8.831 2.495 nan 1.749 1.192 1.292 2.549 1.667 nan 529 chr11 87422054 87425652 + 0 NA intron (NM_031386, intron 1 of 30) B2_Mm1t|SINE|B2 -3738 NM_001199293 83560 Mm.440758 NM_031386 ENSMUSG00000010342 Tex14 C85585 testis expressed gene 14 protein-coding nan 0.896 0.363 3.448 3.293 2.195 2.586 3.437 4.122 4.352 1.028 0.780 3.286 6.042 4.313 4.789 4.565 4.036 0.914 1.096 1.160 nan 0.566 0.355 3.893 3556 chr9 110604912 110606407 + 0 NA intron (NM_001081340, intron 18 of 20) intron (NM_001081340, intron 18 of 20) 18734 NM_026012 67169 Mm.46680 NM_026012 ENSMUSG00000032491 Nradd 2610311B09Rik|BB104149|NRDD|NRH2|PLAIDD neurotrophin receptor associated death domain protein-coding 1.847 1.690 0.264 2.130 0.971 0.581 2.557 4.298 nan 1.798 3.155 2.150 2.704 3.270 3.568 4.587 1.437 3.305 2.212 0.593 0.631 3.728 1.627 0.393 6.114 1545 chr17 56614743 56619282 + 0 NA intron (NM_028782, intron 10 of 17) intron (NM_028782, intron 10 of 17) 3617 NM_018730 54217 Mm.11376 NM_018730 ENSMUSG00000057863 Rpl36 - ribosomal protein L36 protein-coding nan nan 0.853 3.071 2.919 2.060 6.921 5.464 2.154 3.011 3.339 1.750 3.468 5.716 6.073 5.725 3.698 2.620 2.431 1.547 1.809 2.901 1.665 1.471 5.385 1838 chr2 26499398 26503462 + 0 NA intron (NM_008714, intron 2 of 33) intron (NM_008714, intron 2 of 33) 2392 NM_008714 18128 Mm.290610 NM_008714 ENSMUSG00000026923 Notch1 9930111A19Rik|Mis6|N1|Tan1|lin-12 notch 1 protein-coding 3.213 0.950 0.337 1.234 0.779 0.289 2.380 4.925 nan 1.719 0.900 0.493 3.291 4.760 2.755 4.556 1.858 2.260 0.388 0.549 0.177 0.601 0.493 0.163 4.971 1773 chr19 36893028 36895004 + 0 NA TTS (NM_001163635) TTS (NM_001163635) 25583 NM_028263 72514 Mm.41674 NM_028263 ENSMUSG00000047632 Fgfbp3 2610306H15Rik|Fgf-bp3 fibroblast growth factor binding protein 3 protein-coding 1.996 0.976 0.585 2.620 2.254 1.886 2.275 2.813 2.797 2.554 1.727 3.876 2.896 2.650 1.835 2.486 3.125 2.765 0.936 1.260 1.168 0.622 1.438 1.414 2.681 1058 chr15 10601128 10606208 + 0 NA non-coding (NR_033541, exon 2 of 3) non-coding (NR_033541, exon 2 of 3) 3375 NR_033541 100038608 Mm.450744 NR_033541 Gm10389 ENSMUSG00000072658 predicted gene 10389 ncRNA 6.043 2.370 0.934 2.759 2.926 1.455 5.907 8.997 4.149 4.310 2.750 1.658 7.607 4.951 4.657 5.313 5.728 5.014 0.578 0.841 0.346 0.453 0.445 0.422 4.447 3166 chr7 116846740 116851536 + 0 NA Intergenic MTD|LTR|ERVL-MaLR 344769 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 4.868 3.411 1.509 5.393 2.436 2.013 3.182 5.904 2.478 3.224 4.777 2.795 4.491 3.267 3.425 4.049 3.357 4.538 2.429 1.380 1.146 2.941 2.132 1.986 4.763 2573 chr4 150291352 150293146 + 0 NA intron (NM_001085492, intron 1 of 22) B1_Mus1|SINE|Alu 10333 NM_001085492 68703 Mm.291274 NM_001085492 ENSMUSG00000039852 Rere 1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye|eyes3|mKIAA0458 arginine glutamic acid dipeptide (RE) repeats protein-coding 3.748 2.147 0.931 1.013 3.209 2.201 2.348 1.563 2.338 4.928 5.709 2.479 0.277 3.947 1.988 1.795 1.487 1.542 0.379 0.431 0.068 0.795 0.612 0.316 1.138 987 chr14 21582808 21594023 + 0 NA intron (NM_017479, intron 2 of 16) intron (NM_017479, intron 2 of 16) 88630 NM_017479 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 5.153 1.068 0.608 3.866 3.304 1.731 4.670 6.560 3.767 4.141 2.613 1.640 4.927 6.659 6.132 5.717 3.601 5.460 0.924 1.050 0.951 nan 0.723 0.417 6.683 2984 chr6 115428012 115431871 + 0 NA intron (NM_011146, intron 1 of 6) intron (NM_011146, intron 1 of 6) 7875 NM_011146 19016 Mm.3020 NM_011146 ENSMUSG00000000440 Pparg Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2 peroxisome proliferator activated receptor gamma protein-coding 6.838 1.469 0.776 3.372 2.680 1.139 10.793 10.390 4.712 4.828 2.119 2.956 7.983 9.518 8.530 10.471 8.136 6.551 2.745 1.165 0.798 0.970 nan 1.109 6.484 1150 chr15 76100644 76106036 + 0 NA exon (NM_144848, exon 2 of 2) exon (NM_144848, exon 2 of 2) -13327 NM_144847 223649 Mm.101946 NM_144847 ENSMUSG00000075590 Nrbp2 BC011468 nuclear receptor binding protein 2 protein-coding 4.949 nan 0.797 nan 4.524 3.129 nan 6.733 2.268 nan nan 2.478 3.742 nan 2.936 2.100 3.688 2.050 1.195 2.206 1.881 nan 1.388 1.117 2.159 3392 chr8 123044067 123045089 + 0 NA TTS (NR_045268) TTS (NR_045268) 2003 NR_045268 100503178 Mm.294938 NR_045268 ENSMUSG00000099881 2810013P06Rik - RIKEN cDNA 2810013P06 gene ncRNA 1.493 1.087 0.580 nan 2.706 1.944 1.170 3.180 0.943 1.287 0.615 0.557 1.664 2.524 2.478 2.049 1.552 2.258 4.592 2.681 4.614 7.995 3.386 4.509 3.665 2860 chr6 47569386 47573194 + 0 NA intron (NM_001146689, intron 3 of 19) intron (NM_001146689, intron 3 of 19) 23740 NM_007971 14056 Mm.246688 NM_007971 ENSMUSG00000029687 Ezh2 Enx-1|Enx1h|KMT6|mKIAA4065 enhancer of zeste 2 polycomb repressive complex 2 subunit protein-coding 1.525 4.821 5.578 0.556 1.690 1.670 1.685 0.496 0.588 0.767 0.427 0.503 0.464 1.771 0.981 0.983 1.069 nan nan 0.667 0.765 0.269 0.708 0.589 0.799 3141 chr7 97277133 97291354 + 0 NA intron (NM_001162477, intron 3 of 9) L1M2a|LINE|L1 41721 NM_001177412 244144 Mm.297541 NM_001177412 ENSMUSG00000035713 Usp35 Gm1088|Gm493 ubiquitin specific peptidase 35 protein-coding 8.004 4.880 2.283 7.101 6.378 4.136 5.143 6.980 5.430 6.968 4.193 2.705 5.400 7.785 5.771 nan 6.040 6.412 nan 3.140 2.083 2.091 2.571 2.173 4.805 1535 chr17 47899163 47900466 + 0 NA intron (NM_001110824, intron 2 of 16) B4A|SINE|B4 24818 NM_028767 74123 Mm.240062 NM_028767 ENSMUSG00000023991 Foxp4 1200010K03Rik|2310007G05Rik|mFKHLA forkhead box P4 protein-coding 4.746 7.321 1.620 4.952 0.670 0.778 5.146 3.541 2.207 3.458 3.128 2.004 2.463 3.664 3.393 4.157 1.182 3.583 1.853 0.638 1.182 6.311 0.414 0.364 5.939 2390 chr4 63069406 63072196 + 0 NA intron (NM_028326, intron 2 of 14) intron (NM_028326, intron 2 of 14) 83371 NM_007443 11699 Mm.2197 NM_007443 ENSMUSG00000028356 Ambp AI194774|ASPI|HI-30|Intin4|Itil|UTI alpha 1 microglobulin/bikunin protein-coding 3.431 7.825 2.311 4.547 1.754 0.750 1.685 1.906 1.850 2.500 1.517 0.988 1.277 3.173 3.309 3.448 1.511 3.338 3.818 1.419 0.900 5.957 nan 1.580 4.896 1335 chr16 38622695 38626406 + 0 NA exon (NM_020260, exon 5 of 12) exon (NM_020260, exon 5 of 12) 61736 NM_026407 67846 Mm.310476 NM_026407 ENSMUSG00000002845 Tmem39a 2610033C09Rik transmembrane protein 39a protein-coding 2.638 0.917 0.273 3.662 1.245 0.593 0.620 0.996 2.909 2.703 0.443 0.457 1.845 2.889 2.594 5.577 1.582 4.990 0.571 0.267 0.321 0.748 0.234 0.177 4.070 908 chr13 47064832 47068249 + 0 NA intron (NM_172262, intron 11 of 20) PB1D10|SINE|Alu 23041 NM_172262 218214 Mm.31259 NM_172262 ENSMUSG00000038080 Kdm1b 4632428N09Rik|AI482520|Aof1 lysine (K)-specific demethylase 1B protein-coding nan 0.602 0.716 nan 2.767 2.481 7.682 10.082 5.456 4.866 1.591 1.402 6.156 9.816 7.479 7.914 7.392 6.146 0.681 nan 1.208 0.606 1.745 1.096 7.697 2580 chr4 151167963 151170747 + 0 NA intron (NM_001081557, intron 6 of 23) intron (NM_001081557, intron 6 of 23) 79785 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 1.661 nan 0.616 1.214 0.695 0.225 2.613 1.559 2.109 2.106 0.794 0.501 2.541 3.225 2.640 3.631 1.816 3.472 1.403 0.542 0.107 0.896 0.408 0.261 1.373 3409 chr8 126719281 126720548 + 0 NA Intergenic LTR72_RN|LTR|ERV1 -126478 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 2.698 1.690 0.173 3.308 2.258 0.799 3.985 2.363 2.774 3.306 2.149 0.993 2.772 3.428 4.745 4.271 2.003 2.918 nan 0.655 0.290 nan 0.518 nan 5.795 3127 chr7 73452233 73457607 + 0 NA intron (NM_001081345, intron 30 of 38) intron (NM_001081345, intron 30 of 38) -79146 NR_040324 319783 Mm.349813 NR_040324 ENSMUSG00000097756 A730056A06Rik C76391 RIKEN cDNA A730056A06 gene ncRNA 5.963 2.318 0.960 5.517 2.544 1.143 6.663 8.582 5.696 6.208 3.534 3.519 9.032 7.250 6.858 7.454 3.901 6.692 2.540 1.855 1.300 3.394 1.410 1.048 9.430 284 chr10 76998118 77000993 + 0 NA Intergenic Intergenic -12440 NR_045882 100038479 Mm.387034 NR_045882 ENSMUSG00000074919 Gm10787 ENSMUSG00000074919 predicted gene 10787 ncRNA 5.529 9.800 6.468 nan 3.723 2.800 1.498 1.343 1.999 2.684 3.248 1.109 1.168 2.297 nan 2.091 1.942 1.987 nan 2.513 2.502 0.630 0.893 0.756 2.526 1340 chr16 38710592 38714551 + 0 NA intron (NM_020260, intron 1 of 11) intron (NM_020260, intron 1 of 11) 464 NM_020260 12549 Mm.370848 NM_020260 ENSMUSG00000022799 Arhgap31 5830477L08Rik|AU041750|Cdgap|D330026I07Rik Rho GTPase activating protein 31 protein-coding 8.122 5.144 2.379 6.072 4.813 2.016 2.297 2.309 4.267 8.147 1.562 1.148 4.266 8.191 5.827 7.833 5.207 7.625 1.479 1.655 1.208 1.532 1.762 1.536 10.247 903 chr13 46053643 46062389 + 0 NA Intergenic Intergenic -93025 NM_009124 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 8.434 4.273 1.317 6.918 6.532 4.398 6.385 6.928 4.483 9.547 5.854 2.694 6.459 10.632 7.201 8.399 5.309 nan 4.044 nan 2.360 2.876 2.970 3.153 nan 247 chr10 41459299 41460500 + 0 NA intron (NM_001277229, intron 5 of 5) intron (NM_001277229, intron 5 of 5) 9541 NR_102360 268294 Mm.258475 NM_153398 ENSMUSG00000019826 Zbtb24 BC055367|Bif1|Bsg1|ZNF450 zinc finger and BTB domain containing 24 protein-coding 3.519 0.485 1.348 1.282 1.468 0.976 2.074 1.516 1.925 1.384 1.037 0.247 1.803 3.191 1.210 2.083 3.233 1.667 0.268 1.263 0.612 0.307 0.746 1.221 2.448 165 chr1 153531459 153534659 + 0 NA intron (NM_028749, intron 4 of 11) PB1D10|SINE|Alu 16655 NM_028749 74091 Mm.24887 NM_028749 ENSMUSG00000042684 Npl 0610033B02Rik N-acetylneuraminate pyruvate lyase protein-coding 9.645 3.663 1.623 5.983 5.547 2.704 3.545 4.096 4.855 7.077 5.489 2.165 3.837 7.619 4.457 5.926 4.572 4.724 nan 1.747 0.804 1.119 nan 0.947 5.178 289 chr10 79576842 79584977 + 0 NA intron (NM_011583, intron 6 of 7) (TA)n|Simple_repeat|Simple_repeat 6227 NM_199226 21830 Mm.89197 NM_011583 ENSMUSG00000020317 Theg - testicular haploid expressed gene protein-coding 4.830 5.157 1.823 nan 3.258 1.814 4.034 4.193 3.530 5.678 4.290 2.405 3.701 5.440 nan 5.627 4.444 5.287 6.013 3.352 3.577 6.696 5.098 6.144 8.475 2351 chr4 40214190 40218175 + 0 NA intron (NM_172689, intron 12 of 17) intron (NM_172689, intron 12 of 17) 23643 NM_172689 230073 Mm.86382 NM_172689 ENSMUSG00000040296 Ddx58 6430573D20Rik|C330021E21|RIG-I|RLR-1 DEAD (Asp-Glu-Ala-Asp) box polypeptide 58 protein-coding 8.743 9.399 3.737 9.740 5.180 3.586 6.879 8.337 5.980 8.782 5.947 3.386 8.114 10.985 9.334 11.502 6.313 8.865 6.194 2.533 2.177 5.266 3.315 3.227 13.194 729 chr12 36766218 36770393 + 0 NA Intergenic Lx5c|LINE|L1 -47900 NR_039558 100628578 NR_039558 ENSMUSG00000092998 Mir5099 mmu-mir-5099|mu-mir-5099 microRNA 5099 ncRNA 4.761 7.132 2.511 5.674 1.864 1.026 2.969 3.796 nan 3.662 2.131 1.947 2.523 2.290 4.447 4.272 4.201 4.800 nan 4.080 3.141 4.481 4.939 3.956 5.344 2119 chr2 179847552 179855713 + 0 NA intron (NM_009867, intron 6 of 15) intron (NM_009867, intron 6 of 15) 125014 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 5.318 2.700 0.709 7.634 2.916 2.031 6.370 8.153 3.500 4.954 2.831 2.382 7.358 7.813 7.227 9.110 5.398 6.862 3.065 1.600 2.297 5.790 1.941 1.872 10.303 2 chr1 6271818 6273180 + 0 NA intron (NM_009826, intron 22 of 23) intron (NM_009826, intron 22 of 23) 57837 NM_009826 12421 Mm.293811 NM_009826 ENSMUSG00000025907 Rb1cc1 2900055E04Rik|5930404L04Rik|Cc1|FIP200|LaXp180 RB1-inducible coiled-coil 1 protein-coding 5.277 1.284 0.479 3.456 2.786 1.488 0.936 1.939 3.391 5.474 1.423 0.805 4.058 4.566 2.743 4.496 5.649 3.022 0.961 1.054 0.679 0.832 2.002 1.522 3.327 808 chr12 85557401 85561002 + 0 NA Intergenic Intergenic -39904 NM_001205052 81703 Mm.103560 NM_030887 ENSMUSG00000034271 Jdp2 Jundm2|Jundp2|TIF Jun dimerization protein 2 protein-coding 10.879 9.771 3.598 11.469 6.107 3.439 6.829 8.473 5.271 10.414 8.052 4.094 6.158 11.057 7.736 8.393 7.800 7.834 3.353 2.343 2.485 4.269 3.414 2.718 nan 845 chr13 6190864 6194122 + 0 NA Intergenic Intergenic 331004 NM_011803 23849 Mm.275036 NM_011803 ENSMUSG00000000078 Klf6 AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9 Kruppel-like factor 6 protein-coding 9.504 1.238 0.867 3.713 6.572 3.897 6.012 5.310 4.338 3.889 11.397 5.511 5.855 6.417 5.513 5.808 3.922 4.975 2.465 3.144 1.569 4.634 4.486 4.052 5.861 2125 chr2 179990858 179992338 + 0 NA Intergenic Lx7|LINE|L1 14745 NR_033782 66730 Mm.31773 NR_033782 ENSMUSG00000085704 4921531C22Rik - RIKEN cDNA 4921531C22 gene ncRNA 8.904 11.267 5.073 8.760 6.177 6.287 9.859 11.844 5.102 8.586 5.705 3.628 8.608 9.129 9.087 10.532 9.726 nan 6.001 3.308 6.268 6.191 5.212 7.510 14.733 2553 chr4 142731199 142735295 + 0 NA Intergenic Intergenic 402915 NR_105988 102465618 NR_105988 ENSMUSG00000106597 Mir7021 mmu-mir-7021 microRNA 7021 ncRNA 1.619 6.080 4.296 1.219 1.139 0.554 1.159 1.218 nan 1.064 0.406 0.889 0.426 0.840 1.104 1.167 1.100 nan 1.518 1.152 0.915 1.071 nan 0.832 0.755 1847 chr2 31614751 31619362 + 0 NA 3' UTR (NM_001290548, exon 19 of 19) 3' UTR (NM_001290548, exon 19 of 19) 4635 NR_105964 102466214 NR_105964 ENSMUSG00000098904 Mir6998 Gm28024|mmu-mir-6998 microRNA 6998 ncRNA 7.329 3.069 1.095 7.218 3.521 2.354 4.645 8.132 4.281 5.442 3.682 1.879 6.028 5.758 6.237 7.859 5.699 7.012 3.992 2.390 2.140 5.196 2.482 2.194 10.353 1231 chr15 101228128 101229942 + 0 NA exon (NM_019518, exon 4 of 8) exon (NM_019518, exon 4 of 8) -3849 NR_045328 380977 Mm.399924 NR_045326 ENSMUSG00000097915 A330009N23Rik - RIKEN cDNA A330009N23 gene ncRNA 2.541 0.397 0.575 1.812 2.642 0.743 2.365 3.225 1.789 2.725 2.480 0.910 3.730 4.858 1.703 2.542 1.821 3.802 2.556 0.790 0.857 2.213 1.179 0.714 1.452 2979 chr6 113380587 113386492 + 0 NA intron (NM_001170486, intron 2 of 4) MER113|DNA|hAT-Charlie 5426 NM_001170485 68089 Mm.289306 NM_026552 ENSMUSG00000079426 Arpc4 20kDa|5330419I20Rik|AI327076|p20-Arc actin related protein 2/3 complex, subunit 4 protein-coding 2.098 0.655 0.713 1.702 2.073 1.341 2.733 4.069 1.105 0.957 0.417 0.392 2.367 3.973 1.585 2.540 2.020 1.520 0.489 0.747 0.782 0.459 nan 0.624 2.397 3270 chr8 70604215 70608726 + 0 NA intron (NM_133772, intron 1 of 16) intron (NM_133772, intron 1 of 16) 1844 NM_133772 76900 Mm.6667 NM_133772 ENSMUSG00000070003 Ssbp4 1210002E11Rik|AW743380|Sspb4 single stranded DNA binding protein 4 protein-coding 5.590 0.777 0.494 2.964 2.195 1.388 4.680 6.732 3.933 3.759 3.843 3.118 8.314 4.296 6.763 8.672 6.401 5.527 nan 0.945 0.480 2.297 1.628 1.125 5.006 1249 chr15 103126768 103139606 + 0 NA intron (NR_045743, intron 3 of 6) intron (NR_045743, intron 3 of 6) 13641 NR_045743 432989 Mm.383979 NR_045743 ENSMUSG00000097003 D930007P13Rik - Riken cDNA D930007P13 gene ncRNA 5.204 nan 1.008 3.207 1.685 0.972 6.491 4.235 nan 3.646 1.321 0.780 5.958 5.991 5.815 6.935 5.612 5.411 1.860 1.149 1.156 2.744 1.825 1.447 6.723 147 chr1 136666457 136671160 + 0 NA Intergenic PB1D11|SINE|Alu -14588 NR_045324 100503460 Mm.30630 NR_045324 ENSMUSG00000097113 Gm19705 - predicted gene, 19705 ncRNA 6.563 1.845 0.653 4.845 2.555 1.357 5.046 5.463 4.116 5.059 2.739 3.556 6.818 5.263 4.648 6.926 3.726 5.208 1.297 0.763 0.585 1.377 0.644 0.549 nan 2446 chr4 119820910 119822549 + 0 NA intron (NM_010657, intron 1 of 8) intron (NM_010657, intron 1 of 8) 7051 NM_010657 16656 Mm.302758 NM_010657 ENSMUSG00000028634 Hivep3 2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3 human immunodeficiency virus type I enhancer binding protein 3 protein-coding 3.462 1.280 5.537 5.023 2.666 2.317 3.433 2.920 3.446 2.135 3.167 2.362 4.254 3.737 4.125 1.290 4.959 1.030 1.233 0.916 2.425 1.525 1.269 5.345 973 chr14 17196904 17199575 + 0 NA Intergenic MuRRS4-int|LTR|ERV1 92681 NR_144493 100417973 NR_144493 Pou5f1-rs6 Gm18927|Oct4P3|Otf3-rs6|Otf3f POU domain, class 5, transcription factor 1, related sequence 6 pseudo 10.101 17.952 5.273 12.395 4.955 3.769 9.599 12.842 6.063 14.314 8.708 4.351 8.251 10.379 11.869 12.822 6.027 10.377 5.145 2.735 4.667 6.979 3.843 4.999 19.593 2961 chr6 99160649 99163330 + 0 NA intron (NM_001347345, intron 5 of 19) intron (NM_001347345, intron 5 of 19) 104526 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 3.633 1.248 0.680 1.942 3.188 2.710 4.811 6.143 2.520 2.731 1.371 1.204 3.161 5.440 5.710 6.076 4.034 2.710 nan nan 0.633 0.977 1.003 0.708 2.894 2569 chr4 150203280 150207105 + 0 NA Intergenic Intergenic -4057 NM_009802 12353 Mm.232523 NM_009802 ENSMUSG00000028972 Car6 Ca6|DOC1 carbonic anhydrase 6 protein-coding 3.689 nan 0.391 3.462 2.488 1.512 3.098 3.884 3.500 5.089 1.766 1.366 4.583 7.166 3.714 4.849 2.455 4.290 2.310 0.590 0.545 2.060 0.729 0.608 4.752 1046 chr14 122503646 122507317 + 0 NA Intergenic L1Md_F3|LINE|L1 -28847 NM_144844 110821 Mm.23876 NM_144844 ENSMUSG00000041650 Pcca C79630 propionyl-Coenzyme A carboxylase, alpha polypeptide protein-coding 8.733 12.725 3.547 10.061 5.058 3.115 8.206 11.040 5.873 8.794 7.230 4.268 8.419 9.549 10.871 11.356 6.157 9.573 5.872 2.806 2.911 6.852 5.938 5.855 13.001 1142 chr15 75909941 75916051 + 0 NA 3' UTR (NM_178646, exon 1 of 1) 3' UTR (NM_178646, exon 1 of 1) 3261 NM_178646 105734 Mm.275583 NM_178646 ENSMUSG00000103906 Tigd5 AA409802|AA409995|AI666797 tigger transposable element derived 5 protein-coding 11.833 nan 2.016 7.159 5.711 4.053 12.229 15.068 5.703 8.804 4.004 2.600 11.522 11.662 8.590 8.652 11.873 8.242 3.396 2.237 2.508 nan 2.398 2.637 11.158 2095 chr2 168537169 168539495 + 0 NA intron (NR_111898, intron 2 of 5) RSINE1|SINE|B4 52033 NM_001291178 18019 Mm.116802 NM_010899 ENSMUSG00000027544 Nfatc2 AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 protein-coding 4.131 0.850 0.928 1.080 2.659 1.628 4.445 4.887 1.945 2.090 1.067 1.210 3.874 nan 1.539 2.981 3.147 nan 6.164 5.152 5.673 7.908 7.458 5.553 nan 1291 chr16 17720415 17723053 + 0 NA intron (NM_001285886, intron 1 of 16) B1_Mus1|SINE|Alu 1166 NM_001285886 94112 Mm.208970 NM_033609 ENSMUSG00000012114 Med15 A230074L19Rik|AW536074|Pcqap|mPcqap mediator complex subunit 15 protein-coding 11.070 6.572 3.578 6.887 7.230 5.434 5.540 10.575 5.210 7.074 5.167 3.143 7.197 11.525 6.633 9.428 8.051 6.776 3.724 3.153 2.734 3.633 2.814 2.548 10.705 3227 chr8 14991505 15007032 + 0 NA intron (NM_172751, intron 28 of 28) intron (NM_172751, intron 28 of 28) -11757 NM_029116 74901 Mm.46675 NM_029116 ENSMUSG00000055675 Kbtbd11 2900016B01Rik|4930465M17Rik|mKIAA0711 kelch repeat and BTB (POZ) domain containing 11 protein-coding 4.661 7.948 3.306 2.857 1.768 0.999 4.612 6.775 3.317 4.157 1.134 1.750 6.417 5.806 4.960 6.762 4.994 4.653 3.316 2.435 1.661 5.133 1.884 1.316 6.237 2601 chr4 154301818 154303636 + 0 NA Intergenic Lx6|LINE|L1 -2832 NM_001112744 230972 Mm.38481 NM_001112744 ENSMUSG00000029032 Arhgef16 - Rho guanine nucleotide exchange factor (GEF) 16 protein-coding 9.469 21.878 7.705 8.362 3.812 2.931 3.676 4.792 4.827 6.398 4.673 2.610 3.774 5.211 5.558 6.793 3.362 6.974 4.726 3.691 1.938 2.798 5.294 3.326 8.092 2599 chr4 154000283 154013420 + 0 NA 3' UTR (NM_177673, exon 22 of 22) 3' UTR (NM_177673, exon 22 of 22) -4952 NM_201226 72946 Mm.260690 NM_201226 ENSMUSG00000029028 Lrrc47 2900010D03Rik|AA960559|mKIAA1185 leucine rich repeat containing 47 protein-coding 7.177 0.440 0.276 7.396 4.753 2.649 10.479 8.097 7.172 13.295 3.039 2.737 7.665 9.303 9.445 11.311 5.914 11.210 0.583 0.474 0.487 0.595 0.370 0.399 16.791 319 chr10 82784742 82789516 + 0 NA Intergenic RLTR17B_Mm|LTR|ERVK -22988 NM_010914 18045 Mm.245998 NM_010914 ENSMUSG00000020248 Nfyb AA985999|Cbf-A nuclear transcription factor-Y beta protein-coding 2.616 7.096 4.726 nan 1.040 0.666 0.649 0.818 0.862 0.715 0.381 0.433 0.709 1.106 nan 0.843 0.994 1.021 4.210 4.895 4.052 5.130 3.809 2.926 1.024 2960 chr6 99153191 99155199 + 0 NA intron (NM_001347345, intron 5 of 19) ID_B1|SINE|B4 112320 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 3.083 3.027 2.394 2.834 3.644 2.301 1.427 4.977 3.842 3.108 4.190 4.534 1.517 3.679 2.849 2.720 3.463 2.209 nan nan 1.139 0.906 1.414 0.908 2.079 2571 chr4 150241313 150247428 + 0 NA exon (NM_001025388, exon 6 of 12) exon (NM_001025388, exon 6 of 12) 7046 NM_001025388 433182 Mm.70666 NM_001025388 ENSMUSG00000059040 Eno1b EG433182|Eno1|Gm5506 enolase 1B, retrotransposed protein-coding 4.562 nan 0.812 5.317 3.847 2.208 2.966 4.038 4.285 4.758 6.614 2.563 3.414 5.607 4.332 4.945 2.192 5.481 1.957 1.190 0.878 3.592 0.784 0.466 4.553 2857 chr6 38865577 38871945 + 0 NA intron (NM_001294144, intron 1 of 14) Tigger10|DNA|TcMar-Tigger 7429 NM_010433 15258 Mm.23790 NM_010433 ENSMUSG00000061436 Hipk2 1110014O20Rik|B230339E18Rik|Stank homeodomain interacting protein kinase 2 protein-coding 5.178 1.023 0.474 1.660 1.223 0.571 10.312 2.364 2.172 1.965 0.771 0.393 10.620 6.389 7.062 9.286 5.842 5.965 nan 0.755 0.425 nan nan 0.224 nan 1179 chr15 81790344 81791736 + 0 NA intron (NM_001081016, intron 17 of 22) RCHARR1|DNA|hAT-Charlie -11633 NM_153484 21685 Mm.270278 NM_017376 ENSMUSG00000022389 Tef 2310028D20Rik thyrotroph embryonic factor protein-coding 4.092 8.406 2.052 6.649 2.044 1.444 2.834 5.824 2.540 4.700 nan 2.297 4.467 5.184 4.114 5.911 nan 5.171 4.150 0.926 1.146 5.420 1.282 2.430 8.878 1052 chr15 7523875 7525433 + 0 NA Intergenic Intergenic -126259 NM_001289498 268780 Mm.203208 NM_178748 ENSMUSG00000042961 Egflam 5930412K08|AU040377 EGF-like, fibronectin type III and laminin G domains protein-coding 5.910 0.628 0.631 3.264 4.756 1.874 2.883 2.474 3.800 3.924 0.978 0.717 4.965 4.182 2.776 3.134 3.961 5.781 0.811 0.978 0.653 0.455 0.786 0.380 3.106 1922 chr2 92228930 92230123 + 0 NA intron (NM_001346704, intron 5 of 18) intron (NM_001346704, intron 5 of 18) 7964 NM_001109690 192285 Mm.330408 NM_138755 ENSMUSG00000058318 Phf21a 80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1 PHD finger protein 21A protein-coding 3.637 3.493 1.852 5.893 1.986 1.759 4.199 4.884 2.496 6.655 1.844 1.659 2.608 3.658 5.308 5.623 4.295 5.069 4.359 3.141 3.305 6.695 3.929 4.374 11.036 735 chr12 52446611 52450008 + 0 NA Intergenic Intergenic 32300 NR_136881 102638611 Mm.363799 NR_136881 Gm35135 - predicted gene, 35135 ncRNA 11.725 6.206 2.345 5.929 4.353 2.723 7.489 6.994 4.932 6.726 6.267 3.910 9.612 10.057 8.300 8.373 9.262 7.671 4.453 1.741 2.079 5.166 2.311 2.394 10.460 3048 chr6 146836505 146839824 + 0 NA Intergenic ORR1A4|LTR|ERVL-MaLR -11946 NM_027059 69371 Mm.252733 NM_027059 ENSMUSG00000030292 Smco2 1700023A16Rik single-pass membrane protein with coiled-coil domains 2 protein-coding 7.754 5.336 2.045 7.581 4.129 2.301 7.831 9.461 4.786 8.466 5.677 2.897 7.608 9.042 8.232 10.452 6.813 7.840 3.072 nan 1.956 nan 2.263 1.602 10.065 1493 chr17 35033961 35038664 + 0 NA intron (NM_013600, intron 11 of 23) ORR1C1|LTR|ERVL-MaLR -8296 NM_023893 78376 Mm.390966 NM_023893 ENSMUSG00000036185 Sapcd1 2810436B06Rik|G7d|Ng23 suppressor APC domain containing 1 protein-coding 8.679 10.610 3.909 7.246 5.391 4.029 8.694 6.686 4.719 9.624 6.210 3.500 5.860 8.331 7.524 9.369 6.714 6.580 3.972 3.320 3.629 4.591 3.272 4.266 12.488 2948 chr6 98695836 98700870 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR 329945 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 1.083 0.401 0.387 0.571 0.303 0.172 0.570 0.614 0.537 0.513 8.306 2.074 0.598 0.470 nan nan 0.878 0.697 nan nan 0.473 2.093 0.594 0.334 0.457 2397 chr4 70205678 70207940 + 0 NA Intergenic Intergenic 203626 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 5.269 0.709 0.347 3.711 1.639 0.734 2.636 2.342 3.659 3.657 5.423 1.008 3.562 5.189 3.403 5.094 3.118 5.362 1.460 2.852 0.878 1.225 nan 0.586 3.719 974 chr14 17789783 17794924 + 0 NA intron (NM_001113417, intron 1 of 9) L1_Mus1|LINE|L1 131393 NM_001113417 21834 Mm.32563 NM_009380 ENSMUSG00000021779 Thrb Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta thyroid hormone receptor beta protein-coding 5.387 0.466 0.443 2.434 1.913 1.119 3.841 7.213 nan 1.917 1.135 0.939 4.167 5.936 4.644 5.879 3.335 4.678 1.429 1.267 0.751 nan 1.036 0.829 4.999 2629 chr5 20722029 20726053 + 0 NA Intergenic ORR1D1|LTR|ERVL-MaLR 158083 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 3.972 3.300 1.170 2.353 3.264 1.876 4.323 2.642 2.730 3.261 1.696 1.140 2.702 3.824 4.829 4.824 2.776 4.124 1.493 1.037 1.036 2.300 1.390 1.068 4.080 1271 chr16 11005650 11010138 + 0 NA Intergenic (GTTTG)n|Simple_repeat|Simple_repeat -1004 NR_040518 100043147 Mm.489001 NR_040518 ENSMUSG00000097056 Gm4262 - predicted gene 4262 ncRNA 9.896 3.647 2.233 7.511 5.848 4.005 5.234 6.603 5.759 5.990 5.314 3.506 3.921 5.042 4.897 5.665 4.332 6.548 3.643 2.779 3.233 2.268 4.435 3.383 6.888 1668 chr18 69356688 69359458 + 0 NA intron (NM_013685, intron 3 of 19) intron (NM_013685, intron 3 of 19) 12352 NM_001083967 21413 Mm.4269 NM_013685 ENSMUSG00000053477 Tcf4 5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19 transcription factor 4 protein-coding 3.248 1.155 0.699 3.335 3.057 1.211 1.493 1.568 2.396 2.903 2.124 1.609 1.188 1.828 1.892 1.779 1.408 1.919 5.183 4.467 3.251 6.298 7.543 6.193 2.458 1715 chr19 4330023 4335850 + 0 NA intron (NM_001001984, intron 12 of 20) intron (NM_001001984, intron 12 of 20) -26714 NM_001290818 110355 Mm.254144 NM_130863 ENSMUSG00000024858 Grk2 Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1 G protein-coupled receptor kinase 2 protein-coding 6.309 8.014 4.062 4.102 3.295 1.567 7.600 8.198 3.570 4.361 3.833 3.118 4.170 6.137 5.398 6.299 6.471 5.457 1.575 1.813 0.924 2.259 1.542 1.022 6.898 344 chr10 120922666 120928019 + 0 NA 3' UTR (NM_001081193, exon 13 of 13) 3' UTR (NM_001081193, exon 13 of 13) -26371 NM_177092 320183 Mm.169755 NM_177092 ENSMUSG00000051236 Msrb3 D430026P16Rik|I-8-23|MsrB2 methionine sulfoxide reductase B3 protein-coding 5.591 4.067 4.454 2.828 3.083 2.730 2.669 7.369 2.904 2.868 2.743 0.860 2.194 4.850 4.581 5.838 6.036 2.326 0.897 1.466 1.613 0.746 1.019 0.956 3.864 1613 chr18 35885653 35891045 + 0 NA Intergenic CpG 58531 NM_133687 67393 Mm.94560 NM_133687 ENSMUSG00000046668 Cxxc5 4930415K17Rik CXXC finger 5 protein-coding 6.340 4.987 2.507 3.988 3.825 3.263 4.864 7.736 4.176 3.934 3.286 2.805 4.849 nan 4.783 nan 4.466 5.706 2.691 2.075 2.014 3.304 2.977 2.858 6.352 2103 chr2 170112642 170116016 + 0 NA exon (NM_001159683, exon 5 of 7) exon (NM_001159683, exon 5 of 7) 16891 NM_001033299 228913 Mm.22858 NM_001033299 ENSMUSG00000052056 Zfp217 4933431C08Rik|AW987152|Gm562|ZABC1|Znf217 zinc finger protein 217 protein-coding 2.581 1.757 1.062 3.014 1.288 0.425 2.663 2.024 1.707 1.761 1.350 1.201 2.694 nan 2.856 4.080 2.910 nan 4.434 3.431 2.381 6.790 2.965 2.458 3.328 2949 chr6 98898553 98901352 + 0 NA Intergenic Intergenic 128346 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 4.603 2.033 1.271 4.725 2.378 1.333 4.434 3.666 3.199 3.288 7.176 3.059 3.773 4.299 4.665 5.583 4.992 4.597 2.322 1.994 0.915 3.389 1.271 0.958 4.528 636 chr11 104301881 104304787 + 0 NA intron (NM_001038609, intron 6 of 11) intron (NM_001038609, intron 6 of 11) 71898 NM_001285454 17762 Mm.1287 NM_010838 ENSMUSG00000018411 Mapt AI413597|AW045860|Mtapt|Tau microtubule-associated protein tau protein-coding 12.510 16.762 5.928 13.433 5.758 3.945 8.920 9.394 8.077 18.045 8.353 5.636 9.304 12.128 9.625 11.824 8.118 11.595 7.769 4.277 4.056 8.190 4.687 5.172 14.280 1710 chr19 4033452 4034751 + 0 NA Intergenic Intergenic 3811 NM_013541 14870 Mm.299292 NM_013541 ENSMUSG00000060803 Gstp1 GstpiB glutathione S-transferase, pi 1 protein-coding 3.679 0.983 0.338 1.024 1.760 1.307 5.431 7.941 2.396 1.959 0.806 0.936 2.299 3.891 3.555 2.737 4.042 2.649 0.694 0.862 0.441 0.941 1.939 1.390 2.445 1406 chr17 12961552 12963062 + 0 NA Intergenic Intergenic -1582 NM_009338 110460 Mm.439711 NM_009338 ENSMUSG00000023832 Acat2 AW742799|Tcp-1x|Tcp1-rs1 acetyl-Coenzyme A acetyltransferase 2 protein-coding 3.284 6.119 1.723 5.946 1.850 1.272 6.333 4.969 3.697 9.189 4.742 1.233 3.536 5.502 6.138 8.479 1.999 5.665 nan 1.254 0.990 3.873 2.022 2.275 12.875 1104 chr15 59240675 59246797 + 0 NA Intergenic L1M4|LINE|L1 -63212 NR_045613 100416830 Mm.490788 NR_045613 ENSMUSG00000098528 Zfp572 4930472F24Rik zinc finger protein 572 pseudo 4.508 1.747 1.094 nan 2.467 0.689 6.021 7.906 3.688 3.318 4.671 3.063 6.474 5.516 6.188 4.144 3.836 4.947 3.710 1.661 0.757 4.480 2.516 1.244 3.648 2224 chr3 89350444 89364314 + 0 NA intron (NM_029974, intron 7 of 15) intron (NM_029974, intron 7 of 15) -7351 NM_009614 11490 Mm.274049 NM_009614 ENSMUSG00000028041 Adam15 AD56|MDC15 a disintegrin and metallopeptidase domain 15 (metargidin) protein-coding 0.932 0.530 0.241 0.910 0.710 0.562 0.979 0.722 0.685 0.948 0.283 0.218 1.206 1.198 0.883 nan 0.625 1.212 nan 3.148 3.282 7.013 2.282 2.216 1.394 1133 chr15 75671283 75676558 + 0 NA intron (NM_028404, intron 3 of 13) intron (NM_028404, intron 3 of 13) 4870 NM_028404 72960 Mm.182401 NM_028404 ENSMUSG00000000934 Top1mt 2900052H09Rik DNA topoisomerase 1, mitochondrial protein-coding nan nan 1.065 nan 1.547 1.670 4.180 8.018 2.810 nan nan 3.034 3.929 nan 3.518 3.461 nan 3.415 1.682 1.087 1.104 nan 1.376 1.844 3.129 2421 chr4 106974738 106981400 + 0 NA intron (NM_023672, intron 4 of 17) intron (NM_023672, intron 4 of 17) 66599 NM_023672 72475 Mm.195635 NM_023672 ENSMUSG00000061887 Ssbp3 2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1 single-stranded DNA binding protein 3 protein-coding 0.752 0.527 0.541 0.671 0.573 0.171 0.989 nan 0.641 0.917 0.235 0.419 1.364 1.594 0.929 1.536 1.034 nan 2.412 2.327 2.121 5.822 3.031 2.373 1.018 209 chr1 187027513 187029663 + 0 NA Intergenic (CAGAGA)n|Simple_repeat|Simple_repeat 61172 NM_033077 110957 Mm.108054 NM_033077 ENSMUSG00000039224 D1Pas1 Pl10 DNA segment, Chr 1, Pasteur Institute 1 protein-coding 12.170 5.669 3.448 6.631 7.806 2.811 6.611 8.420 4.588 6.315 4.902 2.820 6.673 10.630 6.543 10.100 10.386 5.768 5.962 4.688 3.233 4.981 6.678 4.168 8.688 2837 chr6 28408462 28410644 + 0 NA Intergenic Intergenic 12171 NM_028900 74375 Mm.332950 NM_028900 ENSMUSG00000029708 Gcc1 4932417P04Rik golgi coiled coil 1 protein-coding 3.591 0.693 0.596 1.795 1.902 1.221 6.596 5.167 1.906 2.009 1.530 1.121 4.186 6.567 5.811 7.451 5.736 2.068 nan 0.447 0.551 0.429 0.554 0.684 3.722 1905 chr2 73051304 73052978 + 0 NA Intergenic Intergenic -71695 NM_001018042 20687 Mm.124328 NM_011450 ENSMUSG00000027109 Sp3 D130027J01Rik trans-acting transcription factor 3 protein-coding nan 7.777 2.284 5.709 1.432 0.472 4.698 5.398 2.662 6.053 3.697 3.176 4.535 5.267 6.684 9.353 5.576 7.222 3.784 1.673 1.064 3.527 1.911 1.979 11.898 3203 chr7 137124180 137131113 + 0 NA intron (NM_008598, intron 4 of 4) intron (NM_008598, intron 4 of 4) -107037 NR_045885 100038555 Mm.444788 NR_045885 ENSMUSG00000109722 Gm10578 ENSMUSG00000073800 predicted gene 10578 ncRNA 5.356 nan 0.407 2.994 2.695 1.510 3.719 6.866 nan 5.451 1.093 0.579 6.248 6.339 7.324 7.566 5.901 7.079 2.001 1.461 1.070 2.172 1.192 0.834 7.531 1118 chr15 66626565 66635705 + 0 NA intron (NM_001081409, intron 17 of 20) intron (NM_001081409, intron 17 of 20) -39635 NM_009375 21819 Mm.441333 NM_009375 ENSMUSG00000053469 Tg Tgn|cog thyroglobulin protein-coding 2.735 9.230 3.513 2.740 0.837 0.319 0.775 0.846 1.542 1.729 1.052 0.584 0.688 1.233 1.616 1.718 0.993 2.176 0.803 1.028 0.601 0.667 0.434 0.254 1.666 1575 chr17 83711319 83712672 + 0 NA intron (NM_001171053, intron 2 of 13) B1F2|SINE|Alu 5832 NM_001171052 116871 Mm.277668 NM_054082 ENSMUSG00000055817 Mta3 1110002J22Rik|mKIAA1266 metastasis associated 3 protein-coding 4.653 4.584 1.746 5.110 2.220 1.559 5.102 3.634 nan 3.938 4.311 7.104 2.819 4.120 4.306 6.073 3.608 3.526 0.834 1.581 1.260 1.460 1.018 0.749 5.175 117 chr1 127362371 127366193 + 0 NA intron (NM_145128, intron 4 of 17) B4|SINE|B4 159296 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 3.709 9.195 7.394 2.106 1.664 0.968 1.622 1.619 2.326 1.821 1.452 0.886 1.052 1.877 1.668 2.039 2.618 nan nan 2.127 2.456 0.537 0.959 0.907 1.354 2428 chr4 114097903 114099190 + 0 NA Intergenic RMER4B|LTR|ERVK -64838 NM_177669 230623 Mm.124482 NM_177669 ENSMUSG00000057977 Skint11 A630098G03Rik|Gm569 selection and upkeep of intraepithelial T cells 11 protein-coding 2.833 1.340 0.835 0.308 0.293 0.209 4.430 1.662 0.765 0.785 0.636 0.681 2.292 3.349 2.848 nan 1.432 1.048 1.076 1.303 1.080 0.725 1.185 0.549 2.114 2207 chr3 87939370 87956329 + 0 NA promoter-TSS (NM_007759) promoter-TSS (NM_007759) -844 NM_007759 12904 Mm.4757 NM_007759 ENSMUSG00000004885 Crabp2 AI893628|Crabp-2|CrabpII cellular retinoic acid binding protein II protein-coding 9.036 14.664 4.847 9.962 7.092 3.954 9.322 7.610 6.015 9.190 5.872 3.633 8.992 11.782 8.802 nan 6.807 9.487 nan 2.722 2.441 4.124 2.233 1.963 11.890 600 chr11 99059781 99062088 + 0 NA Intergenic Intergenic 19674 NM_010517 16010 Mm.233799 NM_010517 ENSMUSG00000017493 Igfbp4 AI875747|Deb2|IGFBP-4 insulin-like growth factor binding protein 4 protein-coding 6.057 nan 0.452 1.684 2.571 2.049 7.931 4.876 2.574 3.798 2.647 2.542 4.993 5.058 6.105 6.651 5.671 4.538 1.031 nan 1.084 1.017 nan nan 6.208 80 chr1 74901543 74906716 + 0 NA exon (NM_001039495, exon 30 of 33) exon (NM_001039495, exon 30 of 33) -3408 NR_029876 723900 NR_029876 ENSMUSG00000065616 Mir375 Mirn375|mir-375|mmu-mir-375 microRNA 375 ncRNA 0.309 1.035 0.452 0.424 0.202 0.068 0.225 0.315 0.230 0.476 0.179 0.116 0.196 0.293 0.303 nan 0.383 nan nan nan 2.389 6.561 nan 4.517 nan 336 chr10 116137923 116139674 + 0 NA intron (NM_011217, intron 2 of 13) intron (NM_011217, intron 2 of 13) -5100 NM_001161837 19279 Mm.336316 NM_011217 ENSMUSG00000020151 Ptprr Gmcp1|PTP-SL|PTPBR7|RPTPRR|mPTP213 protein tyrosine phosphatase, receptor type, R protein-coding 3.186 0.937 1.486 3.809 4.448 3.866 2.561 0.921 3.062 3.604 0.968 0.920 3.409 5.484 1.804 2.136 1.993 nan 0.374 0.405 0.666 0.168 0.721 0.621 3.135 2472 chr4 128479043 128484617 + 0 NA intron (NM_001281955, intron 39 of 70) (TG)n|Simple_repeat|Simple_repeat 128268 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 7.921 8.438 3.817 6.400 4.205 2.688 5.407 5.550 5.272 13.507 7.704 3.239 5.105 8.646 5.716 7.664 4.738 7.780 3.830 2.810 3.106 3.916 3.266 3.328 14.516 457 chr11 69649685 69653148 + 0 NA exon (NM_011814, exon 13 of 17) exon (NM_011814, exon 13 of 17) -3621 NM_009235 20670 Mm.347499 NM_009235 ENSMUSG00000041287 Sox15 - SRY (sex determining region Y)-box 15 protein-coding 6.275 4.515 1.935 6.120 4.101 1.925 4.802 6.520 3.332 5.730 2.960 1.628 4.109 nan 5.999 7.529 5.751 5.075 3.589 4.783 3.314 5.205 nan 4.194 7.922 1301 chr16 19007982 19011579 + 0 NA Intergenic (TGGA)n|Simple_repeat|Simple_repeat 133030 NM_010435 15260 Mm.15694 NM_010435 ENSMUSG00000022702 Hira AA138857|D16Ertd95e|Gm15797|N28177|OTTMUSG00000026264|Tuple1 histone cell cycle regulator protein-coding 0.380 11.023 7.644 0.909 0.695 0.171 0.473 0.348 0.810 nan 0.240 0.243 0.229 0.258 0.450 nan 0.800 0.575 0.802 1.494 0.456 0.334 0.475 0.323 0.252 821 chr12 86872343 86875538 + 0 NA Intergenic B1_Mm|SINE|Alu 10874 NM_145836 238330 Mm.248358 NM_145836 ENSMUSG00000034168 Irf2bpl 6430527G18Rik|Eap1 interferon regulatory factor 2 binding protein-like protein-coding 4.565 5.538 2.268 7.485 3.395 1.836 0.936 1.770 2.705 3.355 3.022 0.866 1.075 3.516 1.633 2.450 1.049 3.621 0.834 0.759 0.686 1.298 0.537 0.315 nan 696 chr11 119846527 119852993 + 0 NA intron (NM_028898, intron 16 of 33) Lx4A|LINE|L1 -15395 NR_045312 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 5.528 nan 0.505 4.923 3.659 1.425 5.401 7.483 3.881 4.321 2.978 2.374 5.369 7.114 7.430 8.188 4.690 5.670 2.205 nan 1.039 2.726 1.490 0.915 8.350 383 chr11 6403298 6407695 + 0 NA 3' UTR (NM_028601, exon 19 of 19) 3' UTR (NM_028601, exon 19 of 19) 3866 NR_106109 102465759 NR_106109 ENSMUSG00000098516 Mir7651 Gm27664|mmu-mir-7651 microRNA 7651 ncRNA nan 1.057 0.607 2.781 2.790 1.670 3.368 7.364 3.769 3.761 1.123 1.703 4.504 5.698 3.479 4.760 3.497 3.677 0.697 nan 0.419 2.041 0.346 0.262 3.303 2532 chr4 140542178 140546562 + 0 NA exon (NM_172415, exon 23 of 28) exon (NM_172415, exon 23 of 28) 104386 NM_001112723 72754 Mm.29329 NM_172415 ENSMUSG00000040964 Arhgef10l 2810441C07Rik Rho guanine nucleotide exchange factor (GEF) 10-like protein-coding 4.432 4.581 2.073 5.179 2.203 1.485 1.808 1.899 nan 3.921 2.209 1.191 1.451 3.253 2.817 3.073 1.499 3.403 3.986 3.136 2.986 5.637 nan 4.300 4.874 1873 chr2 36088769 36095091 + 0 NA intron (NM_001083125, intron 5 of 8) intron (NM_001083125, intron 5 of 8) 12130 NM_001083126 16874 Mm.12881 NM_008500 ENSMUSG00000026890 Lhx6 Lhx6.1 LIM homeobox protein 6 protein-coding 7.779 1.342 0.583 4.976 2.861 1.162 7.210 6.207 4.238 5.396 1.162 0.955 7.775 7.723 6.426 10.436 7.758 7.764 0.929 0.912 0.556 1.102 0.638 0.241 11.927 1721 chr19 5571777 5573711 + 0 NA Intergenic Intergenic 4670 NM_001033448 381201 Mm.441906 NM_001033448 ENSMUSG00000049562 Ap5b1 Gm962 adaptor-related protein complex 5, beta 1 subunit protein-coding 5.503 2.760 1.713 4.273 3.410 3.312 4.730 6.558 3.600 4.400 2.982 1.473 3.710 6.617 4.515 6.137 5.129 4.055 0.547 1.254 1.734 0.497 0.652 0.689 9.119 2497 chr4 129558713 129562373 + 0 NA intron (NM_001162433, intron 1 of 12) intron (NM_001162433, intron 1 of 12) -2171 NM_010693 16818 Mm.293753 NM_010693 ENSMUSG00000000409 Lck Hck-3|Lsk|Lskt|p56|p56Lck lymphocyte protein tyrosine kinase protein-coding 7.076 4.758 3.867 4.227 3.940 2.857 7.108 6.553 3.547 4.392 6.381 3.408 3.849 6.784 nan 4.933 4.120 3.132 1.524 4.212 3.507 1.405 1.662 1.478 6.030 3376 chr8 122237622 122244647 + 0 NA Intergenic Intergenic -41007 NM_009569 22761 Mm.3105 NM_009569 ENSMUSG00000049577 Zfpm1 FOG|Fog1 zinc finger protein, multitype 1 protein-coding 3.086 0.765 0.525 4.956 2.128 1.455 1.714 5.880 2.528 2.624 1.882 2.770 2.044 2.943 2.689 3.225 1.892 3.397 1.705 2.577 1.841 4.661 1.621 1.462 2.812 2179 chr3 41545672 41547516 + 0 NA Intergenic L1MD1|LINE|L1 -9140 NM_001130184 269424 Mm.286285 NM_172303 ENSMUSG00000025764 Jade1 AU041499|D530048A03Rik|Phf17|mKIAA1807 jade family PHD finger 1 protein-coding 5.282 5.607 2.560 6.547 1.561 1.346 5.325 4.513 nan 6.365 3.914 2.564 5.323 5.263 6.389 8.616 6.722 7.098 nan 1.975 0.950 5.730 2.994 2.673 7.702 2172 chr3 30936176 30938585 + 0 NA intron (NM_001165955, intron 6 of 13) intron (NM_001165955, intron 6 of 13) 32035 NM_001165954 241915 Mm.233173 NM_153421 ENSMUSG00000037652 Phc3 E030046K01Rik|Edr3|Hph3 polyhomeotic-like 3 (Drosophila) protein-coding 2.863 0.440 0.509 nan 3.254 1.881 3.135 3.516 nan 2.760 1.369 1.193 4.106 3.702 3.550 3.838 2.880 4.561 0.922 0.540 0.751 0.470 0.687 0.323 3.064 1431 chr17 26159054 26160937 + 0 NA intron (NM_001159598, intron 2 of 9) B3A|SINE|B2 21309 NM_001159598 12005 Mm.23684 NM_009733 ENSMUSG00000024182 Axin1 AI316800|Axin|Fu|Kb|Ki|fused|kinky|knobbly axin 1 protein-coding 4.267 0.967 0.688 1.604 2.347 2.221 8.108 6.842 1.590 1.678 3.166 1.729 4.544 5.017 6.105 6.282 8.273 4.017 0.768 0.774 1.295 0.618 0.611 0.806 5.460 92 chr1 90998911 91009601 + 0 NA intron (NM_001111312, intron 1 of 12) intron (NM_001111312, intron 1 of 12) 5529 NM_001111312 16978 Mm.45039 NM_008515 ENSMUSG00000026305 Lrrfip1 AU024550|Fliiap1 leucine rich repeat (in FLII) interacting protein 1 protein-coding 6.995 0.762 0.329 4.480 2.933 1.257 7.031 5.826 3.603 3.882 4.509 2.104 6.885 6.674 5.757 10.942 5.109 6.616 3.132 2.217 1.253 5.279 1.710 0.932 8.253 1489 chr17 34066018 34068588 + 0 NA TTS (NM_009926) TTS (NM_009926) -25076 NM_008206 15001 Mm.116 NM_008206 ENSMUSG00000024334 H2-Oa H-2Oa histocompatibility 2, O region alpha locus protein-coding 10.259 12.491 3.963 9.826 5.256 2.865 10.042 7.017 4.794 8.595 6.341 3.619 6.572 10.343 9.513 11.385 6.921 7.920 5.047 3.430 3.465 5.300 3.395 4.107 17.921 3050 chr6 148160820 148162611 + 0 NA intron (NM_001347516, intron 8 of 11) intron (NM_001347516, intron 8 of 11) -50573 NR_015615 320737 Mm.137858 NR_015615 4732416N19Rik - RIKEN cDNA 4732416N19 gene ncRNA 6.149 11.317 5.571 nan 2.993 1.521 5.874 6.091 4.719 nan 4.667 2.644 5.993 5.739 7.405 8.509 6.052 7.514 3.881 nan 1.155 nan 1.433 1.325 nan 1212 chr15 100221386 100223348 + 0 NA Intergenic Intergenic -5492 NM_007497 11908 Mm.676 NM_007497 ENSMUSG00000023027 Atf1 - activating transcription factor 1 protein-coding 2.338 0.528 0.211 1.164 0.859 0.564 2.649 3.276 1.445 2.896 0.170 0.255 1.801 3.068 1.932 4.267 1.483 3.850 0.626 0.573 0.428 0.516 0.428 0.246 1.108 2253 chr3 95084436 95089341 + 0 NA intron (NM_001293707, intron 1 of 14) B1_Mur4|SINE|Alu 20042 NM_001293707 18720 Mm.296409 NM_008847 ENSMUSG00000028126 Pip5k1a PI4P5K-I[a]|PIP5K1-alpha|PIP5KIalpha|Pipk5a phosphatidylinositol-4-phosphate 5-kinase, type 1 alpha protein-coding 12.321 8.252 2.841 13.008 6.085 3.333 12.400 11.153 9.635 10.999 10.896 6.065 13.597 14.490 11.897 12.191 9.842 12.758 6.513 3.708 3.331 6.997 4.317 4.592 15.704 2787 chr5 138227234 138228882 + 0 NA intron (NM_001013773, intron 1 of 5) B2_Mm2|SINE|B2 2154 NM_001013773 381680 Mm.156846 NM_001013773 ENSMUSG00000047592 Nxpe5 - neurexophilin and PC-esterase domain family, member 5 protein-coding 13.636 15.909 5.195 12.502 12.149 5.281 11.990 10.695 6.960 13.351 8.953 4.462 9.967 17.089 11.604 11.720 11.804 8.211 7.556 6.586 6.439 7.480 7.944 8.704 14.831 2433 chr4 115892387 115895697 + 0 NA Intergenic Intergenic 9642 NM_001320545 654462 Mm.388913 NM_001039124 ENSMUSG00000073774 Kncn Kino|L5 kinocilin protein-coding 11.098 7.263 3.910 7.876 6.633 4.462 7.078 5.709 6.661 8.152 6.319 4.671 4.895 10.273 8.279 9.403 7.108 9.556 10.983 6.574 5.859 8.948 7.478 7.444 13.156 1805 chr19 55814903 55819675 + 0 NA intron (NM_001331150, intron 4 of 14) intron (NM_001331150, intron 4 of 14) 75479 NM_001142923 21416 Mm.139815 NM_009333 ENSMUSG00000024985 Tcf7l2 TCF4B|TCF4E|Tcf-4|Tcf4 transcription factor 7 like 2, T cell specific, HMG box protein-coding 10.795 5.669 2.504 9.154 6.419 4.810 16.246 13.737 6.805 11.632 7.115 6.825 7.912 12.704 nan 9.844 12.699 8.848 0.828 1.873 1.952 0.823 1.076 0.980 16.134 3226 chr8 13348090 13358914 + 0 NA intron (NM_001291766, intron 2 of 10) intron (NM_001291766, intron 2 of 10) 14698 NM_009361 21781 Mm.925 NM_009361 ENSMUSG00000038482 Tfdp1 Dp1|Drtf1 transcription factor Dp 1 protein-coding 0.734 1.430 0.579 0.729 0.413 0.288 0.605 1.125 0.557 0.567 0.972 0.426 0.440 0.595 0.688 nan 0.775 0.972 3.930 3.236 2.051 7.246 3.205 1.993 0.974 1727 chr19 5951873 5956761 + 0 NA intron (NM_001164057, intron 5 of 17) intron (NM_001164057, intron 5 of 17) 9889 NM_001164057 18969 Mm.209931 NM_008893 ENSMUSG00000024833 Pola2 AI573378 polymerase (DNA directed), alpha 2 protein-coding 3.636 1.634 0.817 3.780 1.026 0.701 3.382 6.599 nan 1.743 1.017 2.026 3.124 2.742 3.385 4.013 3.486 3.453 0.462 0.422 0.371 0.836 0.243 0.274 5.463 1477 chr17 31977482 31982268 + 0 NA intron (NM_028902, intron 7 of 7) intron (NM_028902, intron 7 of 7) 54633 NM_028902 74377 Mm.75856 NM_028902 ENSMUSG00000002076 Hsf2bp 4932437G14Rik heat shock transcription factor 2 binding protein protein-coding 6.650 5.174 1.386 7.745 6.021 3.487 5.883 7.999 7.001 9.898 12.988 4.795 5.992 9.976 6.556 8.524 5.631 6.724 1.328 1.566 1.496 2.331 1.379 0.731 9.402 1164 chr15 76972277 76973711 + 0 NA Intergenic MLTR12|LTR|ERV1 24450 NM_054099 117171 Mm.322968 NM_054099 ENSMUSG00000063236 1110038F14Rik - RIKEN cDNA 1110038F14 gene protein-coding 3.281 nan 0.448 2.088 1.293 0.522 3.069 5.187 2.543 2.708 1.226 2.008 4.689 4.256 4.775 4.897 3.984 4.341 1.887 0.891 1.009 2.352 1.948 1.224 4.840 2922 chr6 86713291 86724099 + 0 NA intron (NM_011818, intron 4 of 13) RMER1B|Other|Other 14683 NM_011818 23885 Mm.321452 NM_011818 ENSMUSG00000001157 Gmcl1 2810049L19Rik|Btbd13|DIP|Gcl|Gcl-1|glc-1|mglc-1 germ cell-less, spermatogenesis associated 1 protein-coding 4.329 1.228 0.697 nan 4.899 2.957 9.525 7.139 4.812 4.865 3.675 4.542 5.248 8.391 5.690 7.098 4.034 nan nan 2.331 2.283 2.677 3.922 3.499 4.650 2824 chr5 152208191 152216082 + 0 NA Intergenic Intergenic -560928 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 3.173 1.109 0.805 2.574 1.845 1.482 4.661 3.474 nan 2.209 1.620 1.430 4.073 3.682 4.566 5.370 3.955 3.578 1.508 1.707 1.484 2.170 1.463 1.063 nan 505 chr11 78248306 78250815 + 0 NA intron (NM_009143, intron 1 of 2) intron (NM_009143, intron 1 of 2) 3814 NM_009143 20316 Mm.20755 NM_009143 ENSMUSG00000002064 Sdf2 AI853825 stromal cell derived factor 2 protein-coding 5.971 0.729 0.311 2.374 2.860 2.288 7.631 5.740 2.919 3.010 1.123 0.842 5.166 7.345 5.187 5.743 6.822 4.406 1.450 0.807 nan 1.364 1.517 1.420 5.212 2739 chr5 122068335 122069680 + 0 NA Intergenic B4A|SINE|B4 -19156 NM_001312908 13048 Mm.156172 NM_007804 ENSMUSG00000042589 Cux2 1700051K22Rik|Cutl2|Cux-2|ENSMUSG00000072641 cut-like homeobox 2 protein-coding 12.239 10.515 4.852 13.822 9.989 9.481 10.752 9.174 8.667 10.930 9.787 6.679 9.501 11.775 8.806 9.007 8.820 8.453 nan nan 8.431 6.927 9.137 11.416 11.761 670 chr11 116990554 116992726 + 0 NA Intergenic Intergenic 72777 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 4.798 nan 0.482 4.529 3.186 1.744 nan 2.366 3.198 4.261 0.806 0.922 3.666 4.687 3.702 5.720 2.878 3.912 1.925 nan 1.056 2.362 0.665 0.345 7.232 1094 chr15 57591793 57594923 + 0 NA Intergenic Intergenic -101309 NM_199449 387609 Mm.36557 NM_199449 ENSMUSG00000071757 Zhx2 Afr-1|Afr1|Raf|mKIAA0854 zinc fingers and homeoboxes 2 protein-coding 4.475 1.690 0.761 nan 3.481 1.594 6.665 8.556 nan 3.852 5.761 2.605 5.633 6.834 4.705 nan 4.551 4.791 3.546 4.099 2.190 6.068 2.893 2.319 5.664 419 chr11 53315355 53318732 + 0 NA Intergenic ID_B1|SINE|B4 -7646 NM_026479 67966 Mm.288072 NM_026479 ENSMUSG00000018239 Zcchc10 2410141K03Rik|AA675321|D11Ertd416e zinc finger, CCHC domain containing 10 protein-coding 4.920 0.501 0.252 3.140 5.532 3.032 4.451 3.788 4.052 4.284 1.480 0.914 4.487 7.104 5.380 5.531 3.923 4.462 nan 0.755 0.632 0.381 0.851 0.683 nan 2178 chr3 41178197 41181333 + 0 NA Intergenic B4|SINE|B4 -96719 NM_027558 70804 Mm.40321 NM_027558 ENSMUSG00000049940 Pgrmc2 4631434O19Rik|5730409G06Rik|DG6|PMBP progesterone receptor membrane component 2 protein-coding 5.803 0.943 0.621 2.363 7.426 3.834 8.411 8.353 nan 6.190 5.140 3.566 7.496 6.044 7.034 5.156 3.555 5.078 nan 0.981 0.938 nan 1.217 0.495 6.803 995 chr14 28153393 28166898 + 0 NA intron (NM_177814, intron 13 of 15) L1MB8|LINE|L1 -345328 NM_009524 22418 Mm.287544 NM_009524 ENSMUSG00000021994 Wnt5a 8030457G12Rik|Wnt-5a wingless-type MMTV integration site family, member 5A protein-coding 4.759 4.941 1.485 5.794 2.237 1.331 2.483 5.631 4.392 3.108 5.051 3.046 2.276 3.105 2.537 nan nan 4.020 2.174 2.233 1.474 nan 1.913 1.292 3.004 1225 chr15 101074284 101078457 + 0 NA Intergenic Intergenic -21971 NM_001214911 668225 Mm.385011 NM_001214911 ENSMUSG00000095440 Fignl2 EG668225 fidgetin-like 2 protein-coding 4.991 4.543 2.007 5.257 4.095 3.729 5.841 7.714 3.697 3.815 2.705 2.590 5.532 6.126 6.379 nan 5.170 5.554 2.284 1.791 1.803 3.907 1.981 1.361 6.187 837 chr12 118778315 118785881 + 0 NA Intergenic Intergenic -64231 NM_177082 320145 Mm.51682 NM_177082 ENSMUSG00000048562 Sp8 D930049B17Rik|mBtd trans-acting transcription factor 8 protein-coding 6.152 0.597 0.557 3.197 2.588 1.555 5.492 4.078 4.842 4.766 1.518 1.851 8.547 5.347 6.761 7.275 7.725 6.154 0.706 0.524 0.488 0.750 0.404 0.323 5.403 2909 chr6 85240532 85247812 + 0 NA intron (NM_178639, intron 10 of 13) intron (NM_178639, intron 10 of 13) 56241 NM_010131 13796 Mm.391473 NM_010131 ENSMUSG00000033726 Emx1 - empty spiracles homeobox 1 protein-coding 2.570 2.267 1.166 nan 1.287 1.092 7.216 6.068 1.918 2.024 0.837 1.330 3.896 4.127 3.507 4.619 2.790 nan nan 0.685 0.668 0.451 0.299 0.455 2.328 2015 chr2 153378150 153381393 + 0 NA intron (NM_001039939, intron 3 of 11) B1_Mus1|SINE|Alu 33632 NM_001039939 228790 Mm.330677 NM_001039939 ENSMUSG00000042548 Asxl1 mKIAA0978 additional sex combs like 1 protein-coding nan 0.477 0.767 0.399 0.495 0.376 0.543 0.488 nan nan 0.271 0.219 nan nan 0.211 0.495 0.684 nan nan 5.820 5.763 3.411 2.462 3.105 nan 290 chr10 79597455 79606271 + 0 NA Intergenic MTC|LTR|ERVL-MaLR 12155 NM_198614 237397 Mm.334207 NM_198614 ENSMUSG00000045912 C2cd4c 4932409I22Rik|Fam148c|Gm238 C2 calcium-dependent domain containing 4C protein-coding 5.133 3.959 1.662 4.675 3.936 2.623 4.934 6.192 2.960 5.885 3.133 1.740 3.997 6.978 6.000 7.179 5.692 4.990 nan 1.719 2.899 4.526 2.869 3.701 9.343 625 chr11 101740404 101741635 + 0 NA intron (NM_144831, intron 8 of 22) intron (NM_144831, intron 8 of 22) 8063 NM_144831 217207 Mm.28186 NM_144831 ENSMUSG00000034931 Dhx8 Ddx8|mDEAH6|mKIAA4096 DEAH (Asp-Glu-Ala-His) box polypeptide 8 protein-coding 3.389 1.639 0.609 2.116 2.037 2.036 1.668 3.020 2.850 3.742 2.107 1.815 2.055 4.235 3.659 3.550 2.597 3.418 1.241 nan 1.467 1.575 1.181 nan 2.793 149 chr1 136887871 136892813 + 0 NA intron (NM_030676, intron 7 of 8) intron (NM_030676, intron 7 of 8) 63288 NM_001159769 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 2.300 0.920 0.279 nan 1.942 0.844 1.420 1.114 1.973 2.501 0.515 0.345 4.075 4.350 2.131 nan 3.428 1.845 0.474 0.453 0.353 0.547 0.237 0.287 nan 3208 chr7 139618922 139621497 + 0 NA intron (NM_001302546, intron 40 of 58) intron (NM_001302546, intron 40 of 58) -37412 NR_027857 14912 Mm.28308 NM_183248 ENSMUSG00000041309 Nkx6-2 Gtx|Nkx6.2 NK6 homeobox 2 protein-coding 3.063 nan 0.750 2.278 2.424 2.603 3.630 2.649 nan 3.465 1.211 0.388 5.196 5.422 3.773 2.310 2.828 3.957 0.516 0.594 0.596 0.657 0.202 0.292 3.077 712 chr12 3866020 3873582 + 0 NA intron (NM_007872, intron 4 of 22) ID_B1|SINE|B4 -7557 NR_045884 100038522 Mm.417270 NR_045884 ENSMUSG00000073242 Dnmt3aos ENSMUSG00000073242|Gm10485 DNA methyltransferase 3A, opposite strand ncRNA 4.917 7.666 2.692 3.642 2.125 1.891 2.242 2.244 2.496 3.297 0.898 0.737 4.055 3.718 3.586 4.107 3.230 3.478 1.675 1.469 1.216 2.099 0.716 0.730 7.239 210 chr1 187780634 187782167 + 0 NA intron (NM_001243792, intron 1 of 7) intron (NM_001243792, intron 1 of 7) 172394 NM_001243792 26381 Mm.89989 NM_011935 ENSMUSG00000026610 Esrrg ERR3|Errg|NR3B3|mKIAA0832 estrogen-related receptor gamma protein-coding 3.997 0.398 0.086 1.661 1.136 0.495 2.200 1.590 1.652 1.971 0.344 0.280 3.636 4.062 2.203 3.631 3.283 1.980 0.682 0.805 0.400 0.885 0.700 0.367 2.060 406 chr11 32247336 32250086 + 0 NA intron (NR_104306, intron 5 of 13) AT_rich|Low_complexity|Low_complexity 18996 NM_181569 17168 Mm.263161 NM_181569 ENSMUSG00000020289 Nprl3 Aag|CGTHBA|HS-26|HS-40|Mare|Phg|Prox1|m(alpha)RE nitrogen permease regulator-like 3 protein-coding 8.246 3.049 0.955 nan 4.008 2.455 6.166 4.949 4.213 7.106 8.123 5.370 4.109 7.178 5.903 7.092 3.920 5.474 2.770 2.389 3.327 3.616 2.605 3.334 7.347 3365 chr8 120867340 120880123 + 0 NA Intergenic Intergenic 135092 NM_001301811 15900 Mm.334861 NM_008320 ENSMUSG00000041515 Irf8 AI893568|ICSBP|IRF-8|Icsbp1|Myls interferon regulatory factor 8 protein-coding 0.426 0.401 0.276 0.322 0.354 0.184 0.554 0.370 0.369 0.310 0.663 0.396 0.237 0.407 0.319 nan 0.412 0.347 4.243 3.280 2.052 8.635 4.424 2.595 0.367 2560 chr4 148178960 148184434 + 0 NA Intergenic Intergenic 21029 NM_176848 230904 Mm.262287 NM_176848 ENSMUSG00000041556 Fbxo2 FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4 F-box protein 2 protein-coding 1.590 nan 0.239 3.953 1.553 0.769 2.056 2.194 1.753 2.547 1.480 1.360 1.605 1.793 2.052 2.240 1.800 2.917 7.496 3.169 2.869 5.939 10.237 9.635 5.069 2289 chr3 108356055 108359147 + 0 NA 3' UTR (NM_019972, exon 20 of 20) 3' UTR (NM_019972, exon 20 of 20) -7310 NM_026831 68753 Mm.75201 NM_026831 ENSMUSG00000068745 Mybphl 1110037P11Rik myosin binding protein H-like protein-coding 4.449 4.607 2.292 5.848 4.964 4.475 5.150 3.221 3.697 5.872 3.753 2.837 4.607 5.657 nan 4.363 3.863 5.069 2.064 2.193 2.959 3.302 2.866 3.083 6.285 3283 chr8 74738680 74741005 + 0 NA Intergenic L1_Mus3|LINE|L1 -133332 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 6.038 4.026 2.096 2.979 3.241 1.857 4.698 8.351 nan 3.631 7.603 2.763 5.307 6.722 4.399 6.688 7.595 3.390 1.156 2.772 2.765 nan 1.642 1.113 3.944 2312 chr3 129055328 129058583 + 0 NA Intergenic Intergenic -142923 NM_001286942 18741 Mm.246804 NM_011098 ENSMUSG00000028023 Pitx2 9430085M16Rik|Brx1|Brx1b|Munc30|Otlx2|Ptx2|Rieg paired-like homeodomain transcription factor 2 protein-coding 3.643 0.538 0.197 3.257 2.167 1.409 5.668 nan 3.226 2.595 1.280 0.672 4.728 4.863 5.548 nan nan nan 0.412 0.545 0.650 0.411 0.801 0.291 5.989 19 chr1 20846253 20848395 + 0 NA Intergenic GA-rich|Low_complexity|Low_complexity -27111 NM_008563 17215 Mm.4502 NM_008563 ENSMUSG00000041859 Mcm3 AL033361|C80350|Mcmd|P1|p1.m minichromosome maintenance complex component 3 protein-coding 3.133 0.525 0.456 2.019 3.341 1.712 3.805 2.563 4.209 3.548 3.198 3.190 5.318 4.310 3.734 5.745 3.211 5.330 0.426 0.401 0.321 0.232 0.471 0.176 2.229 3096 chr7 30051869 30054127 + 0 NA Intergenic B3|SINE|B2 -1602 NM_178733 243906 Mm.347644 NM_011748 ENSMUSG00000053985 Zfp14 4732429I09Rik|Krox-9|Zfp-14|mKIAA1559 zinc finger protein 14 protein-coding 2.339 0.830 0.918 2.409 5.172 4.019 3.593 5.509 2.961 2.283 3.001 2.236 3.955 4.762 2.752 2.864 3.465 3.087 1.415 1.069 0.785 1.254 1.611 1.660 3.224 2702 chr5 106012183 106018888 + 0 NA Intergenic Intergenic 138967 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 7.064 2.140 1.148 4.991 4.695 2.227 9.258 6.403 6.713 8.632 2.247 2.372 9.099 8.084 9.359 8.683 5.344 8.314 nan 1.231 0.709 1.081 1.117 0.646 7.172 1030 chr14 78263713 78265943 + 0 NA Intergenic Intergenic 43215 NM_011613 21943 Mm.249221 NM_011613 ENSMUSG00000022015 Tnfsf11 Ly109l|ODF|OPGL|RANKL|Trance tumor necrosis factor (ligand) superfamily, member 11 protein-coding 3.087 2.509 1.124 5.358 2.123 0.833 0.299 0.664 1.090 0.798 0.547 0.403 1.212 2.164 2.116 0.964 0.883 1.116 7.035 4.458 1.502 4.737 6.850 2.972 3.026 365 chr10 127982386 127987141 + 0 NA Intergenic Intergenic 22745 NM_013786 27400 Mm.26719 NM_013786 ENSMUSG00000025396 Hsd17b6 17betaHSD9|Hsd17b9|Rdh8 hydroxysteroid (17-beta) dehydrogenase 6 protein-coding 7.817 8.087 3.257 5.532 4.464 1.988 4.930 5.608 3.507 4.619 4.538 2.946 4.497 7.529 5.913 6.992 6.602 4.991 4.204 3.196 2.068 4.766 nan 3.336 7.763 2730 chr5 118531155 118536273 + 0 NA Intergenic ID_B1|SINE|B4 -27005 NM_001347445 76199 Mm.206238 NM_172424 ENSMUSG00000018076 Med13l 2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025 mediator complex subunit 13-like protein-coding 2.195 4.285 1.510 2.259 1.408 0.508 2.874 0.618 1.157 1.326 0.967 0.550 1.208 2.183 2.336 2.153 1.300 2.533 nan nan 1.249 4.679 nan 1.578 4.088 763 chr12 71099114 71100328 + 0 NA TTS (NM_001081195) TTS (NM_001081195) -11707 NM_029227 75266 Mm.402075 NM_029227 ENSMUSG00000021078 Tomm20l 4930553D19Rik translocase of outer mitochondrial membrane 20 homolog (yeast)-like protein-coding 4.532 0.887 0.641 1.768 2.169 0.667 5.435 2.372 3.278 2.102 8.340 3.700 3.594 3.911 2.791 2.545 3.736 2.800 0.595 1.125 0.202 0.491 0.640 0.453 2.006 3255 chr8 34926528 34929823 + 0 NA intron (NM_175091, intron 2 of 26) Charlie5|DNA|hAT-Charlie 37515 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 5.442 1.153 0.432 3.268 2.380 1.159 3.636 6.980 3.785 3.177 2.767 4.281 5.213 5.511 6.319 8.099 5.399 6.628 0.876 0.676 0.523 0.822 0.632 1.039 6.625 3332 chr8 90969208 90979322 + 0 NA intron (NM_001310530, intron 3 of 37) intron (NM_001310530, intron 3 of 37) 42016 NM_001310530 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 3.273 0.739 0.449 4.917 4.236 2.687 1.039 2.391 nan 9.011 0.552 0.633 5.758 10.111 3.267 3.574 3.510 4.876 nan 4.315 3.459 8.724 2.655 2.304 4.095 2593 chr4 151570433 151573503 + 0 NA intron (NM_001081557, intron 4 of 23) G-rich|Low_complexity|Low_complexity 289800 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 2.197 nan 2.197 2.067 2.726 2.156 1.248 4.101 1.848 1.927 0.885 1.532 1.510 1.697 1.300 1.387 1.217 1.589 1.696 1.785 1.982 2.049 1.423 0.958 1.225 3196 chr7 135693879 135698854 + 0 NA exon (NM_001081117, exon 12 of 14) exon (NM_001081117, exon 12 of 14) 20013 NM_001081117 17345 Mm.4078 NM_001081117 ENSMUSG00000031004 Mki67 D630048A14Rik|Ki-67|Ki67 antigen identified by monoclonal antibody Ki 67 protein-coding 2.500 nan 0.852 2.160 2.554 1.874 2.537 4.562 nan 2.369 4.417 3.881 2.423 3.242 2.038 1.645 1.856 2.570 3.029 4.084 2.941 3.916 2.553 2.415 2.105 2021 chr2 156002591 156007629 + 0 NA promoter-TSS (NM_001145351) promoter-TSS (NM_001145351) -683 NM_001145351 320095 Mm.442175 NM_001145351 ENSMUSG00000074646 6430550D23Rik - RIKEN cDNA 6430550D23 gene protein-coding nan 10.887 4.190 9.413 5.073 2.883 7.161 9.263 6.466 nan 5.778 3.457 nan 9.936 9.186 10.578 8.289 nan nan 2.620 2.544 6.125 3.430 3.336 nan 3430 chr9 20970426 20972720 + 0 NA intron (NM_010333, intron 1 of 1) B4|SINE|B4 5220 NM_010333 14739 Mm.46493 NM_010333 ENSMUSG00000043895 S1pr2 1100001A16Rik|Edg5|Gpcr13|H218|LPb2|S1P2 sphingosine-1-phosphate receptor 2 protein-coding 4.123 5.161 1.132 4.565 1.768 0.594 1.807 1.803 2.041 2.712 0.979 1.083 1.848 2.556 1.866 2.335 1.287 3.251 1.725 1.497 0.750 3.461 1.719 0.767 4.970 1895 chr2 60760417 60762885 + 0 NA intron (NM_001141932, intron 9 of 14) intron (NM_001141932, intron 9 of 14) -39048 NM_001159564 16420 Mm.98193 NM_021359 ENSMUSG00000026971 Itgb6 2210409C20Rik|4831415H04Rik integrin beta 6 protein-coding 7.621 1.493 1.110 4.154 4.547 1.912 5.438 7.437 4.960 4.462 3.910 2.565 4.846 5.892 4.823 6.715 7.034 5.357 3.004 2.934 1.442 3.624 3.702 2.267 4.677 3318 chr8 89393798 89397544 + 0 NA Intergenic Intergenic -351509 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 6.546 8.363 5.058 4.341 4.449 2.441 1.570 3.896 nan 2.738 1.631 1.417 1.945 2.474 2.891 3.473 2.544 4.443 nan 2.186 1.440 1.330 1.282 0.821 4.066 2920 chr6 86573547 86574382 + 0 NA Intergenic Intergenic 46563 NR_037961 72012 Mm.349174 NR_037960 ENSMUSG00000097048 1600020E01Rik - RIKEN cDNA 1600020E01 gene ncRNA 0.825 0.898 0.316 1.413 0.716 0.646 3.939 2.482 1.399 1.009 1.138 0.721 1.677 3.469 4.051 5.218 1.296 2.165 nan 0.468 0.498 2.467 0.315 0.173 3.650 2038 chr2 158491805 158495769 + 0 NA intron (NM_001291137, intron 29 of 30) B2_Mm2|SINE|B2 -8825 NM_145635 246747 Mm.28800 NM_145635 ENSMUSG00000044405 Adig SMAF-1|Smaf1 adipogenin protein-coding nan 19.642 5.820 6.244 1.412 0.691 1.400 1.062 nan nan 2.022 0.492 nan nan 2.238 3.085 1.595 4.200 nan 1.058 1.106 2.047 0.793 0.819 4.462 570 chr11 96803381 96806181 + 0 NA intron (NM_007622, intron 4 of 5) intron (NM_007622, intron 4 of 5) -6625 NR_033523 629750 Mm.390396 NR_033523 Gm11517 OTTMUSG00000001634 ubiquitin A-52 residue ribosomal protein fusion product 1 pseudogene pseudo 5.489 nan 1.651 4.204 4.112 2.087 4.835 5.795 3.095 4.641 3.789 2.721 3.773 7.311 5.445 6.773 5.058 5.024 3.229 nan 1.905 3.077 nan nan 5.772 3123 chr7 71148112 71149778 + 0 NA Intergenic L2a|LINE|L2 -760750 NR_130995 78156 Mm.243818 NR_130995 ENSMUSG00000108669 4930441H08Rik - RIKEN cDNA 4930441H08 gene ncRNA nan 6.311 5.998 2.072 2.235 0.996 1.202 1.595 1.714 1.768 1.261 1.240 0.958 2.110 0.920 1.347 1.414 1.211 1.346 1.844 1.696 0.772 1.785 2.001 1.245 1880 chr2 38338263 38343179 + 0 NA intron (NM_001290646, intron 1 of 4) intron (NM_001290646, intron 1 of 4) 1440 NM_001290646 16870 Mm.142856 NM_010710 ENSMUSG00000000247 Lhx2 LH2A|Lh-2|Lim2|ap|apterous LIM homeobox protein 2 protein-coding 11.269 1.743 0.542 5.394 3.086 1.662 8.776 10.093 5.579 6.039 3.127 3.128 11.831 9.590 9.620 14.325 9.205 8.264 4.413 3.159 2.702 3.849 2.909 1.995 11.619 252 chr10 41994388 41998002 + 0 NA intron (NM_001034858, intron 4 of 17) ORR1E|LTR|ERVL-MaLR 22187 NM_001034858 213402 Mm.211320 NM_001034858 ENSMUSG00000071324 Armc2 2610018I05Rik armadillo repeat containing 2 protein-coding 12.234 11.841 2.499 16.749 4.770 3.605 7.672 12.660 7.025 19.684 7.514 4.621 8.505 13.416 12.730 14.674 7.965 13.880 5.266 2.538 3.271 7.461 3.153 4.545 23.981 3389 chr8 122994324 122996981 + 0 NA intron (NM_001081379, intron 1 of 12) intron (NM_001081379, intron 1 of 12) 46632 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 0.990 0.932 0.766 1.385 0.605 0.792 1.005 1.523 0.569 0.944 0.407 0.302 0.725 1.583 1.086 nan 1.156 1.072 0.926 3.167 3.159 3.482 2.067 1.358 1.394 1159 chr15 76707869 76713063 + 0 NA promoter-TSS (NM_058214) promoter-TSS (NM_058214) 93 NM_058214 79456 Mm.18373 NM_058214 ENSMUSG00000033762 Recql4 RecQ4 RecQ protein-like 4 protein-coding 6.646 nan 1.308 nan 4.357 3.610 11.630 12.051 3.636 3.962 nan 4.468 8.643 7.359 6.441 6.187 8.682 5.658 4.391 2.773 3.370 nan 4.606 3.924 7.324 883 chr13 41063918 41069871 + 0 NA intron (NM_001145802, intron 2 of 11) (TG)n|Simple_repeat|Simple_repeat 3571 NM_008547 17152 Mm.8149 NM_008547 ENSMUSG00000021363 Mak A930010O05Rik male germ cell-associated kinase protein-coding 4.101 nan 0.741 1.792 2.763 1.576 nan 3.920 nan nan 2.576 1.124 1.926 4.144 2.838 2.491 1.447 2.153 0.572 0.593 0.538 0.619 0.482 0.415 2.280 2048 chr2 160543543 160546103 + 0 NA Intergenic Intergenic -101074 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 5.048 0.895 0.524 3.924 1.994 2.166 3.981 4.491 5.130 nan 3.266 1.497 7.008 4.165 5.062 7.612 5.783 6.355 nan 0.271 0.706 1.338 0.412 0.445 4.493 655 chr11 116113712 116119023 + 0 NA Intergenic B1_Mus1|SINE|Alu -6132 NM_172570 217333 Mm.347770 NM_172570 ENSMUSG00000020773 Trim47 2210023F24Rik tripartite motif-containing 47 protein-coding 2.475 2.517 1.055 1.938 1.723 1.310 nan 5.239 2.874 nan 4.949 3.483 4.224 5.547 3.862 3.969 4.231 nan 2.138 nan 2.006 3.656 1.834 1.565 2.992 3110 chr7 35838375 35844320 + 0 NA Intergenic L1MA9|LINE|L1 -38358 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 9.475 6.766 1.842 8.642 4.683 2.316 5.314 10.667 7.004 10.214 4.986 2.064 9.250 10.084 7.804 8.064 6.847 9.769 4.112 1.876 1.716 4.290 2.907 2.976 10.590 421 chr11 53664942 53668162 + 0 NA intron (NM_009012, intron 21 of 24) L1M2|LINE|L1 -31850 NM_008355 16163 Mm.1284 NM_008355 ENSMUSG00000020383 Il13 Il-13 interleukin 13 protein-coding 5.236 4.141 1.487 5.880 2.741 1.853 6.438 3.546 5.437 4.870 1.582 2.429 5.849 4.617 6.585 8.425 5.256 6.935 4.453 2.037 2.479 2.904 2.923 2.163 6.213 1998 chr2 150430959 150435521 + 0 NA intron (NM_001310645, intron 1 of 3) L1_Mus3|LINE|L1 18261 NM_001310645 668923 Mm.393876 NM_001177550 ENSMUSG00000068130 Zfp442 OTTMUSG00000015730|ZIPO-II zinc finger protein 442 protein-coding 4.785 3.428 1.981 3.042 2.465 1.852 3.293 3.895 3.000 3.449 1.730 1.085 6.470 5.591 3.708 4.530 6.249 4.737 nan 1.395 0.967 1.361 1.651 1.212 5.283 2930 chr6 88014425 88016337 + 0 NA intron (NM_001293652, intron 2 of 7) intron (NM_001293652, intron 2 of 7) 4414 NM_001293654 19349 Mm.333233 NM_009005 ENSMUSG00000079477 Rab7 Rab7a RAB7, member RAS oncogene family protein-coding 5.143 2.772 2.237 5.944 3.311 3.157 2.988 3.345 2.846 2.689 3.761 1.886 2.593 2.776 1.945 2.770 2.680 2.977 nan 2.277 2.229 3.781 2.763 2.273 3.302 2332 chr4 8769130 8770552 + 0 NA intron (NM_001277149, intron 2 of 37) intron (NM_001277149, intron 2 of 37) 79435 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 3.856 8.035 6.598 2.754 2.906 2.146 1.283 nan 2.017 2.121 2.384 1.767 1.423 2.593 1.712 1.868 2.347 2.146 3.437 5.856 3.285 4.620 3.694 3.653 1.323 1367 chr16 91593267 91599104 + 0 NA intron (NM_030018, intron 1 of 6) intron (NM_030018, intron 1 of 6) 1495 NM_030018 77975 Mm.290341 NM_030018 ENSMUSG00000022964 Tmem50b AU015466|AU019872|B230114J08Rik transmembrane protein 50B protein-coding 4.487 4.671 2.128 4.330 3.219 2.080 4.291 4.453 3.038 5.811 2.370 1.042 5.672 5.607 4.627 6.967 4.356 4.916 2.249 1.557 1.931 nan 1.782 1.913 7.198 271 chr10 67193832 67195196 + 0 NA intron (NM_207221, intron 3 of 25) Lx6|LINE|L1 8764 NM_001242396 108829 Mm.23846 NM_207221 ENSMUSG00000037876 Jmjd1c 5430433L24Rik|D630035I23Rik|Jmjdic|TRIP8 jumonji domain containing 1C protein-coding 4.103 0.552 0.577 0.889 3.220 0.756 3.608 4.996 2.275 3.262 0.723 0.400 2.901 4.985 2.382 2.301 3.044 nan 0.468 0.435 0.298 0.484 0.279 2.089 1070 chr15 12123391 12127283 + 0 NA intron (NM_011767, intron 2 of 19) B3A|SINE|B2 7486 NM_011767 22763 Mm.273496 NM_011767 ENSMUSG00000022201 Zfr C920030H05Rik zinc finger RNA binding protein protein-coding 6.909 1.135 0.575 2.832 1.789 0.986 6.811 14.149 4.210 5.758 3.668 1.743 8.005 7.532 7.635 6.353 6.776 5.340 2.050 1.559 0.976 2.623 2.008 1.850 6.884 1024 chr14 70555945 70562228 + 0 NA intron (NM_021877, intron 4 of 19) intron (NM_021877, intron 4 of 19) 5030 NM_021877 15460 Mm.7598 NM_021877 ENSMUSG00000022096 Hr ALUNC|AU|N|ba|bldy|hr|rh|rh-bmh|rhino hairless protein-coding 6.974 3.463 1.536 5.674 2.608 1.596 7.501 8.250 4.988 7.302 4.433 2.284 5.973 9.064 6.096 9.018 4.022 7.052 1.598 nan 1.209 2.430 1.314 0.986 12.491 3174 chr7 123311491 123313505 + 0 NA intron (NM_001316713, intron 8 of 19) B2_Mm2|SINE|B2 57417 NM_001122643 70497 Mm.403318 NM_144529 ENSMUSG00000030766 Arhgap17 5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15 Rho GTPase activating protein 17 protein-coding 1.932 0.827 0.213 2.353 2.416 0.981 2.418 nan 2.899 2.657 0.747 0.710 3.399 4.364 4.528 3.657 2.450 4.279 2.327 0.648 0.357 0.897 2.342 1.597 2.524 3117 chr7 48887773 48889295 + 0 NA Intergenic Intergenic -7493 NM_001013368 108961 Mm.240566 NM_001013368 ENSMUSG00000046179 E2f8 4432406C08Rik|AA410048 E2F transcription factor 8 protein-coding 5.822 9.962 2.281 7.240 1.650 0.999 6.195 6.739 3.632 4.720 3.012 1.592 4.587 5.421 7.242 8.277 5.024 7.292 4.758 2.238 1.602 6.164 2.953 1.975 8.397 2867 chr6 51493746 51496735 + 0 NA Intergenic Intergenic 24624 NM_007624 12417 Mm.280968 NM_007624 ENSMUSG00000029836 Cbx3 HP1g|M32 chromobox 3 protein-coding 10.233 6.252 3.838 5.941 6.129 3.497 8.819 10.851 5.557 5.740 5.974 3.389 5.590 9.056 6.487 8.195 7.146 5.660 nan 4.910 2.419 2.753 2.240 1.854 6.642 2871 chr6 52149276 52154358 + 0 NA Intergenic Intergenic 6500 NM_010449 15394 Mm.197 NM_010449 ENSMUSG00000029844 Hoxa1 ERA1|Hox-1.6 homeobox A1 protein-coding 3.976 1.976 0.816 7.303 2.328 1.282 1.319 1.203 2.060 3.505 1.305 1.049 0.962 2.371 2.076 3.075 1.677 3.924 nan 1.214 0.531 0.623 0.550 0.432 3.527 491 chr11 75267071 75277514 + 0 NA Intergenic B2_Mm2|SINE|B2 76091 NM_001164223 68275 Mm.102574 NM_026653 ENSMUSG00000000751 Rpa1 5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa replication protein A1 protein-coding 10.306 12.661 5.239 9.941 8.673 5.665 nan 8.974 7.681 11.673 6.822 3.732 7.900 13.470 nan nan 7.205 9.622 3.022 2.531 nan 3.226 2.892 2.927 10.755 1863 chr2 33607875 33618324 + 0 NA intron (NM_010725, intron 2 of 7) intron (NM_010725, intron 2 of 7) 27412 NM_010725 16917 Mm.39825 NM_010725 ENSMUSG00000038765 Lmx1b Icst|LMX1.1|LMX1.2 LIM homeobox transcription factor 1 beta protein-coding 3.962 1.847 0.481 3.024 1.549 0.721 3.349 nan 2.865 nan 1.722 0.534 4.384 4.675 4.505 5.467 3.200 3.892 1.285 0.608 0.504 1.469 0.608 0.407 9.533 3275 chr8 74150853 74154301 + 0 NA Intergenic MTEb|LTR|ERVL-MaLR -720597 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 6.666 nan 1.611 6.438 2.300 0.947 nan 7.796 nan 5.056 3.769 1.947 4.898 6.225 6.175 7.576 3.807 5.249 1.755 1.785 1.972 nan 1.707 2.084 9.305 2463 chr4 124821326 124824053 + 0 NA intron (NM_008636, intron 4 of 10) intron (NM_008636, intron 4 of 10) 20140 NM_008636 17764 Mm.272397 NM_008636 ENSMUSG00000028890 Mtf1 MTF-1|Thyls metal response element binding transcription factor 1 protein-coding 4.702 2.429 1.132 2.970 1.813 0.949 0.896 1.813 1.786 2.766 2.006 0.943 1.096 2.493 nan 2.109 1.139 2.039 1.087 1.300 0.751 1.147 0.461 0.488 4.196 13 chr1 15795179 15796774 + 0 NA Intergenic Intergenic -9670 NM_009352 21749 Mm.4306 NM_009352 ENSMUSG00000025925 Terf1 Pin2|Trbf1|Trf1 telomeric repeat binding factor 1 protein-coding 9.213 13.547 5.493 10.957 2.678 2.291 5.885 5.706 5.411 9.899 7.052 3.726 7.520 7.316 8.300 13.184 6.661 9.183 5.731 2.885 3.078 7.759 3.226 3.856 13.086 2493 chr4 129416929 129420661 + 0 NA Intergenic B3|SINE|B2 22023 NM_153541 215627 Mm.428660 NM_153541 ENSMUSG00000048485 Zbtb8b AV220464|BC023839|BOZF1|Zbtb8 zinc finger and BTB domain containing 8b protein-coding 6.614 10.769 5.192 6.607 5.709 3.677 6.573 4.942 3.093 7.717 6.176 2.288 4.266 6.484 nan 6.476 4.365 5.020 7.966 7.462 7.784 8.339 8.532 8.468 10.927 105 chr1 121535290 121541427 + 0 NA Intergenic Lx8|LINE|L1 -9893 NM_010483 15564 Mm.4833 NM_010483 ENSMUSG00000050534 Htr5b 5-Ht5b 5-hydroxytryptamine (serotonin) receptor 5B protein-coding 6.470 0.598 0.494 2.864 3.576 3.043 5.658 4.019 3.876 3.263 2.082 1.525 5.255 5.177 3.611 5.789 6.424 5.207 1.276 1.046 0.502 0.965 1.374 1.015 3.275 1514 chr17 46208372 46212877 + 0 NA intron (NM_028198, intron 5 of 31) intron (NM_028198, intron 5 of 31) 7769 NM_028198 72322 Mm.275039 NM_028198 ENSMUSG00000067150 Xpo5 2410004H11Rik|2700038C24Rik|AI648907|AW549301|Exp5|RanBp21|mKIAA1291 exportin 5 protein-coding 3.106 3.329 1.065 3.229 2.215 0.923 5.031 4.461 2.444 2.573 4.263 2.539 2.901 nan 3.761 5.899 3.414 3.173 1.715 1.189 0.797 3.233 1.277 0.935 4.187 840 chr12 119538482 119541252 + 0 NA Intergenic RMER16C|LTR|ERVK 96457 NM_001163136 238455 Mm.31376 NM_001163136 ENSMUSG00000041886 Macc1 4732474O15Rik|Gm267 metastasis associated in colon cancer 1 protein-coding nan 9.098 3.345 7.749 4.913 2.575 5.610 5.348 2.661 5.985 4.298 1.993 4.556 8.426 5.824 7.777 7.361 6.420 5.431 3.628 3.292 5.048 5.032 4.898 11.704 1647 chr18 55112192 55114595 + 0 NA Intergenic ID_B1|SINE|B4 -123213 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 2.327 nan 0.541 3.357 2.648 0.900 2.288 nan 1.843 2.113 1.045 1.291 2.791 2.471 2.155 3.435 2.082 3.059 2.511 1.878 1.383 4.196 2.245 1.143 2.620 597 chr11 98949540 98951203 + 0 NA 5' UTR (NM_009024, exon 2 of 9) 5' UTR (NM_009024, exon 2 of 9) -10100 NM_001176528 19401 Mm.439744 NM_009024 ENSMUSG00000037992 Rara Nr1b1|RAR|RARalpha1 retinoic acid receptor, alpha protein-coding 0.853 nan 0.782 0.760 0.343 0.198 3.751 3.760 1.533 1.254 6.031 3.614 1.951 2.247 1.269 1.689 nan 1.129 0.473 nan 0.295 1.026 nan nan 1.077 2380 chr4 62162716 62163864 + 0 NA Intergenic L1Md_T|LINE|L1 -12449 NM_001009550 381531 Mm.472122 NM_001009550 ENSMUSG00000066153 Mup21 Gm11208|Mup|Mup26|OTTMUSG00000000231|bM64F17.1|bM64F17.4 major urinary protein 21 protein-coding 20.964 14.399 6.167 14.101 5.407 4.575 10.972 15.607 11.288 16.326 12.283 7.171 8.755 12.272 10.296 16.992 16.253 23.452 6.941 9.814 7.351 11.261 14.856 12.859 25.042 111 chr1 121996144 121997551 + 0 NA Intergenic Intergenic -428867 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 3.006 1.496 1.103 1.569 1.333 0.813 2.315 2.978 1.762 1.636 0.559 0.499 1.830 4.629 2.571 1.971 1.653 1.452 0.372 0.428 0.309 0.503 0.198 0.453 1.930 3549 chr9 108683477 108687172 + 0 NA TTS (NM_020520) TTS (NM_020520) -6819 NM_008924 19087 Mm.253102 NM_008924 ENSMUSG00000032601 Prkar2a 1110061A24Rik|AI317181|AI836829|RII(alpha) protein kinase, cAMP dependent regulatory, type II alpha protein-coding 5.141 5.997 2.013 4.804 2.320 1.256 3.521 4.321 nan 5.800 2.847 2.226 4.060 6.079 5.370 6.395 4.063 5.126 6.189 3.900 1.690 5.931 4.901 4.129 8.157 1411 chr17 15509905 15514023 + 0 NA intron (NM_013684, intron 4 of 7) intron (NM_013684, intron 4 of 7) 12076 NM_013684 21374 Mm.244820 NM_013684 ENSMUSG00000014767 Tbp GTF2D1|Gtf2d|SCA17|TFIID TATA box binding protein protein-coding 4.178 5.125 1.584 7.491 1.419 0.812 5.077 3.542 2.571 5.367 2.951 1.926 2.356 3.440 4.596 3.293 1.089 5.263 6.957 1.830 2.128 6.000 4.492 4.998 8.465 408 chr11 44705184 44708786 + 0 NA intron (NM_007897, intron 6 of 15) B1_Mur3|SINE|Alu 88885 NM_001290710 13591 Mm.439662 NM_007897 ENSMUSG00000057098 Ebf1 Ebf|O/E-1|OE-1|Olf-1|Olf1 early B cell factor 1 protein-coding 0.354 7.948 4.307 0.808 0.341 0.207 0.357 nan 0.435 0.468 0.243 0.225 0.131 0.257 0.475 nan 0.265 nan nan 0.835 0.546 nan nan 0.233 0.364 1480 chr17 32007202 32011999 + 0 NA intron (NM_028902, intron 5 of 7) intron (NM_028902, intron 5 of 7) 24908 NM_028902 74377 Mm.75856 NM_028902 ENSMUSG00000002076 Hsf2bp 4932437G14Rik heat shock transcription factor 2 binding protein protein-coding 2.414 2.508 0.961 5.650 4.081 2.249 4.216 4.207 4.125 6.507 3.198 2.381 2.025 3.665 2.919 3.454 2.343 4.335 2.973 2.608 2.125 8.809 3.499 2.907 2.771 3581 chrX 97881702 97884082 + 0 NA Intergenic Lx8b|LINE|L1 -265865 NM_013476 11835 Mm.39005 NM_013476 ENSMUSG00000046532 Ar AW320017|Tfm androgen receptor protein-coding 2.904 0.641 0.385 1.964 1.174 0.472 2.288 3.763 2.959 4.169 2.020 0.885 3.994 3.867 2.790 3.748 2.564 2.736 0.836 0.707 0.206 1.142 0.329 0.185 1.698 3577 chrX 93301338 93304552 + 0 NA Intergenic Intergenic 16438 NM_001305940 11878 Mm.275547 NM_007492 ENSMUSG00000035277 Arx - aristaless related homeobox protein-coding 3.675 1.008 0.824 3.443 3.430 1.904 2.391 3.013 3.212 2.853 1.769 1.456 2.798 3.600 2.498 3.093 3.065 3.640 0.818 0.791 0.427 0.722 0.253 0.117 2.410 3265 chr8 46698879 46701496 + 0 NA Intergenic B1_Mur1|SINE|Alu 39328 NR_045750 100503498 Mm.187358 NR_045750 ENSMUSG00000097534 Gm16675 - predicted gene, 16675 ncRNA 6.774 0.644 0.460 2.603 3.048 1.754 3.628 6.889 3.184 3.646 3.775 1.500 5.897 3.311 4.023 5.172 6.450 4.751 2.709 2.234 1.089 5.814 0.852 0.751 6.071 2777 chr5 136503008 136505851 + 0 NA intron (NM_001291234, intron 1 of 22) intron (NM_001291234, intron 1 of 22) 61552 NM_001291239 13047 Mm.320317 NM_009986 ENSMUSG00000029705 Cux1 CDP|Cutl1|Cux|Cux-1 cut-like homeobox 1 protein-coding 1.222 1.258 0.552 2.500 1.833 0.540 0.654 0.785 0.917 1.636 0.773 0.245 1.464 6.140 3.649 1.601 0.795 1.712 0.434 0.306 0.388 0.432 nan 0.197 3.275 242 chr10 37044487 37046542 + 0 NA Intergenic Lx3B|LINE|L1 70970 NM_008229 15182 Mm.19806 NM_008229 ENSMUSG00000019777 Hdac2 D10Wsu179e|YAF1|Yy1bp|mRPD3 histone deacetylase 2 protein-coding 3.949 1.480 1.278 1.484 0.779 0.310 3.631 3.371 1.608 1.148 1.500 1.336 3.328 1.549 3.065 4.160 3.006 2.786 2.931 3.843 2.664 4.064 4.476 3.001 3.143 559 chr11 95694997 95700323 + 0 NA Intergenic Intergenic 15094 NR_045780 432396 Mm.426849 NR_045780 ENSMUSG00000086191 Zfp652os 1110035M17Rik zinc finger protein 652, opposite strand ncRNA 6.825 7.846 3.370 5.154 3.015 2.180 2.010 2.763 3.188 4.546 2.756 1.878 1.624 4.018 2.590 3.494 2.730 4.026 0.912 nan 1.590 0.771 nan nan 4.873 1588 chr17 87680648 87689417 + 0 NA intron (NM_008628, intron 4 of 15) intron (NM_008628, intron 4 of 15) 12475 NM_008628 17685 Mm.4619 NM_008628 ENSMUSG00000024151 Msh2 AI788990 mutS homolog 2 protein-coding 6.063 5.781 1.920 7.107 3.940 2.188 7.892 6.095 5.192 9.224 4.864 2.207 8.013 11.020 9.871 11.593 5.976 8.266 2.314 1.077 1.233 2.865 1.426 1.332 12.938 32 chr1 37622896 37625118 + 0 NA exon (NM_028096, exon 7 of 10) exon (NM_028096, exon 7 of 10) -82991 NM_173870 269181 Mm.25861 NM_173870 ENSMUSG00000026110 Mgat4a 9530018I07Rik|GnT-IVa|glcNAc-T-IVa mannoside acetylglucosaminyltransferase 4, isoenzyme A protein-coding 5.002 2.592 2.240 1.124 0.764 0.783 2.890 5.494 2.240 1.875 4.210 3.335 3.893 2.947 3.085 nan 4.881 2.473 1.035 0.850 1.158 2.079 1.131 0.727 2.237 443 chr11 62387853 62391045 + 0 NA intron (NM_011308, intron 13 of 44) B3A|SINE|B2 49066 NM_001252313 20185 Mm.271814 NM_011308 ENSMUSG00000018501 Ncor1 5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047 nuclear receptor co-repressor 1 protein-coding 4.904 14.221 5.840 3.883 2.758 1.103 1.371 1.608 1.965 2.470 1.623 0.526 1.503 3.067 2.202 2.333 1.866 2.077 3.983 4.656 2.555 4.906 4.026 2.357 3.252 2234 chr3 90288802 90292679 + 0 NA Intergenic B3|SINE|B2 20591 NR_105979 102465612 NR_105979 ENSMUSG00000099199 Mir7012 Gm27370|mmu-mir-7012 microRNA 7012 ncRNA 4.258 0.936 0.723 2.235 2.913 2.606 5.988 4.510 3.040 3.169 2.997 3.040 6.117 7.406 4.491 nan 3.644 4.867 nan 0.635 0.474 1.082 0.876 0.804 3.665 1795 chr19 46550606 46563235 + 0 NA intron (NM_019718, intron 2 of 5) URR1A|DNA|hAT-Charlie 16165 NM_019718 56350 Mm.22085 NM_019718 ENSMUSG00000025035 Arl3 - ADP-ribosylation factor-like 3 protein-coding 7.680 3.415 1.077 8.488 4.895 2.575 9.435 9.534 5.544 7.048 8.661 4.049 6.034 9.534 8.493 9.290 6.123 9.985 1.602 1.572 1.300 2.686 1.593 1.113 13.840 580 chr11 97689265 97695524 + 0 NA exon (NM_009545, exon 8 of 13) exon (NM_009545, exon 8 of 13) 6442 NM_001085500 217149 Mm.29659 NM_001085500 ENSMUSG00000078695 Cisd3 Mel-13|Mel13 CDGSH iron sulfur domain 3 protein-coding 3.782 nan 1.188 4.723 3.269 2.645 2.668 3.409 2.627 2.457 2.653 1.977 2.942 5.202 3.614 3.321 nan 4.131 0.977 nan 1.241 1.152 nan nan 2.935 2800 chr5 147058939 147064739 + 0 NA intron (NM_080795, intron 1 of 9) intron (NM_080795, intron 1 of 9) 14733 NM_080795 140887 Mm.272203 NM_080795 ENSMUSG00000016520 Lnx2 9630046H24|AW209022 ligand of numb-protein X 2 protein-coding 5.498 1.060 0.556 4.763 3.071 1.632 3.959 5.131 5.099 5.487 2.236 1.474 5.515 6.676 6.201 6.616 4.298 5.430 3.686 2.102 2.066 4.015 2.482 1.660 4.811 2523 chr4 135602928 135604976 + 0 NA Intergenic Intergenic -22703 NR_015613 73937 Mm.292326 NM_028688 ENSMUSG00000086788 1700029M20Rik 4930406E24Rik RIKEN cDNA 1700029M20 gene ncRNA nan 0.993 0.509 2.642 4.046 2.338 2.078 2.715 nan 1.509 2.350 1.279 2.060 5.299 2.141 1.870 1.324 2.492 1.022 0.485 0.952 1.233 nan 0.728 2.232 3519 chr9 72314733 72316759 + 0 NA intron (NM_001311105, intron 9 of 20) intron (NM_001311105, intron 9 of 20) 40858 NM_001311105 235469 Mm.242791 NM_146224 ENSMUSG00000038535 Zfp280d A930005F02Rik|BC027163|Suhw4|ZNF634|Znf280d zinc finger protein 280D protein-coding 2.289 9.383 5.650 1.100 0.549 0.221 0.550 0.514 0.977 1.183 0.263 0.398 0.518 0.827 nan 0.953 0.689 1.061 nan 1.916 1.339 0.610 0.922 0.621 1.309 3273 chr8 72297629 72299450 + 0 NA Intergenic ID_B1|SINE|B4 -20523 NM_008452 16598 Mm.26938 NM_008452 ENSMUSG00000055148 Klf2 Lklf Kruppel-like factor 2 (lung) protein-coding 6.457 7.093 4.847 6.171 3.582 4.481 5.948 5.837 4.397 7.111 3.091 2.956 6.630 5.923 6.522 7.120 6.388 5.538 nan 3.756 4.295 4.545 3.773 5.098 7.234 1257 chr16 4641028 4644484 + 0 NA intron (NM_139307, intron 1 of 1) intron (NM_139307, intron 1 of 1) 2811 NM_139307 246154 Mm.482140 NM_139307 ENSMUSG00000039646 Vasn 2610528G05Rik|Atia|Slitl2 vasorin protein-coding 9.584 3.011 0.761 6.730 3.627 2.127 7.446 9.529 3.720 5.164 3.207 1.122 6.992 11.543 6.884 12.016 5.174 8.494 1.274 1.801 1.087 3.209 0.906 0.349 13.383 846 chr13 8277392 8278683 + 0 NA intron (NR_110345, intron 1 of 10) intron (NR_110345, intron 1 of 10) 75171 NM_052977 94191 Mm.425794 NM_052977 ENSMUSG00000052551 Adarb2 Adar3|RED2 adenosine deaminase, RNA-specific, B2 protein-coding 4.316 0.540 0.102 0.492 0.284 4.347 1.057 1.710 0.903 0.369 0.140 2.987 3.653 4.636 2.463 5.077 3.814 0.736 0.621 0.167 0.604 0.387 0.311 2.836 31 chr1 37548405 37549323 + 0 NA Intergenic Intergenic -7848 NM_173870 269181 Mm.25861 NM_173870 ENSMUSG00000026110 Mgat4a 9530018I07Rik|GnT-IVa|glcNAc-T-IVa mannoside acetylglucosaminyltransferase 4, isoenzyme A protein-coding 9.058 10.648 7.195 3.722 2.114 2.963 1.874 7.268 3.736 3.522 3.965 3.014 3.906 3.721 2.989 5.026 6.093 3.556 1.086 3.382 2.310 0.847 0.948 0.918 5.474 1689 chr18 80746961 80748608 + 0 NA intron (NM_001201569, intron 26 of 29) intron (NM_001201569, intron 26 of 29) -34713 NM_001164109 18018 Mm.329560 NM_016791 ENSMUSG00000033016 Nfatc1 2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 protein-coding 1.955 nan 0.539 2.063 2.482 1.242 1.263 3.862 2.670 4.646 1.220 0.698 2.904 4.320 3.001 3.015 1.838 2.535 4.120 3.115 2.114 8.523 2.133 1.236 4.615 3484 chr9 48718162 48720430 + 0 NA intron (NM_001033324, intron 3 of 6) B1F|SINE|Alu -114173 NM_010924 18113 Mm.8362 NM_010924 ENSMUSG00000032271 Nnmt - nicotinamide N-methyltransferase protein-coding 0.276 0.579 0.462 0.206 0.161 0.053 0.079 0.047 0.200 0.377 0.147 0.130 0.074 0.276 nan nan 0.113 0.347 3.959 4.001 1.753 4.858 2.069 1.040 nan 2307 chr3 126399598 126404819 + 0 NA intron (NM_173451, intron 1 of 1) intron (NM_173451, intron 1 of 1) 38356 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 2.826 3.255 2.446 2.001 2.997 2.224 4.431 5.995 3.321 2.179 2.028 2.903 4.068 4.570 2.471 2.092 nan nan 1.146 1.177 0.704 0.833 1.205 0.898 1.917 1861 chr2 33435706 33442654 + 0 NA Intergenic B1_Mus1|SINE|Alu -7856 NM_001276332 241311 Mm.296512 NM_001085507 ENSMUSG00000068966 Zbtb34 Gm349|mKIAA1993 zinc finger and BTB domain containing 34 protein-coding 0.298 0.626 0.243 0.478 0.152 0.121 0.426 nan 0.143 nan 0.248 0.145 0.151 0.227 0.328 0.630 0.234 0.466 3.972 2.218 1.866 5.059 4.797 3.943 0.779 2825 chr6 6905436 6906888 + 0 NA Intergenic B1_Mur4|SINE|Alu -24094 NM_010056 13395 Mm.4873 NM_010056 ENSMUSG00000029755 Dlx5 AI385752 distal-less homeobox 5 protein-coding 5.413 4.777 1.379 6.025 1.665 1.556 6.285 5.213 4.031 3.926 3.296 2.732 5.419 4.992 6.650 9.991 6.143 6.070 2.998 1.766 1.297 3.392 1.418 1.560 7.180 2706 chr5 106053841 106055770 + 0 NA Intergenic Intergenic 178237 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 4.786 2.971 0.776 5.313 1.745 0.475 1.416 1.765 3.127 3.591 0.706 0.882 1.733 2.489 2.996 3.407 2.053 4.675 nan 0.697 0.477 0.774 0.620 0.264 3.944 3312 chr8 89069700 89071090 + 0 NA Intergenic Intergenic -26233 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 2.152 0.416 0.280 1.262 0.602 0.538 0.954 1.271 nan 2.566 0.152 0.216 2.782 4.607 1.671 2.690 2.378 1.223 nan 0.885 0.088 0.667 0.614 0.338 4.207 1296 chr16 18588371 18591883 + 0 NA intron (NM_001285472, intron 1 of 8) intron (NM_001285472, intron 1 of 8) 544 NM_001285472 21380 Mm.295194 NM_011532 ENSMUSG00000009097 Tbx1 - T-box 1 protein-coding 0.774 1.894 0.579 2.793 0.462 0.249 0.780 0.866 1.935 nan 4.603 4.468 0.730 1.423 1.648 2.276 0.747 1.736 7.144 3.012 3.158 7.453 5.502 4.049 2.136 3415 chr9 9198394 9200695 + 0 NA intron (NM_027823, intron 1 of 22) intron (NM_027823, intron 1 of 22) -36744 NR_045754 100579151 Mm.412450 NR_045754 ENSMUSG00000085253 Gm16833 - predicted gene, 16833 ncRNA 2.095 nan 0.594 1.793 0.791 0.052 1.284 1.858 1.609 1.236 5.282 2.827 1.313 1.686 1.063 1.469 nan nan nan 0.563 0.210 0.792 0.144 0.175 nan 1553 chr17 57216510 57218408 + 0 NA promoter-TSS (NR_105944) promoter-TSS (NR_105944) -231 NR_105944 102465591 NR_105944 ENSMUSG00000099066 Mir6978 Gm27858|mmu-mir-6978 microRNA 6978 ncRNA 4.315 14.000 6.784 2.540 2.238 0.794 1.084 0.985 1.769 2.208 2.330 1.106 0.663 1.364 1.629 1.875 1.393 1.346 0.772 3.130 2.247 0.802 1.087 0.248 2.605 2161 chr3 27352208 27355689 + 0 NA Intergenic (TCTA)n|Simple_repeat|Simple_repeat -17403 NM_177330 208188 Mm.194721 NM_177330 ENSMUSG00000051136 Ghsr C530020I22Rik|Ghsr1a growth hormone secretagogue receptor protein-coding 3.330 1.444 0.546 2.988 1.984 1.127 5.538 3.719 3.930 4.697 1.718 2.190 5.247 6.354 4.667 5.898 2.676 5.371 0.905 0.445 0.342 1.044 0.344 0.260 4.417 2897 chr6 72794467 72795712 + 0 NA Intergenic MER74A|LTR|ERVL -6044 NM_009332 21415 Mm.440067 NM_009332 ENSMUSG00000055799 Tcf7l1 Tcf-3|Tcf3|bHLHb21 transcription factor 7 like 1 (T cell specific, HMG box) protein-coding 2.577 1.130 0.510 1.138 4.455 3.791 6.374 3.260 2.102 1.811 1.401 1.103 3.508 4.209 2.873 3.348 4.817 2.658 0.503 0.615 1.783 0.486 0.897 1.418 2.454 3336 chr8 95719275 95724405 + 0 NA intron (NM_001205226, intron 46 of 48) intron (NM_001205226, intron 46 of 48) 5927 NM_001035123 66083 Mm.261321 NM_001035123 ENSMUSG00000031671 Setd6 0610039J04Rik|3110004G14Rik|AI413388|C76402 SET domain containing 6 protein-coding 6.285 0.264 0.253 4.404 1.544 0.692 4.290 9.748 2.876 4.722 1.416 1.441 9.133 6.193 4.411 8.565 7.832 6.028 3.025 2.295 1.356 2.973 4.846 2.807 6.642 1303 chr16 20699327 20702165 + 0 NA intron (NM_133778, intron 5 of 5) B1_Mus1|SINE|Alu 5689 NM_133778 78408 Mm.196512 NM_133778 ENSMUSG00000050821 Fam131a 2900046G09Rik family with sequence similarity 131, member A protein-coding 0.372 1.582 0.632 0.527 0.336 0.303 0.704 1.214 0.776 nan 0.691 1.060 0.402 0.853 1.125 nan 0.465 0.989 0.771 0.622 1.037 3.682 0.322 0.464 0.829 2133 chr2 181230928 181234057 + 0 NA exon (NM_183162, exon 9 of 19) exon (NM_183162, exon 9 of 19) 9535 NM_183162 229003 Mm.315872 NM_183162 ENSMUSG00000027580 Helz2 PDIP1|Pric285|mKIAA1769|mPDIP1 helicase with zinc finger 2, transcriptional coactivator protein-coding 7.798 6.704 2.139 7.216 7.594 5.186 6.525 8.953 5.012 6.059 4.549 2.679 7.527 8.286 6.710 9.243 6.615 7.372 2.727 1.337 1.499 3.306 2.363 2.338 9.745 1654 chr18 60869847 60901568 + 0 NA Intergenic Intergenic -26533 NM_001038499 545260 Mm.20147 NM_001038499 ENSMUSG00000036412 Arsi BC020108 arylsulfatase i protein-coding 8.390 nan 0.978 nan 5.611 3.257 5.152 7.030 4.169 5.895 4.666 2.097 nan 9.179 5.111 6.335 4.259 nan nan 1.784 1.555 nan 2.161 1.582 nan 968 chr13 115888936 115893360 + 0 NA Intergenic IAPEz-int|LTR|ERVK 418540 NM_021459 16392 Mm.42242 NM_021459 ENSMUSG00000042258 Isl1 - ISL1 transcription factor, LIM/homeodomain protein-coding 6.630 2.309 0.868 6.295 2.080 0.691 4.327 3.499 2.201 3.048 1.340 0.767 3.599 3.139 4.946 4.102 2.190 4.859 0.959 1.160 0.525 1.338 0.667 0.490 nan 3494 chr9 57819355 57823346 + 0 NA intron (NM_019689, intron 1 of 7) RSINE1|SINE|B4 12884 NM_019689 56380 Mm.425588 NM_019689 ENSMUSG00000004661 Arid3b Bdp|Dri2 AT rich interactive domain 3B (BRIGHT-like) protein-coding 2.431 15.079 5.579 3.651 1.304 0.568 1.402 nan 2.768 1.686 2.043 2.618 1.305 1.739 1.710 1.899 0.974 2.886 1.321 0.988 0.679 1.348 1.111 0.683 2.200 675 chr11 118917247 118920884 + 0 NA Intergenic Intergenic -7468 NM_001285437 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 6.519 nan 2.373 8.380 2.432 1.745 6.255 8.644 4.596 7.664 4.608 3.541 6.614 8.089 9.297 9.258 5.226 8.258 8.516 nan 3.556 11.348 4.056 4.621 16.485 3510 chr9 65842210 65843495 + 0 NA intron (NM_019797, intron 14 of 15) B1_Mur2|SINE|Alu -15288 NM_172536 214812 Mm.139231 NM_172536 ENSMUSG00000040524 Zfp609 9830165N24|BC016271|Znf609|mKIAA0295 zinc finger protein 609 protein-coding 2.803 0.614 0.158 0.585 1.021 0.408 0.742 0.589 2.172 1.676 0.392 0.231 2.672 3.863 nan 1.771 1.557 1.513 nan 0.860 0.925 0.580 0.427 0.223 2.220 15 chr1 16100157 16104420 + 0 NA intron (NM_011291, intron 5 of 6) intron (NM_011291, intron 5 of 6) 2145 NM_011291 19989 Mm.319659 NM_011291 ENSMUSG00000043716 Rpl7 Rpl7a|Surf-3 ribosomal protein L7 protein-coding 3.356 0.857 0.467 2.196 2.247 1.227 2.304 2.455 3.077 3.124 3.412 2.104 4.560 3.850 3.190 6.785 3.778 3.837 0.970 1.108 0.443 0.992 0.858 0.406 2.539 3268 chr8 47724188 47729591 + 0 NA Intergenic Intergenic -12958 NM_172407 70925 Mm.393807 NM_172407 ENSMUSG00000038069 Cdkn2aip 4921511I16Rik|AW208986|CARF CDKN2A interacting protein protein-coding 5.134 1.839 1.147 1.764 2.639 1.821 4.860 6.743 2.760 2.525 2.833 3.175 5.296 4.078 3.704 5.021 3.941 3.221 1.014 1.180 0.929 0.895 0.460 0.603 2.859 431 chr11 59318550 59320682 + 0 NA intron (NM_139298, intron 1 of 3) intron (NM_139298, intron 1 of 3) 12686 NM_139298 216795 Mm.218794 NM_139298 ENSMUSG00000000126 Wnt9a Wnt14 wingless-type MMTV integration site family, member 9A protein-coding 6.632 10.471 3.364 9.899 3.249 2.030 5.674 4.799 3.983 8.876 5.279 3.100 4.935 7.326 7.470 8.798 4.657 7.460 6.145 3.913 3.993 8.990 3.757 4.114 10.464 3541 chr9 106204401 106206763 + 0 NA intron (NM_011876, intron 1 of 8) B1_Mus1|SINE|Alu 2474 NM_011876 23999 Mm.274346 NM_011876 ENSMUSG00000023277 Twf2 A6-related|AU014993|Ptk9l|Ptk9r twinfilin actin binding protein 2 protein-coding 2.425 3.031 1.386 4.964 3.497 1.779 3.964 4.167 nan 4.842 3.076 3.354 4.763 6.901 3.845 3.731 1.875 4.346 4.289 0.871 1.017 2.881 3.256 2.683 5.570 3016 chr6 131337898 131338960 + 0 NA Intergenic Lx|LINE|L1 -24602 NM_172891 243659 Mm.20114 NM_172891 ENSMUSG00000032899 Styk1 9130025L13|AI326477|Nok serine/threonine/tyrosine kinase 1 protein-coding 6.374 10.086 5.166 8.031 3.508 2.632 7.558 9.776 3.612 15.289 6.767 4.316 5.436 6.093 9.295 9.151 6.720 6.944 4.534 3.023 4.953 4.180 4.602 6.890 11.673 382 chr11 5912956 5921116 + 0 NA intron (NM_010292, intron 1 of 9) B4A|SINE|B4 -1901 NM_001287386 103988 Mm.220358 NM_010292 ENSMUSG00000041798 Gck GLK|Gk|Gls006|HK4|HKIV|HXKP|Hlb62|MODY2 glucokinase protein-coding nan 4.007 1.496 1.739 0.597 0.287 1.817 0.297 0.261 0.424 0.287 0.144 1.705 5.771 0.489 0.609 0.246 0.497 2.232 nan 0.796 3.502 1.235 0.889 0.565 3487 chr9 53163104 53168882 + 0 NA intron (NM_029936, intron 13 of 17) intron (NM_029936, intron 13 of 17) 82119 NM_029936 77591 Mm.133560 NM_029936 ENSMUSG00000053289 Ddx10 4632415A01Rik|AI646054 DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 protein-coding 5.637 0.915 0.870 3.543 3.821 2.919 5.799 5.975 5.698 5.907 5.060 5.210 6.082 7.121 5.463 6.967 5.304 5.821 3.439 2.420 2.751 2.780 3.898 3.871 6.295 2236 chr3 90328913 90334630 + 0 NA Intergenic B1_Mur1|SINE|Alu -9883 NM_139304 229542 Mm.270999 NM_139304 ENSMUSG00000042390 Gatad2b AL118180|C430014D17Rik|P66beta|mKIAA1150 GATA zinc finger domain containing 2B protein-coding 4.482 0.934 0.354 2.491 5.608 2.536 11.685 7.069 3.043 3.819 5.023 2.563 7.746 10.307 6.901 7.302 4.927 6.169 nan 1.534 0.652 2.085 2.189 1.361 6.360 2846 chr6 35949423 35954771 + 0 NA Intergenic Intergenic -412209 NM_008098 14489 Mm.182746 NM_008098 ENSMUSG00000029840 Mtpn 5033418D15Rik|Gcdp|V1 myotrophin protein-coding 3.342 0.431 0.375 2.301 2.300 1.367 6.365 2.558 2.569 3.017 0.409 0.655 7.463 6.133 6.813 6.418 5.965 nan nan 0.637 0.423 nan nan 0.413 nan 1506 chr17 43011178 43014138 + 0 NA Intergenic B3|SINE|B2 -3897 NM_178589 94185 Mm.200792 NM_178589 ENSMUSG00000023915 Tnfrsf21 AA959878|DR6|R74815|TR7 tumor necrosis factor receptor superfamily, member 21 protein-coding 7.300 9.992 5.165 5.682 6.731 4.557 11.602 6.709 5.252 9.940 4.750 5.328 7.414 10.605 8.172 8.254 6.641 6.753 5.806 4.122 4.122 4.538 6.524 5.710 12.561 2855 chr6 38782197 38786686 + 0 NA intron (NM_001294144, intron 2 of 14) intron (NM_001294144, intron 2 of 14) 52870 NM_001136065 15258 Mm.23790 NM_010433 ENSMUSG00000061436 Hipk2 1110014O20Rik|B230339E18Rik|Stank homeodomain interacting protein kinase 2 protein-coding 2.262 1.294 0.668 3.913 5.920 4.132 1.993 2.993 3.272 2.697 0.899 1.088 2.382 4.554 2.454 nan 1.167 nan nan 1.428 0.928 nan nan 1.659 nan 139 chr1 135141152 135144657 + 0 NA intron (NM_177081, intron 9 of 9) intron (NM_177081, intron 9 of 9) -3930 NM_026823 68724 Mm.174998 NM_026823 ENSMUSG00000026426 Arl8a 1110033P22Rik|Arl10b|gie2 ADP-ribosylation factor-like 8A protein-coding 3.966 1.360 0.528 nan 1.289 0.637 8.484 7.476 1.981 1.778 1.581 2.450 5.067 5.339 4.922 8.989 4.104 3.093 1.608 1.027 0.841 1.643 2.600 2.634 7.172 129 chr1 134212686 134218179 + 0 NA intron (NM_001291930, intron 1 of 1) Lx8|LINE|L1 19424 NM_001291928 11539 Mm.298908 NM_009629 ENSMUSG00000042429 Adora1 A1-AR|A1AR|A1R|AA1R|AI848715|BB176431|Ri adenosine A1 receptor protein-coding 13.976 5.599 2.519 7.017 3.707 2.089 10.372 8.029 5.505 7.281 7.736 3.166 9.778 10.405 9.255 13.575 8.861 8.733 6.426 3.316 2.367 7.084 4.788 3.938 12.566 3008 chr6 125316580 125319439 + 0 NA Intergenic Intergenic -3331 NM_011324 20276 Mm.144114 NM_011324 ENSMUSG00000030340 Scnn1a ENaC|SCNEA|Scnn1|mENaC sodium channel, nonvoltage-gated 1 alpha protein-coding 4.146 nan 0.795 1.925 2.333 1.226 6.574 5.491 2.004 2.326 3.296 1.564 5.486 6.543 4.887 6.539 5.986 2.857 1.071 1.361 1.140 0.942 0.947 0.648 5.704 926 chr13 54679458 54680285 + 0 NA non-coding (NR_027396, exon 11 of 11) non-coding (NR_027396, exon 11 of 11) 7937 NM_001146025 105239 Mm.25366 NM_134064 ENSMUSG00000034928 Rnf44 AI854545|mKIAA1100 ring finger protein 44 protein-coding 4.925 10.715 3.540 4.029 1.520 0.432 2.575 5.619 2.058 2.291 1.249 0.624 4.691 3.552 2.532 2.767 2.099 3.228 0.942 2.690 1.805 7.132 0.971 0.455 4.911 2145 chr3 9644843 9649497 + 0 NA Intergenic ORR1D2|LTR|ERVL-MaLR -37085 NM_133218 170753 Mm.212908 NM_133218 ENSMUSG00000040209 Zfp704 C030026M03|C030034L19Rik|Gig1|Znf704 zinc finger protein 704 protein-coding 5.012 1.111 0.734 2.376 2.716 2.176 10.932 6.478 3.436 4.120 0.585 1.302 8.075 8.484 5.838 5.651 7.735 5.191 1.023 1.159 1.125 0.719 1.044 1.437 5.800 1246 chr15 102551675 102553458 + 0 NA intron (NM_001310066, intron 5 of 11) B2_Mm2|SINE|B2 -27945 NM_018787 54615 Mm.445915 NM_018787 ENSMUSG00000023052 Npff - neuropeptide FF-amide peptide precursor protein-coding 7.631 4.204 2.074 4.990 3.825 1.920 5.488 7.978 4.168 4.157 3.904 1.612 6.939 5.944 6.198 6.807 6.542 5.307 2.165 1.853 1.089 2.519 1.912 2.059 6.981 859 chr13 23957605 23962057 + 0 NA intron (NM_145399, intron 9 of 10) intron (NM_145399, intron 9 of 10) 25369 NM_175658 319163 Mm.377876 NM_175658 ENSMUSG00000060081 Hist1h2aa Th2a histone cluster 1, H2aa protein-coding 3.564 0.641 0.458 0.341 0.342 0.084 0.908 4.212 0.349 0.402 0.197 0.309 0.458 0.713 1.100 0.604 1.538 0.591 0.714 0.884 0.441 0.463 0.557 0.455 0.711 1083 chr15 37168890 37176928 + 0 NA Intergenic B2_Mm1a|SINE|B2 -60127 NM_026496 252973 Mm.244612 NM_026496 ENSMUSG00000022286 Grhl2 0610015A08Rik|BOM|Tcfcp2l3|clft3 grainyhead-like 2 (Drosophila) protein-coding 4.623 0.581 0.537 2.625 3.137 2.196 8.403 9.837 3.278 3.474 4.377 3.163 7.662 4.943 5.586 5.205 7.456 4.534 2.822 1.775 1.505 nan 2.601 1.909 nan 739 chr12 53603230 53606671 + 0 NA intron (NM_013780, intron 3 of 11) intron (NM_013780, intron 3 of 11) 356273 NM_013780 27386 Mm.247044 NM_013780 ENSMUSG00000021010 Npas3 4930423H22Rik|bHLHe12 neuronal PAS domain protein 3 protein-coding 11.188 6.517 2.360 10.144 4.642 3.980 9.529 8.118 6.220 12.496 7.402 4.098 9.355 10.370 10.944 11.906 10.011 10.894 5.680 1.882 2.293 5.479 3.229 4.244 16.799 1293 chr16 17890720 17893240 + 0 NA promoter-TSS (NM_001109750) promoter-TSS (NM_001109750) -252 NM_001109750 13356 Mm.254515 NM_010048 ENSMUSG00000003166 Dgcr2 9930034O06Rik|DGS-C|Dgsc|Idd|Lan|Sez12|mKIAA0163 DiGeorge syndrome critical region gene 2 protein-coding 6.262 7.266 1.695 6.907 3.957 2.603 6.407 9.651 3.512 nan 3.853 1.898 7.469 7.722 6.574 10.691 5.183 7.284 3.740 2.551 3.124 6.227 2.772 3.378 12.206 876 chr13 37710117 37717830 + 0 NA Intergenic B2_Mm2|SINE|B2 -112065 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 5.020 nan 1.599 3.446 4.621 2.877 nan 6.280 nan 4.895 5.848 4.492 3.976 5.460 3.237 4.692 3.258 3.426 1.146 1.816 1.778 0.928 1.131 1.080 nan 3024 chr6 134169565 134173425 + 0 NA intron (NM_001303102, intron 3 of 8) ORR1D2|LTR|ERVL-MaLR 135795 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 4.069 6.653 2.539 3.226 1.357 0.745 3.924 6.027 3.771 3.054 2.209 1.121 2.760 3.103 6.568 5.635 3.499 4.021 nan 0.844 0.635 1.493 0.551 0.389 4.222 1792 chr19 46526924 46538299 + 0 NA intron (NM_019718, intron 5 of 5) intron (NM_019718, intron 5 of 5) 30963 NM_053100 93679 Mm.392177 NM_053100 ENSMUSG00000025034 Trim8 AA408830|BB006755|GERP|Rnf27 tripartite motif-containing 8 protein-coding 5.927 2.968 1.027 nan 3.063 1.695 7.902 9.957 4.720 5.408 4.043 3.509 4.719 7.314 7.651 7.356 5.595 7.398 1.174 0.994 0.946 1.463 0.822 0.813 9.239 2890 chr6 72310377 72314567 + 0 NA intron (NM_147779, intron 10 of 11) intron (NM_147779, intron 10 of 11) 7862 NM_147779 20388 Mm.46033 NM_147779 ENSMUSG00000056370 Sftpb AI562151|SF-B|SP-B|Sftp-3|Sftp3 surfactant associated protein B protein-coding 8.153 5.543 3.077 6.285 5.159 3.018 8.711 8.520 4.566 5.561 4.838 3.730 8.144 10.286 7.871 9.890 9.056 6.834 3.192 2.743 1.981 2.704 2.229 2.447 8.899 662 chr11 116574282 116576124 + 0 NA intron (NM_173755, intron 1 of 17) intron (NM_173755, intron 1 of 17) 6244 NM_173755 217342 Mm.243950 NM_173755 ENSMUSG00000020802 Ube2o 9630022H21|B230113M03Rik|E2-230K|mKIAA1734 ubiquitin-conjugating enzyme E2O protein-coding 1.857 nan 0.339 1.346 0.906 0.442 2.972 2.870 2.293 nan 6.936 2.111 3.022 2.297 3.277 2.373 1.798 3.205 0.445 nan 0.133 0.648 0.256 0.087 1.930 168 chr1 156801653 156806207 + 0 NA TTS (NM_001159968) TTS (NM_001159968) -35093 NM_028333 72713 Mm.389206 NM_028333 ENSMUSG00000033544 Angptl1 2810039D03Rik|ANG3|ANGPT3|ANGY|ARP1 angiopoietin-like 1 protein-coding 0.467 0.769 0.415 0.307 0.153 0.059 0.284 0.202 nan 0.261 0.380 0.159 0.085 0.208 0.163 nan 0.433 0.473 nan 2.920 1.550 5.391 nan 0.837 0.481 135 chr1 135100547 135102744 + 0 NA intron (NM_001033409, intron 1 of 17) intron (NM_001033409, intron 1 of 17) 3631 NM_001033409 329252 Mm.279594 NM_001033409 ENSMUSG00000042793 Lgr6 A530037C04Rik|D830026M09 leucine-rich repeat-containing G protein-coupled receptor 6 protein-coding 8.414 0.724 0.203 nan 3.236 2.027 7.601 9.093 3.654 3.284 2.751 3.252 9.882 8.308 6.268 9.405 8.052 5.728 3.045 1.219 1.345 1.826 4.464 4.948 8.364 3344 chr8 108673687 108676373 + 0 NA Intergenic Intergenic -39614 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 7.469 5.486 3.101 4.370 3.560 2.321 3.345 4.277 3.450 4.171 2.640 2.171 3.364 4.243 3.886 6.305 4.334 4.258 3.013 3.470 2.780 nan 2.578 1.783 6.870 1518 chr17 46377602 46386259 + 0 NA Intergenic ID_B1|SINE|B4 -1836 NM_207671 57908 Mm.439916 NM_021346 ENSMUSG00000015597 Zfp318 2610034E08Rik|D530032D06Rik|TZF|Znf318 zinc finger protein 318 protein-coding 7.060 3.766 1.415 6.271 3.126 1.846 8.395 6.926 5.389 7.993 2.189 1.922 7.023 7.519 8.413 11.008 7.300 8.320 1.730 1.290 1.388 2.690 1.642 1.423 15.325 145 chr1 136645950 136646961 + 0 NA Intergenic ID_B1|SINE|B4 21554 NM_001160251 226442 Mm.62521 NM_177643 ENSMUSG00000041483 Zfp281 Znf281 zinc finger protein 281 protein-coding 1.621 1.280 0.375 nan 1.132 1.061 1.386 1.798 1.105 2.146 1.421 1.135 1.481 3.844 2.173 2.012 1.711 1.965 1.100 1.279 0.335 1.267 0.811 0.856 1.537 3447 chr9 22115982 22119864 + 0 NA intron (NR_030448, intron 3 of 4) B4A|SINE|B4 -3754 NM_170777 66126 Mm.29801 NM_170777 ENSMUSG00000013822 Elof1 1110011K10Rik ELF1 homolog, elongation factor 1 protein-coding 5.222 1.755 1.454 2.384 0.933 0.811 1.165 1.395 2.289 3.054 3.582 1.505 3.160 2.837 2.058 2.475 1.745 2.613 0.779 0.460 0.458 0.470 0.419 0.453 4.663 3444 chr9 22021820 22023280 + 0 NA intron (NM_010487, intron 6 of 6) Tigger7|DNA|TcMar-Tigger 19562 NM_008925 19089 Mm.214593 NM_008925 ENSMUSG00000003402 Prkcsh 80K-H|PKCSH protein kinase C substrate 80K-H protein-coding 2.354 0.433 0.475 3.445 2.094 0.984 1.668 1.742 2.153 2.779 2.204 2.507 2.384 3.954 2.303 3.818 1.753 3.548 0.463 0.978 0.556 0.501 0.738 0.235 4.732 178 chr1 167696264 167702280 + 0 NA intron (NM_033652, intron 2 of 7) intron (NM_033652, intron 2 of 7) 9714 NM_033652 110648 Mm.330081 NM_033652 ENSMUSG00000026686 Lmx1a Lmx1.1|dr|dreher|sst LIM homeobox transcription factor 1 alpha protein-coding 10.025 1.218 0.918 nan 4.714 2.338 3.514 7.097 nan 4.614 1.518 1.192 nan 7.155 nan 7.753 5.687 4.576 0.771 1.622 1.333 nan nan 0.487 nan 2674 chr5 67103874 67105560 + 0 NA Intergenic Intergenic -5591 NM_008888 18935 Mm.62505 NM_008888 ENSMUSG00000012520 Phox2b Dilp1|NBPhox|Pmx2b|Px2b paired-like homeobox 2b protein-coding 4.077 0.361 0.697 4.197 3.498 2.395 2.289 0.666 1.985 3.691 0.252 0.554 1.360 4.449 1.557 2.524 1.880 3.780 0.597 0.937 0.607 nan 1.203 1.390 4.536 1131 chr15 74747789 74770148 + 0 NA Intergenic Intergenic 4599 NM_010742 17068 Mm.878 NM_010742 ENSMUSG00000034634 Ly6d Ly-61|Ly61|Thb lymphocyte antigen 6 complex, locus D protein-coding nan nan 5.765 nan 9.482 7.363 nan 11.906 7.389 nan nan 5.771 7.902 nan 7.338 7.086 nan 8.906 2.426 3.521 3.774 nan 2.564 2.559 7.374 3156 chr7 116071097 116074079 + 0 NA Intergenic L1VL2|LINE|L1 20561 NR_029433 69350 Mm.440425 NR_029433 ENSMUSG00000087621 1700003G18Rik 2610312K03Rik RIKEN cDNA 1700003G18 gene ncRNA 2.745 0.921 0.512 0.946 1.559 0.730 4.150 4.910 0.793 0.780 5.740 1.997 2.153 nan 1.836 0.683 0.880 1.208 0.778 1.036 0.366 0.336 0.527 0.296 0.980 2728 chr5 115242860 115245283 + 0 NA exon (NM_016698, exon 14 of 17) exon (NM_016698, exon 14 of 17) 8220 NM_026398 117109 Mm.24636 NM_026398 ENSMUSG00000060152 Pop5 1500019J17Rik|2700077E03Rik|AW049989|Rnasep3 processing of precursor 5, ribonuclease P/MRP family (S. cerevisiae) protein-coding 3.448 1.884 0.540 7.816 1.416 0.808 1.874 2.451 3.501 3.116 0.634 1.215 2.358 4.150 3.585 4.353 3.207 4.562 6.597 nan 1.750 4.003 2.572 2.152 4.853 3439 chr9 21563821 21569312 + 0 NA intron (NM_153141, intron 1 of 14) ID4_|SINE|ID 19672 NM_153141 59035 Mm.178115 NM_021531 ENSMUSG00000032185 Carm1 Prmt4 coactivator-associated arginine methyltransferase 1 protein-coding 6.086 2.894 1.952 4.656 3.629 2.891 4.917 5.532 5.235 7.709 1.731 1.400 6.335 9.927 5.265 7.474 6.141 6.817 2.064 1.852 2.280 1.697 2.551 2.671 9.433 1876 chr2 37586055 37587773 + 0 NA intron (NM_009261, intron 15 of 16) intron (NM_009261, intron 15 of 16) 60371 NM_009261 20744 Mm.237095 NM_009261 ENSMUSG00000026915 Strbp 6430510M02Rik|AI852513|C230082I21Rik|C86322|Spnr spermatid perinuclear RNA binding protein protein-coding 1.249 6.477 3.931 1.268 1.801 0.810 2.048 2.547 1.542 nan 0.340 0.289 4.291 4.060 1.588 1.640 1.715 1.654 2.370 1.713 1.795 2.205 0.572 0.951 1.691 124 chr1 127473227 127475384 + 0 NA intron (NM_145128, intron 16 of 17) intron (NM_145128, intron 16 of 17) 203716 NM_028135 72160 Mm.281287 NM_028135 ENSMUSG00000026347 Tmem163 2610024A01Rik|SV31 transmembrane protein 163 protein-coding 2.355 nan 0.623 3.459 1.070 0.442 0.830 1.023 2.225 0.960 1.490 1.714 1.310 1.100 1.133 1.764 1.141 2.435 nan 0.404 0.108 0.430 0.797 0.523 0.805 772 chr12 73860963 73863416 + 0 NA Intergenic Intergenic -39135 NM_001313920 15251 Mm.3879 NM_010431 ENSMUSG00000021109 Hif1a AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78 hypoxia inducible factor 1, alpha subunit protein-coding 8.983 9.743 2.572 9.671 5.223 4.587 7.230 5.783 4.348 13.306 5.026 2.815 7.293 8.866 8.804 10.754 6.498 7.929 5.148 1.260 2.314 5.782 2.050 4.145 17.291 1759 chr19 26679201 26682757 + 0 NA intron (NM_011416, intron 17 of 32) intron (NM_011416, intron 17 of 32) -67186 NM_001347439 67155 Mm.342988 NM_011416 ENSMUSG00000024921 Smarca2 2610209L14Rik|SNF2alpha|Snf2l2|brahma|brm SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 protein-coding nan 10.572 3.071 10.291 2.873 1.865 2.178 3.645 4.061 9.125 5.508 2.754 2.106 3.823 4.867 7.276 2.653 7.136 nan 2.080 3.224 3.982 nan 3.719 13.090 1429 chr17 25584867 25587818 + 0 NA intron (NM_029624, intron 2 of 10) intron (NM_029624, intron 2 of 10) 7168 NR_045520 76483 Mm.12787 NM_029624 ENSMUSG00000002279 Lmf1 2400010G15Rik|AW822050|Tmem112|cld lipase maturation factor 1 protein-coding 0.576 3.374 1.381 0.579 0.179 0.043 3.376 4.430 1.533 1.394 0.234 0.255 1.776 1.747 2.772 2.094 0.915 1.013 5.731 3.273 2.172 6.129 6.318 4.171 0.954 1974 chr2 127546298 127550553 + 0 NA Intergenic Lx3_Mus|LINE|L1 -7008 NM_138750 192212 Mm.34171 NM_138750 ENSMUSG00000027376 Prom2 AI507243|Prom-rp prominin 2 protein-coding 3.062 1.074 0.518 1.864 1.426 0.697 3.854 5.492 2.303 3.080 3.892 2.379 4.150 3.681 3.204 nan 4.057 3.294 nan 0.572 0.644 0.868 0.772 0.493 5.121 2032 chr2 156299482 156301775 + 0 NA intron (NM_172674, intron 15 of 17) B3A|SINE|B2 -11845 NM_027585 70873 Mm.475234 NM_027585 ENSMUSG00000038085 Cnbd2 4921517L17Rik|5430421B09Rik|Cris cyclic nucleotide binding domain containing 2 protein-coding 6.285 1.534 0.455 6.551 2.777 2.342 7.262 6.805 nan 7.939 2.685 2.192 5.743 5.483 6.987 7.721 4.958 6.667 nan 1.607 1.553 4.425 1.529 1.975 12.109 2536 chr4 140684550 140689502 + 0 NA Intergenic Intergenic -14447 NM_173867 108911 Mm.253 NM_173867 ENSMUSG00000040945 Rcc2 2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470 regulator of chromosome condensation 2 protein-coding nan 1.817 1.300 4.207 5.306 3.584 8.971 7.467 nan 5.039 2.615 2.823 6.091 12.802 7.546 8.245 5.100 nan 0.917 1.252 0.837 1.635 nan 0.649 9.865 2483 chr4 128693259 128694830 + 0 NA intron (NM_018774, intron 1 of 14) intron (NM_018774, intron 1 of 14) 5306 NM_018774 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 3.009 5.470 2.550 3.887 6.520 3.895 2.470 1.472 2.269 3.598 1.022 1.060 1.563 4.296 3.653 2.418 1.658 3.472 0.607 0.933 1.233 1.948 0.881 0.549 5.129 3026 chr6 134192962 134194038 + 0 NA intron (NM_001303102, intron 3 of 8) AT_rich|Low_complexity|Low_complexity 157800 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 5.163 4.127 1.863 5.230 3.150 1.293 3.034 8.537 3.656 2.817 2.760 1.444 1.834 5.079 4.417 5.421 5.411 4.353 nan 1.599 1.095 1.538 0.796 0.262 5.421 1374 chr16 92679673 92680965 + 0 NA intron (NM_001111023, intron 2 of 5) intron (NM_001111023, intron 2 of 5) 17010 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 1.818 nan 0.732 2.385 1.105 0.535 2.225 1.923 2.887 2.354 4.572 3.083 2.878 4.178 3.707 3.205 2.157 nan 0.919 0.381 0.162 nan 0.536 0.400 3.825 1528 chr17 47729988 47735793 + 0 NA intron (NM_025973, intron 6 of 8) intron (NM_025973, intron 6 of 8) -4147 NM_001161722 21425 Mm.2305 NM_011549 ENSMUSG00000023990 Tfeb Tcfeb|bHLHe35 transcription factor EB protein-coding 5.767 10.712 4.308 7.732 3.306 1.841 5.013 2.379 3.300 4.459 2.968 1.550 3.412 7.426 5.455 6.989 4.243 5.436 1.938 1.885 2.082 2.571 1.991 1.790 11.074 2807 chr5 151855143 151860252 + 0 NA Intergenic Intergenic -206489 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 8.660 1.232 0.598 7.457 4.869 2.398 7.292 4.024 6.486 6.911 2.572 1.321 6.928 8.590 7.540 8.176 5.454 10.050 1.115 1.085 0.744 1.255 0.919 0.681 7.921 2303 chr3 126341179 126344376 + 0 NA Intergenic Intergenic -21075 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 6.334 1.010 0.804 4.931 5.071 3.032 7.286 4.450 4.985 5.208 2.741 1.348 7.692 9.672 6.640 6.576 6.072 7.745 2.628 2.065 0.847 2.021 4.077 2.399 5.702 653 chr11 116071652 116074334 + 0 NA intron (NM_001009573, intron 13 of 32) PB1D11|SINE|Alu 4968 NM_001009573 70450 Mm.259460 NM_001009573 ENSMUSG00000057948 Unc13d 2610108D09Rik|Jinx|Munc13-4|mFLJ00067 unc-13 homolog D (C. elegans) protein-coding 2.463 nan 0.786 1.191 1.289 0.847 2.935 6.322 1.748 nan 2.309 4.983 2.391 2.597 2.168 2.104 1.968 nan 3.206 nan 2.520 2.190 4.042 2.791 1.095 1692 chr18 80805267 80810327 + 0 NA intron (NM_001201569, intron 12 of 29) intron (NM_001201569, intron 12 of 29) -94726 NM_001164109 18018 Mm.329560 NM_016791 ENSMUSG00000033016 Nfatc1 2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 protein-coding 1.798 11.117 5.898 2.777 1.777 0.804 1.356 2.418 2.197 2.956 1.496 0.686 2.000 2.669 1.930 2.879 1.946 2.179 1.523 nan 1.428 2.018 1.096 0.894 2.460 2677 chr5 72608407 72617032 + 0 NA intron (NM_007723, intron 4 of 8) L1Md_F2|LINE|L1 -25169 NM_001024147 545758 Mm.332426 NM_001024147 ENSMUSG00000060204 Gm5868 EG545758 predicted gene 5868 protein-coding 5.671 1.720 1.533 4.053 5.097 2.898 3.222 4.925 4.802 5.190 4.158 1.817 4.469 6.721 3.274 3.944 4.381 5.640 0.881 1.325 0.936 nan 1.248 0.998 2.911 2259 chr3 95325425 95328178 + 0 NA intron (NM_001163641, intron 16 of 21) B1_Mus1|SINE|Alu 7971 NM_001320492 76893 Mm.181009 NM_029789 ENSMUSG00000015714 Cers2 0610013I17Rik|AI225939|Lass2|TRH3 ceramide synthase 2 protein-coding 5.709 4.820 2.492 2.682 2.011 1.662 2.266 1.424 2.210 2.649 1.794 1.184 1.779 2.654 1.473 nan 1.948 2.545 1.090 1.039 1.359 0.491 0.855 0.386 3.207 3064 chr7 19532444 19535197 + 0 NA intron (NM_199149, intron 8 of 12) RSINE1|SINE|B4 15089 NM_027116 69547 Mm.77325 NM_027116 ENSMUSG00000060621 Nkpd1 2310015G09Rik NTPase, KAP family P-loop domain containing 1 protein-coding 2.827 0.804 0.764 3.024 1.801 0.638 1.397 2.585 2.183 2.169 0.727 0.864 0.569 1.325 1.284 2.393 1.128 2.402 4.557 2.214 2.517 4.508 6.287 4.217 1.858 509 chr11 79996959 79999136 + 0 NA intron (NM_001163018, intron 3 of 14) B1_Mur1|SINE|Alu 4941 NM_199196 52615 Mm.283410 NM_199196 ENSMUSG00000017548 Suz12 2610028O16Rik|AI195385|AU016842|AW536442|D11Ertd530e|mKIAA0160 suppressor of zeste 12 homolog (Drosophila) protein-coding 7.794 8.908 2.872 8.916 3.863 2.572 7.869 7.646 6.302 8.590 3.924 3.167 8.603 8.594 10.292 10.515 7.804 8.875 3.060 1.830 nan 3.734 2.204 2.251 10.853 2212 chr3 88312892 88319569 + 0 NA intron (NM_009836, intron 10 of 13) B1_Mus1|SINE|Alu -8793 NM_020003 56700 Mm.439922 NM_020003 ENSMUSG00000001418 Glmp 0610031J06Rik|AB027141|NCU-G1 glycosylated lysosomal membrane protein protein-coding 9.820 3.894 2.038 8.632 8.267 5.618 14.143 9.008 6.067 8.143 7.034 4.842 10.306 13.039 9.781 10.273 8.559 10.020 5.980 4.597 4.217 6.520 6.318 5.441 12.708 1015 chr14 55625607 55629721 + 0 NA exon (NM_024267, exon 27 of 30) exon (NM_024267, exon 27 of 30) 8014 NM_024267 75751 Mm.27546 NM_024267 ENSMUSG00000002319 Ipo4 8430408O15Rik|AA409693|Imp4a|RanBP4 importin 4 protein-coding 1.902 nan 0.489 2.126 2.498 1.820 1.793 2.508 1.907 2.400 0.462 0.369 3.995 7.698 4.405 5.190 3.087 2.937 1.062 0.734 0.682 0.572 0.824 0.819 5.991 367 chr10 128018482 128027944 + 0 NA intron (NM_008921, intron 7 of 12) intron (NM_008921, intron 7 of 12) 7998 NM_008921 19075 Mm.2903 NM_008921 ENSMUSG00000025395 Prim1 AI324982 DNA primase, p49 subunit protein-coding 8.178 nan 0.610 5.332 4.890 3.025 7.768 9.714 5.247 6.556 5.834 2.887 7.431 10.201 8.617 10.161 6.109 7.121 2.619 1.248 1.024 1.991 nan 1.715 13.346 976 chr14 18184702 18185926 + 0 NA Intergenic Intergenic 53792 NM_011584 353187 Mm.26587 NM_011584 ENSMUSG00000021775 Nr1d2 RVR|Rev-erb nuclear receptor subfamily 1, group D, member 2 protein-coding 2.019 0.259 0.235 1.416 1.008 0.311 2.047 1.549 nan 2.727 0.956 0.240 3.687 3.569 3.592 3.607 1.720 4.060 0.688 0.179 0.200 nan 0.155 0.101 1.593 716 chr12 9845162 9847690 + 0 NA Intergenic L1_Mur2|LINE|L1 271984 NM_011859 23967 Mm.45055 NM_011859 ENSMUSG00000048387 Osr1 Odd1|Osr odd-skipped related 1 (Drosophila) protein-coding 4.464 0.375 0.256 1.370 2.730 1.240 4.014 2.536 2.493 2.445 3.410 2.231 4.777 4.836 4.153 3.821 3.382 3.679 0.551 0.636 0.143 0.522 0.509 0.415 4.301 1886 chr2 38788120 38790588 + 0 NA intron (NM_010264, intron 3 of 10) intron (NM_010264, intron 3 of 10) -4839 NM_001159549 14536 Mm.439703 NM_010264 ENSMUSG00000063972 Nr6a1 1700113M01Rik|Gcnf|NCNF|RTR nuclear receptor subfamily 6, group A, member 1 protein-coding 2.712 0.838 0.368 1.165 1.186 0.403 2.562 nan 1.758 nan 5.088 4.040 2.623 2.421 1.862 2.749 2.529 1.874 1.366 1.409 1.141 1.187 1.484 1.337 2.144 1821 chr2 18687138 18689906 + 0 NA Intergenic Intergenic -10500 NM_001001334 381350 Mm.330024 NM_001001334 ENSMUSG00000037708 Spag6 Spag6l sperm associated antigen 6 protein-coding 13.933 9.756 3.617 11.466 5.834 3.186 10.255 12.898 7.881 11.831 7.657 5.070 11.915 13.462 9.800 12.972 10.505 12.031 9.507 7.593 4.528 8.709 9.765 8.274 14.442 1972 chr2 127469395 127470897 + 0 NA intron (NM_019789, intron 2 of 8) B2_Mm2|SINE|B2 12353 NM_001111331 56461 Mm.315292 NM_019789 ENSMUSG00000079056 Kcnip3 4933407H12Rik|AI413860|Csen|DREAM|KChIP3|R74849 Kv channel interacting protein 3, calsenilin protein-coding 2.121 0.407 0.419 2.217 1.890 0.605 4.432 3.373 3.261 3.404 1.261 1.615 3.109 3.509 4.365 7.297 4.604 4.537 nan 0.607 0.312 0.793 0.432 0.578 8.240 940 chr13 56276800 56280454 + 0 NA Intergenic ORR1B2|LTR|ERVL-MaLR 17924 NM_019568 57266 Mm.30211 NM_019568 ENSMUSG00000021508 Cxcl14 1110031L23Rik|1200006I23Rik|AI414372|BMAC|BRAK|KS1|Kec|MIP-2g|MIP2gamma|NJAC|Scyb14|bolekine chemokine (C-X-C motif) ligand 14 protein-coding 3.762 2.192 0.734 2.848 0.863 0.306 1.129 1.153 1.681 1.869 0.917 0.410 1.227 1.656 1.787 2.431 1.196 nan 0.753 0.503 0.645 1.956 0.228 0.148 4.388 3589 chrX 136052390 136054439 + 0 NA Intergenic B1F|SINE|Alu 14822 NM_009749 12069 Mm.94160 NM_009749 ENSMUSG00000042750 Bex2 AL024066|Bex1 brain expressed X-linked 2 protein-coding 3.664 0.253 0.126 0.648 0.386 0.166 3.639 5.933 2.147 1.766 1.023 1.930 4.382 3.473 2.534 2.886 2.852 2.041 0.627 0.980 0.503 0.411 0.857 0.295 1.683 685 chr11 119667736 119670200 + 0 NA intron (NM_028898, intron 2 of 33) Charlie1a|DNA|hAT-Charlie 66063 NM_028898 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 5.606 3.067 0.780 6.631 2.180 1.028 3.249 4.806 4.334 4.078 4.671 4.248 3.945 4.643 4.751 4.699 2.144 5.090 2.136 nan 0.249 1.472 1.681 0.768 4.848 743 chr12 56498395 56500498 + 0 NA intron (NR_045082, intron 5 of 6) (GA)n|Simple_repeat|Simple_repeat 29974 NR_045082 104798 Mm.310950 NR_045082 E030019B13Rik AI413669 RIKEN cDNA E030019B13 gene ncRNA 12.861 13.516 4.890 11.323 5.449 3.149 7.424 7.479 6.506 8.365 6.842 4.193 9.469 9.414 9.701 10.936 7.887 10.554 4.625 2.648 1.546 5.017 2.993 2.388 15.089 2265 chr3 96059177 96063362 + 0 NA Intergenic MLT1B|LTR|ERVL-MaLR -2814 NM_013841 22365 Mm.263185 NM_013841 ENSMUSG00000015747 Vps45 AI462172|AW554165|mVps45 vacuolar protein sorting 45 protein-coding 3.661 1.589 0.732 1.460 1.367 1.143 3.023 4.976 1.753 1.567 3.346 2.205 5.278 6.905 3.138 2.199 4.058 2.900 0.906 1.205 1.035 0.759 1.006 0.935 2.348 21 chr1 33440364 33442302 + 0 NA Intergenic L1Md_F2|LINE|L1 228461 NM_008922 19076 Mm.27705 NM_008922 ENSMUSG00000026134 Prim2 AI323589 DNA primase, p58 subunit protein-coding 0.771 0.280 0.389 2.433 2.753 2.165 1.013 0.307 1.012 0.847 0.444 0.417 2.005 3.934 2.225 nan 0.637 2.120 0.321 0.491 0.579 0.273 0.821 0.590 1.224 523 chr11 86297034 86299704 + 0 NA exon (NM_001080931, exon 16 of 30) exon (NM_001080931, exon 16 of 30) -40801 NM_027421 70422 Mm.171304 NM_027421 ENSMUSG00000018068 Ints2 2810417D08Rik|AA408260|AI987735|mKIAA1287 integrator complex subunit 2 protein-coding 7.358 6.946 2.756 8.247 3.516 2.172 4.622 6.017 5.187 6.928 4.709 3.272 4.827 8.641 6.368 7.630 5.714 6.479 3.754 2.047 2.063 4.757 2.408 2.645 7.315 2377 chr4 57964944 57972044 + 0 NA Intergenic Intergenic -12083 NM_011660 22166 Mm.260618 NM_011660 ENSMUSG00000028367 Txn1 ADF|AW550880|Trx1|Txn thioredoxin 1 protein-coding 7.459 11.297 4.732 7.905 4.709 1.764 nan 6.941 4.463 6.096 4.845 3.185 5.535 7.702 6.400 7.824 3.324 7.145 nan 1.779 0.975 5.492 1.533 1.211 8.571 2129 chr2 180921998 180924684 + 0 NA Intergenic Intergenic -2405 NM_173761 228994 Mm.30205 NM_173761 ENSMUSG00000038848 Ythdf1 2210410K23Rik|8030473O16 YTH domain family 1 protein-coding 7.791 12.842 3.097 8.062 3.642 2.003 8.761 12.499 5.657 7.661 5.163 4.095 9.239 9.010 9.028 11.812 6.883 9.034 2.778 1.312 1.406 3.315 1.513 2.286 15.889 1460 chr17 28161040 28164375 + 0 NA intron (NM_001004366, intron 8 of 21) MT2B|LTR|ERVL -14711 NM_172617 224656 Mm.267359 NM_172617 ENSMUSG00000024220 Zfp523 2810027J07|BC025615|Znf76 zinc finger protein 523 protein-coding 5.070 0.873 0.273 8.902 2.295 0.863 8.244 4.874 5.154 7.390 5.707 2.008 6.760 6.877 7.814 10.760 5.410 8.585 1.361 0.755 0.551 2.101 1.321 0.509 13.336 453 chr11 69474885 69477330 + 0 NA intron (NM_001081330, intron 35 of 85) B2_Mm2|SINE|B2 -62432 NM_001017426 216850 Mm.261201 NM_001017426 ENSMUSG00000018476 Kdm6b 1700064E03Rik|BC038313|Jmjd3|mKIAA0346 KDM1 lysine (K)-specific demethylase 6B protein-coding 8.478 15.141 7.001 8.149 6.581 6.145 6.998 8.278 5.339 6.153 5.810 3.080 6.701 7.711 8.285 9.736 6.347 6.691 5.306 3.536 4.991 6.803 nan 6.365 8.687 723 chr12 33832033 33833891 + 0 NA Intergenic Intergenic -95463 NM_033522 114712 Mm.204643 NM_033522 ENSMUSG00000046518 Ferd3l Mnato3|N-twist|Nato|Nato3|Ntwist|Ptfb|bHLHa31|fer3 Fer3-like (Drosophila) protein-coding 13.629 11.491 3.662 10.429 6.906 2.461 7.812 7.455 nan 10.497 5.953 4.618 8.028 10.879 9.379 10.900 9.782 10.122 nan 3.663 2.094 4.271 3.212 3.183 16.800 2500 chr4 132305284 132307868 + 0 NA Intergenic Intergenic -2102 NR_029468 100039864 Mm.258912 NR_029468 ENSMUSG00000086290 Snhg12 2310005L22Rik small nucleolar RNA host gene 12 ncRNA 0.917 1.081 1.755 1.731 3.467 3.876 2.795 2.728 1.858 2.149 2.010 2.045 3.182 3.683 nan 0.736 1.688 1.156 0.800 1.728 2.773 0.908 0.460 0.724 0.911 1202 chr15 98763783 98766377 + 0 NA Intergenic Intergenic -1962 NM_007478 11842 Mm.221298 NM_007478 ENSMUSG00000051853 Arf3 5430400P17Rik|AI854770 ADP-ribosylation factor 3 protein-coding 7.985 12.621 3.941 5.996 2.050 1.463 7.167 8.597 4.664 5.413 5.808 2.420 8.552 6.991 7.967 8.743 6.224 6.828 7.837 3.473 1.948 8.548 4.787 3.196 8.395 3162 chr7 116749148 116761379 + 0 NA Intergenic L1_Mur3|LINE|L1 250894 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 5.919 1.358 0.531 5.678 4.286 2.672 5.900 7.275 3.560 4.053 3.745 2.367 6.742 6.783 5.918 6.090 5.550 5.653 1.778 1.443 1.024 1.821 2.471 1.996 6.125 3303 chr8 87902772 87904722 + 0 NA intron (NM_033327, intron 2 of 7) intron (NM_033327, intron 2 of 7) 55848 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 5.566 0.808 0.659 2.836 1.704 0.921 4.954 4.178 1.843 1.471 3.506 0.631 5.761 4.744 2.805 5.309 4.869 3.471 nan 0.990 0.496 0.975 0.617 0.296 3.424 351 chr10 126573227 126576582 + 0 NA Intergenic L1MA9|LINE|L1 135487 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 8.668 7.035 2.658 4.724 3.551 2.068 6.370 5.376 4.042 5.274 2.808 1.846 8.117 7.552 7.119 7.705 6.780 5.955 1.137 2.362 1.446 0.628 nan 0.747 5.376 1040 chr14 99976916 99981207 + 0 NA intron (NM_010636, intron 4 of 6) intron (NM_010636, intron 4 of 6) 170735 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 5.146 nan 0.517 3.923 4.211 2.209 5.645 7.007 6.513 5.988 8.574 6.338 5.205 8.478 6.003 6.894 4.915 6.110 2.421 2.583 1.000 2.363 3.526 2.636 6.216 2838 chr6 28429253 28434430 + 0 NA intron (NM_019569, intron 3 of 6) intron (NM_019569, intron 3 of 6) 3940 NM_019569 56223 Mm.31708 NM_019569 ENSMUSG00000029707 Fscn3 - fascin actin-bundling protein 3 protein-coding 5.172 4.989 2.467 4.364 3.973 2.001 5.063 5.864 3.290 4.087 2.809 1.768 5.358 7.031 6.053 8.145 5.558 4.329 nan 2.173 1.553 1.924 1.555 1.368 5.563 595 chr11 98901842 98904674 + 0 NA 3' UTR (NM_197940, exon 8 of 8) 3' UTR (NM_197940, exon 8 of 8) -4631 NM_001025779 23834 Mm.20912 NM_011799 ENSMUSG00000017499 Cdc6 CDC18L cell division cycle 6 protein-coding 6.885 4.308 1.033 6.901 2.198 1.413 4.680 7.937 2.997 5.566 4.518 1.658 2.101 4.578 3.564 3.834 nan 3.857 1.212 nan 2.218 1.840 nan nan 7.084 1755 chr19 23100440 23104592 + 0 NA Intergenic RLTR20C1_MM|LTR|ERVK -38710 NM_010638 16601 Mm.291595 NM_010638 ENSMUSG00000033863 Klf9 2310051E17Rik|AA589643|BTEB-1|Bteb1|ENSMUSG00000055440|Gm9971 Kruppel-like factor 9 protein-coding 5.397 1.013 1.080 3.577 7.237 5.953 6.266 7.094 2.982 4.003 nan 1.024 4.019 8.105 4.415 3.996 6.839 3.474 nan 1.182 1.109 0.620 nan 1.120 4.590 1138 chr15 75770556 75773389 + 0 NA intron (NM_172121, intron 9 of 11) L1MDa|LINE|L1 -24050 NM_194350 378435 Mm.309589 NM_194350 ENSMUSG00000047591 Mafa RIPE3b1 v-maf musculoaponeurotic fibrosarcoma oncogene family, protein A (avian) protein-coding 6.527 4.587 1.523 6.177 3.380 1.905 7.404 10.141 4.598 nan 4.973 2.550 7.536 7.447 6.663 6.623 5.270 7.171 2.275 1.420 1.311 nan 1.602 1.424 8.691 488 chr11 75056772 75065679 + 0 NA intron (NM_001002764, intron 13 of 18) intron (NM_001002764, intron 13 of 18) 4766 NR_030454 735274 NR_030454 ENSMUSG00000106252 Mir684-1 Mirn684-1 microRNA 684-1 ncRNA 8.572 1.615 0.758 4.578 5.956 3.877 11.043 8.266 4.626 5.609 0.729 0.790 7.656 10.991 7.900 9.811 8.497 7.473 3.840 2.982 nan 3.877 6.116 4.715 10.009 2926 chr6 87817011 87819965 + 0 NA TTS (NM_133934) TTS (NM_133934) -6324 NR_104478 69834 Mm.37380 NM_133717 ENSMUSG00000030055 Rab43 1810048P08Rik|2500004H21Rik|AW490415 RAB43, member RAS oncogene family protein-coding 3.907 0.938 0.806 nan 2.229 0.945 4.760 8.073 1.299 1.657 1.392 2.006 3.101 6.459 3.986 5.563 4.949 nan 3.183 1.986 0.863 3.027 2.015 1.517 3.300 1854 chr2 32720519 32756460 + 0 NA intron (NM_027529, intron 1 of 2) PB1D11|SINE|Alu 2527 NM_027529 70730 Mm.401360 NM_027529 ENSMUSG00000009551 6330409D20Rik AA517851 RIKEN cDNA 6330409D20 gene protein-coding 8.436 1.979 0.828 7.492 7.033 4.945 8.648 10.171 nan 6.927 6.538 3.738 9.169 10.806 7.814 10.319 7.651 8.171 5.074 3.314 3.284 4.704 4.801 4.429 11.851 1012 chr14 55543025 55546311 + 0 NA intron (NM_028994, intron 5 of 9) intron (NM_028994, intron 5 of 9) 4402 NM_028994 74551 Mm.29856 NM_028994 ENSMUSG00000040618 Pck2 1810010O14Rik|9130022B02Rik|PEPCK-M phosphoenolpyruvate carboxykinase 2 (mitochondrial) protein-coding 0.700 nan 0.317 2.681 0.943 0.439 1.219 nan 0.664 1.199 5.970 1.757 1.250 1.495 2.250 1.713 1.256 1.302 6.816 4.066 3.636 9.702 6.151 5.376 7.769 1498 chr17 35179188 35190216 + 0 NA TTS (NM_010734) TTS (NM_010734) 3738 NM_010734 16988 Mm.19379 NM_010734 ENSMUSG00000073412 Lst1 B144 leukocyte specific transcript 1 protein-coding 11.830 12.838 7.709 8.036 7.752 4.530 12.677 9.202 6.589 8.219 10.069 5.879 8.206 11.533 9.651 9.904 9.795 8.060 5.344 6.107 4.214 5.010 7.263 5.418 11.623 835 chr12 118258518 118263545 + 0 NA intron (NM_009239, intron 4 of 5) L1MB7|LINE|L1 40409 NM_009239 20688 Mm.34699 NM_009239 ENSMUSG00000025323 Sp4 5730497N03Rik|HF-1b|HF1-b trans-acting transcription factor 4 protein-coding nan 0.605 0.340 1.178 1.243 0.482 0.996 1.697 1.548 1.979 0.243 0.364 1.675 1.983 1.693 2.369 1.540 1.556 3.452 1.813 1.165 4.696 0.993 0.728 2.756 2182 chr3 51592571 51595077 + 0 NA Intergenic ORR1A4|LTR|ERVL-MaLR -33001 NM_080793 73251 Mm.192111 NM_080793 ENSMUSG00000037111 Setd7 1600028F23Rik|H3K4MT|KMT7|Set7|Set7/9|mKIAA1717 SET domain containing (lysine methyltransferase) 7 protein-coding 3.179 1.156 0.629 1.527 0.974 0.493 1.049 0.902 1.291 1.246 0.702 0.587 0.482 1.258 1.547 1.467 0.876 1.620 5.730 4.322 1.911 7.660 7.505 4.156 2.266 1267 chr16 10841900 10845258 + 0 NA TTS (NM_001162932) TTS (NM_001162932) 8520 NM_001162932 223970 Mm.325777 NM_001033278 ENSMUSG00000037991 Rmi2 A630055G03Rik|Gm537|Gm929 RecQ mediated genome instability 2 protein-coding 4.646 10.495 6.788 2.301 2.040 1.867 3.322 2.943 2.663 2.762 1.095 1.587 4.109 3.975 3.174 4.467 4.666 3.627 1.202 1.470 2.185 1.108 1.055 1.241 5.762 1032 chr14 79533873 79540808 + 0 NA intron (NM_001286411, intron 2 of 8) intron (NM_001286411, intron 2 of 8) 21666 NM_001286411 13709 Mm.20938 NM_007920 ENSMUSG00000036461 Elf1 Elf-1|Sts1|mElf-1|p70 E74-like factor 1 protein-coding 4.849 0.968 0.621 5.331 3.398 1.577 5.254 3.630 7.216 8.479 1.139 0.886 7.031 9.678 7.257 7.081 3.820 9.553 1.874 0.710 0.376 1.753 1.224 0.934 5.749 113 chr1 122161288 122162277 + 0 NA Intergenic Intergenic -593802 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 3.163 6.299 1.867 4.802 1.399 0.379 0.859 2.797 2.051 3.743 4.874 1.442 2.191 3.648 3.710 6.372 1.829 3.324 1.929 1.793 1.212 2.794 1.240 0.380 6.955 901 chr13 45810650 45815158 + 0 NA intron (NM_001199304, intron 3 of 6) Lx8|LINE|L1 152087 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 3.947 1.002 0.379 nan 2.012 1.052 1.732 2.959 2.077 2.933 1.109 0.508 2.149 3.427 3.451 4.321 2.363 4.137 0.717 nan 0.386 0.597 0.460 0.296 4.263 2191 chr3 62183734 62185172 + 0 NA Intergenic Intergenic -154324 NM_001081295 622434 Mm.153974 NM_001081295 ENSMUSG00000036885 Arhgef26 4631416L12Rik|8430436L14Rik|AI303572|AW491953|SGEF Rho guanine nucleotide exchange factor (GEF) 26 protein-coding 4.216 0.480 0.275 2.157 1.576 0.411 6.426 2.125 2.810 3.017 1.110 0.564 5.495 4.822 3.827 4.756 4.095 6.229 0.387 0.521 0.170 0.917 0.162 0.149 5.182 152 chr1 137074113 137081199 + 0 NA Intergenic RSINE1|SINE|B4 -117208 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 2.249 0.611 0.300 nan 1.228 0.727 1.590 3.907 2.200 2.045 2.910 2.974 2.322 nan 2.124 nan 1.240 2.492 6.397 2.829 2.679 8.625 4.108 3.578 nan 2931 chr6 88143506 88149274 + 0 NA Intergenic RLTR20A4|LTR|ERVK -42132 NR_105795 102465196 NR_105795 ENSMUSG00000099095 Mir6376 Gm27778|mmu-mir-6376 microRNA 6376 ncRNA 2.291 0.598 0.291 nan 1.018 0.506 1.021 1.219 2.334 3.744 0.662 0.529 0.801 2.256 1.686 2.649 0.965 3.833 nan 0.410 0.468 1.089 0.553 0.504 3.518 342 chr10 120391458 120394374 + 0 NA TTS (NR_040626) TTS (NR_040626) 3393 NR_040626 320626 Mm.446091 NR_040626 ENSMUSG00000090191 9230105E05Rik - RIKEN cDNA 9230105E05 gene ncRNA 4.768 0.711 0.457 2.956 1.839 0.937 2.760 1.498 4.519 4.763 1.501 1.045 5.526 4.218 4.182 5.964 3.949 4.014 1.131 0.452 0.329 1.067 0.683 0.369 3.762 1419 chr17 24606614 24610319 + 0 NA intron (NM_001286718, intron 22 of 39) intron (NM_001286718, intron 22 of 39) 24161 NM_011647 22084 Mm.30435 NM_011647 ENSMUSG00000002496 Tsc2 Nafld|Tcs2 tuberous sclerosis 2 protein-coding 5.356 7.716 1.937 6.305 2.589 1.590 5.373 6.062 4.349 8.364 4.835 3.027 4.546 5.912 6.931 8.186 3.584 6.458 5.114 1.407 2.189 5.673 2.213 2.661 12.864 862 chr13 24852957 24854202 + 0 NA intron (NR_131787, intron 1 of 19) MER89|LTR|ERV1 8448 NR_131787 210108 Mm.261514 NM_001081051 ENSMUSG00000006711 D130043K22Rik 4930451E12Rik|Kiaa0319 RIKEN cDNA D130043K22 gene protein-coding 4.684 11.699 4.786 5.946 2.462 2.065 3.338 6.058 3.785 5.359 5.856 3.800 3.462 6.222 6.309 7.811 3.197 6.611 5.437 1.626 3.650 7.270 3.475 4.118 8.686 341 chr10 118596580 118597800 + 0 NA Intergenic L1Md_A|LINE|L1 -40665 NR_104123 103214 Mm.30529 NR_104123 Tmevpg1 AI447422 Theiler's murine encephalomyelitis virus persistence candidate gene 1 ncRNA 2.843 0.261 0.366 1.522 1.859 2.191 4.560 2.431 1.691 1.521 0.347 0.260 2.145 3.706 3.284 3.589 3.910 3.028 0.970 0.537 1.027 0.558 0.702 0.853 4.285 1056 chr15 10435435 10436863 + 0 NA Intergenic LTR10_RN|LTR|ERVK 34367 NM_030046 78244 Mm.297862 NM_030046 ENSMUSG00000044224 Dnajc21 4930461P20Rik|9930116P15Rik DnaJ heat shock protein family (Hsp40) member C21 protein-coding 1.115 0.712 0.214 0.749 0.399 0.079 1.726 1.956 1.150 1.809 0.529 0.138 2.700 4.090 1.904 2.545 3.713 1.698 0.520 0.355 0.137 0.328 0.318 0.066 1.149 3586 chrX 103299528 103300922 + 0 NA Intergenic Intergenic -21173 NM_007674 12592 Mm.4353 NM_007674 ENSMUSG00000031326 Cdx4 Cdx-3|Cdx-4|Cdx3 caudal type homeobox 4 protein-coding 2.671 0.373 0.468 1.068 1.350 0.702 1.125 3.050 2.749 2.979 0.482 0.928 2.305 3.436 1.944 2.994 2.603 2.536 0.662 0.808 0.264 0.625 0.643 0.461 1.795 2883 chr6 71928701 71933671 + 0 NA intron (NM_009088, intron 11 of 33) intron (NM_009088, intron 11 of 33) 22133 NM_009088 20019 Mm.135581 NM_009088 ENSMUSG00000049553 Polr1a 194kDa|3010014K16Rik|RPA194|Rpo1-4|mRPA1 polymerase (RNA) I polypeptide A protein-coding 3.768 4.812 1.635 2.721 2.759 1.098 7.849 7.169 4.525 4.201 2.304 1.746 7.311 8.901 7.106 7.439 4.607 6.961 0.737 0.597 0.579 0.846 0.327 0.501 4.294 2189 chr3 59007499 59011264 + 0 NA intron (NM_177855, intron 1 of 43) intron (NM_177855, intron 1 of 43) 2403 NM_177855 329650 Mm.240059 NM_177855 ENSMUSG00000056476 Med12l A130035F20|A630079M02|AU044581|TRALPUSH mediator complex subunit 12-like protein-coding 5.069 2.301 1.197 3.896 4.331 2.348 6.038 2.685 3.515 3.686 7.375 2.838 5.689 7.160 5.636 2.692 0.996 6.721 0.511 0.524 0.586 0.689 0.491 0.323 3.604 2287 chr3 107560647 107563686 + 0 NA Intergenic Intergenic -7093 NM_026261 67591 Mm.55982 NM_026261 ENSMUSG00000055891 Ubl4b 4930522D07Rik ubiquitin-like 4B protein-coding 4.562 7.396 3.443 5.580 2.652 2.262 2.057 1.703 1.792 3.644 4.478 2.236 1.124 2.291 nan 2.413 1.386 3.437 3.201 4.068 3.496 3.926 5.236 4.733 3.593 2540 chr4 141217750 141222879 + 0 NA TTS (NM_001081174) TTS (NM_001081174) 6358 NM_001081174 76166 Mm.271064 NM_001081174 ENSMUSG00000073733 Rsg1 6330545A04Rik|Gm723 REM2 and RAB-like small GTPase 1 protein-coding 5.602 4.576 1.993 6.485 6.506 5.931 3.783 3.949 nan 6.644 2.615 1.811 3.247 6.110 4.154 4.916 3.451 nan 3.261 2.530 3.458 4.356 4.385 5.317 7.439 3108 chr7 35092842 35099319 + 0 NA Intergenic B3|SINE|B2 -23213 NM_001287521 12606 Mm.349667 NM_007678 ENSMUSG00000034957 Cebpa C/ebpalpha|CBF-A|Cebp CCAAT/enhancer binding protein (C/EBP), alpha protein-coding 5.383 3.639 1.506 8.130 3.534 2.937 3.398 3.889 3.910 6.182 2.857 2.153 3.513 4.360 4.027 4.546 3.156 6.193 2.194 1.810 1.585 2.998 1.865 1.746 4.598 2284 chr3 105737318 105739413 + 0 NA intron (NM_145541, intron 5 of 7) B3A|SINE|B2 32907 NM_001163356 109050 Mm.212591 NM_175398 ENSMUSG00000048458 Fam212b 6530418L21Rik|inka2 family with sequence similarity 212, member B protein-coding 2.551 0.756 0.517 2.177 1.726 1.121 3.364 1.871 2.033 2.946 1.675 0.519 3.577 4.867 2.595 2.341 2.519 2.703 0.843 1.133 0.579 1.055 1.047 0.512 2.734 64 chr1 69476317 69481668 + 0 NA Intergenic Intergenic 206968 NM_011770 22779 Mm.106343 NM_011770 ENSMUSG00000025997 Ikzf2 A730095J18Rik|Helios|Zfpn1a2|Znfn1a2 IKAROS family zinc finger 2 protein-coding 1.390 0.867 0.796 0.292 0.196 0.138 1.138 2.524 0.958 0.594 9.300 3.621 1.198 nan 1.746 nan nan nan 0.482 0.488 0.412 0.493 0.442 0.257 0.218 2753 chr5 124143725 124148142 + 0 NA intron (NM_011256, intron 3 of 24) intron (NM_011256, intron 3 of 24) 29825 NM_144509 65105 Mm.29430 NM_144509 ENSMUSG00000029404 Arl6ip4 AA408210|AA408365|Aip-4|Srp25 ADP-ribosylation factor-like 6 interacting protein 4 protein-coding 3.602 0.965 0.702 3.852 5.572 4.682 4.672 4.427 4.193 3.584 3.704 2.877 3.516 5.152 4.891 5.169 4.071 nan nan 1.217 1.971 1.712 nan 1.931 2.712 1473 chr17 30140487 30144144 + 0 NA intron (NM_148926, intron 3 of 4) IAPLTR2a|LTR|ERVK 114220 NR_105839 102465223 NR_105839 ENSMUSG00000098522 Mir6412 Gm27364|mmu-mir-6412 microRNA 6412 ncRNA 8.555 11.084 4.223 10.592 6.658 4.580 11.219 8.212 5.734 13.466 6.419 3.994 6.862 9.835 9.382 10.148 7.343 8.306 5.793 2.866 4.027 5.882 4.734 5.991 14.303 881 chr13 37944315 37947942 + 0 NA intron (NM_001177869, intron 10 of 11) intron (NM_001177869, intron 10 of 11) 48062 NM_025965 107513 Mm.426670 NM_025965 ENSMUSG00000021427 Ssr1 2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA signal sequence receptor, alpha protein-coding 7.294 nan 1.890 5.852 5.037 2.686 4.491 nan nan 5.786 4.670 2.486 5.091 7.724 5.348 nan 4.445 nan 5.474 3.506 1.948 5.670 3.681 2.721 nan 2461 chr4 124798734 124805701 + 0 NA promoter-TSS (NM_008636) promoter-TSS (NM_008636) -332 NM_008636 17764 Mm.272397 NM_008636 ENSMUSG00000028890 Mtf1 MTF-1|Thyls metal response element binding transcription factor 1 protein-coding 8.681 17.772 5.224 9.765 4.093 2.580 5.770 8.422 5.958 6.591 7.206 4.701 6.426 7.012 7.120 7.341 3.104 7.627 2.503 1.717 1.933 2.942 1.362 1.622 9.330 3186 chr7 127035477 127040390 + 0 NA intron (NM_145588, intron 1 of 13) intron (NM_145588, intron 1 of 13) 4487 NM_145588 110033 Mm.286488 NM_145588 ENSMUSG00000030677 Kif22 AU021460|C81217|Kid|Kif22a kinesin family member 22 protein-coding 8.804 4.828 2.260 6.786 6.139 3.100 5.615 9.534 4.255 5.612 3.015 2.248 4.696 9.004 6.105 7.405 7.284 7.155 2.624 2.289 1.821 2.567 2.824 2.290 8.907 45 chr1 52173294 52177806 + 0 NA intron (NM_001081081, intron 14 of 17) intron (NM_001081081, intron 14 of 17) 55928 NM_001205313 20846 Mm.277406 NM_009283 ENSMUSG00000026104 Stat1 2010005J02Rik|AA408197 signal transducer and activator of transcription 1 protein-coding 7.065 17.845 9.352 7.820 5.333 2.688 3.087 3.312 4.519 5.049 3.721 2.129 3.822 4.250 4.179 6.999 4.189 5.111 nan 2.848 2.093 3.186 2.898 1.924 6.804 405 chr11 24037560 24042854 + 0 NA Intergenic Intergenic -37849 NM_016707 14025 Mm.53687 NM_016707 ENSMUSG00000000861 Bcl11a 2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809 B cell CLL/lymphoma 11A (zinc finger protein) protein-coding 0.790 7.339 3.470 nan 0.179 0.123 0.285 0.394 0.491 0.685 0.649 0.207 0.196 0.324 0.557 0.808 nan 0.745 0.310 0.596 0.127 0.289 0.290 0.108 0.631 507 chr11 78348222 78350337 + 0 NA TTS (NM_011676) TTS (NM_011676) 2569 NM_001313987 22248 Mm.284811 NM_011676 ENSMUSG00000002058 Unc119 D11Bhm52|HRG4|MRG4|Rg4|Rtg4|Unc119h unc-119 lipid binding chaperone protein-coding 12.563 7.849 2.504 10.000 6.485 2.593 9.753 9.758 7.642 10.940 7.097 3.289 9.505 14.150 10.325 13.102 8.316 9.638 3.701 3.293 nan 4.332 3.571 2.060 13.828 1173 chr15 79499314 79501645 + 0 NA intron (NM_008427, intron 1 of 1) intron (NM_008427, intron 1 of 1) 4762 NM_008427 16520 Mm.39759 NM_008427 ENSMUSG00000044216 Kcnj4 IRK3|Kcnf2|MB-IRK3 potassium inwardly-rectifying channel, subfamily J, member 4 protein-coding 5.874 3.160 1.806 4.584 4.965 5.075 9.350 7.312 3.787 4.202 nan 2.525 6.932 7.868 5.715 6.328 8.993 4.770 1.618 1.867 2.961 nan 3.027 3.065 5.721 1963 chr2 119957025 119961446 + 0 NA intron (NM_001164274, intron 19 of 22) B3A|SINE|B2 -13464 NM_011941 26390 Mm.330501 NM_011941 ENSMUSG00000033902 Mapkbp1 2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596 mitogen-activated protein kinase binding protein 1 protein-coding 4.597 4.574 2.514 3.808 1.673 0.724 1.836 1.558 2.780 2.580 1.724 1.181 nan 3.752 4.244 4.651 3.030 5.902 0.858 0.902 0.444 0.834 0.496 0.360 4.847 309 chr10 80747171 80754871 + 0 NA Intergenic B4A|SINE|B4 -4185 NM_199322 208266 Mm.152371 NM_199322 ENSMUSG00000061589 Dot1l A630076O07|AW907654|Dot1|KMT4|mDot1 DOT1-like, histone H3 methyltransferase (S. cerevisiae) protein-coding 8.164 2.765 1.297 nan 2.435 1.530 7.297 7.868 3.906 5.006 4.407 4.047 6.070 8.952 7.766 7.544 7.183 6.549 nan 1.991 1.695 3.620 2.925 2.351 11.358 1734 chr19 7625989 7627815 + 0 NA intron (NM_025731, intron 4 of 5) MYSERV6-int|LTR|ERVK 14333 NM_025731 66727 Mm.116803 NM_025731 ENSMUSG00000024973 Hrasls5 1700055A14Rik|1700086E08Rik|4921526K24Rik|HRSL5|iNAT HRAS-like suppressor family, member 5 protein-coding 3.263 1.000 0.713 2.201 1.344 0.600 5.276 3.238 2.846 2.313 0.764 1.032 3.025 4.347 2.659 4.349 4.241 3.417 2.391 1.060 0.176 2.447 1.728 0.887 6.033 3565 chrX 11734977 11737436 + 0 NA Intergenic Intergenic 344347 NM_175045 71458 Mm.196328 NM_029510 ENSMUSG00000040363 Bcor 2900008C10Rik|5830466J11Rik|8430401K06Rik|BcorR|D930024N20Rik|mKIAA1575 BCL6 interacting corepressor protein-coding 4.544 6.359 1.197 5.069 1.798 1.472 4.063 4.233 2.055 4.521 2.483 0.612 2.850 3.626 3.980 4.585 3.446 3.632 3.337 1.675 2.317 5.247 1.931 2.778 8.168 2085 chr2 167542030 167543329 + 0 NA 3' UTR (NM_011427, exon 3 of 3) 3' UTR (NM_011427, exon 3 of 3) 4484 NM_011427 20613 Mm.2093 NM_011427 ENSMUSG00000042821 Snai1 Sna|Sna1|Snail|Snail1 snail family zinc finger 1 protein-coding 5.043 1.459 0.464 3.916 2.743 2.245 1.463 1.842 1.814 3.170 3.372 0.999 2.000 3.259 2.007 2.330 1.929 2.710 nan 1.114 1.263 0.814 0.617 0.639 3.545 1733 chr19 7566764 7578136 + 0 NA intron (NM_139269, intron 2 of 4) intron (NM_139269, intron 2 of 4) 14991 NM_139269 225845 Mm.274810 NM_139269 ENSMUSG00000060675 Pla2g16 C78643|HRSL3|Hrasls3|Hrev107|MLP-3 phospholipase A2, group XVI protein-coding 5.313 3.008 1.494 5.281 6.074 5.446 7.480 6.402 nan 5.887 4.170 3.385 4.747 6.093 5.218 nan 7.413 6.357 1.320 1.652 1.829 1.802 2.006 2.360 6.163 3230 chr8 18767297 18769360 + 0 NA intron (NM_173189, intron 12 of 13) intron (NM_173189, intron 12 of 13) -26766 NM_007426 11601 Mm.439874 NM_007426 ENSMUSG00000031465 Angpt2 Agpt2|Ang-2|Ang2 angiopoietin 2 protein-coding 7.052 1.501 0.625 4.388 3.677 1.394 5.580 10.388 4.715 3.609 3.731 3.260 9.139 7.502 8.766 9.764 7.280 7.947 1.131 1.673 1.034 6.771 0.632 0.831 5.692 2113 chr2 179709777 179712535 + 0 NA intron (NM_001316723, intron 2 of 5) intron (NM_001316723, intron 2 of 5) 265490 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 6.328 9.256 3.513 7.561 4.924 4.290 5.786 7.615 4.018 13.956 4.923 2.836 5.570 6.784 5.706 7.352 5.653 nan 5.036 1.970 4.072 3.618 4.001 7.309 13.506 2153 chr3 21833485 21838110 + 0 NA Intergenic Intergenic -240855 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 5.444 10.303 4.033 4.318 3.289 1.627 6.066 5.938 4.939 4.403 6.840 3.888 4.531 6.431 5.217 6.209 4.842 5.655 2.670 1.898 1.330 3.854 1.967 1.498 6.989 3383 chr8 122886198 122901569 + 0 NA non-coding (NR_037865, exon 10 of 14) non-coding (NR_037865, exon 10 of 14) 45509 NM_007662 12555 Mm.1976 NM_007662 ENSMUSG00000031962 Cdh15 AI323380|Cdh14|Mcad cadherin 15 protein-coding 3.327 1.319 0.530 3.162 1.706 1.034 3.483 6.819 2.180 2.592 1.365 1.421 3.268 3.975 3.757 nan 2.537 2.969 3.476 2.568 2.311 5.742 2.656 1.815 4.215 1258 chr16 5073175 5075442 + 0 NA intron (NM_026666, intron 13 of 18) intron (NM_026666, intron 13 of 18) 24240 NM_026666 170644 Mm.66356 NM_026666 ENSMUSG00000039473 Ubn1 1110029L11Rik|2610108L02Rik|AA673476|AW124741 ubinuclein 1 protein-coding 2.806 0.957 0.346 1.640 1.730 0.943 nan 1.886 2.198 2.183 1.150 0.641 2.846 4.622 3.569 4.060 1.629 3.952 0.691 0.333 0.468 0.542 0.710 0.325 3.199 824 chr12 111392283 111395435 + 0 NA Intergenic Intergenic -12950 NM_001101503 380787 Mm.125602 NM_001101503 ENSMUSG00000087075 A230065H16Rik Gm898|Lbh2 RIKEN cDNA A230065H16 gene protein-coding 2.429 0.350 0.093 nan 1.244 1.185 2.998 4.707 nan nan 0.264 0.449 1.105 nan 2.015 4.049 3.007 2.414 1.116 1.496 0.938 3.738 0.713 0.663 2.184 120 chr1 127421330 127423641 + 0 NA intron (NM_145128, intron 12 of 17) intron (NM_145128, intron 12 of 17) 217499 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 6.291 nan 0.563 3.997 3.590 1.385 5.431 5.629 4.045 4.035 6.929 4.646 5.602 5.629 4.803 9.271 4.303 6.144 nan 1.085 0.442 1.307 1.715 0.922 3.499 2568 chr4 150193110 150202609 + 0 NA intron (NM_009802, intron 2 of 7) ID_B1|SINE|B4 3276 NM_009802 12353 Mm.232523 NM_009802 ENSMUSG00000028972 Car6 Ca6|DOC1 carbonic anhydrase 6 protein-coding 7.560 nan 0.465 5.289 8.338 4.672 7.359 7.805 6.868 8.880 5.058 2.989 7.210 13.136 6.951 8.668 6.053 8.045 4.617 2.321 1.612 6.111 2.431 1.745 8.838 1148 chr15 76055444 76063806 + 0 NA exon (NM_134089, exon 19 of 38) exon (NM_134089, exon 19 of 38) 5263 NR_105917 102466772 NR_105917 ENSMUSG00000098451 Mir6952 Gm27948|mmu-mir-6952 microRNA 6952 ncRNA 3.677 3.747 1.263 4.211 2.083 1.059 nan 5.942 2.030 nan nan 1.500 4.589 5.303 4.963 5.318 nan 4.075 2.289 1.589 1.419 nan 2.074 1.564 6.116 2841 chr6 29476198 29477653 + 0 NA Intergenic Intergenic 5488 NM_001145360 668210 Mm.420607 NM_001145360 ENSMUSG00000090685 Gm9047 EG668210 predicted gene 9047 protein-coding 4.208 21.244 4.029 7.127 1.574 1.034 1.782 1.860 1.571 5.276 4.196 1.814 1.620 2.896 3.343 3.858 1.640 2.698 nan 0.730 1.343 1.519 0.367 0.903 7.305 2386 chr4 63004394 63007796 + 0 NA intron (NM_028326, intron 1 of 14) intron (NM_028326, intron 1 of 14) 40521 NM_028326 72701 Mm.26479 NM_028326 ENSMUSG00000028358 Zfp618 2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1 zinc finger protein 618 protein-coding 4.252 1.303 0.403 3.581 3.342 0.938 4.360 6.439 4.404 5.508 6.347 2.532 5.216 9.520 6.574 7.595 2.802 4.319 3.325 0.651 0.252 nan nan 0.307 7.193 2313 chr3 129756403 129759038 + 0 NA intron (NR_040589, intron 3 of 4) ERVB3_1-LTR_MM|LTR|ERVK -2398 NM_010113 13645 Mm.252481 NM_010113 ENSMUSG00000028017 Egf AI790464 epidermal growth factor protein-coding 5.990 1.203 0.649 3.553 3.804 1.966 6.565 5.225 4.829 5.018 7.364 3.169 7.378 6.098 5.498 6.540 5.310 6.027 2.238 0.960 0.651 1.363 1.224 0.649 6.015 254 chr10 42196409 42199811 + 0 NA intron (NM_019740, intron 2 of 3) intron (NM_019740, intron 2 of 3) 78632 NM_019740 56484 Mm.338613 NM_019740 ENSMUSG00000048756 Foxo3 1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a forkhead box O3 protein-coding 10.198 6.710 3.022 8.505 3.918 2.455 5.973 6.029 5.465 6.310 5.199 2.980 5.446 6.883 8.487 8.292 5.813 8.453 3.427 2.138 2.156 3.888 2.797 2.617 9.928 392 chr11 11631898 11642780 + 0 NA Intergenic Lx2B2|LINE|L1 -9501 NM_001305143 102631730 Mm.159430 NM_001305143 ENSMUSG00000062511 4930512M02Rik - RIKEN cDNA 4930512M02 gene protein-coding nan 9.006 4.489 0.742 0.399 0.158 0.304 0.323 0.642 0.617 0.422 0.204 0.214 0.358 0.515 0.597 0.455 0.685 0.998 nan 0.551 0.769 0.575 0.264 0.623 1321 chr16 25777701 25779399 + 0 NA intron (NM_001127259, intron 3 of 13) intron (NM_001127259, intron 3 of 13) -23366 NM_001127263 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 2.229 1.391 1.137 1.061 2.016 0.532 3.190 6.444 2.103 1.365 5.873 2.437 4.136 3.596 3.017 3.842 2.851 2.843 0.805 0.383 0.286 0.982 nan 0.420 2.648 2242 chr3 93356402 93357440 + 0 NA Intergenic B2_Mm2|SINE|B2 -36778 NM_009100 20129 Mm.1417 NM_009100 ENSMUSG00000041984 Rptn - repetin protein-coding 4.213 3.520 1.965 3.718 2.432 2.124 1.722 2.212 2.186 3.075 nan 1.710 2.758 3.742 2.432 2.574 2.316 2.478 0.600 1.150 0.655 0.562 0.369 0.185 2.725 2442 chr4 119303451 119307193 + 0 NA TTS (NM_001110129) TTS (NM_001110129) -10809 NM_011732 22608 Mm.258204 NM_011732 ENSMUSG00000028639 Ybx1 1700102N10Rik|C79409|EF1A|MSY1|Nsep1|YB-1|dbpB|mYB-1a Y box protein 1 protein-coding 6.032 1.126 0.453 3.865 4.646 2.579 4.482 5.663 3.596 5.461 1.777 1.607 4.995 9.990 5.383 6.025 2.992 5.068 1.967 1.357 1.210 1.961 1.328 0.548 6.903 2254 chr3 95093907 95103729 + 0 NA intron (NM_001293707, intron 1 of 14) intron (NM_001293707, intron 1 of 14) 8112 NM_001293707 18720 Mm.296409 NM_008847 ENSMUSG00000028126 Pip5k1a PI4P5K-I[a]|PIP5K1-alpha|PIP5KIalpha|Pipk5a phosphatidylinositol-4-phosphate 5-kinase, type 1 alpha protein-coding 3.671 1.198 1.002 1.599 2.683 1.532 2.715 6.014 2.274 2.578 nan 1.531 2.966 3.993 2.797 nan 2.661 3.306 1.915 1.283 1.015 1.111 1.439 1.431 3.627 1987 chr2 146121863 146122932 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR -99600 NM_016889 53626 Mm.379070 NM_016889 ENSMUSG00000068154 Insm1 IA-1 insulinoma-associated 1 protein-coding 2.056 1.218 1.980 0.847 1.409 0.787 3.216 3.606 1.045 1.133 0.799 1.156 2.123 1.585 1.787 1.467 1.645 1.096 nan 7.705 4.453 3.762 6.967 4.028 1.368 3354 chr8 109673984 109685294 + 0 NA intron (NM_028018, intron 4 of 9) intron (NM_028018, intron 4 of 9) 13655 NM_028018 71955 Mm.290036 NM_028018 ENSMUSG00000031729 Ist1 2400003C14Rik|AW536298|mKIAA0174 increased sodium tolerance 1 homolog (yeast) protein-coding 6.342 2.094 1.386 4.635 6.770 5.039 4.233 6.151 4.313 5.643 2.079 1.514 7.501 8.516 5.787 6.697 6.870 6.021 1.548 1.764 1.780 nan 1.910 1.791 7.032 813 chr12 86476369 86477515 + 0 NA intron (NM_001159500, intron 2 of 6) intron (NM_001159500, intron 2 of 6) 55298 NM_011934 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 3.099 0.943 0.397 1.268 0.835 0.320 3.902 1.527 1.125 1.082 0.808 0.176 2.963 4.505 5.178 6.310 4.265 3.810 0.573 0.381 0.257 0.378 0.147 0.019 6.417 2014 chr2 153349687 153356417 + 0 NA intron (NM_001039939, intron 2 of 11) intron (NM_001039939, intron 2 of 11) 6913 NM_001039939 228790 Mm.330677 NM_001039939 ENSMUSG00000042548 Asxl1 mKIAA0978 additional sex combs like 1 protein-coding nan 2.288 0.767 1.907 0.742 0.570 1.939 3.024 nan nan 0.378 0.832 nan nan 1.544 1.349 0.566 nan 3.678 2.328 3.446 5.271 2.296 4.240 nan 3570 chrX 71514202 71517797 + 0 NA Intergenic Intergenic -23150 NM_001199349 171486 Mm.283879 NM_138309 ENSMUSG00000035776 Cd99l2 AW548191|Mic2l1|Xap89 CD99 antigen-like 2 protein-coding 5.036 5.710 2.323 5.068 2.994 1.969 3.522 4.932 4.617 3.802 4.050 2.637 4.709 5.424 6.083 6.244 3.638 5.344 3.991 1.927 2.809 4.707 2.376 2.356 5.387 2602 chr4 154430181 154433165 + 0 NA intron (NM_001177995, intron 3 of 15) (CAGAG)n|Simple_repeat|Simple_repeat -131778 NM_001112744 230972 Mm.38481 NM_001112744 ENSMUSG00000029032 Arhgef16 - Rho guanine nucleotide exchange factor (GEF) 16 protein-coding 0.272 0.851 0.173 0.818 0.271 0.386 0.397 0.536 0.484 8.178 2.607 0.179 0.316 0.568 0.764 0.332 0.713 0.729 0.391 0.428 1.540 1.113 0.586 1.057 644 chr11 115486854 115491028 + 0 NA exon (NM_177778, exon 3 of 3) exon (NM_177778, exon 3 of 3) -2588 NR_136931 102634812 Mm.390379 NR_136931 LOC102634812 - ribosomal protein L39 pseudogene pseudo 3.267 9.688 7.562 2.299 3.678 2.942 nan 2.832 2.303 nan 1.398 2.246 2.128 3.091 2.974 3.000 2.918 nan 2.235 nan 2.228 1.883 2.149 2.219 2.280 2477 chr4 128627243 128628407 + 0 NA Intergenic RMER19B|LTR|ERVK -9206 NM_205823 384059 Mm.331901 NM_205823 ENSMUSG00000062545 Tlr12 Gm1365|Tlr11 toll-like receptor 12 protein-coding 2.013 1.059 0.957 1.927 2.690 1.562 1.359 0.562 1.181 1.553 0.364 0.600 1.880 3.583 1.986 2.456 2.410 2.009 1.719 1.313 1.396 2.165 1.420 1.125 4.321 851 chr13 21801542 21802866 + 0 NA Intergenic Intergenic 7995 NM_001313878 665622 Mm.471247 NM_001110555 ENSMUSG00000069303 Hist1h2br Gm11277|OTTMUSG00000000449 histone cluster 1 H2br protein-coding 3.622 5.304 2.209 4.113 2.306 0.776 2.849 2.415 3.800 3.248 3.120 2.177 3.711 5.509 4.410 4.300 3.819 3.263 2.975 1.601 0.841 2.349 0.810 0.665 3.301 3360 chr8 115640314 115643436 + 0 NA Intergenic (TC)n|Simple_repeat|Simple_repeat 65019 NM_001025577 17132 Mm.275549 NM_001025577 ENSMUSG00000055435 Maf 2810401A20Rik|A230108G15Rik|AW047063|c-maf avian musculoaponeurotic fibrosarcoma oncogene homolog protein-coding 0.390 0.382 0.292 0.379 0.069 0.276 0.448 0.670 0.380 0.336 0.376 0.257 0.195 0.262 0.238 nan 0.548 0.560 5.847 8.969 6.481 8.683 2.249 1.235 0.353 1820 chr2 17984319 17987922 + 0 NA Intergenic B3|SINE|B2 10838 NM_026627 68231 Mm.23887 NM_026627 ENSMUSG00000062651 H2afb1 1700113O17Rik|H2A.Bbd|H2al2|TSEG-1|Tseg1 H2A histone family, member B1 protein-coding 9.985 11.231 3.502 10.483 6.794 5.125 10.003 11.813 6.086 13.824 7.996 4.261 10.093 11.709 8.985 11.512 10.313 10.135 6.732 2.798 3.695 6.466 3.968 6.152 14.625 399 chr11 11772208 11775473 + 0 NA TTS (NM_009578) TTS (NM_009578) 35122 NM_021891 60530 Mm.236114 NM_021891 ENSMUSG00000035455 Fignl1 - fidgetin-like 1 protein-coding nan 1.299 0.483 1.410 0.483 0.334 0.666 0.679 0.728 0.649 0.427 0.282 0.445 0.574 0.927 1.206 0.753 1.654 2.838 nan 0.969 5.034 1.613 1.595 1.142 2296 chr3 121916861 121918581 + 0 NA Intergenic Intergenic -35605 NM_172525 214137 Mm.229287 NM_172525 ENSMUSG00000039831 Arhgap29 6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1 Rho GTPase activating protein 29 protein-coding 0.760 0.766 0.380 0.774 0.276 0.286 0.568 1.034 0.654 nan 4.833 2.606 0.283 0.433 0.546 nan 0.663 0.970 0.602 0.586 0.214 0.548 nan 0.803 nan 2110 chr2 178374493 178379968 + 0 NA intron (NM_177191, intron 21 of 43) Lx3B|LINE|L1 30428 NM_177191 320558 Mm.70781 NM_177191 ENSMUSG00000060445 Sycp2 3830402K23Rik|4930518F03Rik synaptonemal complex protein 2 protein-coding 7.201 0.314 0.220 3.680 6.876 4.370 8.590 2.090 4.644 7.646 1.832 0.622 6.900 7.842 6.104 nan 9.884 nan 0.778 0.517 0.500 0.326 0.782 0.658 9.218 1811 chr19 58013102 58014681 + 0 NA intron (NM_181415, intron 27 of 28) MTA_Mm-int|LTR|ERVL-MaLR -37276 NR_049196 100885835 NR_049196 ENSMUSG00000093757 Mir5623 Gm26068|mir-5623|mmu-mir-5623 microRNA 5623 ncRNA 3.473 nan 0.316 2.846 1.092 0.504 3.073 1.405 3.499 3.341 0.379 0.847 6.008 4.966 4.736 6.161 7.033 4.951 0.767 0.727 0.388 0.858 0.392 0.284 nan 436 chr11 60112743 60117062 + 0 NA intron (NM_009021, intron 1 of 5) intron (NM_009021, intron 1 of 5) 9889 NM_009021 19377 Mm.296366 NM_009021 ENSMUSG00000062115 Rai1 Gt1 retinoic acid induced 1 protein-coding 2.699 1.729 0.603 2.493 1.369 0.971 3.047 4.120 2.577 2.578 5.228 3.973 2.691 3.544 3.609 3.673 2.439 3.143 2.125 1.158 0.737 1.572 1.344 1.384 nan 1342 chr16 43454067 43468231 + 0 NA intron (NM_181058, intron 2 of 6) B1_Mm|SINE|Alu -40953 NR_046026 626693 Mm.447083 NR_046026 ENSMUSG00000085499 Gm15713 OTTMUSG00000025617 predicted gene 15713 ncRNA 2.124 9.995 5.522 2.036 1.161 0.526 0.722 nan 1.276 1.004 1.719 1.206 0.580 0.965 1.166 1.538 1.096 2.185 2.445 1.555 0.754 2.634 1.169 0.764 1.292 2457 chr4 123247993 123251348 + 0 NA 3' UTR (NM_013905, exon 5 of 5) 3' UTR (NM_013905, exon 5 of 5) 16114 NM_013905 56198 Mm.103615 NM_013905 ENSMUSG00000032744 Heyl Hey3|Hrt3|bHLHb33|hesr3 hairy/enhancer-of-split related with YRPW motif-like protein-coding 7.393 8.307 2.761 6.074 4.731 1.676 3.670 3.449 4.085 4.275 4.427 2.317 2.831 5.683 nan 4.882 3.362 5.720 1.506 2.625 1.230 1.163 0.806 0.523 6.687 1968 chr2 121400764 121402582 + 0 NA intron (NM_153075, intron 7 of 12) intron (NM_153075, intron 7 of 12) 12119 NM_153075 212670 Mm.384318 NM_153075 ENSMUSG00000033486 Catsper2 - cation channel, sperm associated 2 protein-coding 4.046 0.837 0.771 2.431 1.492 0.476 3.658 1.967 3.672 3.544 2.741 1.336 6.738 5.410 4.264 4.719 3.830 2.546 2.284 0.590 0.539 0.864 0.803 0.409 4.450 1802 chr19 47056540 47064822 + 0 NA Intergenic B1_Mur2|SINE|Alu -7067 NM_177342 226182 Mm.301522 NM_177342 ENSMUSG00000025049 Taf5 6330528C20Rik|AV117817 TATA-box binding protein associated factor 5 protein-coding 3.991 1.230 0.608 nan 5.256 2.990 9.997 14.046 3.909 4.246 8.343 4.651 7.101 10.070 8.178 10.324 9.129 nan 1.164 1.231 1.052 1.563 0.890 0.941 8.764 94 chr1 91086801 91089146 + 0 NA intron (NM_001310732, intron 9 of 24) B3|SINE|B2 34529 NM_008515 16978 Mm.45039 NM_008515 ENSMUSG00000026305 Lrrfip1 AU024550|Fliiap1 leucine rich repeat (in FLII) interacting protein 1 protein-coding 3.954 1.067 0.269 2.694 1.088 0.573 3.670 1.825 2.084 2.400 1.203 0.554 2.947 2.003 2.631 5.211 2.935 3.396 1.095 0.594 0.591 nan 0.604 0.405 3.810 213 chr1 191176113 191179082 + 0 NA intron (NM_007498, intron 1 of 3) intron (NM_007498, intron 1 of 3) 5736 NM_007498 11910 Mm.2706 NM_007498 ENSMUSG00000026628 Atf3 LRG-21 activating transcription factor 3 protein-coding 4.890 0.396 0.305 3.121 3.020 1.450 5.801 3.267 3.421 3.465 0.598 0.677 6.993 6.016 6.293 nan 6.309 5.521 3.262 1.544 0.808 1.753 1.571 1.435 5.678 2775 chr5 136437540 136439391 + 0 NA intron (NM_001291239, intron 2 of 22) intron (NM_001291239, intron 2 of 22) -62662 NR_030500 723975 NR_030500 ENSMUSG00000106479 Mir721 Mirn721|miRY|mir-721|mmu-mir-721 microRNA 721 ncRNA 9.658 11.033 3.210 11.058 5.036 2.191 8.324 8.262 5.896 12.354 7.567 3.550 8.240 12.492 12.213 12.095 6.264 10.524 6.213 3.019 2.676 7.928 4.658 4.239 14.181 1450 chr17 27701575 27703232 + 0 NA intron (NM_011861, intron 2 of 9) intron (NM_011861, intron 2 of 9) 17164 NM_178365 23969 Mm.4926 NM_011861 ENSMUSG00000040276 Pacsin1 A830061D09Rik|H74|mKIAA1379|syndapin protein kinase C and casein kinase substrate in neurons 1 protein-coding 4.452 11.500 2.486 6.917 2.078 1.523 4.765 4.991 2.630 5.607 4.048 2.508 3.371 4.578 7.158 7.997 2.516 5.397 4.891 1.979 2.017 6.685 2.091 2.353 11.293 3011 chr6 125371722 125377779 + 0 NA intron (NM_198604, intron 7 of 16) intron (NM_198604, intron 7 of 16) 5754 NM_198604 213522 Mm.333396 NM_198604 ENSMUSG00000038167 Plekhg6 BC026778|Gm155 pleckstrin homology domain containing, family G (with RhoGef domain) member 6 protein-coding 4.397 nan 1.001 3.549 4.240 3.168 6.816 8.380 4.093 4.479 7.711 6.074 6.234 6.718 6.030 nan 4.591 5.744 3.146 2.472 1.845 3.881 3.322 2.495 4.725 2863 chr6 48624158 48644359 + 0 NA TTS (NR_027236) TTS (NR_027236) 6091 NR_027236 243373 Mm.26678 NM_177737 ENSMUSG00000053297 AI854703 AI182503|D630044C04 expressed sequence AI854703 pseudo 2.562 15.218 8.287 3.245 1.868 0.983 1.824 2.095 1.665 1.811 0.913 0.751 0.839 1.376 1.950 1.971 1.445 nan nan 1.901 0.947 0.655 0.727 0.378 1.523 2668 chr5 64713745 64718919 + 0 NA Intergenic Intergenic -87191 NM_008453 16599 Mm.392759 NM_008453 ENSMUSG00000029178 Klf3 9930027G08Rik|AL024007|Bklf|Tef-2 Kruppel-like factor 3 (basic) protein-coding 3.062 2.698 0.940 3.032 1.971 1.001 2.452 4.824 2.792 2.696 1.197 2.413 1.828 2.926 2.815 3.049 1.587 2.086 2.054 1.667 1.249 nan 2.721 1.703 2.021 568 chr11 96778096 96781930 + 0 NA Intergenic Charlie1|DNA|hAT-Charlie -2458 NM_001163389 74479 Mm.270781 NM_028965 ENSMUSG00000020876 Snx11 4933439F10Rik|A930041K09Rik|AI117694 sorting nexin 11 protein-coding 6.142 nan 1.625 4.885 6.659 5.565 7.121 7.740 5.827 6.830 5.080 5.071 7.532 9.390 6.431 7.603 6.878 6.808 2.430 nan 2.524 1.773 nan nan 6.677 3250 chr8 33711745 33717095 + 0 NA Intergenic MMVL30-int|LTR|ERV1 -17494 NM_001167921 68153 Mm.286104 NM_026584 ENSMUSG00000031585 Gtf2e2 34kDa|AI462509|C330006J08Rik general transcription factor II E, polypeptide 2 (beta subunit) protein-coding 0.338 0.499 0.440 0.428 0.177 0.091 0.301 0.571 0.188 0.225 0.422 0.167 0.227 0.224 0.237 0.424 0.435 0.397 2.015 3.867 1.962 5.822 1.392 1.453 nan 3098 chr7 30073504 30075101 + 0 NA Intergenic B1_Mm|SINE|Alu -1479 NM_001253385 330502 Mm.295906 NM_177889 ENSMUSG00000098022 Zfp82 A030010D05|Krab16|Mszf3|Zfp-82 zinc finger protein 82 protein-coding 3.148 2.407 0.659 4.913 2.470 1.140 3.502 5.375 2.061 4.105 1.787 1.376 3.418 4.669 4.142 3.938 1.813 4.338 1.391 1.179 1.043 2.459 1.240 0.654 5.470 2273 chr3 97552013 97554169 + 0 NA Intergenic (TG)n|Simple_repeat|Simple_repeat 57099 NM_026539 68058 Mm.31761 NM_026539 ENSMUSG00000028089 Chd1l 4432404A22Rik|Alc1|Snf2p chromodomain helicase DNA binding protein 1-like protein-coding 3.410 0.867 0.307 1.431 0.928 0.246 2.191 0.865 1.706 2.202 nan 0.466 5.993 4.681 4.022 nan 1.435 2.778 0.653 0.277 0.261 0.395 0.498 0.174 5.317 2411 chr4 97534767 97537647 + 0 NA Intergenic Intergenic -45736 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 9.258 nan 0.346 7.620 4.599 2.048 7.470 8.020 7.251 8.300 5.281 4.245 9.732 9.701 9.111 10.266 5.749 10.696 3.150 1.979 1.011 nan 0.846 0.561 9.631 3476 chr9 44285258 44288299 + 0 NA intron (NM_138955, intron 2 of 14) intron (NM_138955, intron 2 of 14) 1466 NM_138955 192663 Mm.101876 NM_138955 ENSMUSG00000032131 Abcg4 6430517O04Rik ATP-binding cassette, sub-family G (WHITE), member 4 protein-coding 8.636 8.110 2.029 8.280 2.153 1.516 6.938 8.149 4.638 10.655 6.538 3.344 8.060 10.728 9.860 9.658 3.412 8.813 5.035 1.417 1.569 nan 2.882 2.343 17.733 1129 chr15 73250970 73257393 + 0 NA TTS (NR_029561) TTS (NR_029561) 701 NR_029561 387169 NR_029561 ENSMUSG00000065612 Mir151 Mirn151|mir-151|mmu-mir-151 microRNA 151 ncRNA 9.561 nan 1.486 7.112 3.520 2.554 nan 12.174 4.417 nan nan 2.676 10.208 nan 7.941 8.522 9.068 7.388 4.508 2.770 2.372 nan 4.190 4.092 9.703 791 chr12 81002937 81010151 + 0 NA Intergenic Intergenic -20264 NM_001146217 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 9.232 1.883 0.978 7.716 4.799 2.485 7.231 4.988 6.422 7.744 6.866 4.378 9.247 10.122 7.925 9.447 6.667 8.355 2.581 2.577 1.807 4.375 2.520 1.899 12.451 3330 chr8 90920789 90923012 + 0 NA intron (NM_177224, intron 2 of 39) intron (NM_177224, intron 2 of 39) -10349 NM_001310530 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 2.876 0.605 0.432 1.630 2.937 1.779 0.823 1.390 nan 3.536 0.357 0.366 3.530 5.071 1.646 3.017 3.855 2.500 nan 1.359 0.893 0.584 0.624 0.302 3.438 1143 chr15 75927026 75928927 + 0 NA intron (NM_031201, intron 3 of 10) intron (NM_031201, intron 3 of 10) 1754 NM_031201 22122 Mm.22596 NM_031201 ENSMUSG00000022570 Tsta3 AI256181|FX|Tstap35b tissue specific transplantation antigen P35B protein-coding 5.016 nan 0.241 2.309 2.080 0.721 5.554 9.348 2.675 3.431 nan 0.879 5.354 4.233 4.206 4.717 4.849 3.338 2.131 1.819 0.754 nan 1.502 0.853 5.103 1355 chr16 84794467 84796427 + 0 NA intron (NM_023844, intron 1 of 9) intron (NM_023844, intron 1 of 9) 21324 NM_023844 67374 Mm.41758 NM_023844 ENSMUSG00000053062 Jam2 1110002N23Rik|2410030G21Rik|2410167M24Rik|JAM-2|JAM-B|Jcam2|VE-JAM junction adhesion molecule 2 protein-coding 5.239 nan 0.831 0.993 2.086 1.872 1.413 0.970 1.121 1.172 0.741 0.259 1.481 3.107 0.752 1.246 1.303 nan 0.346 0.556 0.657 nan 0.578 0.228 4.078 2848 chr6 37363627 37366655 + 0 NA intron (NM_178661, intron 2 of 11) (TC)n|Simple_repeat|Simple_repeat -65165 NM_001347104 320127 Mm.119469 NM_001081206 ENSMUSG00000038665 Dgki C130010K08Rik diacylglycerol kinase, iota protein-coding 4.189 0.856 0.565 2.692 4.290 2.354 6.623 3.203 4.009 5.028 1.942 1.200 7.718 8.061 4.657 7.837 7.956 4.715 nan 0.601 0.850 nan nan 0.601 nan 2231 chr3 89712666 89718207 + 0 NA intron (NM_001038587, intron 1 of 14) CpG 414 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 5.857 7.971 2.473 6.660 3.243 2.830 4.531 6.755 3.495 5.421 4.366 2.256 5.487 8.030 5.695 nan 3.907 4.921 5.126 1.941 2.345 5.712 4.422 5.497 7.360 3231 chr8 23146188 23150363 + 0 NA intron (NM_001282148, intron 1 of 5) intron (NM_001282148, intron 1 of 5) 1310 NM_001282148 101056408 Mm.475778 NM_001282148 Gm15816 OTTMUSG00000026380 predicted gene 15816 protein-coding 8.035 nan 0.345 6.985 2.188 1.099 7.229 11.888 8.978 11.429 1.782 1.873 13.527 13.146 10.180 14.953 11.626 10.665 1.794 0.937 0.641 nan 3.092 1.865 11.373 3095 chr7 30031060 30050547 + 0 NA intron (NM_011748, intron 5 of 5) B4A|SINE|B4 10593 NM_011748 243906 Mm.347644 NM_011748 ENSMUSG00000053985 Zfp14 4732429I09Rik|Krox-9|Zfp-14|mKIAA1559 zinc finger protein 14 protein-coding 3.544 1.324 0.730 3.156 4.037 2.584 5.187 8.379 3.075 3.585 4.016 2.722 5.362 6.499 4.738 4.884 3.522 4.862 1.602 1.016 0.892 1.332 1.284 1.106 5.603 1961 chr2 119936540 119941383 + 0 NA intron (NM_001164274, intron 14 of 22) intron (NM_001164274, intron 14 of 22) -33738 NM_011941 26390 Mm.330501 NM_011941 ENSMUSG00000033902 Mapkbp1 2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596 mitogen-activated protein kinase binding protein 1 protein-coding 4.017 3.310 1.442 4.923 1.453 0.956 1.132 1.679 2.579 2.239 1.119 1.013 nan 1.835 2.087 2.617 1.944 4.705 1.463 1.325 1.045 2.818 0.793 0.549 3.304 386 chr11 6445872 6449055 + 0 NA Intergenic CpG -3020 NM_001347064 77605 Mm.27624 NM_029938 ENSMUSG00000041126 H2afv C530002L11Rik|H2a.z-2|H2av H2A histone family, member V protein-coding 7.212 10.745 4.570 8.091 6.777 5.599 6.598 6.063 5.341 10.212 4.286 3.092 5.280 7.452 6.984 8.377 6.417 6.391 4.737 nan 5.506 4.948 4.221 5.487 8.300 916 chr13 48639827 48642828 + 0 NA Intergenic Intergenic -15655 NM_001301781 218232 Mm.315089 NM_207232 ENSMUSG00000038042 Ptpdc1 AI843923|AW456874|Naa-1|Ptpcd1 protein tyrosine phosphatase domain containing 1 protein-coding nan 9.042 3.670 nan 6.827 5.599 7.511 6.532 5.543 9.953 6.213 4.575 6.412 9.997 7.209 8.233 5.632 nan 5.408 nan 5.176 4.492 5.224 5.397 10.994 2043 chr2 160442430 160448346 + 0 NA Intergenic MIRb|SINE|MIR -78323 NM_010658 16658 Mm.330745 NM_010658 ENSMUSG00000074622 Mafb Kreisler|Krml|Krml1|kr v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) protein-coding 8.329 1.638 1.230 4.532 4.839 3.554 6.948 7.310 nan 5.120 3.011 1.810 6.568 nan 6.798 7.971 7.740 5.832 nan 1.256 1.019 1.200 1.150 0.720 7.015 1457 chr17 27947069 27948424 + 0 NA intron (NM_001286040, intron 1 of 24) BC1_Mm|scRNA|scRNA 38440 NM_181413 224650 Mm.32556 NM_181413 ENSMUSG00000024219 Anks1 Anks1a|mKIAA0229 ankyrin repeat and SAM domain containing 1 protein-coding 3.391 0.598 0.575 2.320 2.486 0.741 3.026 5.789 2.902 2.191 2.184 2.635 2.387 3.446 3.364 4.391 3.653 3.640 1.352 1.595 0.581 1.017 1.112 0.414 3.645 200 chr1 179386308 179391969 + 0 NA intron (NM_027188, intron 5 of 11) intron (NM_027188, intron 5 of 11) 128865 NM_027188 69726 Mm.222338 NM_027188 ENSMUSG00000055067 Smyd3 2410008A19Rik|Zmynd1 SET and MYND domain containing 3 protein-coding 1.579 0.565 0.160 0.725 0.417 0.303 1.865 2.030 1.054 0.990 0.462 0.739 1.887 nan 1.379 2.175 1.220 1.691 4.539 3.134 1.832 8.114 1.393 0.976 1.109 1261 chr16 10463896 10467853 + 0 NA Intergenic Intergenic -14198 NM_001302619 12265 Mm.249560 NM_007575 ENSMUSG00000022504 Ciita C2ta|EG669998|Gm9475|Mhc2ta class II transactivator protein-coding 8.232 1.485 1.517 3.154 7.726 4.753 7.173 5.922 5.499 5.584 2.504 1.443 7.122 8.715 4.593 7.505 4.453 6.072 0.665 1.189 0.691 0.644 0.869 0.533 6.812 1352 chr16 64877534 64880276 + 0 NA Intergenic RMER10A|LTR|ERVL 26820 NM_178647 106143 Mm.10160 NM_178647 ENSMUSG00000054604 Cggbp1 AA960172|AL023996|AW045841 CGG triplet repeat binding protein 1 protein-coding 4.030 0.619 0.752 1.176 1.456 1.118 3.925 4.607 1.532 1.491 2.241 1.953 2.476 1.854 2.086 2.720 4.052 2.228 1.456 1.479 0.683 0.782 1.913 1.995 2.829 329 chr10 91506807 91510190 + 0 NA Intergenic Intergenic -336879 NM_001080130 21917 Mm.159684 NM_011605 ENSMUSG00000019961 Tmpo 5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP thymopoietin protein-coding nan 0.446 0.277 0.219 0.225 0.200 0.368 0.460 0.523 0.416 0.477 0.271 0.270 nan 0.345 0.543 0.482 nan 3.729 3.093 2.029 5.451 nan 3.793 0.359 525 chr11 87367242 87369244 + 0 NA intron (NR_106195, intron 8 of 8) intron (NR_106195, intron 8 of 8) -9249 NM_177167 320472 Mm.341988 NM_177167 ENSMUSG00000046442 Ppm1e AW049266|B930008A12Rik|POPX1|PP2CH|mKIAA1072 protein phosphatase 1E (PP2C domain containing) protein-coding 4.364 0.771 0.217 4.036 1.724 0.873 3.407 2.505 2.497 2.206 1.061 1.000 2.260 3.235 3.069 3.144 2.347 4.228 1.463 1.451 1.151 nan 1.664 0.884 2.194 2970 chr6 108647862 108650447 + 0 NA intron (NR_104577, intron 1 of 6) intron (NR_104577, intron 1 of 6) -11475 NM_011498 20893 Mm.2436 NM_011498 ENSMUSG00000030103 Bhlhe40 Bhlhb2|C130042M06Rik|CR8|Clast5|Dec1|Sharp2|Stra13|Stra14 basic helix-loop-helix family, member e40 protein-coding 2.968 1.338 0.779 1.299 2.730 1.408 2.838 3.119 2.410 2.631 7.507 4.587 2.302 2.700 1.566 2.038 2.427 1.237 nan 1.881 1.328 0.843 1.388 0.632 nan 1621 chr18 38080106 38095106 + 0 NA Intergenic Intergenic -88637 NM_001205336 106952 Mm.247642 NM_139206 ENSMUSG00000024451 Arap3 Centd3|Drag1|E030006K04Rik|cnt-d3 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3 protein-coding 9.026 3.979 2.545 5.788 7.173 5.272 6.146 8.718 6.113 6.935 4.626 3.558 7.378 8.662 5.724 6.133 6.950 7.624 1.850 2.788 2.332 2.123 1.785 1.554 6.161 27 chr1 34776612 34780734 + 0 NA Intergenic MTE2a|LTR|ERVL-MaLR -23049 NM_183019 226970 Mm.41604 NM_183019 ENSMUSG00000037509 Arhgef4 9330140K16Rik|Asef|ENSMUSG00000070955 Rho guanine nucleotide exchange factor (GEF) 4 protein-coding 0.584 0.574 0.503 0.408 0.254 0.088 0.392 0.600 0.236 0.458 7.874 1.139 0.189 0.359 0.429 nan 0.226 0.483 0.609 0.335 0.651 0.592 0.492 0.290 0.771 787 chr12 80678471 80684865 + 0 NA 3' UTR (NM_026244, exon 7 of 7) 3' UTR (NM_026244, exon 7 of 7) 10798 NR_037995 68354 Mm.46194 NR_037995 Plekhd1os 0610009B14Rik pleckstrin homology domain containing, family D (with coiled-coil domains) member 1, opposite strand ncRNA 5.685 1.897 1.181 3.722 4.170 2.659 5.542 3.025 6.764 6.592 4.268 1.619 7.396 6.362 6.034 nan 6.298 6.057 0.834 1.125 0.896 0.795 0.813 0.643 7.191 2331 chr4 8722668 8732801 + 0 NA intron (NM_001277149, intron 1 of 37) intron (NM_001277149, intron 1 of 37) 37328 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.781 2.766 1.490 1.118 0.489 0.229 0.321 nan 0.739 0.606 0.393 0.285 0.241 0.425 0.591 0.724 0.465 0.959 5.065 nan 1.989 7.839 3.027 2.088 0.639 1902 chr2 71532573 71534991 + 0 NA 3' UTR (NM_010053, exon 3 of 3) 3' UTR (NM_010053, exon 3 of 3) 4109 NR_002854 111970 Mm.4543 NR_002854 Dlx1as Dix1as|Dlx1os distal-less homeobox 1, antisense ncRNA 1.548 1.403 0.728 1.376 0.485 0.481 0.987 1.614 0.999 1.752 0.490 0.663 3.398 1.878 2.695 2.286 2.122 2.295 1.200 1.423 1.414 2.712 0.563 0.598 3.980 1561 chr17 66255527 66257338 + 0 NA Intergenic Intergenic 132912 NM_001003919 320209 Mm.259605 NM_001003919 ENSMUSG00000035842 Ddx11 4732462I11Rik|CHL1|CHLR1|KRG2|essa15a DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 protein-coding 2.694 3.519 1.710 5.714 3.293 2.228 5.989 4.911 4.491 4.327 7.347 1.591 2.166 4.226 4.990 4.841 4.067 5.325 0.693 0.944 1.283 0.819 1.095 0.943 4.213 161 chr1 153465056 153468496 + 0 NA intron (NM_007842, intron 15 of 27) intron (NM_007842, intron 15 of 27) 20884 NM_007842 13211 Mm.20000 NM_007842 ENSMUSG00000042699 Dhx9 AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5 DEAH (Asp-Glu-Ala-His) box polypeptide 9 protein-coding 7.953 1.253 0.562 2.958 3.442 1.415 3.876 5.102 4.122 4.904 3.448 1.321 4.018 5.297 5.897 nan 5.210 4.823 nan 0.692 0.805 0.612 nan 0.336 5.282 1866 chr2 34398680 34403353 + 0 NA Intergenic Intergenic -5755 NM_001290625 227743 Mm.270866 NM_177345 ENSMUSG00000038696 Mapkap1 AI591529|D230039K05Rik|Sin1 mitogen-activated protein kinase associated protein 1 protein-coding 2.781 1.234 0.615 2.287 2.727 1.010 3.096 2.083 2.038 nan 1.181 1.980 3.216 3.101 4.013 3.176 2.850 5.251 2.892 1.642 1.015 4.745 1.990 1.194 3.383 2001 chr2 151930111 151931723 + 0 NA intron (NM_009641, intron 4 of 8) intron (NM_009641, intron 4 of 8) 19710 NM_009641 11602 Mm.189536 NM_009641 ENSMUSG00000027460 Angpt4 ANG-3|ANG-4|Agpt4|Ang3 angiopoietin 4 protein-coding 7.782 4.276 1.813 6.992 7.557 4.113 4.538 7.626 3.006 9.964 6.313 3.200 4.173 6.642 5.792 6.915 3.820 6.393 nan 2.849 4.351 5.331 5.834 6.378 11.614 3216 chr8 8656657 8661992 + 0 NA intron (NM_010111, intron 1 of 4) intron (NM_010111, intron 1 of 4) 1449 NM_010111 13642 Mm.209813 NM_010111 ENSMUSG00000001300 Efnb2 ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1 ephrin B2 protein-coding 5.895 2.285 0.681 6.636 0.942 0.528 7.230 8.365 3.604 5.440 2.479 3.313 7.134 6.059 11.173 9.510 6.092 8.180 1.455 0.842 1.062 3.449 0.604 1.265 12.027 1310 chr16 22893149 22906637 + 0 NA TTS (NM_001276450) TTS (NM_001276450) -5507 NR_110508 102632430 Mm.474375 NR_110508 Gm30505 - predicted gene, 30505 ncRNA 0.940 0.643 0.445 0.443 0.323 0.212 0.812 1.724 0.640 nan 0.477 0.382 0.696 0.785 0.734 nan 0.595 1.079 5.629 3.063 1.936 7.199 3.752 2.926 0.938 109 chr1 121964861 121972627 + 0 NA Intergenic Lx5|LINE|L1 -400764 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 9.736 1.256 0.691 4.520 3.277 1.749 3.280 6.832 2.751 4.154 1.232 1.037 4.092 4.438 3.747 7.070 5.295 6.146 0.790 0.717 0.613 0.811 0.857 0.521 9.943 3459 chr9 31834755 31843225 + 0 NA Intergenic Intergenic 74295 NM_013800 12023 Mm.261044 NM_013800 ENSMUSG00000032033 Barx2 2310006E12Rik|Barx2b BarH-like homeobox 2 protein-coding 0.557 0.953 0.405 1.680 0.562 0.438 0.532 0.983 0.758 1.032 1.907 1.361 0.416 0.421 0.733 nan 0.470 0.864 5.277 3.279 2.619 5.861 4.850 4.970 0.816 2115 chr2 179774930 179778047 + 0 NA intron (NM_001316723, intron 2 of 5) intron (NM_001316723, intron 2 of 5) 200158 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 7.598 10.661 3.134 8.014 3.541 3.093 5.929 9.333 3.793 9.887 5.038 3.056 6.550 7.746 7.457 10.820 5.897 7.131 4.955 1.834 3.757 5.953 2.195 4.828 15.724 2318 chr3 133901413 133904367 + 0 NA Intergenic (TG)n|Simple_repeat|Simple_repeat -333605 NM_001004367 319478 Mm.224814 NM_001004367 ENSMUSG00000044365 Cxxc4 9330210J02Rik|C030003J12Rik|Idax CXXC finger 4 protein-coding 0.394 nan 1.517 1.337 0.414 0.209 nan 3.529 0.343 0.509 0.776 0.262 0.377 1.595 1.396 0.430 0.577 0.667 5.889 3.040 2.069 3.055 7.817 7.183 0.630 2651 chr5 34134114 34135420 + 0 NA intron (NR_040703, intron 3 of 3) (A)n|Simple_repeat|Simple_repeat 16027 NR_040703 75357 Mm.410806 NR_040703 ENSMUSG00000106902 4930557J02Rik - RIKEN cDNA 4930557J02 gene ncRNA 2.241 0.577 0.443 1.873 1.743 0.997 2.053 0.981 2.675 4.074 0.543 0.515 1.698 3.881 nan 2.574 2.444 3.128 0.859 0.651 0.474 0.478 0.670 0.572 2.726 1239 chr15 102335900 102336983 + 0 NA intron (NM_021713, intron 3 of 6) B1_Mur2|SINE|Alu 4732 NM_021713 60315 Mm.251638 NM_021713 ENSMUSG00000001285 Myg1 0610023A07Rik|2810433J21Rik|5830429P19Rik|AI325965|Gamm1 melanocyte proliferating gene 1 protein-coding 2.207 0.531 0.725 2.017 2.197 1.664 4.338 3.058 2.590 2.250 1.127 0.864 2.076 3.680 2.513 2.797 2.220 2.938 1.747 1.077 1.569 1.204 1.661 2.025 2.355 3035 chr6 136593843 136596455 + 0 NA intron (NM_019426, intron 10 of 14) intron (NM_019426, intron 10 of 14) 66744 NM_025806 66857 Mm.3311 NM_025806 ENSMUSG00000030214 Plbd1 1100001H23Rik phospholipase B domain containing 1 protein-coding 2.441 0.667 0.498 0.868 1.270 0.690 4.034 6.221 1.114 1.418 0.740 0.453 4.788 3.824 4.092 6.020 4.999 2.702 nan 0.573 0.498 0.594 0.351 0.298 3.111 2764 chr5 135104245 135130818 + 0 NA intron (NM_021455, intron 2 of 16) intron (NM_021455, intron 2 of 16) 10640 NM_021455 58805 Mm.34213 NM_021455 ENSMUSG00000005373 Mlxipl ChREBP|Mlx|WS-bHLH|Wbscr14|bHLHd14 MLX interacting protein-like protein-coding 4.627 2.156 1.357 4.762 7.424 5.776 3.801 5.186 6.014 8.796 1.994 1.904 4.321 7.320 4.816 4.425 4.094 5.674 1.663 1.447 1.834 1.522 nan 1.857 4.497 2797 chr5 145115121 145118798 + 0 NA intron (NM_023142, intron 1 of 9) (TCCG)n|Simple_repeat|Simple_repeat 2703 NM_023142 11867 Mm.30010 NM_023142 ENSMUSG00000029622 Arpc1b 41kDa|AA408064|AA408534|AA571392|AF007010|AW208418|L72|SOP2Hs|p41-ARC actin related protein 2/3 complex, subunit 1B protein-coding 4.656 0.753 0.684 nan 4.651 3.917 5.134 6.661 5.787 6.934 3.351 3.861 7.383 9.650 7.561 6.639 4.928 6.549 3.216 2.069 1.588 2.678 3.509 3.442 nan 769 chr12 73036502 73038147 + 0 NA Intergenic AmnSINE2|SINE|Deu 9388 NM_009189 20471 Mm.4645 NM_009189 ENSMUSG00000051367 Six1 BB138287 sine oculis-related homeobox 1 protein-coding 4.172 2.020 1.501 4.157 3.101 3.474 3.188 1.742 4.783 4.060 2.207 2.336 5.175 4.536 3.426 5.840 3.380 4.382 0.881 1.056 1.045 1.245 0.317 0.414 4.071 1556 chr17 66004589 66008700 + 0 NA intron (NM_001025572, intron 8 of 12) intron (NM_001025572, intron 8 of 12) -55457 NM_023053 65960 Mm.10153 NM_023053 ENSMUSG00000024098 Twsg1 1810013J15Rik|9030422N06Rik|AW552143|D17Ertd403e|Tsg|Twg twisted gastrulation BMP signaling modulator 1 protein-coding 5.119 0.890 0.325 6.104 5.615 2.258 6.206 4.553 4.401 6.549 1.874 1.476 5.581 9.403 7.210 7.636 3.303 10.188 1.815 0.930 0.569 2.046 1.983 1.360 6.936 1181 chr15 81957020 81958965 + 0 NA intron (NM_001282041, intron 1 of 5) intron (NM_001282041, intron 1 of 5) 2938 NM_001282040 29858 Mm.18939 NM_013872 ENSMUSG00000022474 Pmm1 C77612 phosphomannomutase 1 protein-coding nan 9.135 2.416 5.054 1.666 1.722 nan 4.698 2.436 3.863 2.048 1.641 4.941 5.303 4.780 5.986 3.721 4.839 3.088 1.631 1.904 nan 1.535 1.490 7.148 1809 chr19 55949584 55951586 + 0 NA Intergenic Intergenic 55264 NM_001142924 21416 Mm.139815 NM_009333 ENSMUSG00000024985 Tcf7l2 TCF4B|TCF4E|Tcf-4|Tcf4 transcription factor 7 like 2, T cell specific, HMG box protein-coding 3.216 nan 0.518 2.093 1.262 0.552 4.221 5.762 2.953 2.887 1.505 1.833 3.711 4.345 3.447 4.788 2.756 3.781 0.417 0.556 0.245 0.778 0.355 0.286 4.689 803 chr12 85513458 85523063 + 0 NA Intergenic Intergenic 44359 NM_010234 14281 Mm.246513 NM_010234 ENSMUSG00000021250 Fos D12Rfj1|c-fos|cFos FBJ osteosarcoma oncogene protein-coding 9.580 9.346 3.595 8.749 5.944 2.949 5.175 7.815 5.058 7.331 4.607 3.379 6.518 10.935 7.187 9.019 7.000 8.015 4.324 2.840 2.196 5.472 2.365 2.095 13.886 2744 chr5 123148767 123152445 + 0 NA intron (NM_001040398, intron 6 of 16) intron (NM_001040398, intron 6 of 16) 8413 NM_001040398 208043 Mm.250391 NM_177581 ENSMUSG00000038384 Setd1b AA516740|BC035291|KMT2G|mKIAA1076 SET domain containing 1B protein-coding 3.889 5.727 3.685 4.026 2.176 1.696 3.684 2.278 2.743 2.075 1.684 3.934 2.499 2.424 nan 3.709 2.960 nan nan 2.073 1.970 1.868 nan 1.975 2.684 2559 chr4 148171274 148173182 + 0 NA Intergenic Intergenic 11560 NM_176848 230904 Mm.262287 NM_176848 ENSMUSG00000041556 Fbxo2 FBG1|FBX2|Fbs1|Fbs2|NFB42|Prpl4 F-box protein 2 protein-coding 6.870 nan 0.407 5.601 5.149 3.621 8.814 9.520 5.065 7.632 9.535 4.201 9.667 9.747 9.399 10.151 6.301 8.320 10.390 6.932 4.055 11.574 13.229 11.765 13.056 3199 chr7 135888061 135889986 + 0 NA Intergenic Intergenic -172644 NM_001081117 17345 Mm.4078 NM_001081117 ENSMUSG00000031004 Mki67 D630048A14Rik|Ki-67|Ki67 antigen identified by monoclonal antibody Ki 67 protein-coding 7.022 5.870 2.500 7.231 5.014 2.860 5.459 8.566 nan 4.817 3.921 1.988 4.719 6.153 5.746 6.561 3.771 5.430 2.689 1.752 1.501 3.321 3.120 2.755 9.301 3378 chr8 122334400 122344070 + 0 NA Intergenic Intergenic 21511 NM_133202 170732 Mm.154808 NM_133202 ENSMUSG00000039079 Trhr2 TRH-R2 thyrotropin releasing hormone receptor 2 protein-coding 4.940 7.414 3.583 2.855 2.115 1.536 5.316 8.746 3.041 2.764 6.126 3.726 5.009 4.984 5.821 6.614 5.036 4.341 0.788 1.260 1.302 1.052 0.439 0.482 4.841 1766 chr19 29289817 29291342 + 0 NA intron (NM_001048177, intron 11 of 23) intron (NM_001048177, intron 11 of 23) 34739 NM_013754 27356 Mm.306511 NM_013754 ENSMUSG00000050957 Insl6 RIF1 insulin-like 6 protein-coding nan 0.550 0.677 nan 2.111 0.691 2.676 2.962 2.356 2.310 nan 2.124 2.587 3.565 1.478 1.896 2.940 2.505 nan 0.388 0.241 0.552 nan 0.372 1.326 60 chr1 64347826 64350161 + 0 NA Intergenic PB1D11|SINE|Alu -183811 NM_133828 12912 Mm.422634 NM_009952 ENSMUSG00000025958 Creb1 2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1 cAMP responsive element binding protein 1 protein-coding 8.940 3.229 1.366 6.779 6.639 4.436 7.051 4.690 5.804 4.956 7.844 4.448 6.396 5.836 5.441 6.564 nan 6.656 2.164 1.906 2.454 2.601 1.653 2.291 5.478 1245 chr15 102500046 102505061 + 0 NA intron (NM_009582, intron 7 of 13) intron (NM_009582, intron 7 of 13) 14451 NM_001163643 26404 Mm.172897 NM_009582 ENSMUSG00000023050 Map3k12 DLK|MUK|Zpk mitogen-activated protein kinase kinase kinase 12 protein-coding 8.595 7.608 3.033 8.401 3.822 2.055 10.786 10.820 5.777 7.435 5.575 4.106 9.614 9.592 11.538 8.838 9.284 8.665 4.332 2.280 1.905 3.175 3.577 3.139 11.704 1400 chr17 5124263 5127678 + 0 NA intron (NM_001085355, intron 3 of 19) intron (NM_001085355, intron 3 of 19) 130896 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 4.719 1.539 1.762 3.847 5.532 1.879 7.146 5.034 4.258 4.679 3.484 2.280 5.190 7.514 5.743 8.119 6.187 6.497 nan 1.294 0.997 2.947 0.864 0.419 7.171 1067 chr15 10746426 10749515 + 0 NA intron (NR_045063, intron 2 of 6) intron (NR_045063, intron 2 of 6) 33070 NR_045065 75259 Mm.33928 NR_045063 ENSMUSG00000097058 4930556M19Rik 1700009D01Rik|C130022M03Rik RIKEN cDNA 4930556M19 gene ncRNA 5.707 1.126 0.411 3.833 3.765 1.373 8.799 7.952 4.514 5.130 3.083 2.142 8.943 7.997 6.850 5.972 5.561 7.153 0.454 0.804 0.461 0.556 0.284 0.167 5.564 691 chr11 119797713 119800619 + 0 NA intron (NM_028898, intron 8 of 33) intron (NM_028898, intron 8 of 33) 35199 NR_045313 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 3.175 1.703 0.529 3.560 0.800 0.370 4.375 5.226 3.103 nan 6.545 2.806 3.684 4.007 4.707 5.456 2.168 4.209 1.109 nan 0.822 1.927 0.460 0.443 4.779 2615 chr4 155212743 155215340 + 0 NA intron (NM_011385, intron 1 of 6) intron (NM_011385, intron 1 of 6) 8494 NM_011385 20481 Mm.28520 NM_011385 ENSMUSG00000029050 Ski 2310012I02Rik|2610001A11Rik|AA062172|AA589460|BC004088 ski sarcoma viral oncogene homolog (avian) protein-coding 7.100 5.239 1.358 8.012 3.524 2.211 4.940 5.976 3.808 6.652 2.502 1.755 4.878 8.020 5.318 6.539 2.695 6.032 2.098 1.564 1.227 2.416 1.507 1.080 9.396 1676 chr18 75418158 75420355 + 0 NA Intergenic MTB|LTR|ERVL-MaLR 51891 NM_001042660 17131 Mm.34407 NM_008543 ENSMUSG00000025880 Smad7 Madh7 SMAD family member 7 protein-coding 2.658 1.610 0.598 1.593 1.269 0.655 3.830 5.069 2.336 nan 0.723 0.778 4.230 4.109 3.691 4.099 2.526 2.370 0.583 nan 0.139 0.655 0.349 0.364 4.375 1388 chr16 96149566 96151914 + 0 NA intron (NM_207301, intron 1 of 4) RLTR17B_Mm|LTR|ERVK 5321 NM_207301 71446 Mm.255063 NM_207301 ENSMUSG00000023147 Wrb 5530402J05Rik|C030018G21Rik|Chd5 tryptophan rich basic protein protein-coding 7.302 2.060 0.808 3.809 2.864 1.314 6.478 9.552 4.035 4.769 4.951 2.005 7.997 8.990 7.331 10.041 6.282 7.386 2.896 1.218 1.194 2.629 3.677 2.891 7.938 3153 chr7 112787994 112791900 + 0 NA intron (NM_009346, intron 2 of 12) intron (NM_009346, intron 2 of 12) 30563 NM_001166585 21676 Mm.24685 NM_009346 ENSMUSG00000055320 Tead1 2610024B07Rik|B230114H05Rik|Gtrgeo5|TEAD-1|TEF-1|Tcf13|mTEF-1 TEA domain family member 1 protein-coding 9.439 5.752 1.860 7.451 2.886 1.250 7.960 9.173 5.286 6.029 4.248 2.629 7.792 8.087 8.433 8.907 5.946 nan 3.602 2.136 2.055 3.724 2.363 2.226 11.651 3134 chr7 79418388 79425649 + 0 NA intron (NM_145946, intron 14 of 37) intron (NM_145946, intron 14 of 37) 29680 NM_145946 208836 Mm.349493 NM_145946 ENSMUSG00000039187 Fanci - Fanconi anemia, complementation group I protein-coding 0.484 8.521 5.620 nan 0.435 0.220 0.208 0.480 0.417 0.370 0.647 0.611 0.231 0.203 0.300 nan 0.383 0.524 2.033 1.241 0.908 1.568 2.091 1.718 nan 346 chr10 120941858 120959658 + 0 NA intron (NM_001081193, intron 2 of 12) intron (NM_001081193, intron 2 of 12) 28572 NM_001081193 380664 Mm.339371 NM_001081193 ENSMUSG00000048661 Lemd3 AI316861|Man1 LEM domain containing 3 protein-coding 6.535 3.462 2.229 4.222 5.093 4.393 6.669 7.034 5.079 4.881 1.854 2.410 6.085 6.355 6.902 7.183 6.669 nan 1.733 1.462 1.901 1.882 2.023 2.095 7.144 3085 chr7 28011607 28021275 + 0 NA Intergenic Intergenic -2326 NM_001254951 100043772 Mm.129275 NM_001100456 ENSMUSG00000096916 Zfp850 C130069I09Rik|Gm4636 zinc finger protein 850 protein-coding 5.271 4.059 1.791 6.076 7.638 6.396 5.323 7.901 4.244 5.485 4.690 2.724 5.126 7.109 5.101 5.524 4.587 5.663 2.806 2.320 2.133 2.867 2.761 2.808 6.208 911 chr13 48403664 48405875 + 0 NA Intergenic Intergenic 108641 NM_001164575 67911 Mm.251375 NM_026450 ENSMUSG00000050954 Zfp169 1700025J14Rik|4930429A13Rik|BE688704 zinc finger protein 169 protein-coding nan 0.465 0.593 nan 0.087 0.221 0.307 0.160 0.268 0.572 0.588 0.282 0.175 0.251 0.306 0.460 0.525 nan 4.459 nan 4.832 2.466 7.472 6.325 nan 3171 chr7 118090565 118098441 + 0 NA Intergenic Intergenic 21644 NM_170669 267019 Mm.288212 NM_170669 ENSMUSG00000008683 Rps15a A630031B11Rik ribosomal protein S15A protein-coding 3.806 1.902 0.675 4.246 3.172 1.668 2.647 2.577 2.919 3.886 1.020 0.814 3.404 5.373 3.068 3.232 2.427 5.628 0.970 0.657 0.764 1.861 0.778 0.600 5.182 427 chr11 57880369 57881739 + 0 NA Intergenic Intergenic -48907 NM_008213 15110 Mm.4746 NM_008213 ENSMUSG00000037335 Hand1 Ehand1|Hxt|Th1|Thing1|bHLHa27|eHAND heart and neural crest derivatives expressed transcript 1 protein-coding 1.917 1.044 0.801 1.966 1.413 0.695 3.371 3.231 1.801 1.603 3.339 1.644 2.694 3.275 2.940 3.546 1.709 2.767 nan 1.583 0.537 1.657 1.233 0.661 nan 2072 chr2 164383738 164390018 + 0 NA Intergenic Intergenic -16316 NM_009036 19668 Mm.473794 NM_009036 ENSMUSG00000017007 Rbpjl RBP-L|Rbpsuhl recombination signal binding protein for immunoglobulin kappa J region-like protein-coding 4.885 0.417 0.270 4.745 5.642 3.304 7.655 8.203 3.709 4.668 3.132 2.675 6.443 7.647 6.530 8.051 5.612 nan nan 1.651 1.207 2.923 2.189 1.864 10.958 3507 chr9 65246289 65258915 + 0 NA Intergenic RSINE1|SINE|B4 -12578 NM_173385 214425 Mm.138455 NM_173385 ENSMUSG00000042254 Cilp 9830114D16|C130036G17Rik cartilage intermediate layer protein, nucleotide pyrophosphohydrolase protein-coding 2.916 1.565 0.644 5.092 2.750 1.741 1.329 2.504 4.180 6.007 2.447 1.548 4.975 7.146 nan 3.552 1.538 6.521 nan 0.931 0.851 1.159 0.371 0.354 3.412 3121 chr7 71130954 71136465 + 0 NA Intergenic Intergenic -766963 NM_183261 11819 Mm.158143 NM_009697 ENSMUSG00000030551 Nr2f2 2700033K02Rik|9430015G03Rik|ARP-1|Aporp1|COUP-TF2|COUP-TFII|COUPTFB|EAR3|SVP40|Tcfcoup2 nuclear receptor subfamily 2, group F, member 2 protein-coding nan 3.235 1.365 2.085 0.975 0.624 0.607 1.131 1.179 1.071 1.595 0.835 0.619 0.685 0.890 1.320 0.511 1.559 6.784 2.539 1.684 8.554 5.129 3.020 1.562 82 chr1 75055895 75058535 + 0 NA Intergenic Intergenic -10576 NM_029342 75570 Mm.442409 NM_029342 ENSMUSG00000026162 Nhej1 1700029B21Rik|XLF|cernunnos nonhomologous end-joining factor 1 protein-coding 0.667 0.695 0.658 0.568 0.687 0.464 0.687 0.988 0.938 0.504 0.202 0.512 0.417 0.357 0.450 nan 1.049 nan 1.335 nan 1.015 0.875 nan 5.645 nan 3464 chr9 32502925 32515026 + 0 NA intron (NM_008026, intron 1 of 8) intron (NM_008026, intron 1 of 8) 32477 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 4.682 11.722 3.693 5.695 2.680 1.156 2.436 2.149 3.878 4.134 3.671 2.907 2.301 2.747 3.460 nan 1.997 4.802 2.999 2.001 1.806 2.680 2.261 2.265 3.290 2202 chr3 87600092 87607211 + 0 NA Intergenic IAPEY3-int|LTR|ERVK -15100 NM_001003912 213498 Mm.287267 NM_001003912 ENSMUSG00000041977 Arhgef11 B930073M02|E130307F09|PDZ-RhoGEF|Prg|RhoGEF|mKIAA0380 Rho guanine nucleotide exchange factor (GEF) 11 protein-coding 0.254 0.887 0.295 0.417 0.147 0.164 0.334 0.320 0.282 0.339 0.255 0.279 0.187 0.356 0.329 nan 0.224 0.445 6.901 4.764 3.963 6.975 6.983 5.070 0.566 650 chr11 116006710 116008260 + 0 NA TTS (NM_016905) TTS (NM_016905) 5234 NM_016905 14635 Mm.2820 NM_016905 ENSMUSG00000020766 Galk1 AA409894|GALK|Gk|Glk|Glk1 galactokinase 1 protein-coding 4.746 1.268 0.251 6.867 1.498 0.659 7.411 6.014 4.454 8.261 5.303 3.049 6.434 7.495 9.232 9.738 4.327 7.937 4.091 nan 1.594 6.658 1.249 1.650 11.706 1154 chr15 76500899 76504289 + 0 NA intron (NM_010046, intron 15 of 16) intron (NM_010046, intron 15 of 16) 9224 NM_010046 13350 Mm.22633 NM_010046 ENSMUSG00000022555 Dgat1 ARAT|C75990|D15Ertd23e|Dgat diacylglycerol O-acyltransferase 1 protein-coding 7.570 nan 2.123 5.635 4.644 3.558 11.114 12.356 4.674 7.680 nan 2.998 9.895 10.860 8.719 7.632 10.435 6.890 3.597 2.266 2.348 nan 3.048 3.111 9.192 3427 chr9 20877347 20878558 + 0 NA intron (NM_145154, intron 2 of 5) intron (NM_145154, intron 2 of 5) 1758 NM_145154 70726 Mm.34019 NM_145154 ENSMUSG00000038742 Angptl6 6330404E11Rik|AGF|ARP3|Arp5 angiopoietin-like 6 protein-coding 7.226 10.130 2.468 7.286 2.315 1.121 3.989 5.620 4.728 7.310 4.268 3.557 5.380 5.744 6.712 8.889 3.726 7.334 3.599 1.901 1.951 4.871 2.443 1.738 10.900 2624 chr5 20644871 20649695 + 0 NA intron (NM_001170746, intron 20 of 22) intron (NM_001170746, intron 20 of 22) 234841 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 4.014 1.832 1.035 3.316 4.315 2.845 2.608 2.526 3.448 3.630 1.365 1.118 3.693 5.967 4.366 4.414 4.308 3.936 1.025 1.422 1.036 1.354 1.098 0.663 3.977 895 chr13 45725317 45727048 + 0 NA intron (NM_001199305, intron 5 of 7) intron (NM_001199305, intron 5 of 7) 218738 NM_025508 66355 Mm.290802 NM_025508 ENSMUSG00000000253 Gmpr 2310004P21Rik|AV028449|GMPR 1 guanosine monophosphate reductase protein-coding 3.560 0.677 0.526 3.435 3.896 3.468 2.282 1.966 3.492 3.448 0.865 0.718 2.153 5.209 2.958 3.541 1.427 5.191 2.052 nan 1.063 1.090 1.514 1.345 4.494 1763 chr19 28591914 28594298 + 0 NA intron (NM_175459, intron 2 of 10) MIRb|SINE|MIR -85118 NR_045330 320176 Mm.406716 NR_045330 ENSMUSG00000097735 D930032P07Rik - RIKEN cDNA D930032P07 gene ncRNA nan 0.617 0.274 nan 0.199 0.322 3.038 1.459 0.852 8.273 2.184 1.677 1.474 1.334 1.169 0.875 1.138 nan 0.621 0.257 1.349 nan 0.445 1.417 2965 chr6 99469836 99474326 + 0 NA intron (NM_001347345, intron 1 of 19) intron (NM_001347345, intron 1 of 19) -36736 NM_053202 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 10.399 6.155 2.571 11.041 5.650 3.548 17.136 12.716 5.180 13.134 8.277 5.523 9.231 12.678 12.255 13.784 12.753 8.867 8.326 5.986 6.357 9.342 8.447 10.022 16.338 69 chr1 72958183 72962847 + 0 NA Intergenic Intergenic 55384 NM_009407 21958 Mm.425024 NM_009407 ENSMUSG00000026182 Tnp1 Stp-1|TP1|Tp-1 transition protein 1 protein-coding 2.659 1.019 0.552 1.167 0.718 0.423 2.098 2.846 2.345 2.183 0.515 0.475 2.443 nan 3.154 6.267 3.884 3.626 4.205 4.459 3.044 6.077 5.845 4.859 2.634 1910 chr2 75666861 75673019 + 0 NA TTS (NM_198090) TTS (NM_198090) 10650 NR_033513 627828 Mm.459502 NR_033513 ENSMUSG00000092086 Gm6793 EG627828 heterogeneous nuclear ribonucleoprotein A3 pseudogene pseudo 5.544 4.780 2.183 nan 2.658 1.612 4.258 6.736 3.939 5.180 3.473 2.787 5.395 5.183 nan 7.837 5.753 4.952 2.605 1.966 1.726 2.544 1.897 2.170 7.220 1157 chr15 76552914 76555773 + 0 NA Intergenic B1_Mus2|SINE|Alu 15400 NM_029643 52710 Mm.28597 NM_029643 ENSMUSG00000022560 Slc52a2 2010003P03Rik|D15Ertd747e|GPCR42|Gpr172b|PAR2|mRFT1 solute carrier protein 52, member 2 protein-coding 8.918 6.407 2.010 7.904 1.609 0.649 11.408 14.130 4.132 nan nan 3.619 12.711 10.664 10.911 10.263 10.350 7.975 5.885 3.344 3.308 nan 3.683 2.752 14.746 1470 chr17 28563707 28572455 + 0 NA Intergenic Lx8|LINE|L1 -7315 NM_001317065 109791 Mm.21160 NM_025469 ENSMUSG00000024225 Clps 2200003J09Rik colipase, pancreatic protein-coding 5.676 2.443 1.410 4.351 3.267 2.118 2.043 1.917 3.701 3.991 2.871 1.610 2.431 4.450 2.264 nan 2.967 3.502 1.090 0.990 0.941 1.083 0.810 0.528 2.991 2762 chr5 134622532 134624810 + 0 NA intron (NM_001312867, intron 4 of 5) intron (NM_001312867, intron 4 of 5) -8646 NM_020044 56743 Mm.391375 NM_020044 ENSMUSG00000040751 Lat2 AW125574|LAB|NTAL|WSCR5|Wbscr15|Wbscr5 linker for activation of T cells family, member 2 protein-coding 1.952 1.290 0.397 3.562 2.524 1.627 3.451 1.952 2.781 3.297 3.161 0.835 3.780 5.914 4.474 3.691 1.629 3.911 1.410 0.775 0.552 2.006 nan 0.408 3.032 3076 chr7 25269544 25270877 + 0 NA intron (NM_001302811, intron 1 of 20) intron (NM_001302811, intron 1 of 20) 2511 NM_001302811 71722 Mm.28833 NM_027882 ENSMUSG00000005442 Cic 1200010B10Rik|mKIAA0306 capicua transcriptional repressor protein-coding 0.743 0.656 0.159 0.641 2.483 1.871 3.083 2.216 2.168 2.180 2.775 0.860 2.121 4.964 3.073 2.041 0.894 1.311 1.311 0.511 0.101 1.431 0.919 0.571 1.548 224 chr1 195392024 195396537 + 0 NA Intergenic Intergenic -217565 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 0.831 0.811 0.433 0.377 0.169 0.135 1.191 0.733 0.794 0.646 8.498 3.040 0.587 0.593 0.717 nan 0.801 0.827 0.768 0.551 0.294 0.840 nan 0.691 nan 3402 chr8 124997009 125000934 + 0 NA Intergenic ORR1C1-int|LTR|ERVL-MaLR -14026 NM_016909 53424 Mm.5248 NM_016909 ENSMUSG00000056820 Tsnax R74833|Trax translin-associated factor X protein-coding 6.336 6.849 1.314 5.839 1.716 1.522 3.874 7.065 3.433 6.852 3.401 1.548 4.726 5.962 5.727 7.208 3.425 6.021 nan 1.238 1.823 nan 1.263 nan 12.770 3264 chr8 46350350 46355432 + 0 NA Intergenic Intergenic -58220 NM_173789 234219 Mm.145631 NM_173789 ENSMUSG00000047171 Helt A830086M02|Hesl|Heslike|Mgn|megane helt bHLH transcription factor protein-coding 3.304 0.808 0.485 2.128 1.451 0.914 2.581 3.075 2.424 2.516 0.787 0.924 3.610 2.899 4.887 5.781 5.158 3.551 0.524 0.547 0.479 0.543 0.546 0.365 2.911 2711 chr5 106214993 106215939 + 0 NA Intergenic Intergenic -105874 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 1.025 1.047 0.369 1.526 1.302 0.422 2.388 2.061 1.438 1.905 1.262 0.921 1.972 3.268 2.442 1.483 0.808 1.462 1.596 1.943 0.354 2.866 2.215 1.009 1.520 3501 chr9 63815007 63820134 + 0 NA Intergenic B3|SINE|B2 -59576 NM_016769 17127 Mm.7320 NM_016769 ENSMUSG00000032402 Smad3 AU022421|Madh3 SMAD family member 3 protein-coding 3.915 1.687 0.637 4.826 1.861 1.075 2.488 2.886 2.923 3.685 2.282 1.386 2.298 3.941 3.860 4.815 1.864 4.835 nan 1.011 0.720 1.311 0.514 0.341 5.954 2100 chr2 169439177 169441533 + 0 NA Intergenic L1Md_F2|LINE|L1 -193291 NM_080455 228911 Mm.315789 NM_080455 ENSMUSG00000047907 Tshz2 2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2 teashirt zinc finger family member 2 protein-coding 4.148 0.443 0.247 1.224 0.325 4.576 6.801 2.611 1.758 4.100 2.821 4.599 2.744 4.158 5.098 6.301 2.626 nan 0.750 0.520 0.864 1.084 1.237 5.244 1982 chr2 132769198 132774829 + 0 NA Intergenic Intergenic -9265 NM_007694 12653 Mm.255241 NM_007694 ENSMUSG00000027350 Chgb Scg-1 chromogranin B protein-coding 1.030 0.466 0.184 0.547 0.180 0.176 5.658 7.606 2.793 1.648 3.644 3.938 6.038 3.646 3.749 nan 1.673 2.456 nan 1.248 1.426 3.557 0.804 0.709 0.521 1006 chr14 54830570 54833614 + 0 NA Intergenic ORR1D2|LTR|ERVL-MaLR 28398 NM_183174 239099 Mm.280994 NM_183174 ENSMUSG00000057156 Homez mKIAA1443 homeodomain leucine zipper-encoding gene protein-coding 0.805 7.037 1.566 1.270 0.494 0.160 0.312 nan 0.638 0.748 0.452 0.423 0.276 0.440 0.810 0.817 0.490 0.829 0.591 0.367 0.242 0.391 0.247 0.069 0.954 2393 chr4 70166235 70172191 + 0 NA Intergenic L1_Mur3|LINE|L1 241222 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 2.735 0.450 0.327 1.284 1.490 0.641 1.388 1.754 1.481 1.772 1.189 0.609 1.481 2.348 1.741 nan 1.723 2.645 6.038 5.024 3.047 nan nan 2.564 nan 3423 chr9 14548157 14550756 + 0 NA intron (NM_001081395, intron 11 of 12) intron (NM_001081395, intron 11 of 12) 48837 NM_023153 66070 Mm.245938 NM_023153 ENSMUSG00000004096 Cwc15 0610040D20Rik|2900052N06Rik|Ed1|c11orf5|mED1 CWC15 spliceosome-associated protein protein-coding 4.680 0.872 0.737 3.495 1.607 0.795 3.202 3.700 4.284 5.521 5.508 2.888 5.163 6.310 4.614 6.228 3.129 5.528 2.542 0.940 0.473 1.319 1.308 0.698 4.991 426 chr11 57823248 57825882 + 0 NA Intergenic Intergenic 7582 NM_008213 15110 Mm.4746 NM_008213 ENSMUSG00000037335 Hand1 Ehand1|Hxt|Th1|Thing1|bHLHa27|eHAND heart and neural crest derivatives expressed transcript 1 protein-coding 7.069 8.240 3.088 6.226 5.283 4.788 4.632 5.977 4.515 5.926 4.248 2.809 4.131 6.508 5.776 5.615 4.973 5.337 nan 3.790 3.457 3.690 4.177 3.333 6.906 996 chr14 28213906 28216547 + 0 NA intron (NM_177814, intron 13 of 15) intron (NM_177814, intron 13 of 15) -290247 NM_009524 22418 Mm.287544 NM_009524 ENSMUSG00000021994 Wnt5a 8030457G12Rik|Wnt-5a wingless-type MMTV integration site family, member 5A protein-coding 4.760 6.945 2.572 4.385 1.617 0.420 2.913 4.915 3.594 3.253 2.760 1.642 3.231 4.152 3.389 nan nan nan 5.148 4.235 3.446 nan 5.592 3.991 6.749 3222 chr8 11799871 11801985 + 0 NA intron (NM_001113517, intron 8 of 18) intron (NM_001113517, intron 8 of 18) -39593 NM_029326 75528 Mm.440342 NM_029326 ENSMUSG00000031512 Tex29 1700018L24Rik testis expressed 29 protein-coding 4.908 0.742 0.813 3.243 2.769 1.854 4.327 2.052 3.902 4.653 0.822 0.624 4.236 5.060 4.388 5.891 5.444 4.217 1.460 1.137 0.870 2.454 1.002 0.841 6.038 3005 chr6 125113756 125117627 + 0 NA intron (NM_001346610, intron 25 of 38) (TCTA)n|Simple_repeat|Simple_repeat -16192 NM_138747 110109 Mm.29203 NM_138747 ENSMUSG00000038279 Nop2 120kDa|A530002O17|Nol1 NOP2 nucleolar protein protein-coding 11.115 12.824 3.653 8.768 6.563 3.621 14.688 16.136 5.325 9.842 8.030 4.308 10.460 15.260 13.600 17.205 10.252 9.337 7.652 3.802 3.199 8.160 4.583 3.992 16.280 1435 chr17 26534788 26541815 + 0 NA Intergenic Intergenic -23211 NM_026170 67458 Mm.30496 NM_026170 ENSMUSG00000001576 Ergic1 1200007D18Rik|maa-136 endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1 protein-coding 0.374 0.891 0.291 0.575 0.120 0.069 0.684 0.494 0.454 0.388 0.359 0.326 0.234 0.534 0.730 nan 0.473 0.785 2.765 1.769 1.096 5.401 1.363 0.985 1.056 1840 chr2 27599392 27602071 + 0 NA Intergenic Intergenic -76470 NM_011305 20181 Mm.24624 NM_011305 ENSMUSG00000015846 Rxra 9530071D11Rik|Nr2b1|RXRalpha1 retinoid X receptor alpha protein-coding 3.676 2.531 0.711 3.806 0.953 0.411 7.278 6.982 nan 2.518 8.396 3.151 2.872 2.607 4.086 9.013 4.709 3.005 1.906 0.873 0.913 2.581 1.703 1.221 7.668 279 chr10 67737523 67746042 + 0 NA Intergenic MTEb|LTR|ERVL-MaLR 170880 NM_178679 216049 Mm.268346 NM_178679 ENSMUSG00000037855 Zfp365 AI839779|AV340892|DBZ|Su48|Znf365|talanin zinc finger protein 365 protein-coding 9.252 6.766 4.223 6.068 4.985 2.672 6.101 6.325 4.786 5.682 5.131 3.149 6.555 8.842 6.469 6.596 8.336 5.834 6.462 5.231 3.633 5.636 4.815 3.934 7.800 2408 chr4 97480257 97483412 + 0 NA Intergenic Intergenic -100109 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 4.076 nan 0.859 4.254 3.698 1.318 2.097 5.080 4.490 4.478 1.051 0.743 3.701 4.745 3.389 4.491 3.693 4.118 1.073 0.627 0.740 nan 0.434 0.173 1.886 2069 chr2 164335365 164341056 + 0 NA Intergenic Lx9|LINE|L1 5445 NM_009301 20944 Mm.140154 NM_009301 ENSMUSG00000017004 Svs5 BB115186|Semg1|Svp-1|Svp1|Svp5 seminal vesicle secretory protein 5 protein-coding 3.663 0.608 0.422 3.148 2.632 1.494 3.794 5.303 1.611 1.638 2.215 2.708 2.832 nan 2.570 3.581 2.757 nan nan 0.800 0.703 1.130 1.107 0.657 nan 956 chr13 98009279 98013257 + 0 NA intron (NM_012026, intron 9 of 35) MLT1A1|LTR|ERVL-MaLR 194897 NM_012026 110596 Mm.252718 NM_012026 ENSMUSG00000021662 Arhgef28 9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF Rho guanine nucleotide exchange factor (GEF) 28 protein-coding 6.849 6.223 1.787 8.710 2.599 2.030 8.108 6.242 4.371 7.532 7.826 3.587 5.477 6.655 9.381 7.685 nan nan 4.176 2.264 1.992 4.265 2.317 1.930 12.314 483 chr11 74859955 74864088 + 0 NA intron (NM_197943, intron 11 of 22) ID_B1|SINE|B4 6173 NR_105891 102465558 NR_105891 ENSMUSG00000098317 Mir6926 Gm27949|mmu-mir-6926 microRNA 6926 ncRNA 2.106 1.808 0.709 3.622 0.999 0.442 nan 2.421 2.385 2.414 2.647 1.482 1.977 nan 1.874 3.386 1.843 2.534 3.424 1.964 nan 4.892 1.904 0.812 2.014 498 chr11 76659406 76661016 + 0 NA Intergenic Intergenic -12259 NM_177182 320522 Mm.131585 NM_177182 ENSMUSG00000044243 Bhlha9 A830053O21Rik|Fingerin basic helix-loop-helix family, member a9 protein-coding 8.363 5.082 1.035 9.391 3.077 3.056 5.227 7.450 5.329 11.203 8.313 5.722 5.308 6.211 7.768 8.536 4.684 7.888 6.545 4.157 4.457 6.559 5.942 7.420 11.260 629 chr11 102265715 102268825 + 0 NA Intergenic Intergenic -1553 NM_148953 217217 Mm.216432 NM_148953 ENSMUSG00000034768 Asb16 - ankyrin repeat and SOCS box-containing 16 protein-coding 4.818 nan 1.496 6.247 2.463 1.649 4.377 5.521 3.748 7.027 2.570 1.224 6.558 8.270 6.727 6.204 3.111 6.462 2.626 nan 1.919 3.495 nan nan 9.728 3520 chr9 72485027 72494817 + 0 NA intron (NM_009359, intron 2 of 11) ORR1E|LTR|ERVL-MaLR 2037 NM_009359 21778 Mm.14485 NM_009359 ENSMUSG00000090626 Tex9 Gm19407|tsec-1 testis expressed gene 9 protein-coding 6.071 1.464 0.880 4.152 5.708 3.962 6.771 5.906 4.963 6.002 4.401 3.284 6.386 8.449 nan 5.952 5.127 5.010 nan 2.419 2.010 1.955 2.904 2.940 6.484 2055 chr2 161395567 161403180 + 0 NA Intergenic Intergenic -290287 NR_126509 71389 Mm.122738 NM_173368 ENSMUSG00000057133 Chd6 5430439G14Rik|6330406J24Rik|CHD-6 chromodomain helicase DNA binding protein 6 protein-coding 5.233 0.280 0.305 2.217 1.883 0.677 4.345 6.942 nan nan 0.566 1.168 6.244 5.563 7.224 7.040 6.007 5.281 nan 0.482 0.322 1.115 0.665 0.463 5.574 1487 chr17 33947110 33951448 + 0 NA TTS (NM_019420) TTS (NM_019420) 2209 NM_019420 54218 Mm.11132 NM_019420 ENSMUSG00000067370 B3galt4 Gal-T2|Galt2 UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4 protein-coding 7.362 1.414 0.938 7.512 5.184 3.385 4.782 3.701 4.208 5.332 1.714 1.457 4.285 8.350 4.732 6.385 4.696 6.895 1.555 1.734 1.694 1.299 1.855 1.185 7.963 372 chr10 128258111 128260118 + 0 NA Intergenic Lx8|LINE|L1 4983 NM_133996 28194 Mm.439846 NM_133996 ENSMUSG00000051716 Apon AI195275|D10Ucla2 apolipoprotein N protein-coding 8.330 6.160 3.251 4.473 6.042 2.686 5.248 5.652 3.641 4.668 4.059 2.796 3.545 7.047 5.749 6.478 7.089 5.205 4.374 5.196 2.000 2.831 nan 3.540 7.325 2951 chr6 98947588 98953329 + 0 NA intron (NM_001347345, intron 13 of 19) intron (NM_001347345, intron 13 of 19) 77840 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 4.356 1.711 1.018 3.970 1.677 0.663 2.576 2.627 2.407 2.327 1.549 0.680 2.766 3.025 3.630 4.361 3.941 3.877 nan nan 0.661 4.356 1.107 0.566 3.649 3204 chr7 137241402 137243334 + 0 NA non-coding (NR_045885, exon 4 of 4) non-coding (NR_045885, exon 4 of 4) 7685 NR_045885 100038555 Mm.444788 NR_045885 ENSMUSG00000109722 Gm10578 ENSMUSG00000073800 predicted gene 10578 ncRNA 3.686 nan 3.435 1.795 0.870 4.969 6.032 3.247 4.782 2.081 0.675 5.651 6.643 8.971 7.001 3.830 6.768 1.893 1.165 0.812 2.296 1.779 1.161 6.494 2028 chr2 156149665 156150891 + 0 NA intron (NM_133242, intron 14 of 16) intron (NM_133242, intron 14 of 16) 6045 NM_025946 67067 Mm.371623 NM_025946 ENSMUSG00000067847 Romo1 2010100O12Rik|AI853864 reactive oxygen species modulator 1 protein-coding 3.212 2.385 1.400 2.705 2.530 0.900 3.966 5.100 nan 1.774 1.330 0.443 2.605 4.278 2.592 3.913 3.371 1.723 nan 0.533 1.447 0.838 1.029 0.638 5.656 1540 chr17 56097975 56099555 + 0 NA intron (NM_001331053, intron 12 of 15) intron (NM_001331053, intron 12 of 15) 11037 NM_020568 57435 Mm.12966 NM_020568 ENSMUSG00000002831 Plin4 S3-12|mKIAA1881 perilipin 4 protein-coding 6.255 9.282 4.395 6.497 2.884 2.306 5.426 4.992 5.251 4.619 4.331 3.046 5.058 5.903 8.151 9.362 6.488 6.814 5.180 2.329 2.570 5.248 3.467 2.805 9.192 3075 chr7 25264397 25268062 + 0 NA Intergenic RLTR13C2|LTR|ERVK -1470 NM_001302811 71722 Mm.28833 NM_027882 ENSMUSG00000005442 Cic 1200010B10Rik|mKIAA0306 capicua transcriptional repressor protein-coding 1.833 1.445 1.016 1.119 2.833 1.764 3.171 3.225 1.449 2.439 4.350 1.990 1.595 3.555 2.466 1.391 1.499 1.016 7.353 7.777 5.590 6.920 9.498 8.967 2.364 1661 chr18 61557845 61561857 + 0 NA intron (NM_146087, intron 2 of 9) intron (NM_146087, intron 2 of 9) 4269 NM_146087 93687 Mm.26908 NM_146087 ENSMUSG00000024576 Csnk1a1 2610208K14Rik|4632404G05Rik|5430427P18Rik|CK1a|Csnk1a casein kinase 1, alpha 1 protein-coding 5.918 8.334 2.670 5.380 1.855 0.691 4.564 7.200 2.974 6.874 5.095 2.105 6.414 6.221 5.809 6.963 4.700 5.673 nan 0.876 1.858 nan 1.946 2.359 11.404 1330 chr16 30090143 30091431 + 0 NA Intergenic Charlie15b|DNA|hAT-Charlie 25430 NM_008235 15205 Mm.390859 NM_008235 ENSMUSG00000022528 Hes1 Hry|bHLHb39 hairy and enhancer of split 1 (Drosophila) protein-coding 3.969 0.838 0.601 1.949 0.761 0.468 4.048 3.658 2.987 2.327 2.362 2.273 4.864 3.746 4.805 7.152 4.237 5.780 1.589 0.338 0.400 1.673 nan 0.129 6.886 1284 chr16 16865662 16867217 + 0 NA Intergenic RLTR23|LTR|ERV1 -2454 NM_001190325 16136 Mm.184441 NM_001190325 ENSMUSG00000075370 Igll1 BB139905|Igl-5|Igll|Lambda5 immunoglobulin lambda-like polypeptide 1 protein-coding 8.382 0.630 0.415 1.960 3.542 1.681 4.215 5.266 3.178 4.887 6.512 3.037 2.088 4.966 1.362 5.408 2.323 5.654 0.839 0.966 0.405 0.605 0.802 0.554 5.629 3041 chr6 140608946 140610409 + 0 NA Intergenic RLTR14_RN|LTR|ERV1 -12986 NM_178803 11569 Mm.86453 NM_009637 ENSMUSG00000030232 Aebp2 AU023766|B230313N05Rik AE binding protein 2 protein-coding 1.560 0.888 1.049 1.950 2.500 1.563 6.024 9.088 1.868 2.293 0.891 0.876 4.793 4.646 4.506 6.263 5.924 2.391 nan 0.707 1.065 1.493 0.423 0.954 2.913 3526 chr9 78038592 78042322 + 0 NA Intergenic ID_B1|SINE|B4 -11501 NM_008103 14531 Mm.1400 NM_008103 ENSMUSG00000023333 Gcm1 GCMa|Gcm-rs2|Gcm1-rs1|glide glial cells missing homolog 1 (Drosophila) protein-coding 4.049 0.842 0.661 2.751 0.964 0.686 4.212 5.905 3.297 2.669 7.112 3.303 4.817 5.636 3.993 4.800 3.476 2.691 0.657 nan 0.744 0.900 0.724 0.549 nan 1606 chr18 23999000 24008260 + 0 NA exon (NM_011755, exon 3 of 3) exon (NM_011755, exon 3 of 3) 13996 NM_011755 22694 Mm.290596 NM_011755 ENSMUSG00000063281 Zfp35 Zfp-35|Znf271|mszf13|mszf20-1|mszf28|mszf68 zinc finger protein 35 protein-coding 1.461 8.498 4.484 1.539 0.727 0.278 0.625 1.152 1.486 1.105 0.439 0.522 0.557 0.758 0.859 nan 0.881 1.339 nan 0.811 0.635 nan 0.536 0.369 1.141 2064 chr2 163413588 163417882 + 0 NA intron (NM_025699, intron 1 of 3) intron (NM_025699, intron 1 of 3) 3735 NM_025699 66680 Mm.25119 NM_025699 ENSMUSG00000035399 Oser1 3230401D17Rik|AI256769|Perit1 oxidative stress responsive serine rich 1 protein-coding 3.292 1.335 0.870 2.171 2.291 1.438 6.242 6.767 2.746 2.488 0.684 0.634 5.628 7.243 4.092 5.065 5.279 3.757 nan 0.890 1.347 0.791 0.535 0.603 2.865 1160 chr15 76733705 76736345 + 0 NA exon (NM_001168288, exon 6 of 12) exon (NM_001168288, exon 6 of 12) -11180 NM_176828 223665 Mm.291713 NM_145472 ENSMUSG00000033707 C030006K11Rik 1110033I13Rik RIKEN cDNA C030006K11 gene protein-coding 7.872 10.778 2.593 nan 4.167 2.010 9.676 11.392 3.878 nan nan 2.692 7.995 8.196 8.639 7.798 7.648 6.587 3.558 2.536 1.441 5.231 2.604 2.110 11.530 99 chr1 91465428 91468247 + 0 NA Intergenic RSINE1|SINE|B4 -7509 NM_011066 18627 Mm.482463 NM_011066 ENSMUSG00000055866 Per2 mKIAA0347|mPer2 period circadian clock 2 protein-coding 5.364 0.771 0.426 2.744 4.276 1.942 3.996 6.424 1.992 3.598 2.527 0.925 2.861 5.367 2.177 2.596 2.197 3.307 1.514 1.489 0.940 nan 1.639 1.220 3.305 3553 chr9 110553842 110565265 + 0 NA intron (NM_001081340, intron 5 of 20) RLTR17B_Mm|LTR|ERVK 26956 NM_001081340 235626 Mm.288949 NM_001081340 ENSMUSG00000044791 Setd2 4921524K10Rik|BC031601|KMT3A SET domain containing 2 protein-coding 6.524 9.154 4.030 5.892 3.768 2.546 5.654 7.304 nan 5.635 5.704 4.691 5.770 7.150 6.203 7.474 3.993 6.747 3.249 2.514 2.791 3.423 3.059 2.926 10.230 869 chr13 31648649 31652917 + 0 NA Intergenic Intergenic 24967 NM_010225 14238 Mm.125548 NM_010225 ENSMUSG00000038402 Foxf2 FREAC2|Fkh20|LUN forkhead box F2 protein-coding 7.623 2.079 0.643 5.957 2.974 2.210 10.699 10.459 6.176 14.025 10.930 6.306 9.657 12.140 9.668 11.109 5.203 10.367 1.080 0.626 0.982 1.419 0.887 1.277 16.659 1592 chr17 88654850 88658271 + 0 NA Intergenic Intergenic -12100 NM_023630 71828 Mm.61330 NM_023630 ENSMUSG00000024154 Gtf2a1l 1700011N16Rik|Alf|Gtf2a1lf general transcription factor IIA, 1-like protein-coding 6.910 6.744 2.408 7.547 4.197 3.016 4.920 6.308 5.733 8.874 7.756 3.807 3.967 7.763 6.941 7.586 3.581 8.397 2.290 1.771 1.347 2.430 1.077 0.887 13.020 1933 chr2 103253259 103257014 + 0 NA Intergenic L1M2|LINE|L1 48060 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 3.684 0.606 0.514 1.706 0.884 0.728 3.633 3.113 2.124 3.396 0.450 0.205 3.714 5.303 5.564 5.926 5.574 3.303 1.221 1.284 0.783 nan 0.562 0.375 7.830 2022 chr2 156019887 156025235 + 0 NA exon (NM_001136556, exon 40 of 45) exon (NM_001136556, exon 40 of 45) 14436 NM_025516 66366 Mm.141276 NM_025516 ENSMUSG00000005881 Ergic3 2310015B14Rik|AV318804|CGI-54|D2Ucla1|NY-BR-84|Sdbcag84 ERGIC and golgi 3 protein-coding 5.062 5.975 3.880 5.051 4.881 3.783 3.211 5.913 nan nan 3.082 1.496 nan 5.905 3.644 5.587 5.059 nan nan 3.721 3.163 3.203 4.042 3.692 nan 790 chr12 80996050 81000389 + 0 NA Intergenic Intergenic -28589 NM_001146217 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 6.185 1.261 0.612 5.347 2.954 1.384 2.712 2.203 4.806 5.485 3.698 3.092 5.066 5.662 4.879 6.006 5.945 6.478 1.454 1.633 0.791 1.226 0.893 0.879 5.548 533 chr11 90408022 90413020 + 0 NA Intergenic ORR1A1|LTR|ERVL-MaLR -19604 NM_172563 217082 Mm.158903 NM_172563 ENSMUSG00000003949 Hlf E230015K02Rik hepatic leukemia factor protein-coding nan 0.635 0.504 nan 0.439 0.245 0.522 0.508 0.675 0.653 0.466 0.252 0.244 0.324 0.476 0.656 0.848 0.523 3.504 3.683 2.615 5.820 3.769 2.620 nan 2080 chr2 165978210 165981093 + 0 NA Intergenic Intergenic -12986 NM_008679 17979 Mm.469663 NM_008679 ENSMUSG00000027678 Ncoa3 2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip nuclear receptor coactivator 3 protein-coding 4.428 2.274 0.583 3.956 0.740 0.510 1.545 4.719 3.854 5.228 5.160 4.114 1.587 2.873 2.821 3.701 1.280 2.049 nan 0.753 1.541 4.076 1.219 2.550 6.292 3551 chr9 108697337 108702144 + 0 NA intron (NM_008924, intron 1 of 10) B4|SINE|B4 7597 NM_008924 19087 Mm.253102 NM_008924 ENSMUSG00000032601 Prkar2a 1110061A24Rik|AI317181|AI836829|RII(alpha) protein kinase, cAMP dependent regulatory, type II alpha protein-coding 5.478 1.840 1.153 5.391 2.766 1.292 4.285 6.285 5.226 6.208 4.378 2.828 5.740 8.369 4.916 5.380 2.834 6.994 2.019 1.369 0.630 3.185 1.342 0.681 nan 1122 chr15 68197577 68199054 + 0 NA intron (NM_198644, intron 3 of 15) RLTR14|LTR|ERV1 60541 NM_001145888 380993 Mm.309526 NM_198644 ENSMUSG00000022335 Zfat Gm922|Zfat1|Zfp406 zinc finger and AT hook domain containing protein-coding 6.121 0.787 0.520 2.240 1.946 0.754 3.464 5.193 2.710 2.858 0.471 0.403 7.153 5.558 4.783 5.343 6.140 5.995 0.352 0.543 0.166 0.682 0.543 0.391 3.416 2997 chr6 122823221 122825310 + 0 NA intron (NM_021899, intron 1 of 10) intron (NM_021899, intron 1 of 10) 4081 NM_021899 60611 Mm.87142 NM_021899 ENSMUSG00000003154 Foxj2 Fhx forkhead box J2 protein-coding 7.324 7.439 5.657 5.251 4.814 3.842 5.953 5.272 4.029 5.699 3.520 4.212 4.007 5.689 4.890 6.776 6.154 4.325 2.865 3.903 3.269 2.374 nan 3.764 6.320 2416 chr4 99618787 99620318 + 0 NA Intergenic Intergenic -36747 NM_010425 15221 Mm.4758 NM_010425 ENSMUSG00000067261 Foxd3 CWH3|Genesis|Hfh2 forkhead box D3 protein-coding 3.708 1.288 0.251 3.842 2.510 1.476 3.908 3.037 3.441 4.974 1.903 1.647 4.179 4.275 4.636 6.297 3.395 5.212 1.008 1.139 1.448 nan 0.641 0.557 5.907 1697 chr18 82703645 82705149 + 0 NA Intergenic Intergenic -11663 NM_177832 329002 Mm.34438 NM_177832 ENSMUSG00000041258 Zfp236 AI447957|Gm335 zinc finger protein 236 protein-coding 3.953 11.294 2.894 3.912 1.658 0.554 2.156 3.593 2.822 3.170 3.763 2.831 5.261 4.554 3.864 2.948 1.593 4.077 2.026 nan 0.642 3.131 1.347 0.737 3.411 1053 chr15 7545719 7549624 + 0 NA Intergenic MMERVK10C-int|LTR|ERVK -149276 NM_001289498 268780 Mm.203208 NM_178748 ENSMUSG00000042961 Egflam 5930412K08|AU040377 EGF-like, fibronectin type III and laminin G domains protein-coding 7.584 0.716 0.532 4.704 3.959 1.520 7.398 6.956 7.037 8.350 3.702 1.525 9.413 8.021 6.316 5.820 4.687 8.409 1.030 0.627 0.328 0.402 0.246 0.144 4.918 414 chr11 51811696 51815126 + 0 NA TTS (NM_199299) TTS (NM_199299) 44070 NM_199299 76901 Mm.259996 NM_199299 ENSMUSG00000020387 Jade2 1200017K05Rik|AI480685|Phf15|mKIAA0239 jade family PHD finger 2 protein-coding 8.372 10.795 3.599 10.266 7.151 4.590 6.383 8.570 5.792 9.186 6.532 3.902 8.392 10.322 9.466 10.287 6.663 9.225 nan 3.274 3.818 5.711 nan 4.031 10.177 462 chr11 69732405 69736621 + 0 NA exon (NM_001291068, exon 29 of 29) exon (NM_001291068, exon 29 of 29) 24120 NM_001291068 20020 Mm.16533 NM_009089 ENSMUSG00000005198 Polr2a 220kDa|Rpb1|Rpo2-1 polymerase (RNA) II (DNA directed) polypeptide A protein-coding 9.139 11.040 3.920 8.563 7.025 5.729 8.157 7.984 5.513 8.793 6.863 4.342 7.809 10.853 9.017 9.872 7.270 7.423 4.885 3.940 4.366 5.758 nan 4.584 9.836 1770 chr19 30009290 30024191 + 0 NA Intergenic B3A|SINE|B2 12950 NM_025741 66745 Mm.158128 NM_025741 ENSMUSG00000024815 Trpd52l3 4931412G03Rik tumor protein D52-like 3 protein-coding nan 1.682 0.873 nan 3.154 2.376 5.286 nan 6.311 5.742 nan 3.800 5.031 5.529 4.786 6.343 7.926 6.422 nan 0.641 0.378 0.579 nan 0.512 4.610 2735 chr5 121911882 121914870 + 0 NA intron (NM_001312908, intron 4 of 22) B4|SINE|B4 64348 NM_175474 231717 Mm.12654 NM_175474 ENSMUSG00000044134 Fam109a A230106M15Rik|AU017694|IPIP27A|Ses1 family with sequence similarity 109, member A protein-coding 6.745 0.774 0.536 4.338 8.168 5.867 5.451 5.809 5.224 6.428 1.799 1.789 5.918 10.906 5.844 5.226 6.706 6.024 nan nan 0.721 0.525 nan 0.782 5.165 1209 chr15 99794686 99796447 + 0 NA intron (NM_023063, intron 5 of 7) B1_Mus2|SINE|Alu -23051 NM_028015 71949 Mm.390821 NM_028015 ENSMUSG00000023021 Cers5 2310081H14Rik|AU045339|AW544927|Lass5|Trh4 ceramide synthase 5 protein-coding 6.854 0.871 0.317 2.689 4.254 1.833 11.925 14.541 5.634 7.625 1.848 0.903 9.478 11.136 8.914 8.703 10.094 6.257 0.657 0.965 0.765 0.679 0.831 0.576 5.610 263 chr10 56096523 56101628 + 0 NA intron (NM_001033385, intron 22 of 32) intron (NM_001033385, intron 22 of 32) -7842 NM_001163833 73390 Mm.181475 NM_133751 ENSMUSG00000047669 Msl3l2 1700060H10Rik male-specific lethal 3-like 2 (Drosophila) protein-coding 11.182 1.437 0.715 6.141 6.397 2.586 6.190 4.548 6.880 9.352 7.766 2.239 7.618 7.717 7.916 10.220 8.228 8.940 nan 0.786 0.562 0.553 0.619 0.366 10.750 991 chr14 26661659 26667694 + 0 NA 3' UTR (NM_178668, exon 3 of 3) 3' UTR (NM_178668, exon 3 of 3) 4932 NR_106132 102465773 NR_106132 ENSMUSG00000098751 Mir7672 Gm27314|mmu-mir-7672 microRNA 7672 ncRNA 3.623 3.019 1.058 4.928 5.369 3.807 2.753 7.237 4.008 4.368 2.878 3.860 3.664 4.745 3.879 nan nan 5.134 6.857 3.079 3.766 nan 7.621 7.084 5.027 3361 chr8 116979363 116983791 + 0 NA TTS (NM_026572) TTS (NM_026572) -2634 NM_027103 69528 Mm.272846 NM_027103 ENSMUSG00000031847 1700030J22Rik - RIKEN cDNA 1700030J22 gene protein-coding 3.040 0.997 0.464 1.804 1.432 0.481 2.228 2.237 1.976 3.862 0.386 0.610 3.047 2.768 4.470 6.338 3.728 4.023 2.148 1.905 1.597 6.495 4.198 2.403 5.634 2985 chr6 115472123 115474924 + 0 NA intron (NM_001308352, intron 7 of 7) intron (NM_001308352, intron 7 of 7) 51457 NM_011146 19016 Mm.3020 NM_011146 ENSMUSG00000000440 Pparg Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2 peroxisome proliferator activated receptor gamma protein-coding 4.735 1.474 0.543 4.765 2.116 1.279 2.611 5.934 3.418 3.681 1.315 3.676 2.404 3.730 3.343 4.439 2.079 3.544 1.480 0.731 0.887 2.134 nan 1.116 5.293 3535 chr9 96766388 96771154 + 0 NA intron (NR_102294, intron 1 of 2) B4A|SINE|B4 3209 NR_102296 319707 Mm.392191 NR_102293 ENSMUSG00000101581 C430002N11Rik - RIKEN cDNA C430002N11 gene ncRNA 1.986 0.653 0.612 3.453 2.944 2.257 1.813 2.502 3.969 3.877 1.736 1.729 3.112 5.443 2.581 2.602 2.580 3.009 2.851 3.272 3.273 3.791 2.362 2.099 2.302 3593 chrX 136343169 136349771 + 0 NA Intergenic RMER13A|LTR|ERVK 76217 NM_001110234 12070 Mm.90787 NM_009750 ENSMUSG00000046432 Bex3 AL033356|DXWsu67e|Gcap27|Nade|Ngfrap1 brain expressed X-linked 3 protein-coding 4.070 0.583 0.314 1.122 0.559 0.397 3.243 4.387 2.107 2.214 5.739 2.164 3.954 4.074 4.599 4.517 2.626 1.957 0.730 0.335 0.167 0.619 0.303 0.339 5.797 2348 chr4 32351076 32352865 + 0 NA Intergenic MER119|DNA|hAT-Charlie -65465 NM_001109661 12014 Mm.491223 NM_007521 ENSMUSG00000040270 Bach2 E030004N02Rik BTB and CNC homology, basic leucine zipper transcription factor 2 protein-coding 4.236 2.443 1.947 2.918 2.400 1.479 1.590 0.691 3.056 3.151 0.691 0.532 3.529 3.819 2.704 4.795 1.640 2.639 1.997 0.938 0.716 1.081 0.708 0.528 4.930 931 chr13 55282735 55285539 + 0 NA intron (NM_008739, intron 12 of 22) intron (NM_008739, intron 12 of 22) 37843 NM_009000 19336 Mm.220923 NM_009000 ENSMUSG00000034789 Rab24 6530406O07Rik RAB24, member RAS oncogene family protein-coding 5.148 2.177 1.243 6.715 6.491 3.950 3.180 3.981 2.590 3.004 1.524 1.265 3.159 5.169 2.779 3.987 3.053 nan 1.198 0.940 1.227 1.492 2.136 2.404 5.402 2246 chr3 94816963 94823790 + 0 NA Intergenic B2_Mm1t|SINE|B2 -17191 NM_001165948 229584 Mm.274787 NM_172683 ENSMUSG00000038902 Pogz 9530006B08Rik pogo transposable element with ZNF domain protein-coding 6.827 6.693 2.670 5.476 5.052 3.299 10.812 6.468 3.887 6.257 nan 2.396 8.770 9.507 8.154 9.174 7.375 7.941 3.460 2.029 2.442 4.910 2.437 2.661 10.980 615 chr11 101107341 101109523 + 0 NA intron (NM_028933, intron 1 of 7) RSINE1|SINE|B4 11392 NM_026501 67998 Mm.33881 NM_026501 ENSMUSG00000017802 Fam134c 1300010M03Rik|4933404C01Rik|AI551748 family with sequence similarity 134, member C protein-coding 4.836 2.413 0.743 10.015 1.687 0.394 1.460 1.901 2.621 4.964 1.688 0.836 1.320 3.053 3.092 4.543 1.775 5.393 1.331 nan 2.325 2.257 nan nan 5.778 476 chr11 70641755 70643728 + 0 NA TTS (NM_010326) TTS (NM_010326) 3619 NM_010326 14723 Mm.377085 NM_010326 ENSMUSG00000050675 Gp1ba GPIba|GPIbalpha glycoprotein 1b, alpha polypeptide protein-coding 1.970 0.919 0.725 1.206 2.329 1.151 3.360 1.856 1.965 1.485 1.515 0.753 3.028 3.809 2.923 2.554 2.010 1.555 0.422 0.690 0.585 0.470 nan 0.758 nan 1198 chr15 97891222 97893388 + 0 NA intron (NM_009504, intron 1 of 9) intron (NM_009504, intron 1 of 9) 15991 NM_009504 22337 Mm.245084 NM_009504 ENSMUSG00000022479 Vdr Nr1i1 vitamin D receptor protein-coding 5.620 0.835 0.539 0.679 0.642 0.397 1.673 2.946 1.478 0.998 0.622 0.836 2.413 3.882 2.645 nan 3.607 2.177 0.836 0.378 0.373 0.442 0.616 0.449 2.552 3319 chr8 89402249 89409242 + 0 NA Intergenic Intergenic -361583 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 9.445 6.494 2.733 6.253 5.856 4.401 3.015 5.337 nan 6.931 3.835 1.976 3.161 4.636 4.513 7.378 4.808 6.406 nan 2.391 2.323 3.322 1.738 2.127 9.373 3210 chr7 141451719 141454919 + 0 NA Intergenic B3A|SINE|B2 -1869 NM_025802 66853 Mm.29998 NM_025802 ENSMUSG00000025509 Pnpla2 0610039C21Rik|1110001C14Rik|Atgl|TTS-2.2 patatin-like phospholipase domain containing 2 protein-coding 8.084 nan 0.284 3.746 4.570 1.403 7.459 6.818 5.936 7.051 6.159 2.188 9.857 7.479 6.143 6.776 6.489 6.889 0.816 1.259 0.353 1.723 0.388 0.490 8.036 1626 chr18 39298763 39301482 + 0 NA intron (NM_175164, intron 19 of 22) intron (NM_175164, intron 19 of 22) 187123 NM_008173 14815 Mm.129481 NM_008173 ENSMUSG00000024431 Nr3c1 GR|Grl-1|Grl1 nuclear receptor subfamily 3, group C, member 1 protein-coding 6.533 2.636 1.031 5.975 3.022 1.435 4.112 7.384 3.670 4.376 1.614 1.068 4.274 4.946 4.371 5.430 2.757 6.078 1.113 1.353 0.902 1.743 0.798 0.579 6.398 1409 chr17 13180847 13185083 + 0 NA Intergenic Intergenic -22077 NR_033458 100038394 Mm.401677 NR_033458 Gm10512 ENSMUSG00000073459 predicted gene 10512 ncRNA 5.951 8.116 4.921 6.237 5.415 4.827 5.321 nan 4.010 6.907 3.826 3.280 4.325 6.292 5.135 5.367 5.061 5.080 3.738 3.080 2.875 3.573 3.330 4.507 nan 2219 chr3 89017277 89024243 + 0 NA intron (NM_138679, intron 4 of 26) intron (NM_138679, intron 4 of 26) 54948 NM_138679 192195 Mm.130752 NM_138679 ENSMUSG00000028053 Ash1l 8030453L17Rik|Ash1|E430018P19Rik|Kmt2h ash1 (absent, small, or homeotic)-like (Drosophila) protein-coding 3.452 2.514 0.766 5.416 2.695 1.505 6.570 2.049 2.953 5.659 1.578 0.983 6.266 6.666 5.979 8.022 5.875 5.961 nan 1.325 0.956 2.232 1.674 1.304 10.312 2141 chr2 181498318 181503288 + 0 NA intron (NM_001291204, intron 2 of 4) B3|SINE|B2 3661 NM_001291204 66314 Mm.136648 NM_025482 ENSMUSG00000000827 Tpd52l2 2810411G23Rik|AU016537|C86069|D54 tumor protein D52-like 2 protein-coding 0.404 0.474 0.413 0.341 0.201 0.182 0.219 0.412 0.296 0.228 0.267 0.170 0.123 0.149 0.260 nan 0.527 nan 8.619 4.820 2.589 8.005 6.756 3.953 nan 2464 chr4 126185843 126192064 + 0 NA intron (NM_146153, intron 1 of 10) B2_Mm2|SINE|B2 13757 NM_146153 230753 Mm.29813 NM_146153 ENSMUSG00000043962 Thrap3 9330151F09Rik|B230333E16Rik|Trap150 thyroid hormone receptor associated protein 3 protein-coding 6.239 3.230 2.467 4.255 5.311 3.930 5.702 3.513 7.412 8.213 2.322 0.955 7.006 7.367 5.181 7.402 5.835 7.646 0.847 0.780 1.042 0.793 0.673 0.759 6.364 1077 chr15 31382399 31383786 + 0 NA Intergenic L1VL2|LINE|L1 -15333 NM_027496 67434 Mm.102470 NM_026153 ENSMUSG00000022237 Ankrd33b 0610012A05Rik|3021401C12Rik|5730557B15Rik ankyrin repeat domain 33B protein-coding 8.478 6.638 2.647 6.808 1.996 1.463 8.864 12.230 5.664 6.258 5.370 4.721 12.053 9.714 11.120 11.050 11.517 8.995 3.318 0.955 0.454 5.193 2.036 1.595 9.616 1716 chr19 5016075 5019651 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR -6143 NM_007854 13340 Mm.4930 NM_007854 ENSMUSG00000024891 Slc29a2 Der12|Ent2|Hnp36 solute carrier family 29 (nucleoside transporters), member 2 protein-coding 3.056 0.856 0.590 1.841 1.226 0.661 3.521 4.730 nan 2.022 6.506 2.486 2.522 3.874 2.171 nan 1.809 2.943 0.557 0.449 0.377 1.354 0.445 0.400 3.067 293 chr10 79735661 79739503 + 0 NA intron (NM_172551, intron 15 of 20) intron (NM_172551, intron 15 of 20) 8999 NM_172551 216151 Mm.39001 NM_172551 ENSMUSG00000020329 Polrmt 1110018N15Rik|4932416K13 polymerase (RNA) mitochondrial (DNA directed) protein-coding 3.922 1.111 1.025 nan 4.468 4.010 3.704 3.136 2.791 3.902 0.832 0.722 3.940 5.828 nan 5.068 3.397 3.739 nan 0.668 1.067 0.923 0.438 0.737 6.834 2854 chr6 38754815 38758040 + 0 NA intron (NM_001294144, intron 2 of 14) intron (NM_001294144, intron 2 of 14) 80884 NM_001136065 15258 Mm.23790 NM_010433 ENSMUSG00000061436 Hipk2 1110014O20Rik|B230339E18Rik|Stank homeodomain interacting protein kinase 2 protein-coding 3.168 2.374 0.763 4.056 1.937 0.988 1.503 1.278 2.130 2.147 1.066 0.743 1.015 2.106 1.943 nan 1.859 3.564 nan 1.180 0.895 nan nan 0.568 2.560 1272 chr16 11012817 11015177 + 0 NA non-coding (NR_040518, exon 3 of 3) non-coding (NR_040518, exon 3 of 3) 5099 NR_040518 100043147 Mm.489001 NR_040518 ENSMUSG00000097056 Gm4262 - predicted gene 4262 ncRNA nan 7.302 4.063 2.526 1.791 0.804 nan 2.110 2.161 2.113 2.017 1.845 1.431 1.717 2.172 2.654 1.728 3.059 5.428 5.769 3.518 4.471 7.988 5.130 2.820 1781 chr19 41567415 41571156 + 0 NA Intergenic Intergenic -19366 NR_106166 102465884 NR_106166 ENSMUSG00000098286 Mir8091 Gm27575|mmu-mir-8091 microRNA 8091 ncRNA nan 1.626 1.634 1.276 4.409 3.303 4.700 5.276 2.271 2.088 2.753 2.692 2.006 3.154 2.310 2.125 nan 2.931 0.959 1.112 1.041 1.282 1.723 1.544 1.465 1299 chr16 18883276 18885558 + 0 NA intron (NM_010435, intron 1 of 24) B2_Mm1a|SINE|B2 7667 NM_010435 15260 Mm.15694 NM_010435 ENSMUSG00000022702 Hira AA138857|D16Ertd95e|Gm15797|N28177|OTTMUSG00000026264|Tuple1 histone cell cycle regulator protein-coding 3.659 2.705 2.969 1.741 2.729 3.127 1.591 1.477 2.524 2.436 0.707 0.905 2.785 4.069 1.384 nan 3.541 2.200 0.625 1.019 1.343 0.531 0.892 1.144 2.446 1663 chr18 65534389 65535785 + 0 NA intron (NR_105742, intron 1 of 6) intron (NR_105742, intron 1 of 6) -45143 NM_207255 328977 Mm.286232 NM_207255 ENSMUSG00000042439 Zfp532 C530030I18Rik|Znf532|mKIAA1629 zinc finger protein 532 protein-coding 3.778 1.497 0.799 2.650 3.317 2.036 1.248 1.489 3.417 3.303 1.735 0.384 2.664 3.858 2.878 2.538 1.421 5.570 0.752 0.177 0.329 0.297 0.328 0.173 3.024 2888 chr6 72279755 72283865 + 0 NA Intergenic Intergenic -22800 NM_001282071 20388 Mm.46033 NM_147779 ENSMUSG00000056370 Sftpb AI562151|SF-B|SP-B|Sftp-3|Sftp3 surfactant associated protein B protein-coding 2.666 0.566 0.786 1.492 5.478 4.533 4.422 2.774 1.842 1.945 1.784 1.250 2.422 5.009 1.951 2.791 3.079 2.526 0.669 0.619 0.789 0.374 0.821 1.075 2.142 967 chr13 115719612 115725075 + 0 NA Intergenic Intergenic 587345 NM_021459 16392 Mm.42242 NM_021459 ENSMUSG00000042258 Isl1 - ISL1 transcription factor, LIM/homeodomain protein-coding 3.945 1.273 0.674 2.524 1.107 0.516 6.401 5.391 2.148 1.732 4.160 2.993 3.862 3.387 5.736 1.904 1.260 2.579 0.329 0.410 0.549 0.412 0.254 0.264 nan 2157 chr3 21904280 21908026 + 0 NA Intergenic Intergenic -170499 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 2.270 nan 0.861 2.869 4.394 2.907 4.838 2.293 3.169 3.286 0.939 0.769 4.544 5.776 3.636 4.406 3.791 4.250 0.759 0.914 0.738 0.543 0.618 0.634 3.826 1611 chr18 35862233 35863390 + 0 NA Intergenic Intergenic 32993 NM_133687 67393 Mm.94560 NM_133687 ENSMUSG00000046668 Cxxc5 4930415K17Rik CXXC finger 5 protein-coding 6.857 8.321 2.249 7.819 2.873 1.469 3.570 5.177 3.850 5.411 3.265 1.601 4.324 3.820 6.125 7.167 4.192 7.145 3.562 2.479 1.100 4.422 2.522 1.824 10.159 322 chr10 85887419 85889282 + 0 NA 3' UTR (NM_133993, exon 15 of 15) 3' UTR (NM_133993, exon 15 of 15) 16519 NM_133993 103136 Mm.18834 NM_133993 ENSMUSG00000001785 Pwp1 2310058A11Rik|2610205J09Rik|AI098170|AL022879|AV083409|AW550690 PWP1 homolog, endonuclein protein-coding 3.610 0.789 0.413 1.370 0.957 0.312 2.928 1.245 2.115 2.069 0.488 0.467 1.579 2.068 2.493 3.985 2.932 3.651 3.177 1.746 1.165 nan nan 0.508 6.907 469 chr11 70389664 70394491 + 0 NA TTS (NM_029231) TTS (NM_029231) 17954 NM_029231 75273 Mm.340601 NM_029231 ENSMUSG00000018921 Pelp1 4930563C04Rik|MNAR proline, glutamic acid and leucine rich protein 1 protein-coding 4.311 4.459 2.257 3.543 4.528 2.488 3.139 6.438 3.652 4.532 9.555 5.323 3.533 6.261 3.673 3.307 1.942 3.730 1.249 1.428 0.989 1.020 nan 0.699 2.903 3046 chr6 145882109 145884487 + 0 NA Intergenic L1MB7|LINE|L1 -17878 NM_024469 79362 Mm.154529 NM_024469 ENSMUSG00000030256 Bhlhe41 6430520M22Rik|Bhlhb2l|Bhlhb3|DEC2|Sharp1 basic helix-loop-helix family, member e41 protein-coding nan 1.971 0.617 nan 1.314 0.461 1.656 nan 1.780 nan 5.306 1.169 nan 1.610 3.974 nan 1.505 3.238 9.436 4.084 4.136 12.048 6.636 5.092 4.831 635 chr11 102504633 102506399 + 0 NA intron (NM_001159492, intron 5 of 7) intron (NM_001159492, intron 5 of 7) -35633 NM_010575 16399 Mm.26646 NM_010575 ENSMUSG00000034664 Itga2b AI172977|CD41|CD41B|GpIIb|alphaIIb integrin alpha 2b protein-coding 6.554 nan 0.431 3.431 7.708 5.662 7.154 5.719 5.155 6.159 4.349 3.283 5.595 8.373 5.888 6.140 6.776 5.468 0.792 nan 0.634 0.550 nan nan 5.655 1088 chr15 38360414 38363658 + 0 NA Intergenic Intergenic -61325 NM_001289471 21847 Mm.4292 NM_013692 ENSMUSG00000037465 Klf10 AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF Kruppel-like factor 10 protein-coding 4.303 0.731 0.676 3.817 3.200 2.596 5.849 12.170 3.361 3.680 3.247 2.503 8.189 6.536 5.120 6.369 4.857 4.343 2.930 1.740 1.579 nan 2.072 2.152 4.126 575 chr11 97139728 97142676 + 0 NA intron (NM_198100, intron 6 of 8) MIRc|SINE|MIR 5217 NR_106094 102466822 NR_106094 ENSMUSG00000099286 Mir7235 Gm27986|mmu-mir-7235 microRNA 7235 ncRNA 9.087 7.037 2.803 9.794 9.920 8.186 7.820 8.724 6.226 13.022 7.482 4.278 7.276 9.874 8.217 9.979 5.896 7.945 5.783 4.528 6.460 7.545 4.675 nan 11.242 1835 chr2 26472175 26473757 + 0 NA exon (NM_008714, exon 18 of 34) exon (NM_008714, exon 18 of 34) -2847 NR_105962 102465602 NR_105962 ENSMUSG00000098548 Mir6996 Gm27531|mmu-mir-6996 microRNA 6996 ncRNA 3.464 0.391 0.527 1.525 1.782 0.727 1.772 1.699 nan 3.486 0.635 0.733 2.006 4.516 1.786 2.337 4.319 2.368 0.509 0.766 0.535 0.431 0.525 0.559 5.269 1566 chr17 71386502 71389786 + 0 NA intron (NM_028887, intron 28 of 47) intron (NM_028887, intron 28 of 47) -46340 NR_028023 100043644 Mm.362377 NR_028023 Gm4566 - ubiquitin specific peptidase 16 pseudogene pseudo 0.902 0.789 0.243 1.948 1.931 0.666 0.992 0.724 nan 3.432 0.664 0.668 1.411 nan 1.556 2.897 1.098 2.376 2.006 1.434 0.916 4.576 1.272 0.697 2.477 979 chr14 21423581 21430339 + 0 NA intron (NM_001243041, intron 10 of 10) (TTTA)n|Simple_repeat|Simple_repeat -72810 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 6.522 0.800 0.554 6.580 6.532 5.348 3.066 7.090 nan 5.601 4.905 2.107 4.956 9.386 4.683 5.976 3.971 6.834 1.268 1.452 1.339 nan 1.299 0.983 5.629 709 chr12 3718328 3720784 + 0 NA intron (NR_027869, intron 10 of 20) intron (NR_027869, intron 10 of 20) -87424 NM_007872 13435 Mm.5001 NM_007872 ENSMUSG00000020661 Dnmt3a MmuIIIA DNA methyltransferase 3A protein-coding 2.696 0.730 0.213 1.138 1.967 1.126 4.720 3.185 2.025 1.829 2.056 2.742 3.222 2.992 5.360 4.015 2.996 3.493 2.144 0.627 0.799 1.538 0.887 0.686 2.871 40 chr1 51561583 51567128 + 0 NA Intergenic Lx7|LINE|L1 -85956 NM_001310549 109019 Mm.196290 NM_028696 ENSMUSG00000026107 Nabp1 4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2 nucleic acid binding protein 1 protein-coding 8.971 1.136 1.016 2.322 4.675 2.149 4.470 4.514 3.479 3.445 5.427 3.785 3.946 4.992 4.173 nan 6.595 nan nan 0.971 0.537 0.441 1.529 0.911 3.589 310 chr10 80755512 80758132 + 0 NA intron (NM_199322, intron 1 of 27) intron (NM_199322, intron 1 of 27) 1616 NM_199322 208266 Mm.152371 NM_199322 ENSMUSG00000061589 Dot1l A630076O07|AW907654|Dot1|KMT4|mDot1 DOT1-like, histone H3 methyltransferase (S. cerevisiae) protein-coding 5.314 12.386 3.614 7.387 2.076 1.253 2.332 3.628 3.048 6.688 3.485 2.027 2.591 4.326 4.891 5.768 2.610 5.008 nan 1.516 1.995 3.307 1.317 1.584 8.530 192 chr1 173847335 173852532 + 0 NA Intergenic Intergenic 30254 NM_001170853 100040462 Mm.463437 NM_001170853 ENSMUSG00000090272 Mndal Gm2785|Ifi212 myeloid nuclear differentiation antigen like protein-coding 2.024 5.965 2.071 1.802 0.754 0.411 0.486 0.667 1.366 1.495 0.850 0.633 0.606 nan 1.053 1.346 1.125 1.243 0.688 1.598 0.783 0.364 0.288 0.251 1.191 699 chr11 120458723 120461096 + 0 NA intron (NM_152807, intron 2 of 5) intron (NM_152807, intron 2 of 5) 1780 NM_152807 67291 Mm.103384 NM_152807 ENSMUSG00000049957 Ccdc137 3110023B02Rik coiled-coil domain containing 137 protein-coding 5.698 12.801 3.431 7.639 5.317 3.978 5.369 4.957 3.972 nan 5.306 2.787 4.707 5.507 6.883 7.959 4.504 7.210 4.243 nan 4.465 7.176 4.388 6.388 10.059 1115 chr15 62113101 62120087 + 0 NA intron (NR_132746, intron 2 of 6) intron (NR_132746, intron 2 of 6) 77337 NR_132746 19296 Mm.4608 NM_011222 ENSMUSG00000097039 Pvt1 Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1 plasmacytoma variant translocation 1 ncRNA 2.586 1.337 0.727 nan 2.001 1.028 5.582 4.943 2.712 nan 1.456 1.933 4.280 4.767 6.298 4.518 3.457 3.250 0.908 1.089 0.641 1.729 0.643 0.362 1.795 960 chr13 98939832 98941833 + 0 NA Intergenic Intergenic -14448 NM_178716 238799 Mm.173286 NM_178716 ENSMUSG00000009470 Tnpo1 AU021749|D13Ertd688e|IPO2|Kpnb2|MIP|MIP1|TRN transportin 1 protein-coding 0.532 0.827 0.744 0.691 0.419 0.410 0.183 0.408 0.692 0.903 0.759 0.801 0.256 0.481 0.685 0.767 nan nan 6.446 4.445 2.652 4.622 6.974 4.008 0.611 818 chr12 86729119 86740658 + 0 NA intron (NM_001195767, intron 1 of 14) intron (NM_001195767, intron 1 of 14) 519 NM_001195767 627607 Mm.341880 NM_001195767 ENSMUSG00000059114 Lrrc74a EG627607|Gm6772|Lrrc74 leucine rich repeat containing 74A protein-coding 11.093 1.304 0.730 5.990 8.062 5.846 6.749 9.515 7.232 7.188 2.640 3.984 9.740 10.747 8.090 nan 11.153 8.064 0.925 1.298 1.247 0.854 0.863 0.786 nan 3529 chr9 96034918 96036140 + 0 NA intron (NM_011916, intron 33 of 41) intron (NM_011916, intron 33 of 41) 80769 NM_001311130 24127 Mm.291179 NM_011916 ENSMUSG00000032410 Xrn1 Dhm2|exo|mXrn1 5'-3' exoribonuclease 1 protein-coding 2.457 1.746 0.808 2.676 3.411 1.395 2.991 2.901 3.132 2.088 2.506 2.124 1.965 5.385 2.657 2.878 1.676 3.187 0.756 0.765 0.578 1.067 0.838 0.254 3.149 2363 chr4 44717868 44726018 + 0 NA Intergenic B1_Mus2|SINE|Alu -11503 NM_008782 18507 Mm.439659 NM_008782 ENSMUSG00000014030 Pax5 BSAP|EBB-1|KLP|Pax-5 paired box 5 protein-coding 0.400 10.167 5.463 0.757 0.187 0.119 0.283 0.261 0.347 0.777 0.239 0.172 0.088 0.223 0.332 0.486 0.470 nan 0.661 0.838 0.730 nan 0.417 0.245 0.551 1038 chr14 99822007 99823144 + 0 NA Intergenic Intergenic 327221 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 4.103 nan 0.116 2.454 3.337 2.249 3.365 5.642 3.422 3.017 5.019 6.149 4.437 3.812 4.937 4.231 2.996 5.221 1.124 0.953 1.061 0.635 1.392 0.664 nan 2908 chr6 85182640 85183928 + 0 NA Intergenic Intergenic -4647 NM_010131 13796 Mm.391473 NM_010131 ENSMUSG00000033726 Emx1 - empty spiracles homeobox 1 protein-coding 1.180 0.678 0.499 1.412 1.346 0.793 2.824 2.793 2.366 1.559 0.228 0.829 1.443 3.719 1.917 3.111 1.163 1.969 nan 0.667 0.518 0.957 0.971 0.595 1.720 2293 chr3 108761111 108763248 + 0 NA intron (NM_177859, intron 5 of 11) intron (NM_177859, intron 5 of 11) 22521 NM_177859 329738 Mm.72322 NM_177859 ENSMUSG00000049565 Aknad1 4921525H12Rik AKNA domain containing 1 protein-coding 3.326 0.965 0.678 3.360 2.393 1.496 3.978 3.391 2.868 3.228 8.114 3.002 5.096 6.340 3.581 5.258 4.008 4.460 1.835 1.473 1.147 2.609 1.047 1.072 5.161 1707 chr19 3318797 3327085 + 0 NA promoter-TSS (NM_013495) promoter-TSS (NM_013495) -360 NM_013495 12894 Mm.18522 NM_013495 ENSMUSG00000024900 Cpt1a C730027G07|CPTI|Cpt1 carnitine palmitoyltransferase 1a, liver protein-coding 7.965 8.348 3.038 9.373 2.819 1.506 7.540 11.187 nan 7.607 3.442 3.337 7.117 7.737 8.646 10.359 8.599 7.852 2.827 2.060 1.716 4.531 2.229 1.638 10.321 3103 chr7 30968012 30969793 + 0 NA intron (NM_001164184, intron 2 of 8) intron (NM_001164184, intron 2 of 8) 4567 NM_001164185 54135 Mm.4067 NM_017405 ENSMUSG00000001247 Lsr ILDR3|Lisch7 lipolysis stimulated lipoprotein receptor protein-coding 4.308 3.434 2.178 3.036 2.876 2.530 3.867 5.383 2.207 3.425 2.113 2.213 3.577 5.175 3.870 3.924 3.155 3.218 2.213 2.335 1.595 1.664 1.591 1.664 3.789 267 chr10 61874533 61879017 + 0 NA intron (NM_001304757, intron 16 of 37) intron (NM_001304757, intron 16 of 37) -92911 NM_207000 404634 Mm.272870 NM_207000 ENSMUSG00000020086 H2afy2 macroH2A2 H2A histone family, member Y2 protein-coding 7.651 0.523 0.293 3.488 4.894 2.656 4.408 6.080 4.744 7.314 1.537 2.654 4.750 7.559 4.968 6.251 4.837 5.555 nan 0.763 0.942 0.662 0.714 0.679 7.830 543 chr11 94929771 94943221 + 0 NA intron (NM_007742, intron 1 of 50) intron (NM_007742, intron 1 of 50) 272 NM_007742 12842 Mm.277735 NM_007742 ENSMUSG00000001506 Col1a1 Col1a-1|Cola-1|Cola1|Mov-13|Mov13 collagen, type I, alpha 1 protein-coding 5.586 nan 0.428 6.778 3.573 1.900 6.477 6.904 4.003 4.877 5.129 4.592 5.837 7.727 6.430 7.797 3.938 7.696 3.524 nan 1.456 4.892 nan nan 7.992 3088 chr7 28389580 28401704 + 0 NA exon (NM_019458, exon 5 of 14) exon (NM_019458, exon 5 of 14) 2646 NM_019458 54624 Mm.7916 NM_019458 ENSMUSG00000003437 Paf1 5730511K23Rik|AA675045 Paf1, RNA polymerase II complex component protein-coding 2.773 1.672 0.638 3.223 3.344 1.559 2.258 4.074 2.042 2.394 2.384 1.220 1.157 1.711 1.882 2.267 1.512 3.275 4.555 3.430 2.819 5.959 4.399 3.660 3.137 1892 chr2 49305649 49308173 + 0 NA intron (NM_029924, intron 15 of 16) L1VL2|LINE|L1 61011 NM_001290656 109241 Mm.440436 NM_029924 ENSMUSG00000036792 Mbd5 9430004D19Rik|AA536666|AI426407|C030040A15Rik|Gm1630|OTTMUSG00000012483 methyl-CpG binding domain protein 5 protein-coding 8.263 12.715 3.581 10.547 4.569 3.350 7.309 9.598 5.975 15.016 6.325 4.032 9.628 9.078 9.393 10.842 6.598 9.078 5.879 1.445 4.401 6.360 4.498 8.361 16.815 1777 chr19 40904926 40914641 + 0 NA intron (NM_028319, intron 3 of 4) MTA_Mm|LTR|ERVL-MaLR 15078 NM_028319 72672 Mm.313523 NM_028319 ENSMUSG00000049164 Zfp518a 2810401C22Rik|6330417C12Rik|AI426493|Zfp518|Znf518|Znf518a|mKIAA0335 zinc finger protein 518A protein-coding 5.620 2.643 0.841 5.910 4.490 2.249 3.922 nan 5.234 8.235 1.931 1.008 6.216 5.856 4.458 7.457 6.862 7.713 0.922 0.970 0.808 1.538 0.890 0.895 8.994 2044 chr2 160451298 160455214 + 0 NA Intergenic Intergenic -86191 NM_010658 16658 Mm.330745 NM_010658 ENSMUSG00000074622 Mafb Kreisler|Krml|Krml1|kr v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) protein-coding nan 9.978 8.213 1.063 1.626 1.193 1.049 1.676 nan nan 1.314 0.548 nan nan 1.023 1.321 1.468 nan nan 1.067 1.126 0.588 0.606 0.691 nan 354 chr10 126625657 126626816 + 0 NA Intergenic Intergenic 84155 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 4.391 4.475 0.436 4.918 2.238 1.301 3.944 3.135 2.042 3.790 1.307 1.115 2.463 3.101 4.344 3.892 2.442 3.092 3.537 2.180 2.088 3.268 nan 3.140 7.847 1437 chr17 26571344 26581295 + 0 NA intron (NM_026170, intron 1 of 9) intron (NM_026170, intron 1 of 9) 14807 NM_026170 67458 Mm.30496 NM_026170 ENSMUSG00000001576 Ergic1 1200007D18Rik|maa-136 endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1 protein-coding 2.305 1.148 0.574 1.999 1.063 0.698 1.916 1.687 1.145 1.597 0.812 0.798 1.412 1.749 1.984 2.533 2.158 1.563 4.243 2.079 1.783 3.581 1.497 1.268 2.919 2813 chr5 151910384 151914172 + 0 NA Intergenic Intergenic -261070 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 3.740 5.972 3.865 nan 4.806 2.209 2.621 3.220 4.509 4.478 1.947 1.504 3.478 4.415 3.740 nan 2.582 4.333 0.813 1.057 0.669 1.515 0.906 0.325 3.319 1064 chr15 10688106 10692078 + 0 NA intron (NM_001166408, intron 2 of 17) intron (NM_001166408, intron 2 of 17) 23448 NM_030690 75646 Mm.212395 NM_030690 ENSMUSG00000022246 Rai14 1700008J19Rik|1700020L11Rik|Ankycorbin|Norpeg|mKIAA1334 retinoic acid induced 14 protein-coding 7.054 0.692 0.403 4.556 8.533 6.351 11.481 11.292 7.926 8.970 4.232 4.437 12.973 14.611 10.603 9.789 8.863 9.218 0.616 0.537 0.306 0.520 0.284 0.344 7.422 2724 chr5 114318077 114326957 + 0 NA intron (NM_001164573, intron 4 of 30) B2_Mm2|SINE|B2 7576 NM_001164573 231646 Mm.238285 NM_146163 ENSMUSG00000066952 Myo1h 4631401O15Rik myosin 1H protein-coding 2.810 1.844 0.484 3.771 1.611 0.861 1.606 2.256 2.242 2.487 2.092 1.480 1.508 2.438 2.795 2.860 1.255 2.957 5.885 nan 1.693 5.428 nan 1.984 3.442 2517 chr4 134316898 134324340 + 0 NA intron (NM_001039048, intron 3 of 8) B2_Mm1t|SINE|B2 5499 NM_001039048 433766 Mm.331961 NM_001039048 ENSMUSG00000028834 Trim63 MuRF1|RF1|Rnf28 tripartite motif-containing 63 protein-coding 6.308 4.204 1.507 6.670 3.984 2.322 7.155 7.755 4.599 6.233 6.426 3.999 5.378 7.651 5.667 6.951 3.164 5.430 2.903 2.085 2.240 3.257 nan 2.119 7.799 757 chr12 57525842 57532732 + 0 NA Intergenic Intergenic 16834 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 5.461 nan 0.533 4.372 4.610 2.331 6.033 2.361 6.277 7.551 1.981 1.437 8.173 9.653 nan 8.113 7.205 9.798 1.020 1.270 0.763 0.710 0.855 0.480 5.807 2577 chr4 150530833 150537326 + 0 NA intron (NM_001085492, intron 10 of 22) B1_Mus2|SINE|Alu 118095 NM_173774 242773 Mm.29280 NM_173774 ENSMUSG00000039838 Slc45a1 C230078B22|Dnb5 solute carrier family 45, member 1 protein-coding 0.203 nan 0.255 0.465 0.103 0.038 0.246 0.237 0.203 0.247 0.175 0.077 0.094 0.266 0.181 0.428 0.230 0.414 2.477 0.542 0.396 5.117 1.045 0.675 0.630 9 chr1 10224822 10227516 + 0 NA intron (NM_001102430, intron 1 of 37) Lx3_Mus|LINE|L1 6501 NM_001102430 211673 Mm.229141 NM_001102430 ENSMUSG00000067851 Arfgef1 ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200 ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited) protein-coding 4.630 0.776 0.087 1.224 1.205 0.315 3.171 3.412 2.155 1.816 1.258 1.509 4.273 3.320 2.994 4.239 4.089 3.391 1.795 1.534 0.390 1.196 2.186 0.794 2.017 3359 chr8 115508013 115512305 + 0 NA Intergenic Intergenic 196735 NM_001025577 17132 Mm.275549 NM_001025577 ENSMUSG00000055435 Maf 2810401A20Rik|A230108G15Rik|AW047063|c-maf avian musculoaponeurotic fibrosarcoma oncogene homolog protein-coding 0.414 0.345 0.026 0.265 0.194 0.112 0.423 0.768 0.337 0.385 0.231 0.121 0.129 0.217 0.165 nan 0.664 0.322 3.953 5.086 3.663 4.281 4.070 3.306 0.241 2734 chr5 121900257 121906451 + 0 NA intron (NM_001312908, intron 4 of 22) intron (NM_001312908, intron 4 of 22) 54326 NM_175474 231717 Mm.12654 NM_175474 ENSMUSG00000044134 Fam109a A230106M15Rik|AU017694|IPIP27A|Ses1 family with sequence similarity 109, member A protein-coding 7.585 7.587 3.056 7.247 6.160 4.217 7.038 6.959 4.593 6.607 8.400 3.413 5.849 9.563 7.570 6.966 5.412 7.352 nan nan 2.133 3.383 nan 2.143 8.927 1217 chr15 100462362 100468157 + 0 NA Intergenic MTE2a|LTR|ERVL-MaLR -3775 NM_134093 68614 Mm.275272 NM_134093 ENSMUSG00000037353 Letmd1 1110019O13Rik|AI593524|BB130465|BB235638|HCCR-2|HCCR1|MCC-32|Mccr LETM1 domain containing 1 protein-coding 5.677 12.790 5.712 6.491 3.385 2.031 6.529 12.849 5.048 6.935 3.762 3.770 7.310 6.695 7.375 6.300 6.793 6.674 2.423 1.981 2.031 3.512 1.892 1.562 9.566 3240 chr8 26148583 26150708 + 0 NA Intergenic ID_B1|SINE|B4 -8524 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 3.694 3.137 1.119 3.658 1.669 0.925 0.690 2.054 3.337 4.981 3.918 2.108 1.744 2.745 4.002 3.663 1.329 5.575 0.662 0.912 0.520 nan 0.715 0.375 6.667 1740 chr19 8926024 8927542 + 0 NA TTS (NM_009073) TTS (NM_009073) 2573 NM_009073 19881 Mm.426094 NM_009073 ENSMUSG00000071648 Rom1 M101156|Rgsc1156|Rom-1|Rosp1|Tspan23 rod outer segment membrane protein 1 protein-coding 1.655 1.250 0.743 3.692 1.036 0.830 3.189 4.278 nan 2.274 0.905 0.639 2.175 4.144 3.962 5.051 2.901 3.688 2.873 1.839 2.153 7.819 4.114 2.830 5.898 1600 chr18 11044610 11059409 + 0 NA promoter-TSS (NM_010258) promoter-TSS (NM_010258) -501 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding nan 1.390 0.474 5.464 3.864 2.079 10.683 7.561 5.297 7.767 0.668 1.398 8.536 10.377 8.805 9.038 8.080 9.289 1.419 1.075 0.899 2.258 0.523 0.572 10.838 3288 chr8 75071637 75073427 + 0 NA Intergenic Intergenic -21086 NM_010442 15368 Mm.276389 NM_010442 ENSMUSG00000005413 Hmox1 D8Wsu38e|HO-1|HO1|Hemox|Hmox|Hsp32 heme oxygenase 1 protein-coding 6.976 11.112 2.288 10.773 3.983 3.097 6.595 8.808 nan 11.820 5.726 2.740 7.375 7.469 8.878 11.995 6.256 8.139 3.259 1.609 4.333 7.590 2.581 4.032 17.278 603 chr11 100791614 100793800 + 0 NA intron (NM_001113563, intron 12 of 18) RMER20B|LTR|ERVK -21750 NM_031871 80860 Mm.37308 NM_031871 ENSMUSG00000017747 Ghdc D11Lgp1e GH3 domain containing protein-coding 4.908 7.465 4.845 3.176 5.660 2.784 3.145 3.961 3.452 3.792 3.308 2.460 2.764 4.761 3.477 4.492 4.437 3.927 5.688 4.988 3.340 4.204 5.944 4.291 2.133 2750 chr5 124107517 124108421 + 0 NA Intergenic IAPEz-int|LTR|ERVK -4331 NM_001347478 66627 Mm.7050 NM_025671 ENSMUSG00000023707 Ogfod2 1300006G11Rik|5730405M13Rik|AU041636|AW552395 2-oxoglutarate and iron-dependent oxygenase domain containing 2 protein-coding 2.285 0.757 0.649 3.320 2.266 0.794 2.235 1.839 2.250 1.888 1.090 1.182 1.892 3.585 2.746 3.011 3.049 2.194 nan 1.162 0.294 0.901 nan 0.190 2.617 2527 chr4 137053070 137055195 + 0 NA Intergenic Intergenic -5437 NM_198248 230848 Mm.31068 NM_198248 ENSMUSG00000060862 Zbtb40 BC059177|C230087D24|Gm571|mKIAA0478 zinc finger and BTB domain containing 40 protein-coding 4.048 2.279 0.425 3.023 1.871 1.329 3.882 3.385 nan 2.678 3.447 2.513 2.601 2.832 3.481 3.276 1.735 2.712 0.788 0.942 0.736 1.353 nan 0.541 4.057 90 chr1 90965183 90969410 + 0 NA intron (NM_008998, intron 1 of 5) intron (NM_008998, intron 1 of 5) 371 NM_001159725 19329 Mm.279780 NM_008998 ENSMUSG00000026304 Rab17 AW413472 RAB17, member RAS oncogene family protein-coding 7.568 2.699 0.528 8.302 3.003 1.777 7.679 7.141 4.062 7.357 4.766 3.913 7.586 7.223 7.133 10.488 5.840 7.863 6.252 3.108 3.183 nan 4.116 4.394 8.861 3514 chr9 69286109 69292449 + 0 NA promoter-TSS (NM_001289916) promoter-TSS (NM_001289916) -562 NM_001289916 19883 Mm.378450 NM_013646 ENSMUSG00000032238 Rora 9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26 RAR-related orphan receptor alpha protein-coding 6.210 1.766 0.974 3.317 4.116 2.313 4.074 5.350 4.027 4.248 4.839 3.201 4.414 5.693 5.140 5.861 4.369 5.061 nan 1.460 1.238 1.554 1.772 1.411 5.037 1850 chr2 32354380 32360273 + 0 NA Intergenic Intergenic -3997 NM_010065 13429 Mm.44736 NM_010065 ENSMUSG00000026825 Dnm1 AI838169|Dnm|Ftfl|mKIAA4093 dynamin 1 protein-coding 3.757 1.637 1.090 2.907 3.279 2.727 7.319 7.938 nan 4.369 6.552 6.214 7.969 6.738 4.009 4.727 5.690 3.824 1.196 1.386 1.769 0.720 0.783 1.004 3.712 565 chr11 96265888 96270107 + 0 NA Intergenic Intergenic 2833 NR_029721 387191 NR_029721 ENSMUSG00000065546 Mir196a-1 Mirn196|Mirn196a-1|miR-196|mir-196a-1 microRNA 196a-1 ncRNA 1.699 nan 0.652 1.848 0.671 0.322 0.858 0.518 0.813 0.960 0.654 0.428 0.578 0.788 0.652 0.919 nan 1.072 7.770 nan 1.258 6.353 6.116 3.299 1.105 1346 chr16 49378460 49382023 + 0 NA Intergenic Intergenic -319053 NM_028680 73916 Mm.241276 NM_028680 ENSMUSG00000032965 Ift57 4833420A15Rik|Esrrbl1|Hippi|MHS4R2 intraflagellar transport 57 protein-coding 0.751 0.345 0.501 0.209 0.146 0.205 1.117 nan 0.357 0.293 0.265 0.028 0.355 1.404 0.877 0.549 0.474 0.422 2.759 2.370 1.402 4.510 2.304 1.848 0.340 3102 chr7 30906719 30907688 + 0 NA intron (NM_010758, intron 7 of 12) B3|SINE|B2 7118 NM_001346089 17136 Mm.241355 NM_010758 ENSMUSG00000036634 Mag Gma|siglec-4a myelin-associated glycoprotein protein-coding 4.549 12.596 4.187 5.326 3.100 1.806 2.365 2.266 1.599 5.013 2.673 1.677 2.360 3.474 3.772 4.310 3.108 3.514 6.597 6.093 4.408 6.571 9.124 5.827 6.570 1964 chr2 119964453 119969143 + 0 NA 3' UTR (NM_013720, exon 24 of 24) 3' UTR (NM_013720, exon 24 of 24) -5901 NM_011941 26390 Mm.330501 NM_011941 ENSMUSG00000033902 Mapkbp1 2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596 mitogen-activated protein kinase binding protein 1 protein-coding 4.417 4.141 2.016 4.593 3.357 1.640 2.193 2.531 3.384 3.084 2.672 2.042 3.122 3.612 3.776 nan 2.960 5.430 1.859 1.070 1.104 1.802 0.888 0.610 3.517 3396 chr8 123407201 123410646 + 0 NA 3' UTR (NM_008559, exon 1 of 1) 3' UTR (NM_008559, exon 1 of 1) 1841 NM_008559 17199 Mm.324942 NM_008559 ENSMUSG00000074037 Mc1r Mcr1|Mshra|Tob|e melanocortin 1 receptor protein-coding 2.750 nan 0.850 7.656 1.654 1.177 nan nan 1.908 1.846 0.835 0.671 0.666 1.422 nan 2.245 1.242 4.141 nan 0.857 0.820 nan 0.356 nan nan 3247 chr8 27086530 27090410 + 0 NA intron (NM_054044, intron 1 of 18) intron (NM_054044, intron 1 of 18) 2629 NM_054044 78560 Mm.87046 NM_054044 ENSMUSG00000031486 Adgra2 8430414O08Rik|9530074E10Rik|Gpr124|Tem5|mKIAA1531 adhesion G protein-coupled receptor A2 protein-coding 3.187 nan 1.016 3.442 1.569 0.597 3.267 3.708 1.649 3.107 1.351 0.854 2.776 5.905 7.635 5.269 3.938 4.458 1.164 0.895 0.327 nan 0.605 0.731 5.779 850 chr13 18127696 18136097 + 0 NA intron (NM_175006, intron 6 of 7) intron (NM_175006, intron 6 of 7) -31694 NR_046032 73992 Mm.159110 NR_046032 4930448F12Rik - RIKEN cDNA 4930448F12 gene ncRNA 4.220 0.514 0.547 2.890 6.621 4.299 3.422 2.012 4.580 6.782 0.660 0.629 4.414 6.084 2.986 4.078 nan 5.190 0.684 0.878 0.584 0.417 0.884 0.590 nan 2818 chr5 151984767 151986882 + 0 NA Intergenic Intergenic -334616 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 2.810 0.879 0.366 3.980 3.212 1.180 1.099 1.170 3.447 2.403 1.122 0.860 1.475 2.837 1.744 2.365 1.549 3.382 1.315 0.766 0.581 0.839 1.069 0.861 1.673 2424 chr4 107736565 107738278 + 0 NA Intergenic Intergenic -53259 NM_019872 56296 Mm.141324 NM_019872 ENSMUSG00000028610 Dmrtb1 Dmrt6|Prp13 DMRT-like family B with proline-rich C-terminal, 1 protein-coding 4.027 2.155 1.771 2.327 5.343 3.274 1.674 4.125 2.895 3.955 0.667 1.158 2.147 3.537 3.437 4.233 4.636 nan 1.082 1.825 1.061 0.697 0.986 1.094 3.816 3471 chr9 36981710 36987930 + 0 NA intron (NM_148950, intron 2 of 11) intron (NM_148950, intron 2 of 11) 141161 NM_183171 235180 Mm.5264 NM_183171 ENSMUSG00000032118 Fez1 UNC-76|UNC76 fasciculation and elongation protein zeta 1 (zygin I) protein-coding 0.508 0.699 0.445 0.637 0.155 0.099 0.390 0.364 0.274 0.455 0.259 0.251 0.150 0.329 0.445 0.591 nan 0.712 nan 4.049 2.172 6.845 3.451 2.228 0.641 891 chr13 44824698 44830132 + 0 NA intron (NM_001205044, intron 3 of 18) intron (NM_001205044, intron 3 of 18) 96144 NM_001205043 16468 Mm.25059 NM_021878 ENSMUSG00000038518 Jarid2 Jmj|jumonji jumonji, AT rich interactive domain 2 protein-coding 9.364 7.848 2.754 7.850 6.551 4.872 8.863 8.650 6.355 12.374 7.005 4.890 7.690 12.205 7.998 9.075 7.179 8.327 5.387 nan 4.770 5.621 5.096 6.141 12.284 1004 chr14 54727957 54729003 + 0 NA intron (NM_016972, intron 8 of 10) B3|SINE|B2 -16306 NM_207131 110794 Mm.236223 NM_207131 ENSMUSG00000052435 Cebpe C/EBPe|CRP1|Gm294 CCAAT/enhancer binding protein (C/EBP), epsilon protein-coding 2.779 nan 0.247 1.265 1.171 0.297 3.254 2.374 2.037 1.763 2.275 1.605 1.988 3.054 2.563 2.728 1.626 2.912 0.821 0.581 0.733 0.181 0.274 2.896 2106 chr2 173071660 173094566 + 0 NA Intergenic Intergenic 36412 NM_001081387 664799 Mm.389396 NM_001081387 ENSMUSG00000070495 Ctcfl Boris|OTTMUSG00000016680 CCCTC-binding factor (zinc finger protein)-like protein-coding 3.184 1.955 0.637 3.122 2.540 1.209 6.511 8.944 4.206 4.741 6.258 3.294 6.304 5.672 5.392 7.849 4.989 nan 1.966 0.857 0.610 1.563 1.116 0.758 7.831 2696 chr5 103793428 103797752 + 0 NA intron (NM_001080798, intron 3 of 19) intron (NM_001080798, intron 3 of 19) 41017 NM_001080798 17355 Mm.6949 NM_133919 ENSMUSG00000029313 Aff1 9630032B01Rik|AW319193|Af4|Mllt2h|Rob AF4/FMR2 family, member 1 protein-coding 5.226 1.172 0.707 3.096 3.429 2.309 5.312 3.323 4.754 6.164 7.606 4.684 4.989 8.997 5.619 4.571 3.843 4.307 nan 1.011 0.772 0.661 1.186 0.966 5.234 1360 chr16 85168966 85171229 + 0 NA intron (NM_007471, intron 1 of 15) intron (NM_007471, intron 1 of 15) 3610 NM_001198825 11820 Mm.277585 NM_007471 ENSMUSG00000022892 App Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp amyloid beta (A4) precursor protein protein-coding 4.322 nan 0.659 2.278 2.185 0.866 3.879 5.621 3.020 2.593 2.039 2.114 2.857 3.803 2.963 3.295 3.011 4.668 2.982 2.316 1.191 nan 2.293 1.682 3.395 233 chr10 19567305 19572502 + 0 NA Intergenic Intergenic -22046 NM_010511 15979 Mm.549 NM_010511 ENSMUSG00000020009 Ifngr1 CD119|IFN-gammaR|Ifgr|Ifngr|Nktar interferon gamma receptor 1 protein-coding 0.366 1.638 0.443 0.590 0.282 0.156 0.407 0.184 nan 0.500 0.307 0.157 0.250 nan 0.307 0.537 0.440 0.428 11.485 5.445 3.765 9.185 8.440 7.528 nan 1013 chr14 55609940 55616861 + 0 NA Intergenic Intergenic -4766 NM_020002 56739 Mm.23149 NM_020002 ENSMUSG00000002324 Rec8 Rec8L1|mrec REC8 meiotic recombination protein protein-coding 2.247 nan 0.341 2.742 1.811 0.727 3.455 nan 2.625 4.013 0.291 0.778 4.351 7.689 5.440 7.517 3.442 4.543 0.940 0.829 0.434 0.776 1.011 0.672 8.964 1490 chr17 34810565 34815052 + 0 NA intron (NM_011413, intron 31 of 40) C-rich|Low_complexity|Low_complexity -8382 NM_009995 13079 Mm.440407 NM_009995 ENSMUSG00000024365 Cyp21a1 21-OH|21OH|21OHA|21OHB|CYP21OH-A|Cyp21|Cyp21-ps1|Cyp21B|Cyp21a2-ps|Cyp21a2ps|Oh21-1|Oh21-2 cytochrome P450, family 21, subfamily a, polypeptide 1 protein-coding nan 0.645 0.408 2.527 6.590 4.331 8.578 4.187 1.777 3.135 0.536 0.637 4.581 9.154 6.018 7.404 7.237 4.838 0.594 0.407 0.374 0.443 0.551 0.364 8.581 2198 chr3 84099764 84101226 + 0 NA intron (NM_029797, intron 6 of 7) intron (NM_029797, intron 6 of 7) 55291 NM_029797 76915 Mm.274829 NM_029797 ENSMUSG00000033752 Mnd1 2610034E18Rik|AI591601|Gaj meiotic nuclear divisions 1 protein-coding 1.295 0.829 0.433 0.970 1.395 0.760 1.573 1.517 1.388 1.044 0.521 0.742 1.986 3.673 2.042 1.732 1.767 2.087 nan 0.814 0.810 1.272 1.231 1.256 1.599 1693 chr18 80819824 80822182 + 0 NA intron (NM_001201569, intron 11 of 29) intron (NM_001201569, intron 11 of 29) -107932 NM_001164109 18018 Mm.329560 NM_016791 ENSMUSG00000033016 Nfatc1 2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 protein-coding 7.173 nan 2.851 3.271 6.429 4.343 11.564 9.851 4.836 8.006 1.945 1.609 9.424 10.999 4.409 9.519 9.428 5.392 0.915 nan 2.079 1.233 0.914 0.936 6.725 316 chr10 81089680 81090782 + 0 NA intron (NM_145365, intron 5 of 11) intron (NM_145365, intron 5 of 11) 8641 NM_145365 208677 Mm.294693 NM_145365 ENSMUSG00000035041 Creb3l3 BC010786|CREB-H|D10Bur1e cAMP responsive element binding protein 3-like 3 protein-coding 15.280 17.906 6.239 13.162 9.461 5.250 11.115 10.793 7.103 10.592 10.402 5.079 9.167 12.533 12.444 11.725 10.136 10.906 7.608 6.998 5.970 9.088 5.831 5.015 18.581 2947 chr6 97776256 97777614 + 0 NA Intergenic Intergenic -30123 NM_001113198 17342 Mm.333284 NM_008601 ENSMUSG00000035158 Mitf BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit microphthalmia-associated transcription factor protein-coding 5.018 1.141 0.452 2.335 2.484 1.098 2.306 2.251 2.334 2.760 1.629 0.572 1.502 3.881 5.047 7.141 2.093 4.389 nan nan 0.406 1.220 0.536 0.029 2.776 1806 chr19 55867073 55871168 + 0 NA intron (NR_138565, intron 4 of 15) intron (NR_138565, intron 4 of 15) -26201 NM_001142924 21416 Mm.139815 NM_009333 ENSMUSG00000024985 Tcf7l2 TCF4B|TCF4E|Tcf-4|Tcf4 transcription factor 7 like 2, T cell specific, HMG box protein-coding 3.199 nan 1.381 2.170 2.511 1.091 4.428 5.601 2.720 2.355 1.559 1.266 3.134 4.919 3.286 4.581 3.302 4.054 0.439 0.940 0.467 0.743 0.809 0.487 5.094 2288 chr3 108334344 108339905 + 0 NA intron (NM_001271599, intron 8 of 20) L2a|LINE|L2 -27787 NM_026831 68753 Mm.75201 NM_026831 ENSMUSG00000068745 Mybphl 1110037P11Rik myosin binding protein H-like protein-coding 5.789 0.812 0.481 3.188 1.809 0.986 8.103 7.561 2.835 3.197 2.186 2.913 8.451 6.729 nan 5.687 7.625 3.377 3.532 3.090 1.784 4.360 5.248 4.126 6.260 1738 chr19 8848699 8849636 + 0 NA TTS (NM_008144) TTS (NM_008144) -1618 NM_001013019 68852 Mm.265792 NM_001013019 ENSMUSG00000071656 Lrrn4cl 1110067I12Rik LRRN4 C-terminal like protein-coding 14.431 31.842 7.574 25.352 6.897 5.010 14.973 16.779 9.805 29.261 15.698 6.953 13.119 17.196 18.438 19.398 10.565 19.903 5.121 2.630 6.386 13.386 4.212 8.002 33.342 2025 chr2 156114626 156116317 + 0 NA Intergenic IAPEz-int|LTR|ERVK -3506 NM_170588 266692 Mm.27660 NM_170588 ENSMUSG00000074643 Cpne1 1810028N16Rik|mKIAA4108 copine I protein-coding 4.213 0.934 0.230 3.528 1.849 1.468 4.001 2.161 nan 2.682 0.858 1.010 4.547 3.222 3.151 3.217 2.239 4.309 nan 0.723 0.845 0.668 0.815 0.232 3.515 1370 chr16 92641546 92642661 + 0 NA intron (NM_001111022, intron 5 of 6) intron (NM_001111022, intron 5 of 6) 55226 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 3.786 1.956 0.839 3.034 2.726 0.639 3.129 4.507 2.407 3.448 3.144 2.132 5.056 4.583 4.050 5.268 2.640 3.728 1.179 0.976 0.327 nan 0.763 0.627 5.138 2954 chr6 99032974 99036597 + 0 NA intron (NM_001347345, intron 6 of 19) intron (NM_001347345, intron 6 of 19) -6487 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 2.489 1.202 1.216 1.940 3.474 2.223 3.500 5.095 2.554 3.113 3.976 2.858 3.180 5.204 4.289 5.637 4.392 3.820 nan nan 1.129 2.529 0.821 0.794 3.052 11 chr1 13256621 13258523 + 0 NA intron (NM_001302702, intron 2 of 21) intron (NM_001302702, intron 2 of 21) 114857 NM_001302702 17978 Mm.2537 NM_008678 ENSMUSG00000005886 Ncoa2 D1Ertd433e|GRIP-1|Grip1|KAT13C|NCoA-2|SRC-2|TIF2|bHLHe75 nuclear receptor coactivator 2 protein-coding 5.204 5.304 2.474 3.537 2.284 0.813 1.986 1.691 2.291 2.820 1.133 1.341 2.320 3.360 2.274 3.978 3.683 3.077 1.826 1.776 1.235 1.967 1.221 0.850 2.296 2649 chr5 34036883 34040332 + 0 NA intron (NM_181857, intron 18 of 24) L1VL2|LINE|L1 42623 NM_001001985 269642 Mm.274610 NM_001001985 ENSMUSG00000048142 Nat8l 1110038O08Rik|Shati N-acetyltransferase 8-like protein-coding 6.547 3.837 1.037 8.728 2.085 1.395 10.389 5.701 5.072 9.198 3.126 2.630 9.722 7.999 nan 13.233 6.254 nan 0.946 0.457 0.895 1.577 0.733 0.887 15.982 511 chr11 82765179 82767097 + 0 NA 3' UTR (NM_025884, exon 1 of 1) 3' UTR (NM_025884, exon 1 of 1) 1793 NM_025884 66983 Mm.29622 NM_025884 ENSMUSG00000046010 Zfp830 2410003C20Rik|AV301118|AW048207|Ccdc16|Omcg1|Znf830 zinc finger protein 830 protein-coding 5.583 6.306 2.847 6.384 3.200 1.614 nan 1.469 3.408 3.379 1.717 0.993 1.927 nan nan 3.203 1.806 nan 0.619 1.671 nan 0.825 0.595 0.621 4.718 842 chr13 5839219 5845887 + 0 NA Intergenic Intergenic 15539 NR_045891 71867 Mm.179181 NR_045891 ENSMUSG00000100625 1700016G22Rik - RIKEN cDNA 1700016G22 gene ncRNA 6.860 2.202 1.214 7.521 7.786 4.319 3.520 6.700 7.177 5.758 7.212 5.468 5.324 7.918 5.449 4.846 2.513 9.343 1.707 0.956 0.619 1.739 1.192 0.832 3.955 2367 chr4 53808868 53811779 + 0 NA Intergenic Intergenic -15722 NM_028053 52076 Mm.27184 NM_028053 ENSMUSG00000028420 Tmem38b 1600017F22Rik|AA437809|AV051057|D4Ertd89e|TRIC-B|mg33b transmembrane protein 38B protein-coding 1.249 10.987 7.199 1.041 1.245 0.932 nan 1.062 1.266 0.911 0.617 0.497 0.773 1.084 1.199 1.056 0.738 1.540 nan 0.628 0.618 0.509 0.486 0.548 1.091 899 chr13 45792893 45795596 + 0 NA intron (NM_001199304, intron 4 of 6) intron (NM_001199304, intron 4 of 6) 170747 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 4.999 1.060 0.770 nan 5.495 2.674 5.586 4.666 2.563 3.448 1.104 0.948 4.466 6.623 4.752 5.600 3.728 4.487 1.936 nan 1.001 0.676 1.738 1.381 6.057 3443 chr9 21960228 21962698 + 0 NA exon (NM_010149, exon 4 of 8) exon (NM_010149, exon 4 of 8) 2113 NM_010149 13857 Mm.2653 NM_010149 ENSMUSG00000006235 Epor - erythropoietin receptor protein-coding 3.725 6.479 2.608 6.400 2.525 1.309 3.249 4.248 3.352 5.119 3.572 3.310 3.429 4.696 4.459 5.925 3.145 5.203 2.482 1.573 1.837 3.440 2.345 2.592 9.054 3259 chr8 35004672 35021110 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR -47201 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 7.749 1.924 1.296 4.690 7.408 5.206 7.096 9.108 5.099 5.341 3.895 2.560 8.266 9.587 7.601 7.444 6.983 6.859 1.609 1.186 1.005 1.021 2.408 2.297 7.570 2000 chr2 150735341 150736746 + 0 NA Intergenic Intergenic -13038 NM_172117 12497 Mm.275524 NM_172117 ENSMUSG00000033068 Entpd6 2700026H11Rik|Cd39l2|NTPDase-6 ectonucleoside triphosphate diphosphohydrolase 6 protein-coding 5.997 5.705 3.369 3.453 3.520 1.574 3.885 6.536 2.912 3.471 3.110 3.365 4.934 5.350 3.698 4.557 3.805 3.471 nan 2.782 3.931 3.387 2.799 3.764 4.735 3340 chr8 106929311 106931291 + 0 NA Intergenic RLTR25A|LTR|ERVK -5449 NM_009229 20650 Mm.30228 NM_009229 ENSMUSG00000041308 Sntb2 Snt2 syntrophin, basic 2 protein-coding 3.353 0.776 0.491 1.958 2.773 1.914 2.254 2.102 1.856 1.430 0.409 0.336 2.645 4.346 2.384 3.757 2.422 2.827 0.604 0.653 0.703 nan 0.467 0.831 3.025 3573 chrX 71557814 71559418 + 0 NA intron (NM_001293623, intron 3 of 4) intron (NM_001293623, intron 3 of 4) 2699 NM_001293625 15354 Mm.336087 NM_008253 ENSMUSG00000015217 Hmgb3 Hmg2a|Hmg4 high mobility group box 3 protein-coding 4.547 6.010 2.714 6.436 5.110 3.561 3.906 5.365 4.121 6.085 3.547 3.023 3.734 5.023 5.414 6.249 3.034 5.220 3.286 2.218 3.365 4.199 2.841 3.107 7.261 2437 chr4 117899791 117910630 + 0 NA exon (NM_146152, exon 4 of 20) exon (NM_146152, exon 4 of 20) 9789 NM_146152 230673 Mm.287810 NM_146152 ENSMUSG00000033365 Ipo13 Imp13|Kap13|Ranbp13 importin 13 protein-coding 2.948 0.565 0.324 2.722 3.651 1.750 3.999 3.417 2.884 3.876 2.131 0.956 3.515 6.490 3.964 4.496 1.616 4.780 0.860 0.842 0.598 1.035 0.766 0.464 5.073 2531 chr4 140502192 140504072 + 0 NA Intergenic Intergenic 145624 NM_001112723 72754 Mm.29329 NM_172415 ENSMUSG00000040964 Arhgef10l 2810441C07Rik Rho guanine nucleotide exchange factor (GEF) 10-like protein-coding 3.903 9.698 4.328 2.663 2.701 1.174 3.395 2.884 nan 2.593 3.054 2.570 2.917 3.477 2.471 1.853 1.611 nan 1.319 0.552 1.051 1.463 nan 0.969 3.786 3131 chr7 73510085 73512729 + 0 NA intron (NM_001081345, intron 5 of 38) intron (NM_001081345, intron 5 of 38) 30339 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 5.675 1.843 1.197 nan 6.010 4.147 7.889 3.570 4.233 2.982 1.771 1.158 8.507 6.426 4.369 nan 4.312 5.622 0.939 1.258 1.342 0.510 0.891 0.564 nan 2689 chr5 100843453 100845181 + 0 NA Intergenic Intergenic -1912 NM_172715 231510 Mm.271911 NM_172715 ENSMUSG00000029314 Agpat9 1-AGPAT|1-AGPAT 9|4933407I02Rik|4933408F15|A230097K15Rik|GPAT-3|Gpat3|mGPAT3 1-acylglycerol-3-phosphate O-acyltransferase 9 protein-coding 7.135 5.641 1.238 6.957 3.449 1.620 7.978 7.312 5.333 7.429 6.635 4.742 6.887 7.968 9.409 8.853 6.112 8.402 5.402 2.215 1.636 4.405 3.374 2.550 7.144 199 chr1 179383212 179384440 + 0 NA intron (NM_027188, intron 5 of 11) intron (NM_027188, intron 5 of 11) 134177 NM_027188 69726 Mm.222338 NM_027188 ENSMUSG00000055067 Smyd3 2410008A19Rik|Zmynd1 SET and MYND domain containing 3 protein-coding 2.601 0.754 0.227 1.499 1.588 0.561 4.346 4.106 3.597 2.662 1.745 1.753 5.464 4.331 3.428 4.800 2.220 4.252 2.127 0.859 0.661 6.543 0.640 0.226 1.232 2410 chr4 97516913 97522809 + 0 NA Intergenic B4|SINE|B4 -62082 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 3.504 nan 0.594 2.724 2.484 1.299 3.292 3.802 4.211 4.482 1.101 1.466 5.012 4.217 nan 4.463 3.233 5.559 0.848 0.500 0.583 nan 0.474 0.287 2.615 1979 chr2 131000650 131006430 + 0 NA intron (NM_009730, intron 23 of 28) B3|SINE|B2 36858 NR_105969 102465606 NR_105969 ENSMUSG00000098686 Mir6973b Gm27815|mmu-mir-6973b microRNA 6973b ncRNA 5.658 4.132 0.720 7.255 2.672 1.124 6.429 9.235 4.249 7.390 4.016 3.186 6.908 5.646 7.716 10.599 6.379 7.221 nan 2.298 2.052 5.242 2.744 2.683 12.553 1899 chr2 70312676 70316188 + 0 NA exon (NM_177376, exon 28 of 35) exon (NM_177376, exon 28 of 35) -160491 NM_022435 64406 Mm.423397 NM_022435 ENSMUSG00000075304 Sp5 - trans-acting transcription factor 5 protein-coding 6.405 0.589 0.371 2.105 0.551 0.560 2.001 1.501 1.025 2.008 0.119 0.058 2.614 0.736 2.971 4.122 5.388 5.002 0.593 0.402 0.593 0.653 0.394 0.797 17.992 3066 chr7 19586747 19590176 + 0 NA intron (NM_016680, intron 10 of 20) intron (NM_016680, intron 10 of 20) 11174 NM_022409 63872 Mm.23310 NM_022409 ENSMUSG00000011267 Zfp296 2210018A16Rik|Znf296 zinc finger protein 296 protein-coding 6.641 12.446 3.998 7.687 4.147 2.052 7.307 9.448 4.590 8.799 4.644 2.825 6.541 7.192 7.719 9.335 6.927 7.120 4.149 2.225 3.100 5.725 3.641 3.817 9.986 1929 chr2 101667310 101672676 + 0 NA Intergenic Intergenic -8427 NM_009424 22034 Mm.292729 NM_009424 ENSMUSG00000027164 Traf6 2310003F17Rik|AI851288|C630032O20Rik TNF receptor-associated factor 6 protein-coding 5.580 1.008 0.347 3.084 2.050 1.115 6.577 4.925 2.176 2.355 0.559 0.473 6.621 4.169 5.476 6.216 4.894 4.214 1.222 0.884 0.695 1.520 2.489 1.705 4.189 2485 chr4 128708097 128714794 + 0 NA intron (NM_001195130, intron 6 of 14) intron (NM_001195130, intron 6 of 14) -16126 NM_001195083 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 8.376 13.690 7.289 5.921 7.760 5.409 5.506 4.685 4.048 5.752 4.440 2.408 5.842 9.280 nan 6.279 4.183 5.452 2.318 2.590 2.464 2.556 2.267 2.375 8.125 1737 chr19 8831027 8832373 + 0 NA 3' UTR (NM_001081196, exon 14 of 14) 3' UTR (NM_001081196, exon 14 of 14) -5767 NM_001136064 14705 Mm.345134 NM_008144 ENSMUSG00000071657 Bscl2 2900097C17Rik|AI046355|Gng3lg Berardinelli-Seip congenital lipodystrophy 2 (seipin) protein-coding 10.604 12.212 5.299 11.474 7.954 5.280 9.195 13.135 nan 11.875 8.297 4.670 7.447 12.696 10.062 11.917 10.646 9.692 3.065 2.794 3.155 5.833 4.213 5.165 17.356 1948 chr2 119389998 119394982 + 0 NA intron (NM_026574, intron 29 of 35) intron (NM_026574, intron 29 of 35) 41248 NM_026929 69065 Mm.35083 NM_026929 ENSMUSG00000027313 Chac1 1810008K03Rik ChaC, cation transport regulator 1 protein-coding 3.574 1.683 0.877 1.530 1.660 1.274 2.973 5.681 2.157 2.608 0.554 0.720 nan 3.670 2.986 nan 2.397 3.077 0.764 0.984 1.056 0.515 0.985 0.728 nan 3143 chr7 97360470 97362435 + 0 NA Intergenic L1ME4b|LINE|L1 -10165 NM_199035 381903 Mm.279683 NM_199035 ENSMUSG00000035704 Alg8 AI447372|Gm1089 asparagine-linked glycosylation 8 (alpha-1,3-glucosyltransferase) protein-coding 1.732 0.536 0.481 1.241 1.950 0.399 1.770 1.982 1.576 2.122 0.867 0.588 2.481 4.211 2.864 nan 1.185 2.799 nan 0.784 0.349 0.533 0.394 0.296 1.019 795 chr12 81065744 81072565 + 0 NA intron (NM_022316, intron 1 of 12) intron (NM_022316, intron 1 of 12) 42346 NM_022316 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 6.688 5.961 2.404 5.194 3.139 1.794 10.279 4.706 3.748 5.562 2.950 2.449 8.558 8.827 7.342 9.142 7.422 5.802 1.040 1.893 1.430 1.706 1.746 1.308 12.715 1609 chr18 32295147 32298648 + 0 NA Intergenic Intergenic 56566 NM_133658 13872 Mm.282335 NM_133658 ENSMUSG00000024382 Ercc3 BTF2 p89|Ercc-3|XPB excision repair cross-complementing rodent repair deficiency, complementation group 3 protein-coding 3.144 0.667 0.640 0.617 0.640 0.248 8.509 6.597 0.963 0.728 1.213 1.644 2.435 0.986 1.627 nan 1.786 1.157 nan 0.598 0.537 nan 1.049 0.980 1.543 794 chr12 81045470 81047144 + 0 NA intron (NM_022316, intron 1 of 12) ORR1F|LTR|ERVL-MaLR 19499 NM_022316 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 8.997 3.583 1.367 4.976 2.742 1.100 5.739 4.298 2.967 4.255 3.092 2.787 3.177 4.829 5.031 5.812 4.723 4.648 1.187 1.339 0.881 1.580 1.635 0.691 8.166 3411 chr8 126754057 126756822 + 0 NA Intergenic Intergenic -162003 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 7.482 5.878 1.300 7.188 3.665 2.349 7.142 nan 4.277 9.817 4.006 2.777 6.801 8.106 7.582 9.034 6.710 nan nan 2.403 1.709 5.130 2.490 nan 14.242 944 chr13 65379203 65380780 + 0 NA Intergenic Intergenic 101137 NM_178364 170936 Mm.151546 NM_178364 ENSMUSG00000021514 Zfp369 B930030B22Rik|D230020H11Rik|NRIF2 zinc finger protein 369 protein-coding 6.375 9.743 2.621 7.174 3.535 1.191 5.859 3.143 3.274 3.986 2.715 1.717 4.937 6.290 7.113 8.057 3.453 7.811 3.433 3.993 1.087 4.470 2.971 1.880 9.863 3284 chr8 74762960 74764969 + 0 NA Intergenic Intergenic -109210 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 5.341 11.281 3.915 9.345 5.287 5.334 6.361 nan nan 5.738 3.881 2.268 8.056 7.733 6.959 nan 6.638 4.936 3.040 2.743 4.833 nan 1.672 3.355 nan 1780 chr19 41556739 41559390 + 0 NA intron (NM_172154, intron 2 of 2) L1M5|LINE|L1 8425 NM_172154 212391 Mm.422910 NM_172154 ENSMUSG00000025019 Lcor 3110023F06Rik|A630025C20Rik|Mlr2|mKIAA1795 ligand dependent nuclear receptor corepressor protein-coding 6.995 11.242 4.248 8.036 4.691 3.851 7.379 9.554 4.001 12.147 6.055 3.954 5.476 8.021 6.562 7.066 nan 6.382 2.789 2.652 3.465 4.391 3.723 5.506 12.259 3223 chr8 11832449 11834294 + 0 NA 3' UTR (NM_001113518, exon 21 of 21) 3' UTR (NM_001113518, exon 21 of 21) -7150 NM_029326 75528 Mm.440342 NM_029326 ENSMUSG00000031512 Tex29 1700018L24Rik testis expressed 29 protein-coding 1.420 0.863 0.348 1.994 0.685 0.428 2.113 1.298 2.323 2.858 0.435 0.219 3.866 5.723 5.744 6.239 3.943 3.030 0.470 0.191 0.235 1.032 0.240 0.374 3.091 1113 chr15 61995926 62005184 + 0 NA Intergenic Intergenic 15214 NM_001177352 17869 Mm.2444 NM_010849 ENSMUSG00000022346 Myc AU016757|Myc2|Niard|Nird|bHLHe39 myelocytomatosis oncogene protein-coding 2.670 11.253 4.530 nan 1.797 0.593 nan 2.753 nan nan 0.819 0.740 2.118 2.355 2.597 2.639 2.280 2.343 1.141 1.013 0.732 1.094 0.742 0.504 1.783 3405 chr8 125059450 125063554 + 0 NA intron (NM_174853, intron 1 of 11) intron (NM_174853, intron 1 of 11) 7307 NM_174854 244667 Mm.233504 NM_170596 ENSMUSG00000043051 Disc1 - disrupted in schizophrenia 1 protein-coding 8.341 nan 0.640 nan 4.995 3.281 nan 8.163 4.210 5.093 4.801 1.500 7.412 8.082 6.679 9.217 8.486 7.810 nan 1.274 1.401 nan 1.028 nan 11.594 3244 chr8 26310644 26313456 + 0 NA Intergenic Intergenic 153881 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 5.614 11.638 3.755 8.052 2.880 2.226 3.621 5.606 4.112 7.911 2.745 2.002 4.313 6.079 6.946 7.586 4.500 6.717 2.764 2.368 2.372 nan 2.175 2.492 10.995 2122 chr2 179939067 179943732 + 0 NA intron (NM_001081092, intron 1 of 14) intron (NM_001081092, intron 1 of 14) 35247 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 1.026 0.854 0.451 1.369 1.074 0.594 1.040 1.568 0.884 1.001 0.743 0.501 0.625 1.037 1.326 nan 1.013 nan 1.763 1.594 1.613 4.173 2.079 1.469 1.823 674 chr11 118884510 118886408 + 0 NA intron (NM_001285437, intron 1 of 13) intron (NM_001285437, intron 1 of 13) 24113 NM_001024931 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 1.875 3.190 0.940 2.860 1.141 0.989 1.371 nan 1.297 nan 1.612 1.146 0.930 1.396 2.554 2.362 0.840 nan 5.539 nan 3.754 6.092 4.470 3.635 3.997 2280 chr3 105597565 105607070 + 0 NA intron (NM_001039347, intron 2 of 6) intron (NM_001039347, intron 2 of 6) 85254 NM_017397 53975 Mm.272826 NM_017397 ENSMUSG00000027905 Ddx20 GEMIN3|dp103 DEAD (Asp-Glu-Ala-Asp) box polypeptide 20 protein-coding 5.076 12.559 6.259 5.587 3.805 2.174 3.184 2.934 3.231 4.926 2.047 1.523 3.320 4.439 nan 3.809 3.469 4.728 1.936 2.400 1.432 1.746 1.669 1.600 4.096 1317 chr16 24093922 24095383 + 0 NA Intergenic L3|LINE|CR1 -106040 NM_009744 12053 Mm.347398 NM_009744 ENSMUSG00000022508 Bcl6 Bcl5 B cell leukemia/lymphoma 6 protein-coding 1.602 1.998 0.449 1.232 1.002 0.199 2.665 2.810 1.715 1.900 3.650 2.432 4.718 3.875 4.101 4.274 1.304 2.600 0.650 0.413 0.237 0.953 nan 0.064 3.069 280 chr10 67816020 67819911 + 0 NA Intergenic UCON7|DNA?|DNA? 94697 NM_178679 216049 Mm.268346 NM_178679 ENSMUSG00000037855 Zfp365 AI839779|AV340892|DBZ|Su48|Znf365|talanin zinc finger protein 365 protein-coding 9.411 2.396 1.667 4.246 5.257 2.831 4.388 5.648 5.438 5.061 4.156 2.976 5.812 6.440 5.850 6.039 8.565 nan 3.639 3.397 2.420 4.201 3.682 3.077 5.410 957 chr13 98017660 98022229 + 0 NA intron (NM_012026, intron 9 of 35) intron (NM_012026, intron 9 of 35) 186221 NM_012026 110596 Mm.252718 NM_012026 ENSMUSG00000021662 Arhgef28 9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF Rho guanine nucleotide exchange factor (GEF) 28 protein-coding 3.943 2.427 0.648 3.192 2.291 0.944 3.708 4.723 3.168 3.277 3.827 1.616 4.568 6.520 5.163 5.579 nan 4.999 1.183 0.699 0.402 1.328 0.565 0.544 5.463 273 chr10 67501736 67503263 + 0 NA Intergenic Intergenic -35370 NM_010118 13654 Mm.290421 NM_010118 ENSMUSG00000037868 Egr2 Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6 early growth response 2 protein-coding 3.213 3.009 2.113 2.393 2.024 1.282 3.098 3.789 2.638 2.141 3.604 3.038 5.092 4.698 3.355 3.081 2.814 4.189 1.223 0.593 0.241 1.301 0.497 0.289 1.607 2430 chr4 114137973 114142662 + 0 NA Intergenic IAPEz-int|LTR|ERVK -23067 NM_177669 230623 Mm.124482 NM_177669 ENSMUSG00000057977 Skint11 A630098G03Rik|Gm569 selection and upkeep of intraepithelial T cells 11 protein-coding 2.222 0.680 0.359 0.439 0.243 0.078 3.923 2.196 0.745 0.686 0.336 0.345 2.899 3.941 4.170 4.590 1.746 1.542 0.766 0.386 0.310 0.613 0.293 0.149 3.826 471 chr11 70407542 70409253 + 0 NA intron (NM_029231, intron 1 of 16) intron (NM_029231, intron 1 of 16) 1634 NM_029231 75273 Mm.340601 NM_029231 ENSMUSG00000018921 Pelp1 4930563C04Rik|MNAR proline, glutamic acid and leucine rich protein 1 protein-coding 8.316 6.236 1.476 7.390 3.714 0.903 2.202 4.248 4.360 5.533 3.176 2.736 3.138 4.148 4.423 4.476 2.807 5.898 0.891 1.601 0.444 0.686 nan 0.340 4.670 2943 chr6 97225123 97228811 + 0 NA intron (NM_022992, intron 1 of 2) ORR1D1|LTR|ERVL-MaLR 16175 NM_022992 65106 Mm.291014 NM_022992 ENSMUSG00000035199 Arl6ip5 5930404D22Rik|AV001879|Aip-5|Gtrap3-18|addiscin ADP-ribosylation factor-like 6 interacting protein 5 protein-coding 2.955 1.134 0.790 2.244 2.512 1.386 3.646 3.749 2.140 2.059 2.452 1.933 2.713 2.899 nan nan 3.395 2.602 nan nan 2.549 4.561 3.255 2.755 3.260 2596 chr4 151612899 151616019 + 0 NA intron (NM_001081557, intron 3 of 23) ORR1E-int|LTR|ERVL-MaLR 247309 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 2.396 nan 0.548 1.362 0.731 0.523 0.834 1.687 1.520 1.850 0.322 0.567 2.257 3.144 2.031 2.355 1.997 1.758 1.014 0.644 0.756 1.511 0.251 0.491 7.859 1503 chr17 35938830 35947022 + 0 NA Intergenic MuRRS-int|LTR|ERV1 -4228 NR_028278 667766 Mm.29385 NR_028278 Gm8801 - protein phosphatase 1, regulatory subunit 10 pseudogene pseudo 5.603 1.507 0.897 6.720 5.907 5.303 5.396 5.744 4.547 5.296 2.601 2.641 4.313 6.888 4.442 5.190 4.710 6.146 1.032 1.733 1.867 1.568 0.861 0.849 5.312 3498 chr9 59527535 59566192 + 0 NA intron (NM_010421, intron 1 of 13) B3|SINE|B2 7323 NM_010421 15211 Mm.2284 NM_010421 ENSMUSG00000025232 Hexa Hex-1 hexosaminidase A protein-coding 5.579 0.659 0.436 5.494 3.351 2.433 5.021 nan 6.223 7.496 4.177 1.709 6.631 8.636 4.469 7.015 4.298 9.006 1.818 1.592 1.490 2.188 2.841 2.275 7.815 2262 chr3 95428107 95429875 + 0 NA intron (NR_033637, intron 2 of 2) intron (NR_033637, intron 2 of 2) 1642 NR_033637 100043305 Mm.412052 NR_033637 Gm4349 - SET domain, bifurcated 1 pseudogene pseudo 7.079 9.158 4.413 7.151 5.884 3.657 8.117 6.665 5.475 5.674 nan 2.955 6.120 9.116 7.572 7.908 6.460 6.245 4.321 3.066 2.379 4.559 3.768 3.352 8.496 1509 chr17 44844897 44849022 + 0 NA intron (NM_178652, intron 2 of 11) L1MD|LINE|L1 -32162 NR_073392 12393 Mm.391013 NM_009820 ENSMUSG00000039153 Runx2 AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a runt related transcription factor 2 protein-coding 7.275 2.120 1.136 4.179 6.269 3.459 9.207 4.716 4.656 4.867 6.550 3.755 6.532 9.712 6.214 6.726 4.885 5.128 0.851 1.078 0.921 0.832 0.570 0.365 4.575 1936 chr2 103316765 103326004 + 0 NA Intergenic Intergenic -18188 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 6.856 3.597 2.031 4.042 1.940 0.927 4.894 8.712 3.679 4.491 1.596 1.318 6.745 6.979 6.429 8.717 6.905 5.886 0.843 0.986 0.885 nan 0.536 0.384 6.944 2912 chr6 85968263 85970899 + 0 NA Intergenic Intergenic -7914 NM_028099 72102 Mm.24007 NM_028099 ENSMUSG00000030002 Dusp11 2010300F21Rik|AI481497 dual specificity phosphatase 11 (RNA/RNP complex 1-interacting) protein-coding 1.693 0.772 0.487 nan 0.530 0.388 4.161 1.199 0.712 1.121 2.216 1.802 2.723 5.892 3.384 3.362 2.680 nan nan 0.437 0.418 0.537 0.428 0.305 2.576 1325 chr16 25898567 25902942 + 0 NA Intergenic Intergenic 98838 NM_001127264 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 2.437 0.588 0.217 1.237 0.928 0.305 2.299 8.303 2.168 1.790 5.944 2.810 3.386 2.603 2.127 2.748 2.398 2.795 0.881 0.641 0.211 0.615 nan 0.193 1.653 2512 chr4 134210774 134214763 + 0 NA intron (NM_001130030, intron 8 of 8) (CA)n|Simple_repeat|Simple_repeat -9764 NM_001080712 665186 Mm.318615 NM_001080712 ENSMUSG00000073747 Gm7534 EG665186 predicted gene 7534 protein-coding nan 1.203 0.631 0.873 0.649 0.149 0.442 0.374 nan 0.509 0.504 0.376 0.208 0.525 0.441 0.637 0.287 nan 3.147 1.847 1.851 4.654 nan 2.152 1.084 1643 chr18 55059746 55062799 + 0 NA Intergenic Intergenic -71092 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 8.810 4.824 2.915 5.066 4.974 2.512 7.742 4.791 5.046 5.501 5.262 5.532 9.338 7.435 6.047 8.043 7.792 6.888 4.200 2.409 1.319 2.956 2.821 2.021 7.389 131 chr1 134229387 134232646 + 0 NA intron (NM_001291930, intron 1 of 1) intron (NM_001291930, intron 1 of 1) 3840 NM_001291928 11539 Mm.298908 NM_009629 ENSMUSG00000042429 Adora1 A1-AR|A1AR|A1R|AA1R|AI848715|BB176431|Ri adenosine A1 receptor protein-coding 8.957 2.740 0.805 4.717 3.922 1.688 7.106 5.341 3.171 3.741 1.837 1.348 4.264 6.582 5.408 8.217 5.062 5.168 1.158 1.536 0.812 1.539 1.549 1.383 7.174 1565 chr17 71346286 71353558 + 0 NA intron (NM_028887, intron 45 of 47) intron (NM_028887, intron 45 of 47) -8118 NR_028023 100043644 Mm.362377 NR_028023 Gm4566 - ubiquitin specific peptidase 16 pseudogene pseudo 7.946 5.789 2.253 8.530 6.387 4.747 7.692 6.756 6.223 7.800 5.056 3.201 7.122 9.592 8.980 9.818 7.526 10.197 2.788 2.160 1.622 2.948 1.927 2.137 10.061 502 chr11 77987606 77993877 + 0 NA intron (NM_174852, intron 2 of 14) B3|SINE|B2 7925 NM_174852 268448 Mm.274329 NM_174852 ENSMUSG00000037791 Phf12 2410142K10Rik|F630045O13|PF1|mKIAA1523 PHD finger protein 12 protein-coding 5.269 9.553 3.997 5.782 4.367 3.232 5.402 7.073 4.186 6.640 4.649 2.491 6.052 8.620 6.518 7.702 4.069 6.024 2.991 2.446 nan 4.132 2.859 2.520 7.302 1286 chr16 17190326 17191424 + 0 NA intron (NM_009456, intron 1 of 3) intron (NM_009456, intron 1 of 3) 10617 NM_009456 22195 Mm.3074 NM_009456 ENSMUSG00000038965 Ube2l3 C79827|UbcM4|Ubce7 ubiquitin-conjugating enzyme E2L 3 protein-coding 4.609 0.759 0.379 2.112 2.058 1.327 1.800 5.990 1.922 2.341 1.241 1.049 2.864 3.361 1.902 3.348 2.281 3.811 1.462 0.699 0.828 0.543 1.074 0.977 2.561 314 chr10 80791092 80792826 + 0 NA intron (NM_199322, intron 27 of 27) intron (NM_199322, intron 27 of 27) 6667 NM_023900 78670 Mm.41479 NM_023900 ENSMUSG00000035278 Plekhj1 9530063M10Rik pleckstrin homology domain containing, family J member 1 protein-coding 3.029 8.547 1.293 5.308 1.181 0.197 0.830 0.845 2.074 2.296 1.023 0.526 0.550 1.327 1.778 2.568 1.023 2.787 nan 1.396 1.383 0.770 0.451 0.447 3.644 1796 chr19 46574553 46586849 + 0 NA intron (NM_053196, intron 1 of 11) MTE-int|LTR|ERVL-MaLR 7336 NM_053196 94279 Mm.296837 NM_053196 ENSMUSG00000025036 Sfxn2 C79732|F630107H02Rik sideroflexin 2 protein-coding 11.638 11.304 3.609 11.794 7.043 4.507 12.338 12.483 7.245 12.936 8.466 5.845 8.783 14.250 11.157 11.843 10.202 11.190 3.488 3.322 3.376 5.650 5.225 5.540 18.261 3385 chr8 122919026 122921851 + 0 NA intron (NM_001081379, intron 2 of 12) intron (NM_001081379, intron 2 of 12) 72064 NM_007662 12555 Mm.1976 NM_007662 ENSMUSG00000031962 Cdh15 AI323380|Cdh14|Mcad cadherin 15 protein-coding 1.350 1.048 0.707 2.009 1.779 1.263 2.493 4.177 2.035 2.924 1.439 1.524 2.809 3.407 2.454 nan 2.214 2.173 4.671 4.281 6.026 8.487 3.456 4.190 2.323 2998 chr6 124667081 124674281 + 0 NA intron (NM_145130, intron 1 of 12) intron (NM_145130, intron 1 of 12) 7577 NM_145130 14792 Mm.273915 NM_145130 ENSMUSG00000004270 Lpcat3 C3f|Grcc3f|Lpcat|Lpeat|Lplat5|Lpsat|Mboat5|Moact5|Oact5|PTG lysophosphatidylcholine acyltransferase 3 protein-coding 8.305 nan 4.501 4.699 3.685 2.431 11.181 11.121 3.928 5.833 6.639 3.998 8.000 9.757 10.448 nan 8.322 7.539 6.794 4.304 4.180 8.726 4.908 4.717 13.452 1502 chr17 35912405 35915332 + 0 NA intron (NM_001347380, intron 1 of 3) intron (NM_001347380, intron 1 of 3) 2501 NM_025878 66973 Mm.29484 NM_025878 ENSMUSG00000024436 Mrps18b 2400002C15Rik mitochondrial ribosomal protein S18B protein-coding 6.415 0.871 0.627 5.201 6.604 4.018 7.355 7.571 5.528 6.031 5.643 3.770 5.622 9.367 7.377 7.557 4.940 6.515 3.350 1.928 1.782 3.729 2.306 1.786 7.634 2638 chr5 31150098 31154189 + 0 NA intron (NM_001310527, intron 2 of 7) intron (NM_001310527, intron 2 of 7) 2037 NM_001294324 17527 Mm.271923 NM_008622 ENSMUSG00000107283 Mpv17 Tg.Mpv17 MpV17 mitochondrial inner membrane protein protein-coding 8.596 1.909 1.368 5.403 7.348 5.191 9.259 6.347 5.572 6.693 5.334 3.233 6.087 9.918 7.564 9.681 6.190 8.376 0.879 1.349 0.970 0.979 1.156 0.804 7.631 1872 chr2 36085251 36088028 + 0 NA intron (NM_001083125, intron 8 of 8) intron (NM_001083125, intron 8 of 8) 17421 NM_001083126 16874 Mm.12881 NM_008500 ENSMUSG00000026890 Lhx6 Lhx6.1 LIM homeobox protein 6 protein-coding 9.475 2.169 0.757 7.671 2.397 1.170 9.739 9.631 4.892 7.729 1.511 1.308 10.232 8.868 8.836 13.227 10.643 9.533 1.118 0.799 1.008 1.105 0.662 0.460 16.864 355 chr10 126640575 126643162 + 0 NA Intergenic Intergenic 68523 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 4.272 nan 0.611 2.576 1.669 1.152 4.357 4.600 2.718 2.893 0.399 0.663 4.842 5.215 5.346 4.705 6.455 3.867 5.216 1.418 2.183 0.725 nan 2.844 6.367 553 chr11 95273482 95278723 + 0 NA intron (NM_177619, intron 12 of 12) intron (NM_177619, intron 12 of 12) 14573 NM_053093 93670 Mm.40085 NM_053093 ENSMUSG00000020872 Tac4 AW489379|PPT-C tachykinin 4 protein-coding 7.079 5.958 3.769 5.105 5.658 3.630 4.005 4.613 4.332 4.757 4.271 2.870 3.918 6.676 4.236 4.906 4.818 4.476 3.176 nan 1.834 2.006 nan nan 4.200 2058 chr2 163253534 163260282 + 0 NA intron (NM_001098799, intron 2 of 8) intron (NM_001098799, intron 2 of 8) 31454 NM_001098799 269389 Mm.207709 NM_001098799 ENSMUSG00000074607 Tox2 AI851523|AV026525|BI987407|Gcx1|RxHMG1 TOX high mobility group box family member 2 protein-coding 2.483 0.533 0.532 1.612 1.985 1.331 2.212 3.332 1.532 1.837 0.371 0.485 3.319 3.955 2.938 3.804 5.833 nan nan 0.510 0.797 0.605 0.853 0.922 6.004 3546 chr9 106793164 106795380 + 0 NA Intergenic B1_Mm|SINE|Alu -5059 NM_030730 81000 Mm.246689 NM_030730 ENSMUSG00000040661 Rad54l2 Arip4|D130058C05|G630026H09Rik|Srisnf2l RAD54 like 2 (S. cerevisiae) protein-coding 7.773 13.522 3.310 8.583 3.301 1.653 4.963 6.200 5.483 8.058 5.566 4.123 6.695 7.054 7.733 9.634 4.087 nan 6.369 3.004 2.519 6.854 3.477 3.048 12.138 1252 chr16 3892358 3898913 + 0 NA intron (NM_029090, intron 2 of 6) ORR1E|LTR|ERVL-MaLR 11016 NM_001290689 74763 Mm.28403 NM_029090 ENSMUSG00000005982 Naa60 1200013P24Rik|AI315146|Nat15 N(alpha)-acetyltransferase 60, NatF catalytic subunit protein-coding nan 3.907 1.872 3.126 2.614 1.074 nan 4.525 3.068 2.858 2.784 1.413 3.309 6.901 4.163 4.363 2.743 3.498 0.796 0.866 0.582 0.873 0.612 0.233 3.123 3488 chr9 53183567 53186487 + 0 NA intron (NM_029936, intron 13 of 17) Lx10|LINE|L1 63085 NM_029936 77591 Mm.133560 NM_029936 ENSMUSG00000053289 Ddx10 4632415A01Rik|AI646054 DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 protein-coding 5.297 1.139 0.530 2.632 1.668 0.299 4.035 6.474 3.392 3.730 2.383 2.174 6.309 6.699 5.724 7.632 3.807 5.363 2.225 1.998 0.849 2.477 1.315 0.817 7.965 2877 chr6 71219852 71222866 + 0 NA intron (NM_009762, intron 5 of 8) intron (NM_009762, intron 5 of 8) 21471 NM_017399 14080 Mm.22126 NM_017399 ENSMUSG00000054422 Fabp1 Fabpl|L-FABP fatty acid binding protein 1, liver protein-coding 12.536 12.664 4.149 10.302 5.783 3.306 14.314 13.456 6.117 10.684 7.971 3.982 13.425 14.299 14.004 15.709 11.596 11.947 8.200 3.025 3.142 6.771 5.373 4.770 15.544 2643 chr5 31936705 31940576 + 0 NA intron (NM_144541, intron 7 of 11) intron (NM_144541, intron 7 of 11) -197832 NM_008037 14284 Mm.24684 NM_008037 ENSMUSG00000029135 Fosl2 Fra-2 fos-like antigen 2 protein-coding 2.408 0.962 0.816 nan 2.579 1.277 2.433 2.624 4.063 2.896 7.126 3.506 2.671 4.595 3.500 3.025 1.809 3.891 2.403 0.856 0.848 2.240 1.422 1.363 2.169 555 chr11 95549456 95550943 + 0 NA Intergenic ID_B1|SINE|B4 -35634 NM_130858 104079 Mm.22970 NM_130858 ENSMUSG00000046719 Nxph3 - neurexophilin 3 protein-coding 6.226 10.264 3.548 7.570 2.166 1.504 3.298 4.952 3.146 4.429 4.660 2.542 2.252 4.425 3.562 3.141 nan 4.668 1.157 1.605 1.389 1.405 nan nan 5.789 1037 chr14 99722923 99724803 + 0 NA Intergenic L1Md_F2|LINE|L1 425172 NM_009769 12224 Mm.30262 NM_009769 ENSMUSG00000005148 Klf5 4930520J07Rik|Bteb2|CKLF|IKLF Kruppel-like factor 5 protein-coding 4.369 nan 0.682 2.046 4.241 3.078 5.543 8.377 3.346 3.831 5.686 3.627 3.929 5.489 6.676 5.150 2.519 4.340 1.731 0.773 0.527 1.008 1.601 1.236 5.431 2935 chr6 90455355 90459154 + 0 NA Intergenic Intergenic -5372 NM_023184 66277 Mm.38343 NM_023184 ENSMUSG00000030087 Klf15 1810013I09Rik|AV048136|AW494632|CKLF|KKLF Kruppel-like factor 15 protein-coding 6.208 0.960 0.172 7.426 3.483 1.817 5.625 10.004 5.139 7.813 3.799 2.831 7.061 9.358 5.782 11.032 5.361 8.350 nan 1.387 0.549 3.575 0.869 0.513 6.558 2513 chr4 134229050 134234695 + 0 NA intron (NM_001081047, intron 14 of 20) B3|SINE|B2 -4489 NM_177866 329954 Mm.79072 NM_177866 ENSMUSG00000048003 Catsper4 4933412L05 cation channel, sperm associated 4 protein-coding nan 0.868 0.569 2.126 1.776 0.762 2.096 1.706 nan 2.126 1.047 0.772 1.182 2.323 1.493 1.584 0.457 nan 2.633 0.957 1.109 4.340 nan 1.146 2.871 37 chr1 39247879 39251478 + 0 NA intron (NM_008719, intron 1 of 20) intron (NM_008719, intron 1 of 20) 55406 NM_008719 18143 Mm.2380 NM_008719 ENSMUSG00000026077 Npas2 MOP4|bHLHe9 neuronal PAS domain protein 2 protein-coding 7.394 2.093 0.825 2.540 1.551 1.616 3.538 3.687 1.509 4.049 2.350 1.604 3.056 3.222 4.516 nan 4.180 6.604 2.152 1.198 1.570 4.735 1.307 1.937 9.385 3328 chr8 90872376 90886952 + 0 NA intron (NM_177224, intron 2 of 39) intron (NM_177224, intron 2 of 39) 50829 NM_177224 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 5.335 2.521 1.186 5.333 4.368 2.958 4.686 3.250 nan 8.118 1.712 1.495 10.360 8.528 6.734 8.394 6.817 7.482 nan 1.565 1.177 2.120 0.961 1.006 7.174 855 chr13 23661980 23665699 + 0 NA Intergenic Lx2|LINE|L1 20120 NM_178189 319164 Mm.261973 NM_178189 ENSMUSG00000069270 Hist1h2ac - histone cluster 1, H2ac protein-coding 3.472 6.642 2.158 5.724 3.362 1.613 2.519 3.023 3.555 3.034 3.602 1.788 3.735 3.680 5.414 4.376 2.485 6.347 7.158 1.480 0.743 5.705 2.268 1.450 3.657 195 chr1 174077524 174080506 + 0 NA Intergenic Intergenic 9715 NM_146718 258713 Mm.377649 NM_146718 ENSMUSG00000050134 Olfr430 MOR105-5P olfactory receptor 430 protein-coding 14.726 10.573 4.547 10.501 7.535 3.882 12.856 9.813 8.597 11.041 8.934 5.549 13.252 12.629 11.526 16.631 12.513 11.322 5.154 3.761 2.800 5.892 4.183 3.593 14.021 2005 chr2 152167241 152177564 + 0 NA Intergenic RMER19B|LTR|ERVK 28793 NM_009328 21407 Mm.3881 NM_009328 ENSMUSG00000068079 Tcf15 Meso1|bHLH-EC2 transcription factor 15 protein-coding 6.044 1.530 0.744 2.691 3.299 2.744 6.012 11.162 3.171 3.185 1.718 1.887 4.686 4.386 3.625 5.626 5.867 3.454 nan 1.103 1.907 1.902 1.459 1.534 6.326 1706 chr18 84549203 84550355 + 0 NA intron (NM_001033341, intron 3 of 8) B3|SINE|B2 39725 NM_001033341 240476 Mm.329575 NM_001033341 ENSMUSG00000048410 Zfp407 6430585N13Rik|Gm333|Gm334|Gm948|ZNF407 zinc finger protein 407 protein-coding 5.484 1.038 1.105 2.709 1.780 1.652 2.992 3.084 2.627 3.545 0.662 0.561 3.928 5.326 4.262 4.819 4.680 4.655 0.903 0.480 0.532 0.499 0.473 0.177 7.033 2828 chr6 15676066 15683509 + 0 NA Intergenic ORR1E|LTR|ERVL-MaLR -40874 NM_175088 16543 Mm.1314 NM_175088 ENSMUSG00000041390 Mdfic Kdt1|Mdfid MyoD family inhibitor domain containing protein-coding 7.109 nan 3.636 4.107 6.756 4.422 3.533 3.719 4.851 4.962 2.253 1.692 4.276 5.992 3.727 5.981 5.125 5.102 1.003 2.126 1.120 0.950 1.304 0.817 2.868 1839 chr2 26892290 26893820 + 0 NA exon (NM_009298, exon 4 of 5) exon (NM_009298, exon 4 of 5) 9832 NM_009298 20935 Mm.245577 NM_009298 ENSMUSG00000036160 Surf6 D2Wsu129e|Surf-6 surfeit gene 6 protein-coding 3.722 0.948 0.229 0.856 0.305 0.168 5.267 6.081 nan 0.559 0.338 0.328 3.637 4.138 3.982 7.885 3.755 1.946 0.197 0.226 0.243 0.668 0.189 0.359 5.770 1788 chr19 46122158 46124238 + 0 NA Intergenic (GGA)n|Simple_repeat|Simple_repeat -8701 NM_007703 12686 Mm.21806 NM_007703 ENSMUSG00000038754 Elovl3 CIN-2|Cig30 elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3 protein-coding 3.549 0.834 0.653 nan 1.984 1.609 3.409 2.725 1.936 1.932 1.121 0.934 2.538 3.742 2.456 2.994 6.259 nan 0.594 1.193 0.951 0.627 0.788 1.198 4.433 2186 chr3 52403774 52406363 + 0 NA Intergenic Intergenic 136731 NM_019739 56458 Mm.29891 NM_019739 ENSMUSG00000044167 Foxo1 AI876417|Afxh|FKHR|Fkhr1|Foxo1a forkhead box O1 protein-coding 6.151 2.282 0.659 6.149 4.430 3.278 4.136 5.411 5.268 7.651 1.872 1.818 8.523 8.005 4.884 6.106 3.812 6.440 0.897 0.817 0.749 3.302 0.661 0.535 7.874 679 chr11 119075742 119078201 + 0 NA TTS (NM_007625) TTS (NM_007625) 9266 NM_007625 12418 Mm.268070 NM_007625 ENSMUSG00000039989 Cbx4 MPc2|PC2 chromobox 4 protein-coding 3.789 nan 0.473 3.529 1.697 0.589 3.553 5.311 2.944 4.097 1.556 2.403 2.403 5.095 4.358 5.358 2.100 nan 7.403 3.513 1.975 8.753 6.421 4.160 6.172 680 chr11 119128651 119131206 + 0 NA Intergenic Intergenic 24209 NR_105899 102465563 NR_105899 ENSMUSG00000098704 Mir6934 Gm27523|mmu-mir-6934 microRNA 6934 ncRNA 4.232 4.521 1.167 7.127 2.442 1.352 4.803 4.699 3.750 5.640 2.383 1.344 4.615 6.839 6.863 8.199 2.859 6.309 2.533 nan 0.681 3.136 1.457 1.073 7.286 831 chr12 113133249 113139046 + 0 NA intron (NM_001346696, intron 18 of 19) intron (NM_001346696, intron 18 of 19) -4089 NM_024223 68337 Mm.133825 NM_024223 ENSMUSG00000006356 Crip2 0610010I23Rik|AW743261|C77570|CRP2|CRP4|Crp|ESP1|Hlp cysteine rich protein 2 protein-coding 5.212 1.517 0.854 5.016 2.827 1.454 2.761 4.208 3.371 3.195 1.901 1.380 3.823 4.111 3.175 nan 4.492 3.775 3.479 4.022 2.698 4.374 3.883 2.391 nan 1147 chr15 76043358 76044716 + 0 NA Intergenic Intergenic 20851 NR_105917 102466772 NR_105917 ENSMUSG00000098451 Mir6952 Gm27948|mmu-mir-6952 microRNA 6952 ncRNA 1.935 nan 0.873 1.796 2.317 3.370 5.318 6.532 2.346 nan nan 2.329 5.548 4.423 2.171 2.417 2.798 2.276 2.856 1.270 1.213 2.392 2.558 1.990 1.607 1960 chr2 119933575 119935197 + 0 NA intron (NM_001164274, intron 12 of 22) intron (NM_001164274, intron 12 of 22) 37158 NM_013720 29808 Mm.87532 NM_013720 ENSMUSG00000033943 Mga AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5 MAX gene associated protein-coding 3.231 1.731 0.879 4.354 0.885 0.094 0.966 0.995 1.781 1.777 0.972 0.518 nan 1.691 1.279 2.066 1.009 3.448 0.740 1.143 0.531 1.017 0.380 0.235 2.301 2355 chr4 40728262 40729464 + 0 NA intron (NM_008298, intron 5 of 8) B1_Mur4|SINE|Alu 5933 NM_001164672 15502 Mm.27897 NM_008298 ENSMUSG00000028410 Dnaja1 HSJ-2|Hsj2|Nedd7 DnaJ heat shock protein family (Hsp40) member A1 protein-coding 5.966 6.830 3.336 4.884 2.626 0.979 2.969 3.242 3.622 3.847 9.126 3.541 1.612 3.820 2.801 3.234 2.357 3.767 0.928 1.991 1.596 1.001 0.843 0.424 3.998 1241 chr15 102388116 102390308 + 0 NA Intergenic ORR1D2|LTR|ERVL-MaLR -17104 NM_013672 20683 Mm.4618 NM_013672 ENSMUSG00000001280 Sp1 1110003E12Rik|AA450830|AI845540|Sp1-1 trans-acting transcription factor 1 protein-coding 4.608 0.812 0.527 2.277 2.130 1.634 3.173 3.205 3.578 3.003 1.263 0.893 4.473 5.748 4.925 4.192 4.687 4.019 1.049 0.747 0.494 0.632 0.343 0.480 3.188 2783 chr5 138110558 138115997 + 0 NA Intergenic MTE2b|LTR|ERVL-MaLR -3628 NM_001044703 22697 Mm.2760 NM_011757 ENSMUSG00000037017 Zscan21 AI326272|CTfin51|RU49|Zfp-38|Zfp38|Zipro1 zinc finger and SCAN domain containing 21 protein-coding 4.493 1.488 0.991 3.864 6.756 4.016 3.224 5.368 3.172 3.666 3.297 3.024 2.675 5.309 3.283 2.740 2.193 3.034 5.050 3.597 2.681 4.693 nan 5.331 2.917 1441 chr17 26708009 26709849 + 0 NA Intergenic PB1|SINE|Alu -6721 NM_029870 77128 Mm.275414 NM_029870 ENSMUSG00000048249 Crebrf A930001N09Rik|LRF CREB3 regulatory factor protein-coding 4.373 5.534 2.729 4.019 4.069 2.775 1.819 4.660 3.145 2.137 2.373 1.987 1.171 2.945 2.549 2.144 2.026 2.370 0.822 1.147 1.566 1.483 0.548 0.472 2.273 647 chr11 115920397 115923096 + 0 NA intron (NM_130454, intron 6 of 18) intron (NM_130454, intron 6 of 18) 9729 NM_001162998 68528 Mm.441893 NM_001162998 ENSMUSG00000075420 Smim6 1110017F19Rik small integral membrane protein 6 protein-coding 3.524 nan 0.522 4.439 1.764 1.362 nan nan 3.386 3.908 1.139 1.853 3.496 7.005 4.833 5.796 3.854 6.008 0.342 nan 0.182 1.132 0.194 0.272 6.290 1206 chr15 99081614 99087435 + 0 NA TTS (NM_001024702) TTS (NM_001024702) 3204 NM_001024702 239659 Mm.309917 NM_001024702 ENSMUSG00000001076 C1ql4 C1qtnf11|CTRP11 complement component 1, q subcomponent-like 4 protein-coding 6.084 4.466 1.276 4.488 2.008 1.116 7.455 9.752 3.668 5.457 2.651 1.572 10.602 8.053 8.758 nan 6.246 5.620 3.527 1.455 1.508 3.471 1.693 1.682 8.061 334 chr10 110735300 110737098 + 0 NA Intergenic Intergenic -9266 NM_178609 52679 Mm.11747 NM_178609 ENSMUSG00000020185 E2f7 A630014C11Rik|D10Ertd739e E2F transcription factor 7 protein-coding 6.479 9.564 2.367 4.885 1.274 0.491 4.323 5.614 nan 3.837 2.081 1.031 4.766 5.082 7.327 6.091 4.180 6.073 2.860 1.562 1.156 3.016 1.558 1.401 7.403 2292 chr3 108713389 108714562 + 0 NA intron (NM_029522, intron 1 of 14) intron (NM_029522, intron 1 of 14) 8324 NM_029522 76123 Mm.226941 NM_029522 ENSMUSG00000027883 Gpsm2 6230410J09Rik|LGN|Pins G-protein signalling modulator 2 (AGS3-like, C. elegans) protein-coding 14.854 26.193 12.250 15.240 8.977 5.907 15.891 11.077 8.364 17.344 12.603 8.412 12.473 16.670 12.760 16.064 11.181 12.437 8.578 4.315 5.371 9.320 5.195 5.655 23.861 3582 chrX 97972118 97973844 + 0 NA Intergenic L1Md_T|LINE|L1 -175776 NM_013476 11835 Mm.39005 NM_013476 ENSMUSG00000046532 Ar AW320017|Tfm androgen receptor protein-coding 3.710 2.363 0.640 3.190 3.829 2.294 3.984 5.073 2.498 4.104 4.343 3.251 3.164 6.030 4.310 4.553 4.017 3.347 4.452 3.600 2.113 3.566 4.688 3.477 5.657 1997 chr2 150263168 150265782 + 0 NA intron (NM_001142410, intron 1 of 3) intron (NM_001142410, intron 1 of 3) 6958 NM_001142410 100216455 Mm.484816 NM_001142410 ENSMUSG00000079008 Gm14124 EG640962|ENSMUSG00000074735|Gm10749|OTTMUSG00000015734 predicted gene 14124 protein-coding 3.622 0.361 0.600 0.539 1.722 0.816 3.175 0.519 0.982 0.916 1.357 0.562 3.793 2.952 2.622 3.638 2.103 2.532 nan 0.396 0.094 0.322 0.370 0.327 3.310 1027 chr14 76261970 76268906 + 0 NA Intergenic Intergenic -149523 NM_001310646 21807 Mm.153272 NM_009366 ENSMUSG00000022010 Tsc22d1 AA589566|AW105905|Egr5|TSC-22|Tgfb1i4|Tsc|Tsc22 TSC22 domain family, member 1 protein-coding 3.437 0.832 0.582 2.926 3.971 3.917 5.997 7.351 4.091 4.125 3.655 3.507 4.948 6.011 5.182 5.246 4.232 3.100 1.496 0.969 1.154 0.910 1.032 1.050 4.258 1680 chr18 76226123 76227650 + 0 NA Intergenic (CA)n|Simple_repeat|Simple_repeat -14815 NM_010754 17126 Mm.152699 NM_010754 ENSMUSG00000024563 Smad2 7120426M23Rik|Madh2|Madr2|Smad-2|mMad2 SMAD family member 2 protein-coding 2.768 nan 0.805 1.252 1.889 1.327 1.882 4.765 1.344 nan 0.783 0.932 2.180 4.584 2.145 1.960 1.699 1.244 1.593 nan 0.645 1.279 0.985 0.820 2.232 423 chr11 57772449 57776252 + 0 NA intron (NM_134189, intron 7 of 11) intron (NM_134189, intron 7 of 11) 27117 NR_131042 76516 Mm.28485 NR_131042 ENSMUSG00000087165 2010001A14Rik - RIKEN cDNA 2010001A14 gene ncRNA 4.051 2.764 1.364 3.607 5.771 4.069 3.899 3.191 2.370 3.283 2.498 1.842 2.955 6.411 3.577 4.766 4.041 3.762 nan 2.069 1.851 2.065 2.311 2.182 4.307 2879 chr6 71581259 71583948 + 0 NA Intergenic Intergenic 38749 NM_025783 66700 Mm.181278 NM_025783 ENSMUSG00000053119 Chmp3 25.1|4921505F14Rik|9130011K15Rik|CGI-49|D6Ertd286e|NEDF|Vps24 charged multivesicular body protein 3 protein-coding 9.088 9.920 3.397 8.745 8.018 5.291 12.900 13.486 5.928 12.954 6.896 5.282 9.304 13.092 10.071 11.857 9.560 8.891 5.372 3.053 3.236 5.382 4.933 5.385 13.468 1953 chr2 119801514 119808645 + 0 NA intron (NM_001290800, intron 6 of 19) intron (NM_001290800, intron 6 of 19) 5565 NM_019392 22174 Mm.2901 NM_019392 ENSMUSG00000027298 Tyro3 AI323366|Brt|Dtk|Etk-2|Rse|Sky|TK19-2|Tif|etk2/tyro3|tk19-1 TYRO3 protein tyrosine kinase 3 protein-coding 3.314 0.938 0.505 3.864 2.673 1.628 1.673 4.192 3.734 3.939 0.550 0.777 3.934 4.774 3.511 6.131 5.273 3.615 1.102 0.968 0.897 1.112 1.014 0.912 4.383 1139 chr15 75838648 75840681 + 0 NA exon (NM_172121, exon 2 of 12) exon (NM_172121, exon 2 of 12) 2244 NM_172121 223642 Mm.209800 NM_172121 ENSMUSG00000075600 Zc3h3 BC049953|Kiaa0150|Smicl|Zc3hdc3 zinc finger CCCH type containing 3 protein-coding 9.364 5.117 1.886 7.186 4.634 3.966 12.330 16.528 3.959 10.028 10.809 3.276 9.500 11.040 8.897 9.652 8.116 7.382 4.074 2.027 3.467 4.388 3.475 4.273 15.736 2757 chr5 124874298 124878392 + 0 NA intron (NM_001081750, intron 2 of 3) RSINE1|SINE|B4 13640 NM_001081750 269704 Mm.138617 NM_001081750 ENSMUSG00000079215 Zfp664 AW060232|D930038J03Rik|ZFOC1|Znf664 zinc finger protein 664 protein-coding 5.170 7.284 3.463 6.836 4.430 4.264 5.527 5.079 3.488 nan 5.750 5.106 3.917 6.092 nan 6.243 nan nan nan 2.162 3.144 3.824 nan 4.180 nan 1319 chr16 24184713 24195292 + 0 NA Intergenic Lx5c|LINE|L1 -201390 NM_009744 12053 Mm.347398 NM_009744 ENSMUSG00000022508 Bcl6 Bcl5 B cell leukemia/lymphoma 6 protein-coding 1.635 9.548 6.768 1.262 1.154 0.795 0.972 2.030 1.532 1.365 1.742 2.200 nan 1.228 1.029 nan 1.026 1.442 0.866 1.003 0.449 0.720 nan 0.543 1.148 1826 chr2 26084688 26087894 + 0 NA intron (NM_026495, intron 2 of 5) intron (NM_026495, intron 2 of 5) 6105 NM_001037098 67991 Mm.131074 NM_026495 ENSMUSG00000026932 Nacc2 0610020I02Rik|AI448087|Btbd14a|C030048H19Rik nucleus accumbens associated 2, BEN and BTB (POZ) domain containing protein-coding 2.473 1.254 0.564 0.700 0.545 0.193 1.093 1.488 nan 1.002 7.053 0.957 1.320 1.065 1.270 1.725 2.029 1.175 0.714 0.471 0.279 1.007 0.328 0.324 2.803 2454 chr4 120278072 120292648 + 0 NA intron (NM_194060, intron 1 of 1) intron (NM_194060, intron 1 of 1) 1901 NM_194060 329934 Mm.277090 NM_194060 ENSMUSG00000052135 Foxo6 - forkhead box O6 protein-coding 0.556 0.728 0.428 0.830 0.654 0.374 0.797 0.773 1.240 0.946 0.723 0.989 0.652 0.835 0.672 nan 0.394 0.742 9.151 7.160 6.086 9.049 7.119 6.374 1.055 2077 chr2 165383860 165385930 + 0 NA intron (NM_178411, intron 2 of 4) intron (NM_178411, intron 2 of 4) 3364 NM_178411 228876 Mm.26316 NM_178411 ENSMUSG00000017667 Zfp334 D2Ertd535e zinc finger protein 334 protein-coding 5.858 0.580 0.472 1.051 2.674 1.367 4.411 7.330 1.965 2.763 2.260 2.059 4.940 5.582 3.370 4.457 6.209 nan 1.729 1.080 1.141 0.545 1.947 2.484 5.188 1222 chr15 100591467 100595040 + 0 NA intron (NM_001304965, intron 2 of 10) intron (NM_001304965, intron 2 of 10) 6731 NM_001304965 19009 Mm.28825 NM_010127 ENSMUSG00000009739 Pou6f1 2310038G18Rik|C79593|Emb|cns-1 POU domain, class 6, transcription factor 1 protein-coding 4.221 6.261 2.227 2.822 2.219 1.035 5.038 7.571 3.064 5.991 1.539 1.102 8.244 4.392 5.474 4.119 4.224 3.762 3.313 1.778 1.382 4.337 2.140 2.003 5.312 3473 chr9 37175960 37176939 + 0 NA Intergenic Intergenic -29127 NM_001029838 208076 Mm.260335 NM_148950 ENSMUSG00000035934 Pknox2 D230005H23Rik|Prep2 Pbx/knotted 1 homeobox 2 protein-coding 5.281 0.970 0.357 4.166 1.449 0.522 4.462 3.080 3.594 2.942 0.725 1.307 4.033 3.607 3.409 6.960 4.268 4.758 nan 0.472 1.106 0.556 0.687 0.684 3.049 2036 chr2 157217360 157224491 + 0 NA intron (NM_001039557, intron 18 of 24) intron (NM_001039557, intron 18 of 24) -16391 NM_001139516 19650 Mm.244671 NM_011249 ENSMUSG00000027641 Rbl1 AW547426|PRB1|p107 retinoblastoma-like 1 (p107) protein-coding nan 2.315 1.222 2.834 4.016 2.807 4.824 3.987 nan 4.680 2.461 2.274 nan 5.689 3.938 6.492 5.025 6.653 nan 1.421 1.450 0.628 1.140 0.958 12.795 1747 chr19 10584533 10586648 + 0 NA intron (NM_001282067, intron 6 of 8) B2_Mm1t|SINE|B2 -8204 NR_126092 72982 Mm.391194 NM_028411 ENSMUSG00000024666 Tmem138 1700113I01Rik|2900055D14Rik transmembrane protein 138 protein-coding 8.429 1.271 1.480 4.296 4.555 2.618 3.664 5.399 4.065 5.007 2.325 0.975 3.135 7.854 3.771 5.002 7.631 4.832 0.898 2.103 0.789 1.176 1.519 0.626 4.340 174 chr1 166450763 166453144 + 0 NA Intergenic Intergenic -42125 NM_001142948 71592 Mm.192094 NM_175170 ENSMUSG00000040596 Pogk 9130401E23Rik|BASS2|mKIAA1513 pogo transposable element with KRAB domain protein-coding 6.246 0.492 0.219 2.575 1.671 0.560 4.512 4.876 5.786 5.212 1.904 3.094 7.344 5.484 6.479 10.085 6.446 6.650 0.777 0.409 0.184 nan nan 0.154 4.774 820 chr12 86824325 86828757 + 0 NA Intergenic Intergenic 58273 NM_145836 238330 Mm.248358 NM_145836 ENSMUSG00000034168 Irf2bpl 6430527G18Rik|Eap1 interferon regulatory factor 2 binding protein-like protein-coding 7.656 2.688 1.372 6.343 3.161 1.756 5.850 8.025 4.214 5.484 3.028 3.043 7.631 7.687 8.860 10.431 7.839 6.283 2.105 0.911 0.999 2.084 1.668 1.153 9.507 1799 chr19 46601862 46611147 + 0 NA intron (NM_146099, intron 1 of 3) intron (NM_146099, intron 1 of 3) 7398 NM_146099 226178 Mm.329895 NM_146099 ENSMUSG00000047731 Wbp1l D19Wsu162e|Opal1 WW domain binding protein 1 like protein-coding 2.313 2.532 1.170 nan 1.798 0.940 3.046 3.245 2.151 2.423 3.367 3.007 2.134 4.183 4.234 3.856 3.329 nan 3.816 3.182 2.972 7.980 5.160 5.037 4.627 1571 chr17 80293818 80295735 + 0 NA intron (NM_194269, intron 3 of 4) intron (NM_194269, intron 3 of 4) -4300 NM_001163759 106794 Mm.12412 NM_198942 ENSMUSG00000035051 Dhx57 AW494914 DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57 protein-coding 6.962 12.754 4.165 10.432 5.331 5.051 11.456 8.094 nan 14.846 6.794 2.800 7.354 9.345 9.694 12.673 8.003 8.736 4.973 2.356 3.876 5.558 3.848 4.837 16.632 422 chr11 53670422 53673591 + 0 NA intron (NM_009012, intron 19 of 24) intron (NM_009012, intron 19 of 24) 35313 NM_009012 19360 Mm.4888 NM_009012 ENSMUSG00000020380 Rad50 Mrell|Rad50l RAD50 double strand break repair protein protein-coding 3.634 6.665 1.533 7.606 3.739 3.004 2.747 2.529 3.413 5.168 2.216 1.713 3.272 3.355 3.735 4.911 3.206 5.207 3.614 3.048 3.640 3.565 3.083 3.493 5.198 905 chr13 46821764 46824041 + 0 NA intron (NM_010617, intron 9 of 37) (CA)n|Simple_repeat|Simple_repeat -95053 NM_175749 218210 Mm.255398 NM_175749 ENSMUSG00000021374 Nup153 B130015D15Rik|C88147 nucleoporin 153 protein-coding 8.531 16.850 7.465 9.471 7.177 6.182 8.293 7.475 4.547 11.950 6.175 4.333 6.762 8.958 8.044 9.595 5.592 8.968 6.098 nan 6.440 7.461 4.836 6.993 13.669 3308 chr8 88012715 88014566 + 0 NA Intergenic ORR1G|LTR|ERVL-MaLR -54045 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 2.465 0.691 0.491 1.536 2.861 2.383 1.703 7.703 3.769 3.025 1.973 1.491 3.194 4.010 3.472 6.570 5.954 4.566 nan 0.508 0.573 1.058 1.176 0.882 3.876 1552 chr17 57198296 57202977 + 0 NA Intergenic CT-rich|Low_complexity|Low_complexity -6455 NM_019418 50930 Mm.483369 NM_019418 ENSMUSG00000005824 Tnfsf14 HVEM-L|HVEML|LIGHT|LTg|Ly113|Tnlg1d tumor necrosis factor (ligand) superfamily, member 14 protein-coding 6.693 nan 1.583 7.011 4.236 2.342 9.616 7.057 5.248 7.650 2.627 2.945 7.457 10.016 10.193 12.689 8.393 7.433 4.890 2.010 2.403 5.713 3.260 3.847 15.327 1194 chr15 85797685 85807225 + 0 NA 3' UTR (NM_011144, exon 8 of 8) 3' UTR (NM_011144, exon 8 of 8) 9242 NM_001164626 72355 Mm.33706 NM_197998 ENSMUSG00000064284 Cdpf1 2210021J22Rik cysteine rich, DPF motif domain containing 1 protein-coding 3.722 1.249 0.462 nan 2.251 1.294 5.119 6.334 nan 3.600 3.057 2.484 6.355 5.712 5.332 nan nan nan nan 0.815 0.644 nan 1.024 0.834 6.684 41 chr1 51593916 51595971 + 0 NA Intergenic Intergenic -116544 NM_001310549 109019 Mm.196290 NM_028696 ENSMUSG00000026107 Nabp1 4930434H03Rik|4930442A21Rik|4930488J04Rik|4933440J18Rik|5830411E10Rik|AI852561|Nbp1|Obfc2a|Ssb2 nucleic acid binding protein 1 protein-coding 5.236 0.676 0.540 1.655 1.349 0.657 2.471 2.447 2.023 2.351 4.868 1.263 3.032 4.205 2.740 4.864 4.683 nan nan 0.953 0.766 0.593 0.858 0.442 2.377 3014 chr6 128224829 128232016 + 0 NA exon (NM_001080979, exon 11 of 11) exon (NM_001080979, exon 11 of 11) -44619 NR_077223 330427 Mm.426356 NR_077223 ENSMUSG00000107879 9330102E08Rik - RIKEN cDNA 9330102E08 gene ncRNA 3.499 nan 0.419 2.441 2.113 1.379 2.404 6.115 2.443 2.122 1.188 1.393 3.270 2.972 2.554 5.082 2.505 3.126 0.576 0.519 0.573 0.754 0.418 0.390 3.535 52 chr1 64041096 64043015 + 0 NA TTS (NR_105864) TTS (NR_105864) 446 NR_105864 102466760 NR_105864 ENSMUSG00000098487 Mir6899 Gm27384|mmu-mir-6899 microRNA 6899 ncRNA 7.666 1.348 0.483 2.331 0.932 0.878 5.402 5.145 2.052 1.886 1.180 2.219 3.970 3.348 4.647 3.602 2.275 3.888 1.289 0.987 0.494 0.790 0.612 0.200 3.153 3084 chr7 27961670 27967539 + 0 NA exon (NM_001081021, exon 6 of 6) exon (NM_001081021, exon 6 of 6) 14553 NM_001081021 338354 Mm.389873 NM_001081021 ENSMUSG00000063047 Zfp780b B230208L21Rik zinc finger protein 780B protein-coding 6.685 9.680 6.917 4.144 4.971 2.632 10.218 9.075 4.535 5.565 5.585 2.859 8.201 8.160 6.902 7.293 7.597 6.276 3.542 3.524 2.646 3.666 4.599 3.665 8.021 2887 chr6 72208942 72269836 + 0 NA Intergenic Intergenic -3812 NM_153778 71093 Mm.87449 NM_153778 ENSMUSG00000037621 Atoh8 4933425C05Rik|Hath6|Math6|bHLHa21|okadin atonal bHLH transcription factor 8 protein-coding 6.896 0.789 0.451 5.314 6.011 4.030 12.400 10.893 6.324 8.216 2.809 2.552 10.611 13.681 9.525 11.469 8.734 8.238 0.890 1.020 0.951 1.007 0.958 0.857 8.431 1451 chr17 27758850 27761727 + 0 NA intron (NM_001271511, intron 3 of 3) intron (NM_001271511, intron 3 of 3) -31337 NM_013891 30051 Mm.26768 NM_013891 ENSMUSG00000024215 Spdef PDEF|Pse SAM pointed domain containing ets transcription factor protein-coding 6.654 8.802 3.150 5.419 2.652 1.864 7.705 4.455 3.731 9.039 5.609 3.077 3.819 5.869 6.693 8.645 5.356 5.378 6.390 3.505 4.606 6.105 4.324 4.931 11.097 302 chr10 80375252 80379679 + 0 NA Intergenic Intergenic -7828 NR_038088 100568459 NR_038088 Bc1 Gm24367 brain cytoplasmic RNA 1 ncRNA 0.860 0.941 0.354 nan 0.643 0.629 0.543 2.089 0.606 0.682 0.645 0.479 0.599 0.695 nan 0.687 0.658 0.628 nan 3.487 4.931 5.480 5.208 5.193 1.074 1453 chr17 27893434 27898584 + 0 NA 3' UTR (NM_001080769, exon 21 of 21) 3' UTR (NM_001080769, exon 21 of 21) 11715 NM_026836 68776 Mm.267998 NM_026836 ENSMUSG00000024218 Taf11 1110038O14Rik|28kDa|AI115401|AL024207|AW552398|PRO214|TAF2I|TAFII28 TATA-box binding protein associated factor 11 protein-coding 2.509 0.904 0.532 0.878 0.798 0.466 2.145 2.553 1.094 1.224 0.724 0.868 1.468 2.338 1.833 1.863 1.437 1.955 2.998 1.829 1.584 4.956 2.751 1.801 2.914 866 chr13 31515175 31516514 + 0 NA Intergenic Intergenic -42326 NM_008239 15220 Mm.44235 NM_008239 ENSMUSG00000038415 Foxq1 HFH-1|Hfh1|Hfh1l|sa forkhead box Q1 protein-coding 2.740 0.897 0.193 0.864 1.147 0.554 1.474 4.702 2.792 3.188 2.439 0.919 4.234 5.354 2.161 3.368 1.402 3.486 0.394 0.141 0.205 0.364 0.327 0.138 4.220 2452 chr4 120232769 120245155 + 0 NA Intergenic MTA_Mm|LTR|ERVL-MaLR 48299 NM_194060 329934 Mm.277090 NM_194060 ENSMUSG00000052135 Foxo6 - forkhead box O6 protein-coding 6.649 3.148 1.210 5.126 4.944 3.133 4.854 4.674 5.536 6.148 2.843 1.767 6.281 8.300 5.347 6.246 4.458 6.684 2.847 2.084 1.603 3.431 1.943 1.604 7.203 2223 chr3 89069979 89071846 + 0 NA intron (NM_138679, intron 23 of 26) intron (NM_138679, intron 23 of 26) 19119 NM_001083808 72296 Mm.27687 NM_028188 ENSMUSG00000041263 Rusc1 2210403N08Rik|AA408288|NESCA RUN and SH3 domain containing 1 protein-coding 6.189 6.937 4.211 6.318 5.669 3.157 7.809 6.215 4.006 5.831 4.450 3.484 6.032 7.660 6.555 6.324 6.623 5.977 nan 4.008 4.093 4.197 4.553 2.603 7.346 3532 chr9 96293365 96300864 + 0 NA intron (NM_001184706, intron 7 of 12) intron (NM_001184706, intron 7 of 12) 37866 NM_001184710 211586 Mm.17977 NM_178667 ENSMUSG00000032411 Tfdp2 1110029I05Rik|A330080J22Rik|DP-3|DP3 transcription factor Dp 2 protein-coding 5.562 3.687 2.074 4.148 4.515 2.917 2.806 4.565 4.336 4.392 9.050 3.879 3.470 5.204 3.059 3.469 3.378 4.120 0.898 1.525 1.321 0.771 1.168 0.654 4.193 3358 chr8 112273201 112275131 + 0 NA Intergenic Intergenic 262807 NM_020584 57321 Mm.213064 NM_020584 ENSMUSG00000033430 Terf2ip Rap1 telomeric repeat binding factor 2, interacting protein protein-coding 6.515 3.208 2.406 1.995 3.757 3.188 4.883 5.805 2.141 1.947 4.706 2.478 4.293 5.541 4.592 4.785 3.772 3.643 0.747 1.176 0.960 nan 0.448 0.580 2.897 593 chr11 98810632 98817512 + 0 NA intron (NM_138660, intron 3 of 13) HAL1M8|LINE|L1 -3983 NR_033551 100037262 Mm.442062 NR_033551 ENSMUSG00000075576 Gm12359 OTTMUSG00000006457 predicted gene 12359 ncRNA 5.778 3.208 1.308 6.544 3.252 2.323 4.091 4.744 2.848 3.681 2.817 1.531 1.913 4.478 3.588 3.674 nan 3.842 2.418 nan 3.825 4.793 nan nan 5.070 770 chr12 73764517 73770106 + 0 NA intron (NM_001313977, intron 13 of 14) intron (NM_001313977, intron 13 of 14) -134013 NM_001313920 15251 Mm.3879 NM_010431 ENSMUSG00000021109 Hif1a AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78 hypoxia inducible factor 1, alpha subunit protein-coding 6.581 3.021 1.161 4.339 3.045 1.615 4.640 4.338 3.567 4.520 2.420 1.251 5.202 nan 6.336 nan 4.861 5.158 5.649 1.712 1.365 4.181 3.123 2.991 10.221 3380 chr8 122423370 122425292 + 0 NA TTS (NM_007806) TTS (NM_007806) 2246 NM_145834 234836 Mm.222808 NM_145834 ENSMUSG00000046108 Il17c IL-17C interleukin 17C protein-coding 0.822 0.672 0.312 0.326 0.983 0.624 1.016 1.089 1.166 0.473 5.204 2.622 0.406 0.945 0.770 nan 1.468 0.601 0.621 1.107 1.245 0.716 0.895 0.884 0.497 188 chr1 173380801 173385374 + 0 NA Intergenic Intergenic -15392 NM_053199 94332 Mm.330524 NM_053199 ENSMUSG00000005338 Cadm3 BIgR|Igsf4b|Necl-1|Necl1|SynCAM3|Tsll1 cell adhesion molecule 3 protein-coding 3.729 1.219 0.974 2.732 5.351 4.293 2.221 2.372 2.581 2.946 0.984 1.035 1.905 3.430 2.214 3.435 3.079 2.123 1.165 1.380 2.003 1.126 1.186 1.424 3.074 402 chr11 23983246 23990746 + 0 NA Intergenic Intergenic -91060 NM_016707 14025 Mm.53687 NM_016707 ENSMUSG00000000861 Bcl11a 2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809 B cell CLL/lymphoma 11A (zinc finger protein) protein-coding 0.401 8.531 4.432 nan 0.254 0.082 0.238 0.230 0.365 0.321 0.325 0.183 0.155 0.210 0.352 0.461 nan 0.448 0.467 0.599 0.228 0.312 0.294 0.148 0.373 3152 chr7 112780500 112782626 + 0 NA intron (NM_009346, intron 2 of 12) intron (NM_009346, intron 2 of 12) 22179 NM_001166585 21676 Mm.24685 NM_009346 ENSMUSG00000055320 Tead1 2610024B07Rik|B230114H05Rik|Gtrgeo5|TEAD-1|TEF-1|Tcf13|mTEF-1 TEA domain family member 1 protein-coding 8.442 4.295 1.286 8.488 4.210 1.840 7.093 9.067 4.384 8.942 3.289 2.231 7.507 9.439 6.603 9.091 6.251 9.171 nan 1.816 1.611 3.615 2.877 2.494 12.411 1940 chr2 115878023 115902758 + 0 NA intron (NM_001346047, intron 10 of 13) intron (NM_001346047, intron 10 of 13) 174229 NM_001346044 17536 Mm.247566 NM_010825 ENSMUSG00000027210 Meis2 A430109D20Rik|Mrg1|Stra10 Meis homeobox 2 protein-coding 2.026 1.605 1.196 1.864 1.412 0.776 0.986 0.658 1.042 1.326 0.585 0.490 nan 0.957 0.635 nan 1.130 1.273 10.116 5.696 3.972 5.279 11.028 8.645 nan 1097 chr15 57711237 57713399 + 0 NA intron (NM_199449, intron 1 of 3) intron (NM_199449, intron 1 of 3) 17651 NM_199449 387609 Mm.36557 NM_199449 ENSMUSG00000071757 Zhx2 Afr-1|Afr1|Raf|mKIAA0854 zinc fingers and homeoboxes 2 protein-coding 5.530 1.350 0.760 2.143 2.133 1.369 6.440 6.969 2.524 2.539 1.364 0.977 4.848 4.695 5.577 3.803 5.317 4.450 2.356 2.229 0.548 3.259 1.321 0.356 2.622 641 chr11 112898481 112907140 + 0 NA Intergenic MER131|SINE?|SINE? -77682 NR_130164 76393 Mm.86795 NR_130164 1700012H19Rik - RIKEN cDNA 1700012H19 gene ncRNA 1.651 0.741 0.374 nan 0.385 0.086 2.382 1.999 nan nan 0.530 0.517 1.638 nan 2.365 2.687 1.395 nan 1.429 1.622 1.065 nan 1.218 0.730 2.820 3366 chr8 120898301 120906440 + 0 NA Intergenic Intergenic 163731 NM_001301811 15900 Mm.334861 NM_008320 ENSMUSG00000041515 Irf8 AI893568|ICSBP|IRF-8|Icsbp1|Myls interferon regulatory factor 8 protein-coding 0.464 0.384 0.414 0.411 0.353 0.217 0.331 0.327 0.405 0.277 0.656 0.493 0.171 0.335 0.287 nan 0.419 0.438 2.263 2.969 1.753 6.127 2.508 1.578 0.463 1641 chr18 55019784 55021974 + 0 NA Intergenic Intergenic -30699 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 5.309 nan 1.128 nan 2.838 1.222 4.513 3.752 4.249 3.934 5.513 2.904 8.004 5.390 4.888 5.639 5.202 6.091 nan 0.690 0.335 nan 0.681 0.331 nan 838 chr12 118790801 118800432 + 0 NA Intergenic IAPEz-int|LTR|ERVK -50713 NM_177082 320145 Mm.51682 NM_177082 ENSMUSG00000048562 Sp8 D930049B17Rik|mBtd trans-acting transcription factor 8 protein-coding 6.329 1.768 1.186 3.174 2.249 1.021 5.028 4.876 6.302 6.632 1.401 1.549 8.944 5.113 5.630 7.182 7.839 5.386 0.673 0.769 0.355 0.607 0.425 0.328 5.445 2962 chr6 99165955 99168350 + 0 NA intron (NM_001347345, intron 4 of 19) intron (NM_001347345, intron 4 of 19) 99363 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 1.696 0.903 0.866 1.301 2.775 1.498 2.135 3.626 3.777 2.617 1.474 2.126 2.292 3.947 3.904 5.016 2.513 2.442 nan nan 0.769 0.979 0.882 0.961 1.957 2664 chr5 53514933 53522568 + 0 NA Intergenic ID_B1|SINE|B4 -37029 NM_001080928 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 0.576 1.514 0.701 0.413 0.405 0.195 0.803 0.747 0.658 0.694 0.404 0.356 0.563 0.649 0.800 nan 0.715 0.829 4.666 4.281 2.826 4.418 5.208 3.652 0.674 616 chr11 101121025 101123501 + 0 NA intron (NM_134024, intron 3 of 10) intron (NM_134024, intron 3 of 10) 2132 NM_134024 103733 Mm.479145 NM_134024 ENSMUSG00000035198 Tubg1 1500010O08Rik|AI451582|AI503389|Tubg tubulin, gamma 1 protein-coding 5.219 nan 0.542 4.344 1.854 1.011 6.554 6.887 2.117 4.442 3.224 1.522 6.682 6.693 5.745 7.853 4.199 5.359 1.481 nan 1.365 2.372 nan nan 9.984 640 chr11 109576929 109584520 + 0 NA intron (NM_145940, intron 8 of 12) intron (NM_145940, intron 8 of 12) 30665 NM_145940 52639 Mm.35817 NM_145940 ENSMUSG00000041895 Wipi1 4930533H01Rik|AW411817|D11Ertd498e WD repeat domain, phosphoinositide interacting 1 protein-coding 2.648 1.383 0.447 nan 1.455 0.645 5.322 6.700 nan nan 1.917 1.083 2.708 3.674 5.363 5.911 4.128 nan 1.619 1.132 0.834 nan 0.587 0.336 4.000 1121 chr15 68191269 68196707 + 0 NA intron (NM_198644, intron 3 of 15) intron (NM_198644, intron 3 of 15) 64868 NM_001145888 380993 Mm.309526 NM_198644 ENSMUSG00000022335 Zfat Gm922|Zfat1|Zfp406 zinc finger and AT hook domain containing protein-coding 10.566 3.936 1.493 7.452 5.565 4.336 9.068 10.405 5.404 10.390 2.812 1.884 10.054 9.881 10.113 9.713 7.725 11.205 2.700 1.310 1.588 3.260 2.034 2.771 10.783 870 chr13 31658575 31662173 + 0 NA Intergenic Intergenic 34558 NM_010225 14238 Mm.125548 NM_010225 ENSMUSG00000038402 Foxf2 FREAC2|Fkh20|LUN forkhead box F2 protein-coding 2.907 1.295 0.627 1.433 2.469 1.490 5.087 6.001 3.021 3.005 4.334 4.532 4.744 6.225 4.589 6.219 3.017 3.547 0.565 0.517 0.613 0.518 0.363 0.477 3.864 1384 chr16 95511058 95514173 + 0 NA intron (NM_001302152, intron 3 of 10) L1Md_A|LINE|L1 17750 NM_001302179 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 5.504 1.216 0.758 2.908 4.153 1.277 3.793 4.689 nan 4.130 2.250 0.903 3.877 8.945 nan 5.010 4.278 nan nan 1.147 0.584 1.131 1.135 0.597 5.264 896 chr13 45751614 45755429 + 0 NA intron (NM_001199304, intron 4 of 6) intron (NM_001199304, intron 4 of 6) 211470 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 4.136 0.485 0.446 3.099 5.762 3.206 2.746 4.051 4.773 5.027 1.493 0.764 4.093 8.252 4.430 6.780 3.927 5.543 0.907 nan 0.817 0.658 0.758 0.447 5.817 1468 chr17 28504785 28508304 + 0 NA Intergenic B4A|SINE|B4 -20395 NM_010220 14229 Mm.276405 NM_010220 ENSMUSG00000024222 Fkbp5 D17Ertd592e|Dit1|FKBP-5|FKBP51 FK506 binding protein 5 protein-coding 1.802 0.680 0.785 1.332 4.355 3.382 2.957 1.509 1.874 2.082 0.931 1.128 1.540 3.786 1.675 nan 1.800 1.684 0.882 0.618 1.292 0.567 0.750 1.115 1.901 3530 chr9 96263165 96266171 + 0 NA intron (NM_001184710, intron 1 of 9) intron (NM_001184710, intron 1 of 9) 5420 NM_001184710 211586 Mm.17977 NM_178667 ENSMUSG00000032411 Tfdp2 1110029I05Rik|A330080J22Rik|DP-3|DP3 transcription factor Dp 2 protein-coding 6.205 7.454 2.066 7.541 3.020 2.415 3.808 4.103 4.184 9.461 7.735 2.679 4.476 6.048 5.767 6.164 3.574 6.973 3.379 2.144 2.268 4.575 2.092 3.241 9.280 3184 chr7 126993371 126995564 + 0 NA intron (NM_080638, intron 7 of 14) RMER6A|LTR|ERVK 18553 NM_001347656 52858 Mm.28219 NM_026638 ENSMUSG00000030682 Cdipt 9530042F15Rik|D7Bwg0575e|Pis|Pis1 CDP-diacylglycerol--inositol 3-phosphatidyltransferase (phosphatidylinositol synthase) protein-coding 4.589 1.585 0.737 4.971 4.277 3.146 3.284 4.906 4.285 4.362 2.414 1.479 4.507 4.071 3.720 4.750 4.652 5.810 0.952 0.519 0.703 0.478 0.611 0.935 4.043 2068 chr2 163535868 163539452 + 0 NA intron (NM_001312907, intron 2 of 10) intron (NM_001312907, intron 2 of 10) 4061 NR_027970 68314 Mm.46190 NM_197983 ENSMUSG00000046840 Hnf4aos 0610008F07Rik hepatic nuclear factor 4 alpha, opposite strand ncRNA 3.964 6.104 1.937 6.249 1.495 0.617 1.113 1.577 2.141 2.808 1.499 0.819 1.232 2.792 2.187 4.139 1.986 3.301 nan 2.188 0.820 1.134 0.643 0.508 3.810 1726 chr19 5938355 5947034 + 0 NA intron (NM_001164057, intron 15 of 17) intron (NM_001164057, intron 15 of 17) -17878 NM_026772 104252 Mm.491103 NM_026772 ENSMUSG00000045664 Cdc42ep2 1110008C05Rik|Borg1|Cep2|D19Bwg1013e CDC42 effector protein (Rho GTPase binding) 2 protein-coding 4.507 2.085 0.654 3.608 1.359 0.632 4.933 6.811 nan 1.854 0.862 1.134 3.322 3.482 3.964 nan 3.062 3.627 1.146 0.693 0.648 3.915 0.392 0.366 3.891 2903 chr6 83365969 83369886 + 0 NA 3' UTR (NM_183138, exon 11 of 11) 3' UTR (NM_183138, exon 11 of 11) 18443 NM_175277 78653 Mm.391470 NM_175277 ENSMUSG00000045160 Bola3 1810056O20Rik bolA-like 3 (E. coli) protein-coding 3.476 4.290 1.993 2.762 1.715 1.557 4.498 3.463 2.671 3.243 1.884 1.573 4.927 3.808 3.537 5.414 3.819 4.028 nan 1.740 1.566 1.417 1.855 1.605 3.535 1464 chr17 28375042 28376849 + 0 NA Intergenic Intergenic -10802 NM_021478 22157 Mm.42102 NM_021478 ENSMUSG00000037446 Tulp1 Tulp1l tubby like protein 1 protein-coding 1.127 1.313 1.297 1.039 1.674 1.434 1.823 1.840 1.168 1.016 1.199 0.508 0.668 1.251 0.904 1.247 1.144 0.779 4.575 3.729 5.050 5.244 5.349 5.974 1.535 2165 chr3 30124015 30127750 + 0 NA Intergenic B3A|SINE|B2 -112678 NM_007963 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 1.220 0.535 0.625 nan 1.062 0.728 nan 0.680 4.770 2.845 0.905 2.906 1.925 1.440 nan 3.123 1.879 2.960 0.760 0.536 0.952 0.457 0.671 0.748 1.651 2347 chr4 21703417 21705041 + 0 NA Intergenic L2|LINE|L2 -18266 NM_001080771 230025 Mm.208541 NM_001080771 ENSMUSG00000040478 Prdm13 - PR domain containing 13 protein-coding 4.882 8.007 2.618 7.016 2.716 1.795 5.375 4.155 4.173 5.338 2.748 2.102 4.140 5.078 4.936 6.299 3.270 6.204 3.688 1.408 2.170 3.332 1.344 1.927 6.579 1494 chr17 35047744 35048951 + 0 NA Intergenic Intergenic -1602 NM_001146215 17687 Mm.24192 NM_013600 ENSMUSG00000007035 Msh5 Mut5 mutS homolog 5 protein-coding 2.948 6.968 2.832 0.504 0.296 0.104 4.038 3.980 0.698 0.926 0.631 0.163 2.475 2.857 3.259 3.729 2.143 1.832 0.383 0.168 0.521 0.629 0.249 0.318 4.722 3440 chr9 21586603 21597906 + 0 NA promoter-TSS (NM_178619) promoter-TSS (NM_178619) -468 NM_178619 69773 Mm.39704 NM_178619 ENSMUSG00000048429 Timm29 1810026J23Rik translocase of inner mitochondrial membrane 29 protein-coding 6.073 1.231 0.856 6.012 6.068 4.769 4.665 4.496 6.436 7.916 1.529 1.490 6.425 8.648 5.283 7.349 5.500 7.976 1.448 2.018 2.362 1.621 1.390 1.363 8.686 777 chr12 76770883 76773253 + 0 NA intron (NM_206534, intron 1 of 3) intron (NM_206534, intron 1 of 3) 6495 NM_206534 211151 Mm.80970 NM_206534 ENSMUSG00000090258 Churc1 1700030P15Rik|My015|chch churchill domain containing 1 protein-coding 4.515 5.150 1.542 3.326 1.275 0.406 2.520 2.951 2.123 2.710 6.242 2.194 3.798 nan 4.379 5.483 2.801 4.193 2.500 0.726 0.399 2.975 0.696 0.363 4.769 3426 chr9 20819184 20838220 + 0 NA Intergenic B4A|SINE|B4 10198 NM_001030290 235033 Mm.297661 NM_001030290 ENSMUSG00000053773 Rdh8 Gm182|prRDH retinol dehydrogenase 8 protein-coding 7.371 4.753 1.830 6.632 4.840 4.057 6.490 5.214 6.046 7.277 3.331 2.671 6.637 7.592 6.485 7.833 4.833 7.755 1.704 1.237 1.675 1.566 1.666 1.645 12.173 2018 chr2 155342935 155344692 + 0 NA intron (NM_001004721, intron 2 of 11) L2|LINE|L2 -13004 NR_030475 735287 NR_030475 ENSMUSG00000076216 Mir695 Mirn695|mmu-mir-695 microRNA 695 ncRNA 4.841 5.393 2.513 4.032 2.898 0.785 2.040 5.219 nan 5.678 2.554 1.785 nan 6.092 4.311 6.576 4.915 nan 2.725 2.683 1.027 3.127 3.287 1.942 7.039 1906 chr2 73223165 73225287 + 0 NA Intergenic MLT1H2-int|LTR|ERVL-MaLR -9779 NM_025942 67059 Mm.22661 NM_025942 ENSMUSG00000027108 Ola1 2510025G09Rik|2810405J23Rik|2810409H07Rik|Gtpbp9|PTD004 Obg-like ATPase 1 protein-coding nan 6.687 1.527 5.793 1.134 0.925 2.873 3.879 3.489 4.375 2.770 0.875 5.289 4.707 nan 6.184 4.506 5.238 3.482 1.303 0.923 4.769 1.546 1.712 7.482 2786 chr5 138217050 138221269 + 0 NA Intergenic CT-rich|Low_complexity|Low_complexity -6745 NM_001013773 381680 Mm.156846 NM_001013773 ENSMUSG00000047592 Nxpe5 - neurexophilin and PC-esterase domain family, member 5 protein-coding 3.986 5.833 1.771 4.925 1.930 1.557 3.568 3.706 2.706 5.585 2.492 2.082 2.928 4.422 4.881 5.441 2.842 4.285 4.348 1.846 3.103 4.683 3.473 4.614 5.980 464 chr11 69777207 69780937 + 0 NA exon (NM_029348, exon 4 of 4) exon (NM_029348, exon 4 of 4) 13160 NM_029348 75580 Mm.426361 NM_029348 ENSMUSG00000018750 Zbtb4 2310026P19Rik|9230111I22Rik|mKIAA1538 zinc finger and BTB domain containing 4 protein-coding 6.055 1.654 0.493 6.455 4.652 3.163 8.148 9.032 4.977 7.210 6.622 5.069 7.110 8.709 9.076 10.063 6.375 8.536 6.661 3.562 3.179 7.449 5.521 6.151 nan 3235 chr8 23703145 23705702 + 0 NA intron (NM_001277239, intron 1 of 7) L1_Rod|LINE|L1 34762 NM_177086 320158 Mm.121274 NM_177086 ENSMUSG00000037492 Zmat4 9630048M01Rik zinc finger, matrin type 4 protein-coding 8.242 9.144 2.257 9.826 3.497 2.719 5.832 9.363 5.570 11.239 6.114 3.887 8.826 8.226 9.753 10.919 6.790 9.735 5.844 3.825 3.679 10.791 2.958 3.682 12.987 2977 chr6 113275697 113278446 + 0 NA intron (NM_026849, intron 17 of 18) intron (NM_026849, intron 17 of 18) -5236 NM_170673 211232 Mm.65597 NM_170673 ENSMUSG00000030270 Cpne9 A730016F12Rik|mKIAA4217 copine family member IX protein-coding 6.605 6.907 4.151 6.346 5.706 4.702 8.409 7.765 4.636 4.910 4.307 3.421 5.550 8.473 7.778 8.569 6.693 5.604 3.221 2.439 3.925 3.390 nan 4.668 8.106 1672 chr18 69594250 69597188 + 0 NA intron (NM_013685, intron 8 of 19) intron (NM_013685, intron 8 of 19) 249998 NM_001083967 21413 Mm.4269 NM_013685 ENSMUSG00000053477 Tcf4 5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19 transcription factor 4 protein-coding 4.039 0.897 0.735 4.078 2.758 2.018 1.193 1.385 2.405 2.490 2.597 2.370 1.195 1.945 1.449 2.426 1.534 2.470 1.948 2.071 1.051 2.014 2.038 1.008 1.683 2325 chr3 154324945 154327560 + 0 NA intron (NM_010713, intron 3 of 8) intron (NM_010713, intron 3 of 8) 4308 NM_010713 16875 Mm.15530 NM_010713 ENSMUSG00000096225 Lhx8 L3|Lhx7 LIM homeobox protein 8 protein-coding 0.390 1.230 0.648 0.891 0.219 0.115 0.317 0.453 0.277 0.313 0.619 0.449 0.195 0.402 0.428 0.372 0.418 0.474 5.395 3.162 2.316 6.661 5.674 4.501 0.541 1685 chr18 79219211 79224797 + 0 NA Intergenic Charlie29a|DNA|hAT-Charlie -112613 NM_053099 240427 Mm.312871 NM_053099 ENSMUSG00000024548 Setbp1 C130092E12|Seb|mKIAA0437 SET binding protein 1 protein-coding 7.132 nan 0.829 3.684 4.198 2.797 3.858 7.724 3.740 4.718 3.307 3.598 5.698 5.683 3.329 5.952 4.639 7.497 2.399 nan 1.070 0.880 1.865 1.709 6.709 2011 chr2 153265864 153271995 + 0 NA 3' UTR (NM_080463, exon 7 of 7) 3' UTR (NM_080463, exon 7 of 7) -22487 NM_008444 16569 Mm.315560 NM_008444 ENSMUSG00000027475 Kif3b AI854312|AW549267|mKIAA0359 kinesin family member 3B protein-coding 7.236 1.786 0.731 4.457 1.760 1.223 8.700 8.763 nan nan 1.196 1.720 6.198 6.643 6.657 8.723 6.812 5.235 nan 1.521 1.945 2.494 1.878 1.990 13.144 1891 chr2 49210649 49212086 + 0 NA intron (NM_029924, intron 6 of 16) Lx8b|LINE|L1 -34533 NM_001290656 109241 Mm.440436 NM_029924 ENSMUSG00000036792 Mbd5 9430004D19Rik|AA536666|AI426407|C030040A15Rik|Gm1630|OTTMUSG00000012483 methyl-CpG binding domain protein 5 protein-coding 1.401 0.402 0.310 1.986 1.901 0.496 1.211 1.395 1.446 2.816 1.375 0.425 1.778 4.641 1.343 3.827 0.817 1.688 1.654 0.325 0.171 1.989 1.912 0.936 0.639 3452 chr9 25391271 25393797 + 0 NA Intergenic L1_Mus3|LINE|L1 -89063 NM_026189 67484 Mm.112977 NM_026189 ENSMUSG00000036611 Eepd1 2310005P05Rik|AI481005 endonuclease/exonuclease/phosphatase family domain containing 1 protein-coding 1.899 0.748 0.413 0.845 0.547 0.396 1.597 4.126 1.303 1.139 0.855 1.362 0.933 1.075 1.562 nan 0.417 1.440 0.539 0.837 0.507 0.539 0.594 0.567 1.828 6 chr1 10137517 10139526 + 0 NA 3' UTR (NM_001102430, exon 38 of 38) 3' UTR (NM_001102430, exon 38 of 38) 94149 NM_001102430 211673 Mm.229141 NM_001102430 ENSMUSG00000067851 Arfgef1 ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200 ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited) protein-coding 7.516 0.756 0.194 2.350 2.230 0.958 2.557 3.553 2.237 2.892 0.710 0.760 4.239 4.324 2.996 4.053 5.029 3.699 0.655 0.764 0.183 0.482 0.603 0.341 3.057 2768 chr5 136157755 136172499 + 0 NA intron (NM_178751, intron 1 of 2) B3A|SINE|B2 5529 NM_178751 269717 Mm.308396 NM_178751 ENSMUSG00000039747 Orai2 A730041O15Rik|Tmem142b ORAI calcium release-activated calcium modulator 2 protein-coding 5.187 2.523 1.715 4.899 5.695 3.917 5.657 7.637 5.234 6.313 5.613 5.410 5.638 7.965 4.973 6.088 5.484 5.242 3.983 2.761 2.742 4.229 nan 4.059 4.367 562 chr11 96149577 96152164 + 0 NA intron (NM_172799, intron 9 of 14) intron (NM_172799, intron 9 of 14) 17084 NM_172799 237930 Mm.249912 NM_172799 ENSMUSG00000038756 Ttll6 4932418K24Rik|D11Moh43e|D11Moh44e|t8130b59 tubulin tyrosine ligase-like family, member 6 protein-coding 0.383 nan 0.265 0.363 0.441 0.247 0.528 0.227 0.226 0.300 0.221 0.038 0.086 0.356 0.150 0.382 nan 0.197 1.018 nan 3.146 6.166 nan nan 0.239 1304 chr16 22377329 22381362 + 0 NA Intergenic Intergenic 60225 NM_023794 104156 Mm.155708 NM_023794 ENSMUSG00000013089 Etv5 1110005E01Rik|8430401F14Rik|ERM ets variant 5 protein-coding 3.268 0.672 0.694 2.442 2.357 2.046 1.845 1.799 3.086 5.302 0.529 0.719 5.256 5.543 2.914 5.428 4.515 3.724 0.418 0.633 0.454 0.621 0.501 0.731 5.215 2327 chr4 6840259 6844763 + 0 NA intron (NM_145711, intron 1 of 8) intron (NM_145711, intron 1 of 8) 148212 NM_145711 252838 Mm.435828 NM_145711 ENSMUSG00000041272 Tox 1700007F02Rik thymocyte selection-associated high mobility group box protein-coding 5.358 1.035 0.680 3.480 3.575 1.845 3.209 5.371 5.177 5.380 1.053 2.507 3.804 5.579 3.480 4.130 2.495 6.516 7.163 nan 1.956 8.182 5.904 4.477 2.221 2269 chr3 96354515 96373163 + 0 NA Intergenic LTRIS2|LTR|ERV1 50994 NR_001579 21748 NR_001579 ENSMUSG00000064796 Terc mTER|mTR telomerase RNA component ncRNA 9.750 7.686 3.568 11.641 9.202 6.307 8.652 8.154 7.418 9.097 nan 3.588 8.494 12.165 8.114 7.870 7.776 9.493 5.487 4.342 4.050 5.178 6.167 5.123 8.879 1102 chr15 58041438 58048072 + 0 NA Intergenic B2_Mm2|SINE|B2 -10461 NM_029418 75758 Mm.455792 NM_029418 ENSMUSG00000101892 9130401M01Rik AI849328 RIKEN cDNA 9130401M01 gene protein-coding 7.106 4.787 1.116 nan 2.337 1.616 6.448 11.520 nan nan 5.079 2.724 8.204 5.784 6.373 5.815 5.276 5.117 5.036 3.402 3.095 6.224 4.856 3.912 6.687 183 chr1 168066813 168069344 + 0 NA Intergenic B3A|SINE|B2 364091 NM_001291508 18514 Mm.43358 NM_008783 ENSMUSG00000052534 Pbx1 2310056B04Rik|D230003C07Rik|Pbx-1 pre B cell leukemia homeobox 1 protein-coding 7.348 2.102 1.518 nan 3.857 1.568 3.092 9.372 4.271 5.643 5.093 4.616 5.640 7.272 nan 3.610 2.096 4.050 1.373 1.682 0.851 nan nan 1.322 nan 3569 chrX 69227365 69229634 + 0 NA Intergenic Intergenic -131832 NM_008032 14266 Mm.466576 NM_008032 ENSMUSG00000031189 Aff2 FMR2P|Fmr2|Ox19|Oxh AF4/FMR2 family, member 2 protein-coding 3.122 0.533 0.447 2.213 1.086 0.549 1.790 3.949 2.684 2.544 1.723 0.334 2.637 3.584 2.795 3.667 2.292 3.103 0.808 0.580 0.568 1.439 0.293 0.339 1.569 3189 chr7 127881364 127884236 + 0 NA exon (NM_172749, exon 2 of 3) exon (NM_172749, exon 2 of 3) 5099 NM_172749 233905 Mm.491243 NM_172749 ENSMUSG00000049739 Zfp646 6820429M01 zinc finger protein 646 protein-coding 1.128 1.036 0.325 1.459 0.808 0.430 1.891 nan 0.711 1.136 0.493 0.401 1.557 2.560 3.351 4.628 1.992 1.288 1.338 0.935 0.926 3.277 0.652 0.438 5.735 3179 chr7 125661767 125664079 + 0 NA intron (NM_207239, intron 21 of 36) intron (NM_207239, intron 21 of 36) 44765 NM_207239 233863 Mm.294173 NM_207239 ENSMUSG00000032777 Gtf3c1 - general transcription factor III C 1 protein-coding 3.139 0.627 0.281 2.508 1.936 1.055 3.796 6.620 2.144 3.656 1.412 1.490 6.029 5.620 3.952 4.010 3.946 3.937 1.236 1.391 0.746 1.506 2.287 1.586 2.508 2544 chr4 141451561 141456660 + 0 NA intron (NM_009541, intron 2 of 15) MIR|SINE|MIR 9437 NM_009541 22642 Mm.389590 NM_009541 ENSMUSG00000006215 Zbtb17 AA589413|Lp-1|Miz1|Zfp100|mZ13 zinc finger and BTB domain containing 17 protein-coding nan 1.290 0.505 1.093 0.488 0.267 0.408 0.897 nan 0.554 0.435 0.317 0.382 0.489 0.665 0.740 0.417 nan 3.361 1.978 1.759 6.661 nan 3.244 0.958 1478 chr17 31983440 31986740 + 0 NA intron (NM_028902, intron 7 of 7) LTR40b|LTR|ERVL 49418 NM_028902 74377 Mm.75856 NM_028902 ENSMUSG00000002076 Hsf2bp 4932437G14Rik heat shock transcription factor 2 binding protein protein-coding 1.430 2.348 0.699 2.931 1.877 0.646 1.471 1.797 2.088 3.293 7.677 2.600 1.033 1.969 1.697 1.711 1.029 1.922 0.636 0.693 0.991 1.213 0.462 0.382 2.386 2541 chr4 141224366 141228298 + 0 NA Intergenic MurERV4_19-int|LTR|ERVK 12376 NM_001081174 76166 Mm.271064 NM_001081174 ENSMUSG00000073733 Rsg1 6330545A04Rik|Gm723 REM2 and RAB-like small GTPase 1 protein-coding nan 1.116 1.411 3.002 7.049 7.678 2.303 3.262 nan 2.709 1.394 1.965 1.694 4.262 2.938 3.437 2.487 nan 1.353 1.525 1.487 1.030 nan 1.788 2.647 439 chr11 60148496 60154216 + 0 NA intron (NM_001037764, intron 1 of 4) intron (NM_001037764, intron 1 of 4) 11274 NM_001037764 19377 Mm.296366 NM_009021 ENSMUSG00000062115 Rai1 Gt1 retinoic acid induced 1 protein-coding 3.858 0.893 0.742 2.536 4.331 4.393 4.551 3.096 3.340 2.877 3.414 1.793 3.802 3.526 3.450 4.396 3.362 4.064 nan 1.665 2.378 1.716 2.045 2.635 nan 362 chr10 127612496 127618821 + 0 NA intron (NM_008512, intron 1 of 88) intron (NM_008512, intron 1 of 88) 5490 NM_008512 16971 Mm.271854 NM_008512 ENSMUSG00000040249 Lrp1 A2mr|AI316852|CD91|Lrp|b2b1554Clo low density lipoprotein receptor-related protein 1 protein-coding 6.268 nan 2.118 5.861 6.191 4.448 4.500 5.429 4.943 4.519 3.402 2.487 4.170 6.265 4.477 4.630 5.178 5.242 1.527 1.535 2.056 1.512 nan 1.304 4.767 1379 chr16 95429897 95432099 + 0 NA intron (NM_001302152, intron 3 of 10) intron (NM_001302152, intron 3 of 10) 28350 NM_001302154 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 4.152 0.924 0.299 2.514 1.029 0.388 2.946 2.444 3.491 4.178 1.092 0.850 4.583 4.621 nan 3.747 2.691 5.055 nan 0.903 0.657 1.881 0.476 0.312 2.900 2607 chr4 154543806 154554340 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 87294 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 5.131 2.189 0.820 6.327 4.304 2.383 3.653 4.146 3.126 4.181 3.131 2.248 3.000 5.070 4.254 5.381 2.317 5.148 1.672 1.022 0.728 2.661 1.055 0.676 5.718 1593 chr18 5603107 5604726 + 0 NA intron (NM_011546, intron 1 of 7) intron (NM_011546, intron 1 of 7) -11479 NR_033552 791318 Mm.84339 NR_033552 ENSMUSG00000063087 Gm10125 ENSMUSG00000063087|Zeb1os predicted gene 10125 ncRNA 6.935 5.307 3.041 5.189 3.888 1.842 3.760 2.983 3.066 3.847 2.213 3.402 nan 5.406 3.976 2.970 2.151 4.466 4.425 6.304 2.140 3.779 8.785 5.520 5.457 705 chr11 121214797 121216349 + 0 NA intron (NM_001001333, intron 5 of 12) B3|SINE|B2 7930 NM_001146073 238023 Mm.275130 NM_001001333 ENSMUSG00000039307 Hexdc BC069960 hexosaminidase (glycosyl hydrolase family 20, catalytic domain) containing protein-coding 9.906 12.519 4.037 10.773 6.985 5.697 7.188 6.946 5.879 10.902 7.466 4.100 5.957 8.777 7.914 9.841 6.322 8.743 5.405 4.793 4.680 6.822 4.233 4.153 13.493 3345 chr8 108691998 108694081 + 0 NA Intergenic Intergenic -21605 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 9.239 10.828 4.445 6.112 5.099 2.557 6.952 11.153 3.588 6.801 3.755 3.298 7.014 9.174 7.205 9.833 11.579 6.435 5.533 7.859 5.738 8.133 7.436 6.808 12.249 1720 chr19 5559530 5563031 + 0 NA promoter-TSS (NM_019935) promoter-TSS (NM_019935) -705 NM_019935 18426 Mm.280225 NM_019935 ENSMUSG00000024922 Ovol1 BB147136|Ovo1|movo1 ovo like zinc finger 1 protein-coding 3.326 0.871 0.447 4.548 2.464 2.328 6.413 9.067 nan 5.574 3.658 2.641 5.485 8.390 7.460 7.566 5.489 6.143 2.419 0.971 1.155 5.419 2.263 2.658 10.015 3053 chr7 3656867 3659869 + 0 NA exon (NM_146176, exon 15 of 18) exon (NM_146176, exon 15 of 18) 2406 NR_039587 100628594 NR_039587 ENSMUSG00000093290 Mir3572 mir-3572|mmu-mir-3572 microRNA 3572 ncRNA 4.588 3.066 1.183 3.363 1.733 1.222 3.747 3.540 2.876 2.640 4.093 1.904 4.756 4.192 4.781 4.161 3.606 4.504 0.601 0.748 0.583 0.666 0.401 0.145 5.324 2206 chr3 87931304 87933459 + 0 NA intron (NM_177663, intron 2 of 3) intron (NM_177663, intron 2 of 3) 2067 NM_177663 229504 Mm.45744 NM_177663 ENSMUSG00000048039 Isg20l2 4930429N24|C80587 interferon stimulated exonuclease gene 20-like 2 protein-coding 3.089 1.081 0.603 2.320 6.672 4.941 4.570 2.458 2.382 2.923 1.032 0.939 3.757 5.215 2.983 3.677 4.077 3.529 nan 1.559 0.844 0.504 0.889 0.646 3.214 2496 chr4 129495119 129501941 + 0 NA Intergenic B3|SINE|B2 7340 NM_001085491 68233 Mm.424983 NM_001085491 ENSMUSG00000078554 Fam229a 1700125D06Rik family with sequence similarity 229, member A protein-coding 8.446 11.911 5.983 7.738 7.440 4.780 7.319 7.534 5.756 9.073 6.606 4.348 6.862 9.435 nan 8.692 4.836 8.002 4.174 3.235 3.100 3.928 2.785 3.393 8.512 2177 chr3 40753030 40755766 + 0 NA intron (NM_011020, intron 3 of 18) L1MB7|LINE|L1 8785 NM_011020 18415 Mm.39330 NM_011020 ENSMUSG00000025757 Hspa4l 94kDa|AI461691|APG-1|Osp94 heat shock protein 4 like protein-coding 4.979 7.950 1.906 7.237 2.896 2.389 6.759 6.018 nan 11.771 4.243 2.684 5.914 8.731 7.178 7.642 5.126 6.977 nan 1.950 2.195 nan 2.726 4.334 11.261 407 chr11 44568141 44582093 + 0 NA Intergenic RLTR26_Mus|LTR|ERVK -11200 NR_126460 75389 Mm.261421 NR_126460 ENSMUSG00000086501 4930597A21Rik - RIKEN cDNA 4930597A21 gene ncRNA 0.317 8.579 4.965 0.727 0.207 0.088 0.217 nan 0.436 0.511 0.266 0.252 0.171 0.167 0.359 nan 0.347 nan nan 0.650 0.481 nan nan 0.144 0.307 18 chr1 20835705 20838375 + 0 NA Intergenic RMER17C|LTR|ERVK -16827 NM_008563 17215 Mm.4502 NM_008563 ENSMUSG00000041859 Mcm3 AL033361|C80350|Mcmd|P1|p1.m minichromosome maintenance complex component 3 protein-coding 7.080 0.435 0.436 2.863 3.006 1.863 6.679 3.127 4.363 3.963 2.303 2.041 8.789 6.075 6.372 10.287 7.116 4.842 1.118 0.655 0.403 0.661 0.639 0.673 5.048 376 chr11 3268206 3272339 + 0 NA intron (NR_037301, intron 1 of 1) PB1D10|SINE|Alu -3886 NM_007879 13494 Mm.3250 NM_007879 ENSMUSG00000020457 Drg1 AA408859|AI132520|Nedd3 developmentally regulated GTP binding protein 1 protein-coding 4.835 1.485 0.436 7.470 3.066 1.479 3.374 5.870 4.670 5.970 7.809 2.307 4.944 8.891 6.801 8.193 3.348 7.558 1.886 nan 0.682 2.031 1.362 0.988 8.979 912 chr13 48418644 48420975 + 0 NA Intergenic L1VL2|LINE|L1 93601 NM_001164575 67911 Mm.251375 NM_026450 ENSMUSG00000050954 Zfp169 1700025J14Rik|4930429A13Rik|BE688704 zinc finger protein 169 protein-coding nan 0.399 0.485 nan 0.115 0.108 0.332 0.300 0.298 0.277 0.252 0.324 0.072 0.205 0.250 0.435 0.325 nan 5.040 nan 2.529 5.076 5.843 4.246 nan 1432 chr17 26179737 26184562 + 0 NA intron (NM_001159598, intron 3 of 9) intron (NM_001159598, intron 3 of 9) 16938 NM_001081070 69191 Mm.32631 NM_001081070 ENSMUSG00000024184 Pdia2 1810041F13Rik|AI661267|Pdip|Pdipl protein disulfide isomerase associated 2 protein-coding 3.723 1.180 0.773 2.249 2.159 1.666 4.253 4.107 2.591 3.225 0.863 1.136 4.002 4.651 5.069 5.640 4.678 3.752 1.544 1.205 1.188 2.911 1.144 0.870 5.657 785 chr12 80624948 80638227 + 0 NA Intergenic B2_Mm2|SINE|B2 12524 NM_007951 13877 Mm.246551 NM_007951 ENSMUSG00000021131 Erh Mer|Prei1 enhancer of rudimentary homolog (Drosophila) protein-coding 5.940 1.520 0.766 3.219 2.794 1.651 5.614 4.644 4.986 4.893 4.728 1.919 9.816 6.638 6.334 nan 8.199 5.621 1.109 1.610 0.805 1.332 1.247 0.787 5.738 1930 chr2 101725660 101726663 + 0 NA intron (NM_175181, intron 8 of 8) RMER17B|LTR|ERVK 47741 NM_001303273 22034 Mm.292729 NM_009424 ENSMUSG00000027164 Traf6 2310003F17Rik|AI851288|C630032O20Rik TNF receptor-associated factor 6 protein-coding 5.999 4.007 1.701 4.975 1.996 1.026 3.138 4.617 4.242 4.009 1.364 1.250 3.619 4.882 4.328 5.085 2.929 4.753 3.017 2.299 1.453 3.091 2.546 1.246 6.976 599 chr11 98986398 98990922 + 0 NA Intergenic B2_Mm1a|SINE|B2 -5644 NM_178596 353155 Mm.453253 NM_178596 ENSMUSG00000047197 Gjd3 Gja11|Gjc1|cx30.2 gap junction protein, delta 3 protein-coding 6.616 nan 0.814 5.615 2.051 1.503 5.162 6.857 2.451 3.090 1.651 1.236 2.334 3.498 3.693 4.692 nan 3.713 3.456 nan 2.051 4.846 nan nan 7.977 1393 chr16 97937442 97942711 + 0 NA Intergenic ID_B1|SINE|B4 -17443 NM_174847 207781 Mm.1465 NM_174847 ENSMUSG00000045975 C2cd2 5730563M15|5830404H04Rik|AI314146|AI449533|BF168443|ORF25|mKIAA4045 C2 calcium-dependent domain containing 2 protein-coding nan 0.672 0.441 1.936 2.204 1.079 4.467 3.229 nan 1.655 3.272 2.519 4.096 3.465 3.348 5.341 2.639 3.521 nan 0.768 0.302 0.879 0.724 0.310 4.493 1167 chr15 79121440 79124298 + 0 NA exon (NM_177461, exon 6 of 16) exon (NM_177461, exon 6 of 16) 13886 NM_177461 27008 Mm.196480 NM_177461 ENSMUSG00000033039 Micall1 AI448246|D15Mit260|D15N2e|EST573322|EST820961|MIRab13|mKIAA1668 microtubule associated monooxygenase, calponin and LIM domain containing -like 1 protein-coding nan nan 0.716 nan 0.743 0.570 nan 1.380 0.795 nan nan 1.525 0.531 nan 0.775 0.715 nan 0.903 4.286 3.006 5.413 nan 5.008 5.897 0.761 587 chr11 98338929 98342586 + 0 NA Intergenic Intergenic -7649 NM_144828 19049 Mm.45372 NM_144828 ENSMUSG00000061718 Ppp1r1b AU040756|DARPP-32|Darpp32 protein phosphatase 1, regulatory (inhibitor) subunit 1B protein-coding 1.111 14.473 7.278 1.525 0.677 0.387 0.423 0.381 0.809 0.647 0.609 0.318 0.346 0.500 0.623 0.748 nan 0.845 0.525 nan 0.626 0.337 nan nan 0.667 609 chr11 100861108 100875084 + 0 NA intron (NM_001164062, intron 5 of 17) L1MC5|LINE|L1 7612 NM_001164062 20850 Mm.277403 NM_011488 ENSMUSG00000004043 Stat5a AA959963|STAT5 signal transducer and activator of transcription 5A protein-coding 6.702 nan 1.411 4.586 6.449 5.076 8.386 6.875 5.528 5.724 3.461 2.510 8.197 9.405 6.676 7.105 nan 5.884 2.077 nan 1.543 1.830 nan nan 4.768 1235 chr15 102222843 102231191 + 0 NA intron (NM_013566, intron 2 of 14) intron (NM_013566, intron 2 of 14) 4918 NM_013566 16421 Mm.58 NM_013566 ENSMUSG00000001281 Itgb7 Ly69 integrin beta 7 protein-coding 10.830 5.497 3.152 6.302 6.044 5.010 12.770 15.514 6.648 6.520 5.878 4.416 13.261 10.764 8.583 8.147 11.401 7.324 3.368 3.064 3.400 2.208 4.341 4.641 7.653 298 chr10 80019793 80025322 + 0 NA intron (NM_001347074, intron 10 of 22) intron (NM_001347074, intron 10 of 22) 2882 NM_027521 70719 Mm.243954 NM_027521 ENSMUSG00000035697 Hmha1 6330406L22Rik|AW539505|Ha-1 histocompatibility (minor) HA-1 protein-coding 5.828 5.483 1.951 6.241 2.449 1.617 3.896 4.887 3.502 5.367 3.193 2.135 3.662 5.409 nan 6.113 3.935 5.544 nan 1.237 1.370 2.785 1.597 1.487 9.517 95 chr1 91361913 91364964 + 0 NA Intergenic Intergenic -2992 NM_173395 227358 Mm.389157 NM_173395 ENSMUSG00000047443 Erfe 4832406C22|Fam132b|myonectin erythroferrone protein-coding 2.990 0.780 0.472 3.338 1.309 0.553 1.770 4.023 1.347 1.627 1.556 0.819 0.782 1.131 1.343 2.009 0.754 2.654 5.555 2.251 1.403 4.304 5.120 3.442 2.528 3291 chr8 77556859 77564644 + 0 NA intron (NM_001081240, intron 3 of 11) intron (NM_001081240, intron 3 of 11) 11354 NM_001081240 102182 Mm.197630 NM_178903 ENSMUSG00000037134 Prmt9 AI931714|Prmt10 protein arginine methyltransferase 9 protein-coding 2.880 nan 1.054 4.103 2.291 1.400 nan nan nan 2.515 1.575 0.784 2.747 4.326 3.713 4.758 2.837 3.782 2.711 1.322 1.204 6.243 1.635 1.453 nan 923 chr13 54537862 54548777 + 0 NA intron (NM_176987, intron 7 of 9) RMER12|LTR|ERVK 22063 NM_001252647 97820 Mm.24593 NM_133797 ENSMUSG00000025871 4833439L19Rik 4930558H15Rik|C81457|Kiaa1191|P33monox RIKEN cDNA 4833439L19 gene protein-coding nan 0.915 0.588 0.511 0.194 0.108 0.510 0.998 0.509 0.510 0.217 0.248 0.435 nan 0.513 nan 0.407 nan 6.554 5.277 2.730 7.532 6.785 4.414 nan 3373 chr8 122190468 122196906 + 0 NA Intergenic MER58C|DNA|hAT-Charlie -88454 NM_009569 22761 Mm.3105 NM_009569 ENSMUSG00000049577 Zfpm1 FOG|Fog1 zinc finger protein, multitype 1 protein-coding 4.820 0.690 0.507 6.155 4.573 4.109 2.808 4.013 4.897 6.283 5.237 8.384 2.929 5.816 3.605 4.142 2.080 4.769 1.179 1.594 2.000 2.578 1.297 1.421 4.056 243 chr10 39813614 39815756 + 0 NA intron (NM_011264, intron 10 of 31) B4A|SINE|B4 82525 NM_011264 19714 Mm.439723 NM_011264 ENSMUSG00000019841 Rev3l Rev|Rev3|Sez4 REV3 like, DNA directed polymerase zeta catalytic subunit protein-coding 3.577 1.074 0.591 3.342 2.183 1.571 0.973 2.199 1.702 1.907 0.530 0.797 1.220 1.745 1.537 2.210 1.305 2.397 1.208 1.202 0.686 1.327 0.700 0.764 1.933 2051 chr2 160617477 160618974 + 0 NA Intergenic Intergenic -27672 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 5.644 0.791 1.044 2.725 2.559 1.049 1.174 2.340 2.290 3.560 1.431 0.633 4.526 4.133 2.273 3.138 3.626 4.101 nan 0.896 0.550 0.910 0.887 0.591 3.230 2682 chr5 90310832 90312286 + 0 NA intron (NM_198010, intron 1 of 32) ID_B1|SINE|B4 54626 NM_030886 81702 Mm.245522 NM_030886 ENSMUSG00000055204 Ankrd17 4933425K22Rik|A130069E23Rik|A930008M01|AA407558|AA516750|AU040470|Foe|Gtar|Mask|mKIAA0697 ankyrin repeat domain 17 protein-coding 1.653 1.538 0.553 2.497 0.938 0.484 1.483 1.420 1.619 2.349 0.447 0.313 0.899 2.828 3.759 1.779 2.496 1.596 0.523 0.271 0.485 0.308 0.299 0.250 3.817 148 chr1 136672836 136675094 + 0 NA Intergenic AT_rich|Low_complexity|Low_complexity -9431 NR_045324 100503460 Mm.30630 NR_045324 ENSMUSG00000097113 Gm19705 - predicted gene, 19705 ncRNA 3.825 0.973 0.340 2.864 2.265 1.358 2.401 3.281 3.349 6.117 2.164 1.269 3.676 5.831 4.101 4.656 3.389 3.666 0.779 0.527 0.779 0.451 0.227 0.127 4.390 753 chr12 57431444 57449812 + 0 NA intron (NM_001164370, intron 9 of 9) intron (NM_001164370, intron 9 of 9) 105493 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 9.095 nan 0.766 4.294 4.878 3.040 8.215 5.729 7.962 8.791 2.582 1.510 10.687 10.182 nan nan 9.598 11.963 4.706 1.201 0.902 1.185 1.410 1.464 7.873 1343 chr16 43474341 43476651 + 0 NA intron (NM_181058, intron 3 of 6) intron (NM_181058, intron 3 of 6) -55300 NR_046026 626693 Mm.447083 NR_046026 ENSMUSG00000085499 Gm15713 OTTMUSG00000025617 predicted gene 15713 ncRNA 1.411 9.032 5.077 2.109 1.521 1.127 0.715 nan 0.673 0.904 0.534 0.636 0.821 1.013 0.989 1.014 0.818 1.971 1.682 1.007 0.866 1.247 1.113 0.970 1.255 2489 chr4 129299144 129302689 + 0 NA intron (NM_023485, intron 2 of 4) B1_Mur1|SINE|Alu 13295 NM_023485 68828 Mm.132243 NM_023485 ENSMUSG00000001333 Sync 1110057H03Rik|SNIP4 syncoilin protein-coding 3.619 4.554 1.022 7.987 3.111 1.430 2.576 2.450 2.447 3.300 1.990 0.773 1.636 3.534 3.516 3.313 1.611 3.214 3.685 2.581 1.215 5.732 2.545 1.691 4.025 2655 chr5 35348936 35356316 + 0 NA Intergenic Lx5c|LINE|L1 -8927 NR_046060 74429 Mm.399502 NR_046060 ENSMUSG00000106762 4930478P22Rik 4933405A14Rik RIKEN cDNA 4930478P22 gene ncRNA 0.724 1.438 0.687 1.330 0.542 0.401 0.750 1.885 1.181 1.002 0.822 1.025 0.587 0.959 nan 1.444 nan nan 2.055 1.740 1.429 6.152 1.061 0.830 1.031 2404 chr4 97313848 97317801 + 0 NA Intergenic L1Md_T|LINE|L1 -266119 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 0.615 nan 0.457 0.667 0.197 0.062 0.327 0.468 nan nan 0.381 0.127 0.152 0.509 nan 0.713 0.295 0.816 3.525 1.611 0.625 7.536 1.327 1.014 0.734 726 chr12 33904603 33906761 + 0 NA Intergenic Intergenic -22743 NM_033522 114712 Mm.204643 NM_033522 ENSMUSG00000046518 Ferd3l Mnato3|N-twist|Nato|Nato3|Ntwist|Ptfb|bHLHa31|fer3 Fer3-like (Drosophila) protein-coding 4.507 3.825 1.514 1.838 2.566 1.766 5.014 2.565 3.025 2.414 3.461 1.542 4.450 4.620 4.034 5.851 3.925 4.136 nan 0.744 1.022 1.732 0.780 1.230 7.909 2509 chr4 133683454 133686224 + 0 NA intron (NM_001080819, intron 18 of 19) intron (NM_001080819, intron 18 of 19) -12192 NM_001145956 230801 Mm.217004 NM_178698 ENSMUSG00000043257 Pigv B330013B03|D430024F16Rik phosphatidylinositol glycan anchor biosynthesis, class V protein-coding 7.217 8.693 1.762 9.023 3.103 1.240 6.137 8.221 nan 7.231 9.921 3.780 6.486 9.156 7.915 9.314 4.810 7.159 3.015 1.786 2.209 4.775 nan 2.148 9.255 2955 chr6 99041249 99052238 + 0 NA intron (NM_001347345, intron 6 of 19) intron (NM_001347345, intron 6 of 19) -18445 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 5.334 4.934 2.790 4.985 4.685 2.646 7.543 7.822 5.819 7.143 5.625 3.775 8.479 9.673 nan 9.002 7.188 7.210 nan nan 1.609 2.938 2.948 1.693 4.623 2703 chr5 106030019 106031574 + 0 NA Intergenic Intergenic 154228 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 1.909 1.217 1.241 1.888 1.650 1.839 nan 0.970 1.192 1.798 0.304 0.629 1.444 3.157 1.340 1.092 1.194 1.089 nan 1.026 1.141 0.366 1.050 0.897 1.131 2171 chr3 30893513 30903360 + 0 NA TTS (NM_153421) TTS (NM_153421) 42486 NM_001286994 71862 Mm.272019 NM_027965 ENSMUSG00000037661 Gpr160 1700025D19Rik|GPCR150 G protein-coupled receptor 160 protein-coding 6.181 2.124 0.868 5.590 6.130 3.719 6.846 6.187 5.864 6.204 6.416 2.844 8.114 10.132 6.958 7.160 6.009 8.264 1.539 1.322 1.089 1.856 1.049 0.793 7.063 2611 chr4 154588782 154598590 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 42681 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 9.843 5.548 1.264 9.485 4.895 2.126 9.424 8.995 6.166 12.667 5.195 2.614 7.841 9.882 8.387 10.797 5.052 8.900 3.139 1.918 1.536 4.433 1.581 1.635 15.256 106 chr1 121543043 121546222 + 0 NA Intergenic Intergenic -16167 NM_010483 15564 Mm.4833 NM_010483 ENSMUSG00000050534 Htr5b 5-Ht5b 5-hydroxytryptamine (serotonin) receptor 5B protein-coding 13.071 2.847 0.868 6.856 5.940 4.002 10.972 7.053 4.965 7.593 4.781 3.436 8.779 9.837 8.051 12.762 11.727 8.563 4.227 2.960 1.690 4.032 3.841 4.048 10.950 157 chr1 137209234 137210892 + 0 NA Intergenic Intergenic -249615 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 10.300 8.906 3.686 nan 3.682 2.903 6.741 5.869 4.766 5.697 5.592 4.238 6.425 6.563 7.692 10.881 7.208 7.714 5.879 2.783 2.235 4.989 3.172 3.213 11.420 964 chr13 113777517 113780370 + 0 NA Intergenic RLTR20A4|LTR|ERVK -15565 NM_172595 218639 Mm.79837 NM_172595 ENSMUSG00000042348 Arl15 A430036I03|Arfrp2|C230032K13Rik ADP-ribosylation factor-like 15 protein-coding 1.278 2.316 0.712 2.344 1.028 0.609 0.395 1.991 1.630 3.874 0.695 0.664 0.535 0.780 1.316 3.596 2.367 2.136 1.559 0.622 0.730 2.267 0.868 1.107 4.231 2009 chr2 152963492 152966434 + 0 NA intron (NM_001083618, intron 1 of 14) RLTR23|LTR|ERV1 2478 NM_001083618 74711 Mm.44746 NM_029064 ENSMUSG00000074673 Ttll9 1700016F23Rik|4930509O20Rik|AW046572 tubulin tyrosine ligase-like family, member 9 protein-coding 3.561 1.584 0.805 3.111 2.093 1.498 1.821 2.949 2.386 3.042 1.583 0.616 3.532 4.759 2.531 4.221 5.012 4.188 nan 0.548 0.763 0.880 0.355 0.387 5.045 65 chr1 69486591 69493592 + 0 NA Intergenic RMER15|LTR|ERVL 195869 NM_011770 22779 Mm.106343 NM_011770 ENSMUSG00000025997 Ikzf2 A730095J18Rik|Helios|Zfpn1a2|Znfn1a2 IKAROS family zinc finger 2 protein-coding 0.900 0.631 0.481 0.297 0.231 0.106 1.036 3.492 1.321 0.731 6.786 5.226 1.439 nan 1.285 nan nan nan 0.544 0.459 0.403 0.441 0.332 0.313 0.310 1909 chr2 75663720 75665066 + 0 NA intron (NM_146130, intron 8 of 10) intron (NM_146130, intron 8 of 10) 5103 NR_033513 627828 Mm.459502 NR_033513 ENSMUSG00000092086 Gm6793 EG627828 heterogeneous nuclear ribonucleoprotein A3 pseudogene pseudo 2.811 0.908 0.285 1.999 0.860 1.010 2.569 3.235 3.423 2.788 0.877 0.947 3.787 4.734 3.013 5.371 4.541 3.022 0.700 0.065 0.328 0.845 0.429 0.334 2.657 935 chr13 56054749 56058625 + 0 NA Intergenic Intergenic 78863 NM_012015 26914 Mm.283802 NM_012015 ENSMUSG00000015937 H2afy H2AF12M|mH2a1|macroH2A1 H2A histone family, member Y protein-coding nan 0.430 0.204 2.386 1.038 0.495 0.878 1.142 1.671 2.393 2.369 0.209 2.363 nan 2.563 nan 1.709 nan 0.659 0.496 0.201 0.697 0.345 0.224 nan 203 chr1 179563771 179564993 + 0 NA intron (NM_146105, intron 1 of 10) intron (NM_146105, intron 1 of 10) 17853 NM_146105 226744 Mm.87662 NM_146105 ENSMUSG00000038949 Cnst 9630058J23Rik consortin, connexin sorting protein protein-coding 2.982 0.985 0.275 1.297 3.382 2.863 3.273 1.781 2.147 1.655 2.435 1.491 2.397 3.316 3.575 3.065 1.398 4.151 1.368 0.221 0.526 1.115 1.065 0.916 2.334 2627 chr5 20701326 20705363 + 0 NA 3' UTR (NM_001170745, exon 21 of 21) 3' UTR (NM_001170745, exon 21 of 21) 178780 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 1.746 0.775 1.022 1.166 3.397 3.534 1.130 0.857 1.627 1.122 0.877 0.560 0.713 1.368 0.832 0.903 1.766 1.994 0.524 1.016 1.003 0.292 1.112 1.845 0.724 3576 chrX 93291510 93295358 + 0 NA intron (NM_001305940, intron 4 of 5) intron (NM_001305940, intron 4 of 5) 6927 NM_001305940 11878 Mm.275547 NM_007492 ENSMUSG00000035277 Arx - aristaless related homeobox protein-coding 9.776 6.303 2.646 6.947 6.767 2.615 5.735 6.554 5.250 6.878 4.709 2.508 7.162 8.708 6.366 7.579 5.417 7.704 1.491 1.945 1.255 1.733 1.103 0.753 7.881 1213 chr15 100240558 100242331 + 0 NA intron (NM_007497, intron 2 of 6) B1_Mus2|SINE|Alu 13585 NM_007497 11908 Mm.676 NM_007497 ENSMUSG00000023027 Atf1 - activating transcription factor 1 protein-coding 2.201 0.737 0.511 2.307 2.093 1.171 3.645 8.851 2.205 1.725 1.309 0.992 7.488 6.731 5.456 3.180 5.425 2.163 0.923 0.894 0.155 0.864 0.743 0.215 3.770 1093 chr15 55095961 55100027 + 0 NA Intergenic ORR1D1|LTR|ERVL-MaLR -7516 NM_183089 72107 Mm.486550 NM_183089 ENSMUSG00000022422 Dscc1 2010006I05Rik|2600005O03Rik|Dcc1 DNA replication and sister chromatid cohesion 1 protein-coding 8.084 0.826 0.583 3.073 1.851 0.970 9.636 11.396 3.538 4.163 1.884 1.445 10.048 6.609 6.778 5.907 9.566 5.674 1.569 1.268 1.221 1.092 4.497 3.158 5.922 81 chr1 74927605 74932968 + 0 NA intron (NM_001039495, intron 3 of 32) L1M5|LINE|L1 5313 NM_001039495 241116 Mm.186404 NM_172848 ENSMUSG00000047021 Ccdc108 A230051F10|B230363K08Rik|Cfap65 coiled-coil domain containing 108 protein-coding 0.515 0.502 0.236 0.436 0.246 0.277 0.302 0.337 0.206 0.460 0.196 0.132 0.168 0.219 0.232 nan 0.514 nan nan 6.472 3.557 4.358 4.864 4.043 nan 1023 chr14 65362123 65363500 + 0 NA intron (NM_199029, intron 1 of 9) B2_Mm2|SINE|B2 4135 NM_199029 380912 Mm.270087 NM_199029 ENSMUSG00000034522 Zfp395 BC053701|Gm910 zinc finger protein 395 protein-coding 4.030 1.033 0.438 2.965 1.537 1.026 3.028 3.694 3.365 3.440 0.512 0.763 3.069 4.002 4.040 4.209 1.847 6.514 0.849 nan 0.209 0.673 0.355 0.179 5.271 2742 chr5 122974024 122980723 + 0 NA intron (NM_001003953, intron 4 of 22) L1ME3B|LINE|L1 11726 NM_001003953 30841 Mm.86406 NM_013910 ENSMUSG00000029475 Kdm2b Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2 lysine (K)-specific demethylase 2B protein-coding 5.417 0.808 0.414 5.574 3.424 2.036 9.834 9.443 6.622 6.889 10.702 6.595 9.697 12.542 10.920 9.981 5.852 7.210 nan nan 1.408 3.864 nan 1.293 6.850 2473 chr4 128514178 128518359 + 0 NA intron (NM_001281955, intron 48 of 70) MTE2b|LTR|ERVL-MaLR 93830 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 1.769 1.469 1.279 1.433 1.353 0.511 1.362 0.946 1.451 1.582 8.843 2.310 0.687 1.094 nan 1.581 0.761 1.257 1.236 1.085 0.796 1.262 0.591 0.636 1.683 2084 chr2 167512091 167518779 + 0 NA 3' UTR (NM_030743, exon 8 of 8) 3' UTR (NM_030743, exon 8 of 8) -22561 NM_170756 263876 Mm.34342 NM_170756 ENSMUSG00000047030 Spata2 AI504642|mKIAA0757 spermatogenesis associated 2 protein-coding 9.857 5.909 1.544 11.461 6.461 4.325 7.194 9.448 5.224 13.894 7.487 3.670 6.388 8.869 7.723 9.740 6.782 9.222 nan 2.793 3.279 5.700 4.195 5.103 14.756 1300 chr16 19004322 19007338 + 0 NA Intergenic Intergenic 129080 NM_010435 15260 Mm.15694 NM_010435 ENSMUSG00000022702 Hira AA138857|D16Ertd95e|Gm15797|N28177|OTTMUSG00000026264|Tuple1 histone cell cycle regulator protein-coding 0.460 11.854 6.137 0.840 0.309 0.150 0.264 0.453 0.569 nan 0.167 0.136 0.344 0.344 0.507 nan 0.449 0.769 0.478 1.191 0.400 0.262 0.259 0.277 0.400 1199 chr15 98341964 98344914 + 0 NA Intergenic MLT1B|LTR|ERVL-MaLR -2500 NM_146281 258278 Mm.377409 NM_146281 ENSMUSG00000051793 Olfr284 MOR160-4 olfactory receptor 284 protein-coding 3.876 8.250 5.232 3.336 2.561 2.338 1.924 3.050 2.936 3.082 1.703 1.779 1.284 3.135 2.264 2.294 2.683 2.106 1.195 1.457 1.448 1.362 0.748 0.874 2.786 86 chr1 82863648 82864971 + 0 NA intron (NM_001347077, intron 2 of 12) intron (NM_001347077, intron 2 of 12) 24849 NM_001347077 15463 Mm.392569 NM_010472 ENSMUSG00000026159 Agfg1 AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip ArfGAP with FG repeats 1 protein-coding 2.533 0.874 0.800 1.798 1.820 1.388 1.901 2.312 2.119 1.961 0.749 0.503 2.965 3.286 1.890 3.959 3.390 2.882 nan nan 1.016 0.630 nan 0.539 1.001 624 chr11 101702867 101705507 + 0 NA Intergenic Intergenic -28769 NM_144831 217207 Mm.28186 NM_144831 ENSMUSG00000034931 Dhx8 Ddx8|mDEAH6|mKIAA4096 DEAH (Asp-Glu-Ala-His) box polypeptide 8 protein-coding 1.990 nan 0.336 2.376 2.733 2.260 2.122 1.755 2.092 2.383 0.395 0.723 3.473 5.260 4.645 4.656 2.712 4.095 1.737 nan 1.352 2.609 nan nan 3.426 2598 chr4 153958235 153963402 + 0 NA exon (NM_001163019, exon 2 of 3) exon (NM_001163019, exon 2 of 3) 3581 NM_001163019 97159 Mm.7066 NM_175287 ENSMUSG00000047613 A430005L14Rik C79672 RIKEN cDNA A430005L14 gene protein-coding 1.826 0.371 0.124 4.737 2.985 1.628 4.109 2.109 2.704 3.572 0.390 0.542 3.971 6.146 6.023 7.696 3.087 4.770 0.389 0.253 0.319 0.436 0.152 0.185 7.132 1158 chr15 76631490 76633952 + 0 NA intron (NM_183091, intron 17 of 25) intron (NM_183091, intron 17 of 25) -6637 NM_001305668 66914 Mm.30028 NM_025842 ENSMUSG00000059323 Vps28 1110014J03Rik|CIIA|D730005C08Rik vacuolar protein sorting 28 protein-coding 7.479 nan 2.083 nan 2.260 1.587 6.765 5.221 1.668 nan nan 1.020 3.578 4.603 5.042 3.509 4.462 2.626 0.686 2.029 1.533 nan 0.968 0.851 4.827 2170 chr3 30498536 30502548 + 0 NA intron (NM_021442, intron 1 of 2) intron (NM_021442, intron 1 of 2) 8945 NM_021442 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 6.021 8.883 3.252 7.391 3.031 1.773 nan 5.062 4.355 5.370 3.996 2.633 5.620 6.543 nan 7.196 4.846 6.411 4.439 2.549 1.705 5.861 2.902 2.444 7.817 371 chr10 128240517 128243502 + 0 NA intron (NM_011589, intron 7 of 28) B2_Mm2|SINE|B2 3943 NM_011589 21853 Mm.6458 NM_011589 ENSMUSG00000039994 Timeless C77407|Debt69|tim timeless circadian clock 1 protein-coding 10.199 9.858 2.276 9.309 4.124 1.837 6.864 7.228 5.807 7.387 6.840 3.309 6.306 8.986 9.189 10.851 7.103 8.377 5.187 3.165 2.419 6.285 nan 2.875 14.671 656 chr11 116285042 116286556 + 0 NA TTS (NM_001347636) TTS (NM_001347636) 4860 NM_010254 14428 Mm.57149 NM_010254 ENSMUSG00000020793 Galr2 mGalR galanin receptor 2 protein-coding 5.901 16.259 9.973 6.032 4.189 2.506 nan 2.852 3.310 3.759 2.350 1.924 1.414 2.756 2.556 2.508 1.626 3.764 1.220 nan 1.906 0.874 1.346 0.540 2.532 204 chr1 180674378 180682356 + 0 NA intron (NM_001103182, intron 11 of 14) L1ME2|LINE|L1 18667 NM_013729 27217 Mm.103647 NM_013729 ENSMUSG00000026497 Mixl1 Mm1|Mml Mix1 homeobox-like 1 (Xenopus laevis) protein-coding 0.402 0.478 0.244 0.275 0.179 0.062 0.226 0.350 0.282 0.239 0.457 0.191 0.144 nan 0.184 0.656 0.453 0.388 2.178 1.507 1.225 5.860 0.621 0.621 0.429 2335 chr4 8831604 8844880 + 0 NA intron (NM_001277149, intron 15 of 37) (TTTTG)n|Simple_repeat|Simple_repeat 147836 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 2.708 7.736 3.547 2.851 1.891 1.098 0.948 nan 1.507 2.205 3.035 1.170 1.080 1.741 1.635 1.426 1.229 1.495 4.485 nan 3.496 8.406 4.518 3.683 1.842 1041 chr14 100021756 100023729 + 0 NA exon (NM_010636, exon 3 of 7) exon (NM_010636, exon 3 of 7) 127054 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 0.457 nan 0.200 0.614 0.500 0.061 0.740 2.284 1.979 1.176 4.705 4.158 0.779 0.695 1.226 1.018 0.472 1.028 0.983 0.366 0.124 1.617 0.419 0.156 nan 2921 chr6 86666658 86668311 + 0 NA intron (NM_010751, intron 2 of 5) intron (NM_010751, intron 2 of 5) 1675 NM_010751 17119 Mm.279580 NM_010751 ENSMUSG00000001156 Mxd1 AW122478|Mad|Mad1 MAX dimerization protein 1 protein-coding 2.782 0.848 0.765 nan 4.851 1.819 4.734 5.976 1.907 2.178 2.393 2.706 5.407 5.104 3.986 3.907 4.061 nan nan 0.106 0.683 0.341 0.501 0.298 2.138 3468 chr9 32551179 32556429 + 0 NA Intergenic Intergenic -12352 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 2.158 12.576 4.112 3.654 0.824 0.405 0.765 1.200 2.692 2.301 1.294 1.769 1.331 1.470 2.186 2.408 0.956 3.945 3.864 2.311 1.308 4.634 2.284 1.356 2.404 1990 chr2 147996300 147998004 + 0 NA Intergenic Intergenic 48312 NM_001291067 15376 Mm.938 NM_010446 ENSMUSG00000037025 Foxa2 HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b forkhead box A2 protein-coding 2.679 1.055 0.229 5.607 2.315 0.852 0.850 1.315 2.470 2.101 0.935 0.956 0.924 1.484 1.511 2.957 1.473 3.440 nan 0.856 0.427 1.064 0.229 0.149 2.380 435 chr11 59591863 59594813 + 0 NA Intergenic Intergenic -3251 NM_146429 258421 Mm.377490 NM_146429 ENSMUSG00000048919 Olfr223 MOR256-30 olfactory receptor 223 protein-coding 2.613 0.828 0.316 2.891 1.728 1.280 2.866 1.670 2.795 3.238 0.685 0.607 3.911 5.808 3.346 4.245 2.414 4.445 nan 0.379 0.350 1.109 0.214 0.352 nan 3254 chr8 34913154 34919639 + 0 NA intron (NM_175091, intron 3 of 26) intron (NM_175091, intron 3 of 26) 49294 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 4.850 1.446 0.709 4.142 1.663 0.912 3.259 7.351 3.439 4.131 3.602 3.920 5.415 5.171 5.837 6.323 3.504 5.421 0.836 0.604 0.588 1.099 0.873 0.615 7.856 814 chr12 86514896 86519712 + 0 NA intron (NM_001159500, intron 6 of 6) intron (NM_001159500, intron 6 of 6) 95660 NM_011934 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 1.998 1.845 0.431 2.604 0.437 0.205 0.681 1.257 0.892 1.345 0.784 0.462 1.079 0.981 1.609 1.756 0.756 1.564 5.744 1.143 1.424 6.314 1.419 1.305 2.830 3195 chr7 135669959 135683036 + 0 NA intron (NM_001316681, intron 14 of 17) B3|SINE|B2 -24183 NR_015548 67765 Mm.445272 NR_015548 ENSMUSG00000097471 5830432E09Rik - RIKEN cDNA 5830432E09 gene ncRNA 3.627 nan 0.893 3.729 3.231 2.193 2.340 6.401 nan 3.602 3.693 2.770 2.661 4.386 3.155 2.978 2.253 4.211 3.705 2.141 2.093 4.219 1.528 1.352 4.715 2492 chr4 129373605 129374548 + 0 NA intron (NM_028603, intron 1 of 4) B2_Mm2|SINE|B2 3952 NM_028603 73680 Mm.32997 NM_028603 ENSMUSG00000028807 Zbtb8a 2410081M15Rik|AI480941 zinc finger and BTB domain containing 8a protein-coding 7.400 9.584 3.304 7.796 4.867 2.433 6.731 5.293 2.254 6.758 4.755 1.636 4.114 9.497 6.779 7.797 4.963 5.429 6.859 6.702 5.805 9.927 8.038 4.346 12.344 1482 chr17 32049600 32058906 + 0 NA intron (NM_001163734, intron 7 of 12) intron (NM_001163734, intron 7 of 12) 5968 NM_001163734 72462 Mm.102761 NM_028244 ENSMUSG00000058392 Rrp1b 2600005C20Rik|D030064A17|Kiaa0179|mKIAA0179 ribosomal RNA processing 1 homolog B (S. cerevisiae) protein-coding 5.689 0.975 0.491 8.733 6.984 4.316 4.050 3.917 6.042 9.512 7.533 3.608 5.351 10.628 4.522 7.784 3.931 7.317 0.852 0.797 0.830 1.876 1.461 1.136 8.337 2109 chr2 178327930 178331433 + 0 NA intron (NM_001007154, intron 9 of 12) intron (NM_001007154, intron 9 of 12) 77977 NM_177191 320558 Mm.70781 NM_177191 ENSMUSG00000060445 Sycp2 3830402K23Rik|4930518F03Rik synaptonemal complex protein 2 protein-coding 2.749 0.479 0.085 0.828 1.171 0.906 1.319 1.170 1.088 0.848 0.575 0.314 1.070 1.063 2.136 nan 2.938 nan 6.053 2.273 1.637 3.386 5.313 4.043 nan 885 chr13 42144059 42150368 + 0 NA intron (NM_007772, intron 3 of 8) intron (NM_007772, intron 3 of 8) 95192 NM_007772 110521 Mm.4808 NM_007772 ENSMUSG00000021366 Hivep1 Cryabp1 human immunodeficiency virus type I enhancer binding protein 1 protein-coding 6.893 8.266 3.241 6.496 4.608 3.198 nan nan nan 7.586 3.687 2.406 5.305 8.489 6.866 7.482 4.980 5.490 2.654 2.226 2.142 3.694 2.488 2.393 8.841 1412 chr17 15663398 15664841 + 0 NA Intergenic RMER19B2|LTR|ERVK 32331 NR_045431 71008 Mm.399492 NR_045431 4933401D09Rik - RIKEN cDNA 4933401D09 gene ncRNA 5.711 8.087 2.224 6.465 1.978 1.090 5.523 4.147 4.546 7.324 4.888 3.317 5.039 4.864 7.252 8.351 4.671 6.347 4.417 0.894 1.508 4.737 1.916 2.582 10.075 884 chr13 41073379 41074807 + 0 NA intron (NM_001145802, intron 1 of 11) intron (NM_001145802, intron 1 of 11) -3628 NM_008547 17152 Mm.8149 NM_008547 ENSMUSG00000021363 Mak A930010O05Rik male germ cell-associated kinase protein-coding 8.236 nan 1.089 3.469 2.315 2.802 4.590 5.374 4.250 4.460 3.720 3.786 4.465 4.790 4.137 4.836 3.385 3.871 1.743 2.542 1.626 2.035 1.784 1.419 4.472 1709 chr19 4018450 4019941 + 0 NA Intergenic URR1A|DNA|hAT-Charlie -6440 NM_133666 17995 Mm.29842 NM_133666 ENSMUSG00000037916 Ndufv1 CI-51kD NADH dehydrogenase (ubiquinone) flavoprotein 1 protein-coding 3.675 1.626 0.565 3.119 2.371 1.845 3.697 9.552 3.011 3.406 2.797 1.642 3.186 5.535 5.186 5.123 3.851 4.551 1.807 1.751 1.694 4.242 2.672 3.688 5.977 339 chr10 118488166 118490152 + 0 NA Intergenic Intergenic 48113 NM_008337 15978 Mm.240327 NM_008337 ENSMUSG00000055170 Ifng IFN-g|Ifg interferon gamma protein-coding 4.917 0.927 0.542 2.946 2.615 0.890 2.933 1.607 2.607 2.840 0.367 0.906 4.700 5.229 2.774 3.533 2.205 6.363 0.922 0.617 0.329 0.966 1.010 0.311 6.738 3539 chr9 106171685 106173553 + 0 NA intron (NM_029896, intron 1 of 8) intron (NM_029896, intron 1 of 8) 1690 NM_029896 77305 Mm.265125 NM_029896 ENSMUSG00000020257 Wdr82 9430077D24Rik|CDW5/WDR82 WD repeat domain containing 82 protein-coding 2.663 0.945 1.463 3.276 2.102 1.299 1.267 2.896 nan nan 1.852 1.323 1.534 1.886 2.123 nan 1.681 3.572 2.189 1.500 1.183 2.458 2.786 2.277 2.451 228 chr10 19288706 19291915 + 0 NA Intergenic MTA_Mm-int|LTR|ERVL-MaLR -66229 NM_053008 94222 Mm.156946 NM_053008 ENSMUSG00000045591 Olig3 Bhlhb7|bHLHe20|oligo3 oligodendrocyte transcription factor 3 protein-coding 7.305 3.554 1.910 3.563 2.170 1.384 3.480 5.195 nan 4.604 8.512 2.906 6.831 4.650 3.929 4.996 5.154 4.927 1.239 1.120 0.647 0.870 0.646 0.504 4.316 749 chr12 56587348 56595335 + 0 NA intron (NR_046002, intron 1 of 4) intron (NR_046002, intron 1 of 4) 282 NR_046002 97836 Mm.410567 NR_046002 ENSMUSG00000092515 C87198 - expressed sequence C87198 ncRNA 9.585 15.044 5.040 12.100 4.214 2.091 5.423 6.734 5.824 8.431 5.514 3.218 5.640 7.492 6.958 7.806 5.000 8.774 3.770 1.625 2.138 4.423 1.995 2.243 10.743 268 chr10 62112787 62115010 + 0 NA Intergenic RMER5|LTR|ERV1 -2885 NM_027251 69894 Mm.294126 NM_027251 ENSMUSG00000020083 2010107G23Rik AA545165 RIKEN cDNA 2010107G23 gene protein-coding 9.464 11.276 3.125 10.450 3.024 2.609 6.145 5.959 5.198 8.577 4.998 3.046 5.867 8.026 8.028 10.510 5.654 8.606 nan 2.810 3.598 6.484 3.005 4.281 14.230 829 chr12 112991088 112998313 + 0 NA intron (NM_028193, intron 1 of 17) B2_Mm2|SINE|B2 5921 NM_028193 72308 Mm.196721 NM_028193 ENSMUSG00000011158 Brf1 2510002F24Rik|GTF3B|TAF3C|TAFIII90|TFIIIB90|mTFIIIB90 BRF1, RNA polymerase III transcription initiation factor 90 kDa subunit protein-coding 4.017 6.094 2.781 nan 2.698 1.919 3.140 nan nan nan 3.870 2.154 2.353 nan 3.463 4.797 3.204 3.555 7.466 6.196 5.319 9.410 8.870 8.020 nan 2872 chr6 53512833 53515348 + 0 NA intron (NM_001327821, intron 5 of 10) Lx5|LINE|L1 -59284 NM_172728 231991 Mm.227444 NM_172728 ENSMUSG00000053007 Creb5 9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik cAMP responsive element binding protein 5 protein-coding 0.571 0.593 0.235 0.669 0.592 0.540 0.520 1.156 1.046 0.704 6.317 4.532 0.877 0.831 0.960 nan nan 0.844 nan 0.884 0.390 1.629 0.689 0.568 0.667 345 chr10 120933202 120939378 + 0 NA intron (NM_001081193, intron 4 of 12) intron (NM_001081193, intron 4 of 12) -37319 NM_177092 320183 Mm.169755 NM_177092 ENSMUSG00000051236 Msrb3 D430026P16Rik|I-8-23|MsrB2 methionine sulfoxide reductase B3 protein-coding 9.456 4.991 2.519 6.682 5.181 2.951 7.065 7.526 5.683 6.679 5.404 3.401 8.117 8.782 8.449 9.239 7.808 nan 2.542 2.076 1.684 4.235 1.678 1.316 8.504 596 chr11 98943677 98948256 + 0 NA intron (NM_001177303, intron 1 of 8) intron (NM_001177303, intron 1 of 8) 6255 NM_001177303 19401 Mm.439744 NM_009024 ENSMUSG00000037992 Rara Nr1b1|RAR|RARalpha1 retinoic acid receptor, alpha protein-coding 0.715 nan 0.411 0.700 0.533 0.252 1.786 1.296 1.276 0.700 7.118 3.549 0.829 1.319 0.741 0.917 nan 0.685 0.451 nan 0.575 0.656 nan nan 0.633 3323 chr8 90155444 90158012 + 0 NA Intergenic Intergenic 191524 NM_172913 244579 Mm.302755 NM_172913 ENSMUSG00000043668 Tox3 500-9|BC052044|C230068E13|CAGF9|Tnrc9 TOX high mobility group box family member 3 protein-coding 0.264 9.214 3.463 0.288 0.112 0.237 0.127 nan 0.268 0.095 0.062 0.065 0.195 0.251 0.528 0.182 0.300 nan 0.165 0.119 0.551 0.139 0.043 0.419 1297 chr16 18601076 18605884 + 0 NA Intergenic MT2A|LTR|ERVL -12809 NM_001285472 21380 Mm.295194 NM_011532 ENSMUSG00000009097 Tbx1 - T-box 1 protein-coding 0.437 0.522 0.391 0.951 0.248 0.097 0.391 0.675 0.490 nan 0.432 0.421 0.207 0.740 0.669 nan 0.384 0.735 4.348 1.408 1.483 5.372 2.483 1.908 1.005 2090 chr2 167643777 167655881 + 0 NA intron (NM_145538, intron 2 of 5) PB1D10|SINE|Alu 11715 NM_145538 407243 Mm.4863 NM_145538 ENSMUSG00000090213 Tmem189 AI840826|Kua transmembrane protein 189 protein-coding 3.614 1.741 0.535 4.386 2.316 1.172 3.012 3.787 2.376 3.026 2.865 1.753 2.999 3.048 3.339 4.767 2.455 4.147 nan 1.972 1.552 5.447 2.103 1.387 nan 1521 chr17 46753544 46762654 + 0 NA intron (NM_011195, intron 2 of 3) intron (NM_011195, intron 2 of 3) 5613 NM_011195 19208 Mm.215173 NM_011195 ENSMUSG00000036858 Ptcra gp33|pT-alpha|pT-alpha-TCR|pT[a]|pTa|pTalpha pre T cell antigen receptor alpha protein-coding 2.922 0.731 0.313 3.656 1.638 0.791 2.606 4.871 2.801 3.242 7.191 4.207 1.868 3.475 3.615 5.445 nan 3.570 0.756 0.698 0.659 1.343 0.601 0.377 4.596 1862 chr2 33444765 33451826 + 0 NA Intergenic Intergenic -16971 NM_001276332 241311 Mm.296512 NM_001085507 ENSMUSG00000068966 Zbtb34 Gm349|mKIAA1993 zinc finger and BTB domain containing 34 protein-coding 0.507 1.250 0.797 0.476 0.230 0.172 0.426 nan 0.282 nan 0.513 0.239 0.425 0.351 0.382 0.831 0.333 0.686 3.873 2.387 3.071 6.463 4.332 3.556 0.637 2352 chr4 40646915 40651702 + 0 NA Intergenic Intergenic 53608 NM_025545 66408 Mm.430710 NM_025545 ENSMUSG00000028411 Aptx 2410016G21Rik|AA388047|FHA-HIT aprataxin protein-coding 9.083 6.251 1.908 7.110 5.344 2.308 7.636 8.434 6.370 7.025 5.396 3.637 8.432 9.845 9.630 11.185 6.158 9.371 3.216 1.566 1.749 3.292 1.943 1.473 10.676 613 chr11 100955747 100957698 + 0 NA TTS (NM_008986) TTS (NM_008986) 13895 NM_008986 19285 Mm.21864 NM_008986 ENSMUSG00000004044 Ptrf 2310075E07Rik|AW546441|Cav-p60|Cavin polymerase I and transcript release factor protein-coding 5.344 8.108 3.540 7.553 3.702 2.813 3.083 5.994 6.061 7.028 6.198 4.243 5.780 5.517 5.842 8.131 5.110 7.631 4.469 nan 3.894 5.954 nan 4.805 10.073 3495 chr9 59384933 59393059 + 0 NA 3' UTR (NM_019927, exon 14 of 14) 3' UTR (NM_019927, exon 14 of 14) -35488 NM_175325 102774 Mm.200714 NM_175325 ENSMUSG00000025235 Bbs4 AW537059|AW742241|D9Ertd464e Bardet-Biedl syndrome 4 (human) protein-coding 7.130 2.581 1.165 5.451 3.505 2.427 4.772 4.993 4.344 5.828 2.885 1.832 4.835 6.698 5.106 5.723 3.373 5.842 2.417 2.191 1.755 2.129 1.949 1.643 6.607 1082 chr15 37160257 37166618 + 0 NA Intergenic MTB-int|LTR|ERVL-MaLR -69599 NM_026496 252973 Mm.244612 NM_026496 ENSMUSG00000022286 Grhl2 0610015A08Rik|BOM|Tcfcp2l3|clft3 grainyhead-like 2 (Drosophila) protein-coding 6.305 0.583 0.469 4.712 2.409 1.803 8.733 11.283 4.377 6.755 8.391 4.633 9.318 7.985 8.265 7.594 7.406 7.001 4.138 2.375 2.288 nan 2.581 3.030 nan 1066 chr15 10709156 10710981 + 0 NA intron (NM_001166408, intron 1 of 17) intron (NM_001166408, intron 1 of 17) 3472 NM_030690 75646 Mm.212395 NM_030690 ENSMUSG00000022246 Rai14 1700008J19Rik|1700020L11Rik|Ankycorbin|Norpeg|mKIAA1334 retinoic acid induced 14 protein-coding 3.122 0.696 0.316 3.796 1.985 1.147 3.836 4.211 3.512 3.669 3.568 3.838 6.377 4.148 3.809 3.020 1.581 4.499 0.494 0.378 0.179 0.335 0.218 0.103 1.516 121 chr1 127427083 127431162 + 0 NA intron (NM_145128, intron 12 of 17) L1MC5|LINE|L1 224136 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 7.392 nan 0.568 3.201 3.215 2.033 6.257 5.815 5.085 4.197 5.768 2.965 7.577 6.700 5.759 9.942 6.875 6.112 nan 0.738 0.249 0.830 1.132 0.855 3.538 952 chr13 83662897 83672118 + 0 NA TTS (NM_025282) TTS (NM_025282) -60599 NR_015561 320203 Mm.245636 NM_177100 ENSMUSG00000050334 C130071C03Rik 2810449C10Rik RIKEN cDNA C130071C03 gene ncRNA 2.916 9.134 4.587 2.775 1.283 0.698 0.944 0.794 2.039 1.840 0.746 0.717 0.950 1.536 1.487 1.721 1.481 2.546 0.943 1.024 0.668 1.254 0.418 0.314 1.038 2691 chr5 102395993 102399932 + 0 NA Intergenic Intergenic -83429 NM_146161 231532 Mm.440191 NM_029270 ENSMUSG00000057315 Arhgap24 0610025G21Rik Rho GTPase activating protein 24 protein-coding 8.404 1.299 0.436 5.248 4.356 3.113 6.833 6.719 6.491 7.409 3.085 1.719 2.518 3.456 5.205 7.252 6.459 7.264 1.527 1.280 1.325 1.003 1.077 0.799 7.653 1071 chr15 12133496 12137825 + 0 NA intron (NM_011767, intron 2 of 19) intron (NM_011767, intron 2 of 19) 17809 NM_011767 22763 Mm.273496 NM_011767 ENSMUSG00000022201 Zfr C920030H05Rik zinc finger RNA binding protein protein-coding 7.532 8.939 3.680 7.216 3.414 2.578 6.814 12.853 4.724 8.562 3.788 2.592 7.556 7.761 8.301 7.470 6.850 8.069 3.647 2.422 2.634 4.024 3.272 3.562 9.485 494 chr11 75344097 75355981 + 0 NA intron (NM_001102611, intron 2 of 10) intron (NM_001102611, intron 2 of 10) 1606 NM_001102611 319822 Mm.340377 NM_177009 ENSMUSG00000018809 Smyd4 G430029E23Rik SET and MYND domain containing 4 protein-coding 7.689 9.183 3.318 8.124 5.554 3.499 6.034 5.813 5.809 7.815 4.311 2.310 5.666 8.988 7.845 8.852 6.381 7.103 3.032 2.633 nan 3.812 2.348 2.120 9.540 487 chr11 75015269 75028632 + 0 NA intron (NM_001002764, intron 10 of 18) Lx5|LINE|L1 44041 NR_030454 735274 NR_030454 ENSMUSG00000106252 Mir684-1 Mirn684-1 microRNA 684-1 ncRNA nan 0.909 0.495 1.607 0.863 0.410 nan 2.975 1.250 1.575 0.369 0.796 1.703 nan nan nan 1.853 nan 4.634 4.258 nan 6.386 4.766 3.707 2.301 3058 chr7 5031503 5034937 + 0 NA TTS (NM_001290426) TTS (NM_001290426) 5226 NM_001039532 654801 Mm.333548 NM_001039532 ENSMUSG00000043290 Zfp784 C730049F21Rik|Znf784 zinc finger protein 784 protein-coding 7.960 10.064 6.278 5.566 4.134 2.153 6.551 8.158 3.829 7.724 3.976 3.386 5.000 7.365 5.776 6.294 4.791 5.950 3.394 3.242 2.234 3.863 2.488 2.364 9.124 3333 chr8 91088424 91091113 + 0 NA intron (NM_011250, intron 8 of 21) intron (NM_011250, intron 8 of 21) 19711 NM_001282000 19651 Mm.235580 NM_011250 ENSMUSG00000031666 Rbl2 PRB2|RBR-2|Rb2|p130 retinoblastoma-like 2 protein-coding 3.478 1.397 0.968 3.936 3.180 2.309 1.449 2.357 nan 2.910 0.791 0.452 2.915 4.322 3.687 5.504 3.388 4.112 4.467 2.906 2.014 5.991 4.239 2.775 6.383 1956 chr2 119852680 119860503 + 0 NA Intergenic Intergenic -40637 NM_001164274 29808 Mm.87532 NM_013720 ENSMUSG00000033943 Mga AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5 MAX gene associated protein-coding 4.999 3.035 1.024 2.166 0.855 0.443 3.928 5.981 1.799 2.711 1.062 0.865 nan 3.499 3.293 nan 3.050 6.560 2.357 0.851 0.626 2.736 1.109 0.672 9.250 2778 chr5 136525412 136532426 + 0 NA intron (NM_001291234, intron 1 of 22) intron (NM_001291234, intron 1 of 22) 37062 NM_001291239 13047 Mm.320317 NM_009986 ENSMUSG00000029705 Cux1 CDP|Cutl1|Cux|Cux-1 cut-like homeobox 1 protein-coding 1.424 0.898 0.703 1.600 5.631 4.916 2.714 3.693 2.539 2.115 2.855 5.158 1.613 2.834 2.203 1.491 1.168 1.921 0.809 0.762 0.620 0.541 nan 0.772 1.134 2235 chr3 90307148 90314708 + 0 NA Intergenic PB1D9|SINE|Alu -30726 NM_139304 229542 Mm.270999 NM_139304 ENSMUSG00000042390 Gatad2b AL118180|C430014D17Rik|P66beta|mKIAA1150 GATA zinc finger domain containing 2B protein-coding 3.762 4.529 2.604 3.732 3.239 2.275 4.624 3.826 3.933 4.221 3.088 4.510 5.025 5.492 4.118 3.903 4.201 3.921 nan 1.515 1.810 2.307 1.775 2.021 4.029 238 chr10 24915888 24920893 + 0 NA intron (NM_007482, intron 3 of 7) intron (NM_007482, intron 3 of 7) 7726 NR_105870 102465545 NR_105870 ENSMUSG00000099181 Mir6905 Gm27879|mmu-mir-6905 microRNA 6905 ncRNA 5.507 0.943 0.421 3.715 2.327 1.132 2.765 3.877 3.520 5.056 0.583 0.832 5.455 4.466 4.560 6.820 5.419 4.162 0.743 1.073 0.563 1.168 0.928 0.456 8.625 3175 chr7 123322037 123323988 + 0 NA intron (NM_001122641, intron 4 of 18) intron (NM_001122641, intron 4 of 18) 46903 NM_001122643 70497 Mm.403318 NM_144529 ENSMUSG00000030766 Arhgap17 5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15 Rho GTPase activating protein 17 protein-coding 0.567 0.588 0.605 0.531 0.434 0.256 0.548 nan 0.623 0.617 0.983 0.710 0.218 0.555 nan 0.738 0.295 1.102 4.706 1.841 1.031 2.192 5.739 4.349 0.740 873 chr13 37583300 37588283 + 0 NA Intergenic Intergenic -240247 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 3.909 nan 0.656 4.609 4.300 2.830 2.366 nan nan 8.688 1.225 0.728 4.857 8.769 3.760 nan 2.590 6.967 0.919 0.990 0.683 0.808 0.623 0.645 6.162 3081 chr7 27900575 27905865 + 0 NA Intergenic RLTR14-int|LTR|ERV1 26210 NM_028538 73430 Mm.379224 NM_028538 ENSMUSG00000070709 Zfp974 1700049G17Rik|AV321011|BB026409 zinc finger protein 974 protein-coding 4.990 0.686 0.463 3.330 4.244 2.419 3.115 6.434 4.449 4.266 7.459 2.704 6.402 6.119 4.202 5.608 8.737 4.792 0.931 1.314 0.931 0.365 1.638 0.959 3.848 253 chr10 42175093 42176848 + 0 NA Intergenic CT-rich|Low_complexity|Low_complexity 100772 NM_019740 56484 Mm.338613 NM_019740 ENSMUSG00000048756 Foxo3 1110048B16Rik|2010203A17Rik|C76856|FKHRL1|Fkhr2|Foxo3a forkhead box O3 protein-coding 2.573 1.053 0.470 4.871 1.593 1.438 0.354 0.774 1.989 1.778 0.573 0.316 0.419 0.965 1.191 2.232 1.137 3.341 0.615 0.593 1.088 0.530 0.715 0.965 2.087 3099 chr7 30174997 30185480 + 0 NA TTS (NM_001033540) TTS (NM_001033540) -3933 NM_009944 12865 Mm.423030 NM_009944 ENSMUSG00000074218 Cox7a1 COX7A|COX7AH|COX7AM cytochrome c oxidase subunit VIIa 1 protein-coding 3.182 0.748 0.348 3.287 1.590 0.929 5.420 6.961 4.128 5.008 2.280 3.002 4.221 4.037 5.153 5.102 2.513 5.837 3.887 2.121 1.653 6.015 2.545 1.897 5.051 448 chr11 68907015 68914339 + 0 NA Intergenic B1_Mus2|SINE|Alu 9088 NR_003373 100034726 Mm.3229 NR_003373 ENSMUSG00000062353 Gm15772 ENSMUSG00000062353|OTTMUSG00000026108 ribosomal protein L26 pseudogene pseudo 15.516 13.215 4.691 14.793 12.886 7.578 9.494 11.919 10.476 14.099 12.173 5.602 9.618 18.201 10.966 14.614 11.269 12.732 4.900 5.228 3.338 8.149 nan 3.743 nan 3278 chr8 74224060 74227730 + 0 NA Intergenic L1VL2|LINE|L1 -647279 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 2.060 nan 0.988 4.512 3.917 2.368 7.441 7.258 nan 4.270 6.698 3.884 8.094 7.095 4.704 3.713 4.598 3.978 1.154 1.045 0.903 nan 1.154 1.054 nan 2631 chr5 20837144 20839287 + 0 NA intron (NM_172992, intron 2 of 17) RMER6A|LTR|ERVK 43909 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 5.769 1.369 0.567 1.858 0.719 0.234 2.914 4.922 3.297 2.650 2.821 0.932 4.710 4.976 4.117 4.825 2.251 3.304 3.926 2.139 0.909 9.701 2.084 1.041 2.090 2278 chr3 102942573 102945277 + 0 NA intron (NM_198658, intron 10 of 10) intron (NM_198658, intron 10 of 10) -7825 NM_011516 20957 Mm.243849 NM_011516 ENSMUSG00000027855 Sycp1 SCP1 synaptonemal complex protein 1 protein-coding 2.512 0.761 0.882 3.366 1.345 0.898 0.660 0.688 1.929 1.834 8.081 3.583 0.554 1.048 1.132 nan 0.947 2.350 0.719 0.846 1.373 1.083 0.739 0.682 1.582 2427 chr4 114078464 114080076 + 0 NA Intergenic Intergenic -79767 NM_001167876 242627 Mm.484115 NM_001167876 ENSMUSG00000078598 Skint5 OTTMUSG00000008560|Skint-5 selection and upkeep of intraepithelial T cells 5 protein-coding 3.156 1.491 0.690 2.880 1.085 0.517 5.426 2.389 1.134 4.003 0.773 0.638 2.894 4.855 3.814 3.782 2.126 1.906 0.765 1.511 1.967 0.698 0.754 0.692 7.359 63 chr1 64577888 64580501 + 0 NA intron (NM_001037726, intron 6 of 6) ORR1F|LTR|ERVL-MaLR 37974 NM_025964 67099 Mm.46394 NM_025964 ENSMUSG00000025956 Mettl21a 2310038H17Rik|AI464204|Fam119a methyltransferase like 21A protein-coding 16.333 19.471 9.103 12.556 9.318 7.680 13.050 9.387 7.843 19.706 10.674 7.106 9.989 12.395 10.296 16.005 11.828 10.855 7.611 7.428 6.311 7.195 7.727 9.198 18.274 1637 chr18 53404144 53417422 + 0 NA intron (NM_008908, intron 3 of 4) intron (NM_008908, intron 3 of 4) 7224 NM_008908 19038 Mm.4587 NM_008908 ENSMUSG00000024538 Ppic CyP-20c peptidylprolyl isomerase C protein-coding 8.655 nan 0.869 nan 4.534 2.858 6.511 7.017 4.981 6.143 4.599 3.701 nan 7.577 6.973 7.809 6.498 nan nan 1.431 1.455 nan 1.364 1.319 nan 3297 chr8 81342133 81345444 + 0 NA intron (NM_001024617, intron 1 of 24) intron (NM_001024617, intron 1 of 24) 1226 NM_001297593 234515 Mm.324468 NM_001024617 ENSMUSG00000037940 Inpp4b E130107I17Rik inositol polyphosphate-4-phosphatase, type II protein-coding 5.089 7.717 3.448 4.876 2.797 1.497 4.383 6.424 nan 3.930 2.634 1.435 6.996 5.765 5.331 7.383 3.824 5.833 3.075 2.631 2.410 nan 1.582 1.612 5.714 179 chr1 167860477 167866040 + 0 NA Intergenic Intergenic 173700 NM_033652 110648 Mm.330081 NM_033652 ENSMUSG00000026686 Lmx1a Lmx1.1|dr|dreher|sst LIM homeobox transcription factor 1 alpha protein-coding 0.667 7.653 3.766 nan 0.274 0.171 0.339 0.387 nan 0.871 0.569 0.395 nan 0.321 nan 0.892 1.011 0.967 0.825 0.675 0.357 nan nan 0.206 nan 1532 chr17 47815091 47816242 + 0 NA 3' UTR (NM_010783, exon 5 of 5) 3' UTR (NM_010783, exon 5 of 5) 17625 NM_001276391 17240 Mm.329100 NM_010783 ENSMUSG00000032717 Mdfi I-mf|I-mfa MyoD family inhibitor protein-coding 0.928 1.321 0.506 0.408 0.513 0.219 5.191 3.056 1.010 0.452 0.422 0.602 4.083 3.951 2.510 2.455 2.158 1.396 0.511 0.266 0.119 0.448 0.276 0.104 1.175 1105 chr15 59247097 59248734 + 0 NA Intergenic Intergenic -59033 NR_045613 100416830 Mm.490788 NR_045613 ENSMUSG00000098528 Zfp572 4930472F24Rik zinc finger protein 572 pseudo 4.290 1.659 1.423 2.581 2.563 1.534 3.866 4.396 2.825 2.819 3.346 2.644 4.255 3.914 3.037 nan 3.702 4.877 1.069 1.031 1.129 1.216 1.220 1.007 1.971 713 chr12 4429015 4432539 + 0 NA intron (NM_010881, intron 1 of 22) intron (NM_010881, intron 1 of 22) 46405 NM_010881 17977 Mm.301039 NM_010881 ENSMUSG00000020647 Ncoa1 KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1 nuclear receptor coactivator 1 protein-coding 7.625 1.172 0.924 3.692 5.383 3.092 7.259 4.455 4.349 5.295 2.601 1.123 7.858 10.153 4.809 5.216 6.962 6.079 0.884 1.317 0.757 0.606 0.881 0.678 6.438 1334 chr16 38620210 38622163 + 0 NA intron (NM_020260, intron 6 of 11) intron (NM_020260, intron 6 of 11) 58372 NM_026407 67846 Mm.310476 NM_026407 ENSMUSG00000002845 Tmem39a 2610033C09Rik transmembrane protein 39a protein-coding 8.614 0.885 0.534 5.570 4.432 2.597 2.748 4.485 5.083 8.036 0.890 0.415 7.536 10.888 7.369 10.189 5.526 9.443 0.692 0.873 0.606 1.179 0.388 0.809 10.086 2499 chr4 132256627 132259843 + 0 NA intron (NM_001122992, intron 1 of 10) intron (NM_001122992, intron 1 of 10) 3314 NM_020273 56809 Mm.103489 NM_020273 ENSMUSG00000028901 Gmeb1 1110050A04Rik|AI256615|AI481278 glucocorticoid modulatory element binding protein 1 protein-coding 1.726 0.706 0.764 2.791 4.990 3.685 1.669 1.249 2.756 3.482 0.852 1.795 1.950 5.281 1.969 1.626 1.509 2.705 1.946 1.288 1.611 1.049 0.909 1.047 1.683 2805 chr5 151847602 151850958 + 0 NA Intergenic Intergenic -198072 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 3.208 0.957 0.302 3.451 1.864 0.873 1.574 1.161 2.101 2.915 0.745 0.477 2.807 2.844 2.797 3.790 1.990 4.287 0.774 0.626 0.199 1.045 0.489 0.295 4.110 2096 chr2 168558630 168560525 + 0 NA intron (NR_111898, intron 2 of 5) intron (NR_111898, intron 2 of 5) 30788 NM_001291178 18019 Mm.116802 NM_010899 ENSMUSG00000027544 Nfatc2 AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 protein-coding 6.795 1.446 1.519 2.510 4.967 4.240 9.149 7.717 3.777 3.801 5.983 2.926 5.449 5.364 4.634 8.736 8.540 4.789 5.813 4.024 6.410 5.207 9.626 11.333 12.531 3557 chr9 110920703 110925275 + 0 NA Intergenic Intergenic -6128 NM_001195437 235634 Mm.31788 NM_001195437 ENSMUSG00000096393 Gm590 - predicted gene 590 protein-coding 1.219 0.820 0.638 1.025 0.597 0.479 0.505 1.277 nan nan 6.544 2.794 0.436 0.523 0.686 nan 0.405 nan 0.571 0.361 0.476 0.309 0.449 0.271 nan 1784 chr19 45121303 45123815 + 0 NA Intergenic Intergenic -28156 NM_021901 21908 Mm.391203 NM_021901 ENSMUSG00000025215 Tlx1 Hox-11|Hox11|Tlx-1 T cell leukemia, homeobox 1 protein-coding 11.654 7.706 2.454 8.218 6.941 2.480 12.143 11.675 5.036 8.658 8.836 3.382 6.650 13.580 9.111 11.874 10.740 9.163 2.577 4.212 1.951 4.273 5.097 2.143 15.324 2839 chr6 29193736 29199679 + 0 NA Intergenic Intergenic 15590 NM_011829 23917 Mm.260707 NM_011829 ENSMUSG00000003500 Impdh1 B930086D20Rik|IMPDH-I inosine 5'-phosphate dehydrogenase 1 protein-coding 1.612 2.175 1.018 2.514 4.224 2.542 2.078 8.421 2.809 1.956 2.076 2.843 2.956 3.975 3.410 nan 1.334 nan nan 1.097 1.028 1.133 1.646 1.158 1.337 938 chr13 56140609 56141950 + 0 NA Intergenic MTC|LTR|ERVL-MaLR -5729 NM_001159513 26914 Mm.283802 NM_012015 ENSMUSG00000015937 H2afy H2AF12M|mH2a1|macroH2A1 H2A histone family, member Y protein-coding 3.236 0.407 0.707 1.895 2.720 1.144 1.668 3.290 3.086 2.384 0.978 1.250 3.053 4.077 3.250 3.422 2.303 nan 1.076 2.023 2.235 1.682 1.173 0.625 nan 2149 chr3 19205930 19212767 + 0 NA intron (NR_045575, intron 4 of 8) RSINE1|SINE|B4 21127 NR_045575 67472 Mm.45125 NM_026182 ENSMUSG00000027601 Mtfr1 1300002C08Rik|1700080D04Rik|2810026O10Rik|4930579E05Rik|Chppr|Fam54a2 mitochondrial fission regulator 1 protein-coding 7.245 8.927 3.276 6.981 4.865 2.968 8.049 4.628 6.738 12.282 8.241 3.494 8.959 10.332 6.327 6.198 5.648 11.123 2.851 2.175 1.954 2.928 2.282 2.740 8.670 1679 chr18 76191863 76193143 + 0 NA Intergenic Intergenic 21951 NR_105776 102465184 NR_105776 ENSMUSG00000098276 Mir6358 Gm27830|mmu-mir-6358 microRNA 6358 ncRNA 0.907 nan 0.103 1.680 0.521 0.590 1.518 3.227 1.439 1.486 0.773 0.604 3.741 3.688 3.624 3.492 1.850 2.225 0.909 nan 0.479 1.470 0.268 0.234 2.420 1830 chr2 26336035 26360945 + 0 NA TTS (NM_001199147) TTS (NM_001199147) 3620 NM_026828 52838 Mm.31239 NM_026828 ENSMUSG00000075467 Dnlz 1110034G11Rik|D2Bwg1335e|HEP1 DNL-type zinc finger protein-coding 6.529 4.361 0.939 7.914 2.666 1.266 5.181 6.348 nan 5.285 3.697 1.848 5.734 6.230 6.447 9.343 5.563 7.586 1.051 0.935 0.788 1.574 0.681 0.491 11.711 1620 chr18 38064651 38067608 + 0 NA Intergenic Intergenic -67160 NM_001205336 106952 Mm.247642 NM_139206 ENSMUSG00000024451 Arap3 Centd3|Drag1|E030006K04Rik|cnt-d3 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3 protein-coding 3.319 0.838 0.628 1.688 1.643 1.105 1.814 2.484 4.377 3.583 1.043 0.877 5.116 3.481 2.423 2.696 3.659 4.224 1.125 0.843 0.618 0.939 0.708 0.704 2.302 2241 chr3 93323634 93327630 + 0 NA exon (NM_133698, exon 3 of 4) exon (NM_133698, exon 3 of 4) 5883 NM_133698 68723 Mm.208047 NM_133698 ENSMUSG00000041991 Hrnr 1110033K19Rik|A530063N20Rik|S100a18 hornerin protein-coding 5.543 3.249 1.331 3.902 4.001 2.033 4.549 7.607 3.823 4.226 11.523 2.584 5.056 5.756 4.420 8.271 7.021 6.919 0.755 0.798 1.074 0.803 0.452 0.409 5.071 3060 chr7 6120296 6128118 + 0 NA Intergenic Lx8|LINE|L1 31764 NM_001013012 67109 Mm.3254 NM_001013012 ENSMUSG00000046792 Zfp787 2210018M03Rik|Znf787 zinc finger protein 787 protein-coding 7.479 2.869 1.948 4.514 3.846 2.786 9.709 9.356 3.931 5.360 2.298 2.435 7.924 9.009 6.882 7.151 9.661 6.262 2.556 2.912 3.232 2.465 4.599 4.009 7.314 1262 chr16 10472888 10477482 + 0 NA Intergenic Intergenic -4887 NM_001302619 12265 Mm.249560 NM_007575 ENSMUSG00000022504 Ciita C2ta|EG669998|Gm9475|Mhc2ta class II transactivator protein-coding 13.366 3.506 2.295 4.624 4.571 1.645 11.317 7.098 6.833 8.760 1.802 1.085 12.436 11.542 9.193 12.769 10.616 8.494 0.963 1.061 0.528 0.444 0.786 0.541 12.195 3167 chr7 116869751 116875671 + 0 NA Intergenic L1M2|LINE|L1 368342 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 6.320 1.873 1.095 1.805 1.036 0.736 4.919 3.612 2.090 2.700 1.709 1.271 8.691 3.712 3.707 5.386 7.507 3.377 0.817 0.744 0.554 0.772 0.750 0.613 5.358 1290 chr16 17700055 17701801 + 0 NA intron (NM_001285886, intron 2 of 16) intron (NM_001285886, intron 2 of 16) 21972 NM_001285886 94112 Mm.208970 NM_033609 ENSMUSG00000012114 Med15 A230074L19Rik|AW536074|Pcqap|mPcqap mediator complex subunit 15 protein-coding 5.871 0.872 0.745 1.034 3.265 1.986 4.662 7.019 2.006 1.775 0.628 0.549 4.031 4.528 3.610 3.697 4.775 4.623 0.496 0.632 0.514 0.433 0.883 0.419 3.138 1527 chr17 47691871 47693601 + 0 NA intron (NM_001290337, intron 1 of 6) intron (NM_001290337, intron 1 of 6) 2000 NM_001290337 381104 Mm.392206 NM_001290337 ENSMUSG00000079444 Prickle4 Gm939 prickle planar cell polarity protein 4 protein-coding 0.671 5.688 6.965 0.794 0.917 0.483 1.310 0.673 0.419 0.608 0.666 0.227 0.350 nan 0.718 0.657 1.500 0.332 0.559 0.421 0.960 0.413 0.198 0.427 0.778 2162 chr3 29902903 29915262 + 0 NA intron (NR_110437, intron 1 of 1) intron (NR_110437, intron 1 of 1) 18065 NR_110437 102636083 NR_110437 ENSMUSG00000102590 Mannr Manr Mecom adjacent non-protein coding RNA ncRNA 5.556 0.567 0.473 nan 4.791 2.357 nan 1.372 nan 8.433 3.431 5.273 6.093 4.072 nan 5.701 5.444 nan 0.882 1.355 0.744 1.565 0.696 0.498 4.477 1132 chr15 75652522 75663252 + 0 NA intron (NM_028404, intron 12 of 13) intron (NM_028404, intron 12 of 13) 20903 NM_028404 72960 Mm.182401 NM_028404 ENSMUSG00000000934 Top1mt 2900052H09Rik DNA topoisomerase 1, mitochondrial protein-coding 3.980 nan 0.456 5.802 2.523 1.581 nan 10.459 3.733 nan nan 1.202 1.953 4.457 1.853 2.316 nan 4.842 1.896 1.085 0.800 nan 1.753 1.234 3.013 2370 chr4 55015904 55019135 + 0 NA intron (NM_172867, intron 5 of 12) intron (NM_172867, intron 5 of 12) 69574 NM_172867 242466 Mm.102904 NM_172867 ENSMUSG00000060206 Zfp462 6030417H05|9430078C22Rik|Gt4-2|Zfpip zinc finger protein 462 protein-coding 3.086 nan 0.438 1.833 0.744 0.420 2.623 4.921 1.625 1.777 2.456 0.861 3.524 4.391 2.844 4.434 1.261 3.479 2.596 1.570 0.531 4.472 1.816 0.810 2.198 929 chr13 54729194 54735717 + 0 NA intron (NM_001033364, intron 23 of 31) RLTR20A4|LTR|ERVK 17419 NM_001316710 26913 Mm.41812 NM_012014 ENSMUSG00000069227 Gprin1 GRIN1|Z16 G protein-regulated inducer of neurite outgrowth 1 protein-coding 4.194 0.881 0.828 2.899 3.110 3.452 4.156 4.780 5.297 4.432 3.136 2.537 4.207 5.442 4.064 nan 4.452 3.778 1.435 1.581 1.184 1.571 1.299 1.258 nan 2554 chr4 142775948 142777472 + 0 NA Intergenic Intergenic 359452 NR_105988 102465618 NR_105988 ENSMUSG00000106597 Mir7021 mmu-mir-7021 microRNA 7021 ncRNA nan 12.439 6.994 0.569 0.971 0.368 0.610 0.430 nan 0.431 0.425 0.162 0.180 0.584 0.656 0.688 0.181 nan 0.876 0.534 0.241 0.482 nan 0.499 0.652 1925 chr2 93615394 93617677 + 0 NA Intergenic Intergenic -25899 NM_007442 11695 Mm.389389 NM_007442 ENSMUSG00000040310 Alx4 lst aristaless-like homeobox 4 protein-coding 2.984 1.096 0.592 2.296 2.217 1.372 4.147 3.260 2.362 3.250 1.287 0.481 3.472 4.487 3.566 5.216 2.311 3.833 1.203 0.608 0.504 1.023 0.349 0.457 5.352 2916 chr6 86516523 86522343 + 0 NA Intergenic B2_Mm2|SINE|B2 6732 NM_011865 23983 Mm.274146 NM_011865 ENSMUSG00000051695 Pcbp1 WBP17|[a]CP-1|alphaCP-1|hnRNP E1 poly(rC) binding protein 1 protein-coding 5.367 3.161 1.504 5.618 5.494 3.951 6.137 6.422 4.724 5.506 6.031 3.016 5.259 8.691 5.439 7.357 4.016 5.227 nan 3.705 3.237 4.972 5.014 4.447 5.620 2574 chr4 150347144 150350137 + 0 NA intron (NM_001085492, intron 1 of 22) intron (NM_001085492, intron 1 of 22) 66724 NM_001085492 68703 Mm.291274 NM_001085492 ENSMUSG00000039852 Rere 1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye|eyes3|mKIAA0458 arginine glutamic acid dipeptide (RE) repeats protein-coding 4.133 nan 0.731 3.289 7.489 6.922 5.433 6.529 7.490 8.835 6.549 6.517 6.704 7.076 3.363 3.966 4.207 4.796 0.783 0.979 1.295 0.550 0.788 0.932 2.026 3126 chr7 73436968 73439501 + 0 NA intron (NM_001081345, intron 37 of 38) B3|SINE|B2 -62460 NR_040324 319783 Mm.349813 NR_040324 ENSMUSG00000097756 A730056A06Rik C76391 RIKEN cDNA A730056A06 gene ncRNA 3.494 1.125 0.425 4.430 3.369 1.332 6.379 5.023 4.876 6.749 5.146 2.093 5.346 6.562 5.405 6.817 3.447 5.013 0.733 0.587 0.473 0.752 0.265 0.235 4.720 547 chr11 94968399 94971271 + 0 NA intron (NM_009161, intron 7 of 10) intron (NM_009161, intron 7 of 10) 2242 NM_018792 54388 Mm.30482 NM_018792 ENSMUSG00000038994 Hils1 H1.9|TISP64 histone H1-like protein in spermatids 1 protein-coding 0.532 nan 0.499 0.677 0.727 0.562 0.898 1.056 0.743 0.665 0.427 0.842 0.578 0.729 0.845 0.999 nan 1.075 1.232 nan 1.501 4.115 nan nan 0.808 631 chr11 102327508 102329662 + 0 NA Intergenic Intergenic -9489 NM_011551 21429 Mm.2845 NM_011551 ENSMUSG00000020923 Ubtf A930005G04Rik|NOR-90|Tcfubf|UBF|UBF-1|UBF1 upstream binding transcription factor, RNA polymerase I protein-coding 3.468 nan 0.753 3.708 3.212 1.907 3.581 3.019 1.764 3.165 2.177 1.332 3.258 4.694 4.545 4.714 3.242 2.981 2.049 nan 2.761 4.266 nan nan 4.882 1616 chr18 37965487 37969099 + 0 NA intron (NM_175684, intron 7 of 19) intron (NM_175684, intron 7 of 19) 2438 NM_175684 319262 Mm.285060 NM_175684 ENSMUSG00000038524 Fchsd1 A030002D08Rik FCH and double SH3 domains 1 protein-coding 5.017 5.082 1.298 7.049 1.422 0.678 3.869 6.063 3.530 3.997 2.596 1.556 6.071 5.614 7.698 8.763 4.202 6.521 2.244 1.158 0.663 3.760 1.196 1.514 14.763 1583 chr17 84765938 84769146 + 0 NA intron (NM_028233, intron 11 of 37) B1_Mur1|SINE|Alu 23244 NM_028233 72416 Mm.217027 NM_028233 ENSMUSG00000024120 Lrpprc 3110001K13Rik|C76645|Gp130|Lrp130|Lsfc leucine-rich PPR-motif containing protein-coding 3.463 1.745 1.232 4.307 1.868 1.528 2.265 2.174 nan 2.788 1.475 1.930 2.693 2.751 2.417 2.827 3.689 4.573 1.147 2.806 1.628 2.659 0.759 0.742 3.628 1544 chr17 56341054 56360692 + 0 NA intron (NM_172132, intron 1 of 22) intron (NM_172132, intron 1 of 22) 24823 NM_172132 193796 Mm.45047 NM_172132 ENSMUSG00000024201 Kdm4b 4732474L06Rik|Jmjd2b|mKIAA0876 lysine (K)-specific demethylase 4B protein-coding 6.210 nan 0.759 6.080 4.079 2.817 9.704 8.074 6.087 9.530 2.748 1.680 7.635 9.691 10.031 11.109 7.462 9.048 2.914 2.059 2.073 3.165 3.877 3.477 13.973 1538 chr17 56030614 56032691 + 0 NA intron (NM_001252471, intron 1 of 8) B4|SINE|B4 4985 NM_013664 20405 Mm.1773 NM_013664 ENSMUSG00000003200 Sh3gl1 C77078|EEN|SH3P8|Sh3d2b SH3-domain GRB2-like 1 protein-coding nan 4.252 1.960 4.301 2.827 1.766 4.152 3.176 3.268 3.299 2.622 2.360 3.923 5.045 4.137 4.477 3.762 4.445 2.082 2.318 1.534 2.185 2.455 1.962 3.983 396 chr11 11673824 11680440 + 0 NA Intergenic MIRc|SINE|MIR -8793 NM_009578 22778 Mm.103545 NM_009578 ENSMUSG00000018654 Ikzf1 5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227 IKAROS family zinc finger 1 protein-coding nan 10.608 4.794 0.804 0.350 0.055 0.354 0.326 0.537 0.622 0.292 0.317 0.290 0.270 0.577 0.693 0.461 0.855 0.880 nan 0.482 1.176 0.671 0.433 0.752 258 chr10 43387277 43390879 + 0 NA intron (NM_027772, intron 4 of 7) L1_Mus3|LINE|L1 -90062 NM_199028 331623 Mm.490388 NM_199028 ENSMUSG00000038214 Bend3 mKIAA1553 BEN domain containing 3 protein-coding 1.675 nan 1.234 1.637 0.524 0.174 0.585 0.798 0.971 0.971 0.986 0.836 0.489 0.455 0.895 0.901 0.760 1.348 nan 2.742 1.145 4.204 0.770 0.467 1.253 1422 chr17 24779584 24793433 + 0 NA Intergenic L1_Mus2|LINE|L1 -17874 NM_029197 75178 Mm.52592 NM_029197 ENSMUSG00000024155 Meiob 4930528F23Rik|MLZ-675 meiosis specific with OB domains protein-coding 5.549 1.486 0.597 7.000 2.610 1.616 5.753 3.090 4.075 5.961 2.129 1.756 4.368 6.980 4.747 nan 3.083 5.811 1.617 1.291 1.434 1.824 1.183 1.104 7.726 482 chr11 74855620 74858580 + 0 NA intron (NM_197943, intron 16 of 22) intron (NM_197943, intron 16 of 22) 11094 NR_105891 102465558 NR_105891 ENSMUSG00000098317 Mir6926 Gm27949|mmu-mir-6926 microRNA 6926 ncRNA 2.558 0.833 0.669 2.613 2.134 1.001 2.882 2.825 2.858 3.522 1.854 1.724 2.217 4.576 nan 2.929 2.394 nan 2.689 3.638 nan 2.765 3.044 1.264 2.301 2620 chr5 9130108 9132399 + 0 NA intron (NM_011806, intron 9 of 17) intron (NM_011806, intron 9 of 17) 30516 NM_001081029 652925 Mm.439954 NM_001081029 ENSMUSG00000079659 Tmem243 4930420K17Rik|E030031F02Rik transmembrane protein 243, mitochondrial protein-coding 2.152 0.670 0.475 2.088 2.062 0.581 0.961 1.172 2.657 2.728 0.526 0.314 2.566 4.278 2.723 2.533 2.860 2.773 0.733 0.649 0.333 0.711 0.311 0.207 1.608 949 chr13 72584526 72588150 + 0 NA Intergenic Intergenic 42226 NR_030701 328287 Mm.235072 NR_030701 Gm20554 D430050G20 predicted gene, 20554 ncRNA 0.329 0.316 0.218 0.282 0.171 0.230 0.316 0.504 0.545 0.386 0.349 0.222 0.107 0.280 0.317 nan 0.281 0.479 3.485 3.757 2.938 5.154 4.143 2.837 0.360 3432 chr9 21349553 21352770 + 0 NA intron (NM_152808, intron 20 of 21) RLTR25B|LTR|ERVK 13333 NM_152808 68682 Mm.148425 NM_152808 ENSMUSG00000057193 Slc44a2 1110028E10Rik|CTL2 solute carrier family 44, member 2 protein-coding 6.544 7.290 2.126 6.255 4.730 4.187 6.453 7.487 3.062 8.496 5.138 2.584 5.709 8.229 6.020 8.230 5.255 5.592 4.378 2.586 4.801 5.054 3.946 5.833 12.490 499 chr11 77475685 77478245 + 0 NA intron (NM_172945, intron 4 of 15) intron (NM_172945, intron 4 of 15) 12713 NM_172945 268445 Mm.39296 NM_172945 ENSMUSG00000037907 Ankrd13b AW124583|B930093C12Rik ankyrin repeat domain 13b protein-coding nan 0.388 0.479 1.140 2.109 1.521 nan 2.686 1.109 1.164 0.545 0.327 1.489 4.267 1.724 nan 1.710 1.347 0.979 1.321 nan 1.910 0.529 0.580 0.833 1047 chr15 7001439 7002755 + 0 NA Intergenic Intergenic -127475 NM_001113386 16880 Mm.149720 NM_013584 ENSMUSG00000054263 Lifr A230075M04Rik|AW061234|LIF leukemia inhibitory factor receptor protein-coding 3.777 0.403 0.787 0.552 1.650 0.304 2.670 1.845 2.305 2.452 0.701 0.263 2.916 3.123 1.539 1.905 4.946 1.531 0.952 0.491 1.113 0.458 0.321 0.796 1.864 2138 chr2 181396196 181398163 + 0 NA intron (NM_027656, intron 2 of 3) intron (NM_027656, intron 2 of 3) 12929 NR_045164 329584 Mm.386906 NR_045164 ENSMUSG00000085028 Slc2a4rg-ps C430010C01|Gm14462|OTTMUSG00000016710 Slc2a4 regulator, pseudogene pseudo 3.294 1.266 0.389 3.965 0.814 0.522 1.454 1.157 1.504 1.981 0.650 0.787 1.291 1.527 1.718 nan 1.270 3.003 0.888 0.630 0.374 1.018 0.442 0.291 3.186 1055 chr15 8516720 8520359 + 0 NA Intergenic Intergenic -74076 NM_201232 71175 Mm.240329 NM_027707 ENSMUSG00000022141 Nipbl Idn3 Nipped-B homolog (Drosophila) protein-coding 4.824 4.352 1.933 3.763 2.919 1.980 4.970 6.154 2.215 4.050 2.002 1.052 4.632 5.839 4.744 4.425 3.794 3.517 7.167 5.968 5.039 6.375 7.742 7.492 6.026 2447 chr4 119942440 119945799 + 0 NA intron (NM_010657, intron 1 of 8) L1MC4a|LINE|L1 129441 NM_010657 16656 Mm.302758 NM_010657 ENSMUSG00000028634 Hivep3 2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3 human immunodeficiency virus type I enhancer binding protein 3 protein-coding 0.414 0.777 0.396 0.766 0.381 0.037 0.385 0.495 0.461 0.718 1.120 0.310 0.235 0.400 0.485 nan 0.244 0.752 2.560 1.216 1.194 4.337 1.715 1.232 0.936 1276 chr16 11251836 11254271 + 0 NA intron (NM_146066, intron 1 of 14) intron (NM_146066, intron 1 of 14) 1272 NM_001130008 14852 Mm.325827 NM_146066 ENSMUSG00000062203 Gspt1 AI314175|AI326449|AV307676|C79774|G1st|Gst-1 G1 to S phase transition 1 protein-coding 10.208 10.330 3.397 9.757 6.491 4.705 8.548 10.152 5.805 12.966 5.588 4.538 7.618 9.769 8.824 10.987 6.741 9.393 5.688 3.606 4.449 5.223 3.637 4.990 15.017 3228 chr8 18691383 18697283 + 0 NA intron (NM_007426, intron 8 of 8) intron (NM_007426, intron 8 of 8) 47229 NM_007426 11601 Mm.439874 NM_007426 ENSMUSG00000031465 Angpt2 Agpt2|Ang-2|Ang2 angiopoietin 2 protein-coding 0.802 0.751 0.383 1.672 0.472 0.270 0.613 0.737 0.856 0.574 1.243 0.376 0.629 0.713 0.797 nan 0.780 1.593 3.955 2.502 2.048 7.920 2.395 1.670 1.183 3140 chr7 97215454 97217331 + 0 NA intron (NM_001162477, intron 1 of 9) MTA_Mm|LTR|ERVL-MaLR 109572 NM_001177412 244144 Mm.297541 NM_001177412 ENSMUSG00000035713 Usp35 Gm1088|Gm493 ubiquitin specific peptidase 35 protein-coding 5.406 4.403 2.532 3.674 2.097 2.084 1.825 2.622 3.778 3.801 3.094 1.390 1.728 3.531 2.764 2.729 2.533 3.063 nan 1.957 1.849 0.762 0.836 0.496 2.927 141 chr1 135307931 135312131 + 0 NA intron (NM_011590, intron 1 of 5) intron (NM_011590, intron 1 of 5) 3706 NM_011590 21854 Mm.2368 NM_011590 ENSMUSG00000062580 Timm17a 17kDa|mTim17a translocase of inner mitochondrial membrane 17a protein-coding 4.647 1.100 0.251 6.732 1.738 1.137 1.075 3.052 3.067 3.365 4.195 2.661 1.543 2.827 2.080 3.617 2.516 4.530 3.271 1.388 1.109 3.262 2.863 2.079 6.604 909 chr13 47073660 47087159 + 0 NA intron (NM_172262, intron 19 of 20) intron (NM_172262, intron 19 of 20) 25812 NM_025900 110052 Mm.131150 NM_025900 ENSMUSG00000021377 Dek 1810019E15Rik|D13H6S231E DEK oncogene (DNA binding) protein-coding nan 2.722 2.208 3.394 3.648 2.348 3.444 3.487 3.440 3.512 0.938 1.262 2.700 5.275 4.726 6.073 3.074 nan 0.710 nan 0.545 0.565 0.620 0.545 nan 3043 chr6 144157289 144159363 + 0 NA intron (NM_001113559, intron 1 of 13) intron (NM_001113559, intron 1 of 13) 51242 NM_001113559 20678 Mm.1752 NM_011444 ENSMUSG00000041540 Sox5 A730017D01Rik|AI528773 SRY (sex determining region Y)-box 5 protein-coding nan 0.498 0.381 nan 0.551 0.210 0.890 nan 0.531 nan 0.858 0.583 nan 0.348 0.444 nan 0.647 0.365 1.271 3.484 2.477 4.068 3.673 1.727 nan 2981 chr6 113411480 113412747 + 0 NA intron (NM_133923, intron 11 of 12) CYRA11_Mm|Unknown|Y-chromosome 7227 NM_001033204 101122 Mm.31204 NM_001033204 ENSMUSG00000051169 Rpusd3 AI527266 RNA pseudouridylate synthase domain containing 3 protein-coding 1.424 0.573 0.339 1.295 0.413 0.442 3.433 3.441 0.811 0.999 0.916 0.915 3.028 3.347 2.708 7.294 3.226 2.592 0.365 0.742 0.411 0.316 nan 0.148 1.519 2618 chr5 3599502 3601568 + 0 NA intron (NM_001293806, intron 1 of 23) intron (NM_001293806, intron 1 of 23) -3988 NM_172991 269623 Mm.38014 NM_172991 ENSMUSG00000040302 Rbm48 AW548102|C030048B08Rik RNA binding motif protein 48 protein-coding 3.669 0.720 0.392 2.063 1.534 1.326 1.772 1.796 1.937 2.065 0.516 0.458 1.632 3.520 3.261 3.159 3.694 2.106 0.565 0.215 0.210 0.560 0.151 0.234 3.593 1124 chr15 68243991 68246364 + 0 NA intron (NM_001145888, intron 1 of 15) intron (NM_001145888, intron 1 of 15) 13679 NM_001145888 380993 Mm.309526 NM_198644 ENSMUSG00000022335 Zfat Gm922|Zfat1|Zfp406 zinc finger and AT hook domain containing protein-coding 9.059 1.235 0.519 4.719 1.512 0.637 8.003 7.209 3.846 4.641 0.666 0.441 9.837 6.943 9.634 8.943 6.764 10.564 0.825 0.633 0.335 1.076 0.305 0.207 11.056 1230 chr15 101192415 101220268 + 0 NA intron (NM_007395, intron 7 of 8) RLTR12A|LTR|ERVK 12472 NR_105927 102466774 NR_105927 ENSMUSG00000106563 Mir6962 mmu-mir-6962 microRNA 6962 ncRNA 4.154 1.633 0.507 6.375 3.066 1.688 5.025 7.095 3.022 2.946 4.315 2.457 4.363 5.522 4.643 4.341 2.416 5.419 5.434 2.518 1.786 7.230 3.600 2.372 4.815 75 chr1 74435739 74440133 + 0 NA 3' UTR (NM_001310662, exon 24 of 24) 3' UTR (NM_001310662, exon 24 of 24) 28552 NM_009509 22349 Mm.471601 NM_009509 ENSMUSG00000026175 Vil1 Vil villin 1 protein-coding 7.161 15.983 4.450 10.744 3.279 2.807 5.740 6.370 5.581 10.413 6.001 4.153 7.944 7.141 8.481 13.259 7.340 9.676 nan nan 2.680 4.473 nan 2.863 12.208 2793 chr5 145048089 145058260 + 0 NA Intergenic Lx5b|LINE|L1 10184 NM_027069 69396 Mm.45463 NM_027069 ENSMUSG00000029620 1700018F24Rik AV045857 RIKEN cDNA 1700018F24 gene protein-coding 2.737 0.733 0.518 nan 4.219 3.494 4.862 4.052 nan 2.927 1.949 2.229 3.409 7.063 6.679 nan 3.346 3.606 1.670 1.046 1.287 1.283 2.081 2.199 nan 2993 chr6 120312496 120315349 + 0 NA Intergenic Intergenic -19363 NM_198884 330406 Mm.321840 NM_198884 ENSMUSG00000041372 B4galnt3 AB114826|B4GalNAcT3|C330047A21 beta-1,4-N-acetyl-galactosaminyl transferase 3 protein-coding 10.862 13.727 5.781 10.909 6.044 2.728 11.838 12.429 7.169 9.220 7.643 5.811 11.094 13.391 12.699 14.044 11.228 9.913 5.992 3.129 2.512 6.609 3.204 2.934 14.085 2588 chr4 151481129 151482619 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 379894 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 4.236 nan 0.093 1.909 1.957 1.082 4.803 6.281 1.917 4.224 3.582 1.081 2.864 8.243 3.441 6.321 3.195 4.226 4.052 0.975 1.334 5.976 2.215 1.373 6.805 1917 chr2 91277015 91284002 + 0 NA intron (NM_001311144, intron 7 of 8) B1_Mur4|SINE|Alu 15393 NM_023854 77038 Mm.43636 NM_023854 ENSMUSG00000027255 Arfgap2 2310032E02Rik|Zfp289 ADP-ribosylation factor GTPase activating protein 2 protein-coding 5.283 0.497 0.536 3.327 1.680 0.819 4.474 4.922 4.945 3.931 1.206 1.071 7.705 5.604 4.865 8.067 9.068 7.106 1.146 0.719 0.787 0.836 0.795 0.735 5.679 1163 chr15 76952765 76958000 + 0 NA Intergenic Intergenic 6838 NM_054099 117171 Mm.322968 NM_054099 ENSMUSG00000063236 1110038F14Rik - RIKEN cDNA 1110038F14 gene protein-coding 2.244 nan 0.545 nan 0.948 0.550 2.196 6.397 1.870 nan nan 0.715 3.026 2.131 3.313 3.247 2.965 3.027 4.350 1.918 1.188 6.082 2.812 1.925 2.075 450 chr11 68947361 68948538 + 0 NA intron (NM_177566, intron 9 of 15) MIRb|SINE|MIR 8909 NM_177566 442801 Mm.376147 NM_177566 ENSMUSG00000052921 Arhgef15 D130071N09|D530030K12Rik|E5 Rho guanine nucleotide exchange factor (GEF) 15 protein-coding 3.646 1.988 0.641 3.351 0.746 0.343 1.228 3.227 1.783 2.865 1.750 0.901 2.203 3.976 2.885 4.383 1.535 2.488 1.563 0.919 0.525 2.919 nan 0.594 2.833 1702 chr18 82990275 82991817 + 0 NA intron (NM_183033, intron 3 of 5) intron (NM_183033, intron 3 of 5) -70486 NR_033307 75853 Mm.420737 NR_033307 4930592I03Rik - RIKEN cDNA 4930592I03 gene ncRNA 2.900 nan 0.845 1.973 1.526 0.522 2.280 2.914 1.591 2.517 3.615 2.827 2.314 3.787 2.532 2.989 2.691 2.224 2.404 nan 0.695 2.205 1.315 1.208 2.597 3118 chr7 70898902 70900574 + 0 NA Intergenic L2a|LINE|L2 -532992 NM_183261 11819 Mm.158143 NM_009697 ENSMUSG00000030551 Nr2f2 2700033K02Rik|9430015G03Rik|ARP-1|Aporp1|COUP-TF2|COUP-TFII|COUPTFB|EAR3|SVP40|Tcfcoup2 nuclear receptor subfamily 2, group F, member 2 protein-coding 3.597 5.788 1.594 9.597 1.749 1.012 1.830 4.757 3.430 6.208 5.215 4.241 3.315 5.734 3.028 2.663 0.759 3.821 2.717 0.984 1.124 3.920 2.248 2.200 3.959 1405 chr17 6077471 6079709 + 0 NA intron (NM_177311, intron 1 of 15) intron (NM_177311, intron 1 of 15) 1149 NM_001111017 321007 Mm.5548 NM_177311 ENSMUSG00000015659 Serac1 4930511N22Rik|D17Ertd141e serine active site containing 1 protein-coding 4.147 3.501 1.660 5.097 3.771 1.931 6.340 3.137 3.850 5.189 2.053 2.192 3.460 8.261 5.081 7.296 5.204 4.482 nan 2.203 1.248 3.052 2.078 1.900 6.323 1713 chr19 4260759 4261903 + 0 NA TTS (NM_198113) TTS (NM_198113) 2547 NR_105951 102465595 NR_105951 ENSMUSG00000099290 Mir6985 Gm27719|mmu-mir-6985 microRNA 6985 ncRNA 3.893 2.792 2.289 1.423 1.248 1.805 5.237 5.675 1.877 1.275 0.862 2.104 2.157 3.557 3.967 2.678 3.364 2.065 3.816 2.839 2.973 4.427 7.360 8.151 3.932 3590 chrX 136218526 136220819 + 0 NA Intergenic ORR1A2|LTR|ERVL-MaLR -4159 NM_009052 19716 Mm.422943 NM_009052 ENSMUSG00000050071 Bex1 AA407839|AU018692|Bex4|Rex3 brain expressed X-linked 1 protein-coding 5.306 3.198 1.088 4.555 2.858 0.974 3.772 5.111 3.152 4.238 2.967 2.282 4.231 5.281 4.396 5.345 3.246 4.913 2.679 2.544 1.190 3.236 2.592 2.153 5.929 1060 chr15 10615039 10623032 + 0 NA intron (NM_001166408, intron 3 of 17) B3|SINE|B2 18742 NR_033541 100038608 Mm.450744 NR_033541 Gm10389 ENSMUSG00000072658 predicted gene 10389 ncRNA 5.738 1.120 0.596 2.781 3.315 1.489 7.368 10.135 4.158 4.184 2.951 2.347 8.469 6.024 5.706 5.330 5.690 4.785 0.603 0.542 0.343 0.355 0.378 0.261 4.639 2420 chr4 106915951 106922800 + 0 NA intron (NM_023672, intron 4 of 17) intron (NM_023672, intron 4 of 17) 7905 NM_023672 72475 Mm.195635 NM_023672 ENSMUSG00000061887 Ssbp3 2610021L12Rik|2610200M23Rik|5730488C10Rik|AI854733|AW551939|LAST|SSDP1 single-stranded DNA binding protein 3 protein-coding 3.902 1.248 0.705 2.636 2.148 1.440 2.898 4.220 2.979 3.084 0.621 0.935 4.222 3.318 3.169 4.215 4.018 4.698 4.475 3.521 3.682 5.408 4.411 4.399 3.419 2104 chr2 170144113 170150480 + 0 NA Intergenic Intergenic -4621 NM_001159683 228913 Mm.22858 NM_001033299 ENSMUSG00000052056 Zfp217 4933431C08Rik|AW987152|Gm562|ZABC1|Znf217 zinc finger protein 217 protein-coding 6.440 5.539 3.605 2.926 3.641 2.803 5.391 4.559 2.980 3.428 2.344 2.874 5.459 nan 3.889 5.510 4.769 nan nan 2.556 2.347 1.748 1.923 2.157 nan 2894 chr6 72684445 72692888 + 0 NA intron (NM_001079822, intron 3 of 12) MTD|LTR|ERVL-MaLR 58835 NR_040421 100038714 Mm.321330 NR_040421 Gm15401 ENSMUSG00000072999|OTTMUSG00000021199 predicted gene 15401 ncRNA 4.315 0.999 0.727 3.473 3.125 2.314 9.347 4.448 2.714 3.422 1.084 0.972 6.510 7.126 6.846 7.812 5.508 4.801 1.740 1.369 0.896 1.965 1.698 1.516 5.923 2126 chr2 180006827 180013979 + 0 NA Intergenic L1MB7|LINE|L1 -14584 NM_177727 241846 Mm.21577 NM_177727 ENSMUSG00000039108 Lsm14b 9430078B04|BC040823 LSM family member 14B protein-coding 3.690 4.376 1.358 4.027 2.601 1.799 3.647 6.492 3.745 4.587 5.122 4.159 3.657 3.744 3.925 5.045 2.833 4.653 2.655 1.518 1.659 4.335 2.410 2.422 nan 2858 chr6 39152660 39158438 + 0 NA intron (NM_001033430, intron 10 of 19) L1_Mus2|LINE|L1 37076 NR_045813 75379 Mm.348014 NR_045813 ENSMUSG00000073144 4930599N23Rik - RIKEN cDNA 4930599N23 gene ncRNA 5.666 8.035 2.581 7.856 3.351 3.472 6.627 7.090 4.153 10.999 3.852 3.116 7.531 8.456 6.923 nan 5.419 7.102 nan 1.785 2.546 nan nan 3.527 nan 900 chr13 45801790 45803641 + 0 NA intron (NM_001199304, intron 3 of 6) intron (NM_001199304, intron 3 of 6) 162276 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 4.367 1.200 0.617 2.746 4.027 1.882 4.975 4.109 3.387 2.970 1.153 1.510 4.252 4.134 4.211 5.802 3.228 4.561 0.823 nan 0.909 0.470 0.572 1.063 4.373 318 chr10 82320231 82324806 + 0 NA Intergenic RMER16-int|LTR|ERVK -81243 NM_001105557 237411 NM_172789 ENSMUSG00000062931 Zfp938 B230315N10Rik zinc finger protein 938 protein-coding 9.902 7.813 3.190 6.834 4.537 2.784 5.415 8.569 4.765 6.037 5.636 3.036 5.350 8.324 7.486 8.624 6.584 7.723 nan 3.127 2.955 6.196 2.880 2.519 11.474 1729 chr19 6298979 6300607 + 0 NA 3' UTR (NM_010119, exon 5 of 5) 3' UTR (NM_010119, exon 5 of 5) -6664 NM_001033342 240505 Mm.329622 NM_001033342 ENSMUSG00000024769 Cdc42bpg BC046418|MRCKgamma CDC42 binding protein kinase gamma (DMPK-like) protein-coding 4.446 7.842 2.127 9.290 2.109 1.063 1.078 2.479 2.550 2.666 3.370 1.623 1.351 3.411 3.280 3.660 1.862 4.486 0.724 1.087 1.301 1.763 0.400 0.148 5.776 2526 chr4 137017474 137019357 + 0 NA exon (NM_198248, exon 2 of 19) exon (NM_198248, exon 2 of 19) 30280 NM_198248 230848 Mm.31068 NM_198248 ENSMUSG00000060862 Zbtb40 BC059177|C230087D24|Gm571|mKIAA0478 zinc finger and BTB domain containing 40 protein-coding 3.284 0.517 0.159 1.941 2.855 2.482 3.088 2.813 nan 2.274 0.824 0.528 2.522 5.206 2.500 2.938 2.021 nan 0.969 0.737 0.588 1.947 nan 0.405 4.960 972 chr14 17075245 17082871 + 0 NA intron (NM_001289760, intron 1 of 9) intron (NM_001289760, intron 1 of 9) 3273 NM_001289760 218772 Mm.259318 NM_011243 ENSMUSG00000017491 Rarb A830025K23|Hap|Nr1b2 retinoic acid receptor, beta protein-coding 7.124 6.058 1.807 6.254 3.584 2.244 6.114 9.644 nan 6.064 4.927 3.536 6.523 7.775 7.706 8.132 4.533 7.698 2.576 1.333 1.077 nan 1.257 1.009 7.473 473 chr11 70460794 70472841 + 0 NA TTS (NM_001029929) TTS (NM_001029929) -6833 NM_023158 66102 Mm.425692 NM_023158 ENSMUSG00000018920 Cxcl16 0910001K24Rik|AV290116|BB024863|CXCL16v1|CXCL16v2|SR-PSOX|Zmynd15|b2b498Clo chemokine (C-X-C motif) ligand 16 protein-coding 7.838 14.551 4.989 7.565 3.365 1.935 6.762 6.772 4.555 7.893 5.271 3.192 5.843 8.215 8.158 8.066 5.239 6.567 4.176 2.789 2.465 4.717 nan 2.669 10.628 2572 chr4 150287756 150290531 + 0 NA intron (NM_001085492, intron 1 of 22) B3|SINE|B2 7227 NM_001085492 68703 Mm.291274 NM_001085492 ENSMUSG00000039852 Rere 1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye|eyes3|mKIAA0458 arginine glutamic acid dipeptide (RE) repeats protein-coding 7.086 8.826 3.934 6.468 4.293 2.230 3.630 4.541 5.193 6.357 7.099 4.343 4.997 6.910 6.532 6.384 3.392 6.845 5.470 1.576 1.441 5.672 1.715 1.189 7.808 1774 chr19 36905968 36910007 + 0 NA Intergenic Intergenic 11612 NM_028263 72514 Mm.41674 NM_028263 ENSMUSG00000047632 Fgfbp3 2610306H15Rik|Fgf-bp3 fibroblast growth factor binding protein 3 protein-coding 9.860 8.141 3.664 7.187 7.880 6.206 13.103 11.658 6.077 12.830 8.740 5.888 7.823 10.235 8.204 9.072 11.747 7.815 2.772 3.560 4.077 4.206 4.428 4.909 11.974 3 chr1 6276073 6279487 + 0 NA Intergenic MTD|LTR|ERVL-MaLR 63118 NM_009826 12421 Mm.293811 NM_009826 ENSMUSG00000025907 Rb1cc1 2900055E04Rik|5930404L04Rik|Cc1|FIP200|LaXp180 RB1-inducible coiled-coil 1 protein-coding 7.468 0.675 0.499 3.433 1.331 0.399 0.820 1.469 5.295 6.283 1.225 0.514 5.831 4.588 3.631 5.651 5.463 5.449 1.988 1.384 0.366 1.786 1.111 0.502 4.879 248 chr10 41923786 41925335 + 0 NA intron (NM_001034858, intron 13 of 17) intron (NM_001034858, intron 13 of 17) 37121 NM_001013370 140742 Mm.139418 NM_001013370 ENSMUSG00000038332 Sesn1 1110002G11Rik|AU044290|Pa26|Sest1 sestrin 1 protein-coding 2.414 2.519 0.922 5.252 2.379 1.852 0.769 1.803 1.686 1.374 0.970 1.246 1.142 1.573 1.298 1.589 0.904 2.762 1.170 1.385 1.768 1.543 1.004 1.048 1.948 146 chr1 136649679 136654557 + 0 NA Intergenic Intergenic 27217 NM_001160251 226442 Mm.62521 NM_177643 ENSMUSG00000041483 Zfp281 Znf281 zinc finger protein 281 protein-coding 4.892 1.223 0.295 5.064 2.329 1.003 4.768 4.838 3.804 7.203 0.889 0.788 7.701 7.814 6.177 8.179 4.152 4.332 2.283 1.019 1.031 3.543 0.866 0.593 6.422 3202 chr7 136906900 136909205 + 0 NA intron (NM_008598, intron 1 of 4) MTEb|LTR|ERVL-MaLR 13441 NM_008598 17314 Mm.440219 NM_008598 ENSMUSG00000054612 Mgmt AGT|AI267024|Agat O-6-methylguanine-DNA methyltransferase protein-coding 4.566 1.685 0.626 3.646 4.287 1.941 3.341 6.535 3.702 3.611 6.051 2.866 4.819 4.278 6.315 6.468 2.391 6.388 1.549 1.405 0.590 1.971 1.967 1.133 5.973 1351 chr16 64850502 64854001 + 0 NA promoter-TSS (NM_001347245) promoter-TSS (NM_001347245) 166 NM_178647 106143 Mm.10160 NM_178647 ENSMUSG00000054604 Cggbp1 AA960172|AL023996|AW045841 CGG triplet repeat binding protein 1 protein-coding 10.466 11.905 3.579 10.218 5.493 5.151 8.355 10.707 5.232 14.314 8.011 4.213 8.000 9.421 8.979 11.392 6.698 9.757 5.753 3.322 4.369 6.027 4.271 5.410 16.643 2396 chr4 70193583 70198453 + 0 NA Intergenic ORR1B1|LTR|ERVL-MaLR 214417 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 7.219 2.969 1.031 7.105 2.468 1.677 4.088 3.907 4.123 8.100 7.069 3.057 4.382 6.643 6.220 9.283 3.816 8.295 8.931 7.010 5.206 10.453 nan 4.088 10.272 356 chr10 126723810 126730565 + 0 NA Intergenic RLTR12D|LTR|ERVK -16796 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 9.873 10.187 4.124 7.862 6.305 3.712 6.670 7.562 4.952 7.837 6.732 2.876 6.240 9.676 7.624 9.070 6.408 7.238 4.878 3.737 3.287 5.378 nan 3.492 11.669 802 chr12 85261359 85269664 + 0 NA intron (NM_175337, intron 2 of 11) intron (NM_175337, intron 2 of 11) 5080 NM_001304475 217716 Mm.311981 NM_145446 ENSMUSG00000021245 Mlh3 AV125803|BB126472 mutL homolog 3 protein-coding 7.433 2.539 1.079 5.380 3.634 2.621 6.469 5.305 3.031 4.649 3.128 2.186 6.405 7.094 5.618 nan 7.731 5.336 2.003 2.262 2.260 1.965 2.431 2.390 nan 2720 chr5 110713472 110715698 + 0 NA intron (NM_173066, intron 14 of 50) RSINE1|SINE|B4 -48444 NR_105993 102466216 NR_105993 ENSMUSG00000099284 Mir7026 Gm27988|mmu-mir-7026 microRNA 7026 ncRNA 3.255 5.325 1.524 3.798 2.457 1.445 nan 3.968 2.428 3.872 2.180 1.474 2.858 5.342 4.049 4.329 3.228 3.653 nan 1.068 1.137 2.271 1.571 1.544 5.243 3420 chr9 14479471 14482195 + 0 NA intron (NM_173433, intron 1 of 1) intron (NM_173433, intron 1 of 1) 19649 NM_173433 244694 Mm.240457 NM_173433 ENSMUSG00000053914 Kdm4d 4932416A15|Jmjd2d lysine (K)-specific demethylase 4D protein-coding 4.078 0.635 0.189 1.416 1.460 0.410 4.834 5.320 1.651 1.836 5.564 2.361 3.241 3.697 4.538 4.775 2.048 3.436 2.366 1.011 0.565 1.901 0.861 0.647 6.363 2063 chr2 163375690 163379958 + 0 NA intron (NM_021566, intron 1 of 5) intron (NM_021566, intron 1 of 5) 20149 NM_021566 59091 Mm.34459 NM_021566 ENSMUSG00000017817 Jph2 1110002E14Rik|JP-2|Jp2 junctophilin 2 protein-coding 1.492 0.648 0.442 0.271 0.381 0.158 3.277 4.873 1.309 0.658 0.649 1.035 2.427 nan 2.363 3.716 1.576 nan nan 0.401 0.300 0.567 0.310 0.487 nan 528 chr11 87397787 87398798 + 0 NA intron (NM_053269, intron 3 of 8) RMER19B|LTR|ERVK 6203 NM_053269 114714 Mm.37376 NM_053269 ENSMUSG00000007646 Rad51c R51H3|Rad51l2 RAD51 paralog C protein-coding 5.652 2.576 0.797 5.400 4.084 3.026 7.217 3.227 1.883 3.279 2.085 1.070 3.577 5.064 3.404 5.483 3.190 3.798 0.913 1.475 0.694 nan 1.116 1.157 6.855 164 chr1 153522931 153526097 + 0 NA intron (NM_028749, intron 5 of 11) intron (NM_028749, intron 5 of 11) 25200 NM_028749 74091 Mm.24887 NM_028749 ENSMUSG00000042684 Npl 0610033B02Rik N-acetylneuraminate pyruvate lyase protein-coding 7.824 0.646 0.330 4.044 3.744 2.121 3.307 3.250 nan 4.652 3.829 2.053 5.452 6.063 3.892 nan 4.437 5.581 nan 0.628 0.651 0.659 nan 0.474 4.399 807 chr12 85546937 85548755 + 0 NA Intergenic Intergenic -51259 NM_001205052 81703 Mm.103560 NM_030887 ENSMUSG00000034271 Jdp2 Jundm2|Jundp2|TIF Jun dimerization protein 2 protein-coding 4.149 11.930 5.424 6.515 2.748 0.909 1.347 4.317 3.047 3.704 4.195 3.076 1.886 4.823 3.814 3.612 2.688 3.060 4.002 1.986 1.590 3.711 2.795 1.725 6.656 3269 chr8 69245555 69250099 + 0 NA Intergenic MERV1_I-int|LTR|ERV1 -23253 NM_172491 211135 Mm.294970 NM_172491 ENSMUSG00000079038 D130040H23Rik - RIKEN cDNA D130040H23 gene protein-coding 0.517 0.417 0.798 0.232 0.231 0.107 0.208 0.470 0.294 0.284 0.351 0.175 0.171 0.211 0.224 0.498 0.519 0.283 6.673 5.762 4.798 6.090 8.686 8.712 nan 2040 chr2 158540118 158552097 + 0 NA intron (NM_001145015, intron 11 of 14) B3|SINE|B2 33311 NM_001145015 545481 Mm.125371 NM_001145015 ENSMUSG00000074625 Arhgap40 C20orf95|Gm14203|OTTMUSG00000015933 Rho GTPase activating protein 40 protein-coding nan 12.697 5.958 2.908 1.036 0.584 0.854 0.563 nan nan 0.557 0.726 nan nan 1.039 1.317 1.023 nan nan 1.440 1.506 0.915 0.866 0.750 nan 2678 chr5 75088019 75090319 + 0 NA Intergenic B3|SINE|B2 13568 NM_133256 14843 Mm.218752 NM_133256 ENSMUSG00000035946 Gsx2 Gsh-2|Gsh2 GS homeobox 2 protein-coding 1.561 0.427 0.308 1.235 0.973 0.160 4.838 3.015 1.451 2.001 1.870 0.912 1.901 1.634 2.500 4.368 2.059 2.500 0.738 0.184 0.218 0.651 0.822 0.403 2.442 2632 chr5 24530530 24532315 + 0 NA Intergenic Intergenic -4574 NM_015739 231044 Mm.246596 NM_015739 ENSMUSG00000067724 Gbx1 Gbx-1 gastrulation brain homeobox 1 protein-coding 3.539 2.309 0.733 3.271 1.832 0.792 6.558 4.957 2.190 3.828 0.931 0.844 3.529 6.676 5.386 3.921 1.813 5.665 0.964 0.647 0.481 1.955 0.525 0.266 2.799 1049 chr15 7078845 7082003 + 0 NA Intergenic Intergenic -49148 NM_001113386 16880 Mm.149720 NM_013584 ENSMUSG00000054263 Lifr A230075M04Rik|AW061234|LIF leukemia inhibitory factor receptor protein-coding 5.875 3.492 0.884 7.593 1.859 0.822 4.450 5.690 3.836 7.607 1.531 1.715 5.479 5.266 4.339 5.127 4.499 6.615 3.015 0.925 1.712 3.422 1.525 2.691 10.267 2898 chr6 72815401 72820195 + 0 NA Intergenic MTC|LTR|ERVL-MaLR -28753 NM_009332 21415 Mm.440067 NM_009332 ENSMUSG00000055799 Tcf7l1 Tcf-3|Tcf3|bHLHb21 transcription factor 7 like 1 (T cell specific, HMG box) protein-coding 5.588 4.506 2.600 3.326 5.158 3.732 5.043 6.293 3.894 4.484 2.421 2.083 6.284 7.668 4.924 6.367 5.325 5.217 1.133 1.525 1.170 0.733 0.905 1.057 4.509 882 chr13 37949451 37951406 + 0 NA non-coding (NR_033218, exon 12 of 12) non-coding (NR_033218, exon 12 of 12) 43762 NM_025965 107513 Mm.426670 NM_025965 ENSMUSG00000021427 Ssr1 2510001K09Rik|6330400D04|AI159733|AI452176|SSR|TRAPA signal sequence receptor, alpha protein-coding 5.376 6.529 1.749 8.855 3.310 2.305 5.875 5.823 4.357 6.566 3.951 2.271 5.547 8.269 7.684 7.984 3.666 7.373 5.436 2.222 3.278 7.284 3.809 3.139 13.034 2812 chr5 151905682 151908327 + 0 NA Intergenic Intergenic -255796 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 6.004 2.144 1.283 4.636 4.528 3.107 5.451 5.058 6.558 8.486 2.034 0.934 7.286 8.015 6.968 7.802 5.036 8.401 2.893 0.889 0.982 1.081 1.703 1.383 5.103 1050 chr15 7163982 7167566 + 0 NA intron (NM_001113386, intron 6 of 16) intron (NM_001113386, intron 6 of 16) 25232 NM_013584 16880 Mm.149720 NM_013584 ENSMUSG00000054263 Lifr A230075M04Rik|AW061234|LIF leukemia inhibitory factor receptor protein-coding 5.985 1.333 0.816 3.372 2.492 1.275 6.716 6.941 4.524 5.210 1.892 0.894 6.085 5.656 4.400 5.922 5.392 5.758 0.866 0.877 0.602 0.841 0.710 0.731 6.829 1488 chr17 34045730 34047680 + 0 NA intron (NM_009926, intron 6 of 63) intron (NM_009926, intron 6 of 63) 7567 NM_001317722 12815 Mm.20230 NM_009926 ENSMUSG00000024330 Col11a2 - collagen, type XI, alpha 2 protein-coding 13.817 15.282 6.132 10.492 10.086 5.698 14.090 10.567 4.794 10.051 8.646 4.493 7.793 14.558 9.314 14.212 10.791 9.541 5.790 4.706 5.658 5.512 6.158 4.234 18.217 560 chr11 95702139 95706720 + 0 NA intron (NR_045780, intron 1 of 1) MLT1D|LTR|ERVL-MaLR 8325 NR_045780 432396 Mm.426849 NR_045780 ENSMUSG00000086191 Zfp652os 1110035M17Rik zinc finger protein 652, opposite strand ncRNA 7.061 7.730 2.701 6.217 3.957 1.863 2.170 2.377 3.314 4.018 2.806 1.125 1.779 4.330 2.689 4.017 nan 4.551 0.778 nan 1.265 0.885 nan nan 5.538 2830 chr6 15697269 15698680 + 0 NA Intergenic Intergenic -22687 NM_175088 16543 Mm.1314 NM_175088 ENSMUSG00000041390 Mdfic Kdt1|Mdfid MyoD family inhibitor domain containing protein-coding 2.002 10.507 7.108 1.464 1.829 0.883 1.253 0.788 1.458 1.550 0.657 0.704 1.082 1.392 1.548 nan 2.109 2.194 0.707 1.740 0.597 0.660 0.741 0.166 1.281 798 chr12 81129023 81130184 + 0 NA intron (NM_022316, intron 3 of 12) Lx|LINE|L1 -36548 NR_037227 100526532 NR_037227 ENSMUSG00000092673 Mir3067 mir-3067|mmu-mir-3067 microRNA 3067 ncRNA 2.540 1.223 0.413 2.209 2.138 0.796 1.681 0.580 2.105 2.616 1.038 1.235 2.402 3.488 1.469 2.030 1.732 2.510 1.458 1.712 0.519 1.508 0.840 1.083 2.434 898 chr13 45788072 45791121 + 0 NA intron (NM_001199304, intron 4 of 6) B4A|SINE|B4 175395 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 4.806 1.985 0.524 nan 3.835 2.032 3.816 4.778 4.195 4.347 2.031 1.293 3.969 7.323 6.894 7.554 3.078 6.112 2.014 nan 0.350 0.830 0.827 0.591 9.063 2725 chr5 114819150 114834416 + 0 NA Intergenic B1_Mus1|SINE|Alu -3315 NM_181075 330173 Mm.482205 NM_181075 ENSMUSG00000092486 2610524H06Rik - RIKEN cDNA 2610524H06 gene protein-coding 6.908 3.707 1.414 9.876 5.928 3.410 6.653 5.849 7.222 9.284 3.671 3.097 6.160 10.234 6.989 7.572 4.692 8.225 nan nan 1.586 1.922 nan 1.656 8.368 1031 chr14 79508978 79510802 + 0 NA intron (NM_007920, intron 1 of 8) B3|SINE|B2 -5784 NM_001286412 13709 Mm.20938 NM_007920 ENSMUSG00000036461 Elf1 Elf-1|Sts1|mElf-1|p70 E74-like factor 1 protein-coding 6.098 0.672 0.708 3.632 9.195 5.080 8.408 9.300 5.307 7.071 2.727 3.268 6.156 10.386 6.028 5.742 3.153 5.411 2.014 1.536 1.179 1.640 2.617 2.482 4.362 1273 chr16 11156034 11158046 + 0 NA intron (NM_145931, intron 7 of 22) intron (NM_145931, intron 7 of 22) 19353 NR_027502 106205 Mm.226860 NM_145931 ENSMUSG00000037965 Zc3h7a A430104C18Rik|AI447294|AW556219|HSPC055|Zc3h7|Zc3hdc7 zinc finger CCCH type containing 7 A protein-coding 4.638 1.833 1.353 1.925 4.758 3.662 5.524 4.196 1.382 2.473 1.532 1.732 2.979 4.818 2.882 2.226 3.562 3.523 0.889 1.132 1.025 0.725 1.161 0.955 2.946 2942 chr6 97172259 97173832 + 0 NA intron (NM_001081111, intron 3 of 16) intron (NM_001081111, intron 3 of 16) 6079 NM_001081111 232286 Mm.30893 NM_001081111 ENSMUSG00000030059 Tmf1 7030402D04Rik|Gm153|Tmf1` TATA element modulatory factor 1 protein-coding 4.045 4.188 2.466 2.035 4.214 1.876 2.605 1.396 2.225 2.191 1.473 1.360 4.042 4.021 1.799 2.111 1.739 2.015 nan nan 1.512 0.913 1.392 1.193 1.882 3401 chr8 124966447 124970000 + 0 NA Intergenic B1_Mus1|SINE|Alu -18969 NM_053207 112405 Mm.140619 NM_053207 ENSMUSG00000031987 Egln1 AI503754|C1orf12|HIF-PH2|HPH-2|Hif-p4h-2|ORF13|Phd2|SM-20 egl-9 family hypoxia-inducible factor 1 protein-coding 8.787 5.534 1.910 nan 3.297 2.006 5.589 nan 5.136 6.248 4.751 3.248 7.545 8.496 7.012 9.347 8.197 6.094 nan 4.513 4.131 6.780 4.065 nan 10.624 2516 chr4 134305703 134310886 + 0 NA Intergenic Intergenic -6826 NM_001039048 433766 Mm.331961 NM_001039048 ENSMUSG00000028834 Trim63 MuRF1|RF1|Rnf28 tripartite motif-containing 63 protein-coding 2.928 4.828 0.856 2.521 0.784 0.281 2.956 3.863 nan 2.032 3.751 3.411 2.234 2.340 3.004 2.507 0.877 nan 5.960 1.496 1.213 4.708 nan 2.239 2.985 451 chr11 69392276 69395550 + 0 NA intron (NM_001045525, intron 3 of 3) intron (NM_001045525, intron 3 of 3) 1433 NM_001045525 327951 Mm.415669 NM_001045525 ENSMUSG00000044795 Cyb5d1 Gm740 cytochrome b5 domain containing 1 protein-coding 10.258 12.701 5.588 9.919 4.756 2.287 6.863 8.616 6.665 7.703 7.992 4.474 8.293 10.844 10.701 11.660 7.864 8.654 6.323 4.763 2.637 7.987 nan 3.414 10.916 3362 chr8 119636666 119640638 + 0 NA Intergenic T-rich|Low_complexity|Low_complexity -2972 NM_025734 66733 Mm.358699 NM_025734 ENSMUSG00000045246 Kcng4 4921535I01Rik|AW049024|KV6.3|KV6.4 potassium voltage-gated channel, subfamily G, member 4 protein-coding 4.729 0.771 0.699 4.431 4.819 2.953 5.932 9.596 3.758 3.836 3.041 2.955 6.579 6.554 8.049 6.842 3.990 5.823 3.230 2.617 2.508 5.948 3.801 3.506 5.964 3139 chr7 90014101 90017139 + 0 NA Intergenic Intergenic -13539 NR_110365 319711 Mm.31753 NR_015614 ENSMUSG00000097585 E230029C05Rik AI452102|B230337J15 RIKEN cDNA E230029C05 gene ncRNA 3.784 10.840 2.447 6.259 0.926 0.824 3.821 4.781 nan 6.475 3.829 1.909 4.450 4.401 6.028 7.066 nan 6.602 6.398 2.036 4.336 7.431 3.329 5.736 13.333 2616 chr4 155242392 155244708 + 0 NA Intergenic RMER19B|LTR|ERVK -6416 NM_001190445 67513 Mm.10374 NM_001190445 ENSMUSG00000073684 Faap20 2610002J02Rik Fanconi anemia core complex associated protein 20 protein-coding 4.936 6.286 2.516 4.298 3.022 2.418 4.413 5.261 2.903 4.371 3.724 1.958 3.815 6.577 5.154 6.184 3.014 4.836 3.472 1.536 1.560 3.943 2.993 2.386 8.637 454 chr11 69570931 69573685 + 0 NA intron (NM_144824, intron 3 of 9) B3|SINE|B2 7016 NM_144824 216853 Mm.31586 NM_144824 ENSMUSG00000041346 Wrap53 BC021790|Wdr79 WD repeat containing, antisense to Trp53 protein-coding 10.348 12.197 4.734 7.410 6.730 3.394 7.580 9.144 5.550 7.740 5.982 3.161 7.063 11.370 8.849 10.232 7.807 7.619 6.886 6.732 3.067 6.666 nan 3.611 8.987 2538 chr4 140702483 140705299 + 0 NA intron (NM_173867, intron 2 of 12) RMER10A|LTR|ERVL 2418 NM_173867 108911 Mm.253 NM_173867 ENSMUSG00000040945 Rcc2 2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470 regulator of chromosome condensation 2 protein-coding 6.203 8.387 2.070 8.502 4.281 2.871 5.966 6.163 5.520 8.098 4.020 3.116 5.670 8.145 8.366 8.808 4.463 8.374 5.917 2.193 2.227 7.363 nan 3.253 11.062 1364 chr16 87724448 87727403 + 0 NA intron (NM_007520, intron 4 of 4) intron (NM_007520, intron 4 of 4) 26971 NM_007520 12013 Mm.26147 NM_007520 ENSMUSG00000025612 Bach1 6230421P05Rik|AI323795 BTB and CNC homology 1, basic leucine zipper transcription factor 1 protein-coding 5.434 nan 0.550 4.933 2.464 1.459 3.593 8.100 5.206 7.178 0.998 2.055 6.591 7.107 5.405 7.277 5.903 8.830 0.891 0.823 0.639 nan 0.651 0.439 6.457 1408 chr17 12982713 12989221 + 0 NA intron (NM_175394, intron 1 of 5) intron (NM_175394, intron 1 of 5) 6292 NM_001113533 60532 Mm.275521 NM_175394 ENSMUSG00000060475 Wtap 2810408K05Rik|9430038B09Rik Wilms tumour 1-associating protein protein-coding 6.061 2.187 0.762 4.441 3.442 2.273 4.907 5.104 4.330 4.329 6.225 3.307 3.813 5.489 4.652 6.335 4.375 6.337 nan 2.488 1.918 4.421 3.081 2.378 6.860 2448 chr4 119949629 119951165 + 0 NA intron (NM_010657, intron 1 of 8) intron (NM_010657, intron 1 of 8) 135719 NM_010657 16656 Mm.302758 NM_010657 ENSMUSG00000028634 Hivep3 2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3 human immunodeficiency virus type I enhancer binding protein 3 protein-coding 1.004 1.594 0.332 1.744 0.539 0.321 0.691 1.046 0.875 1.358 0.244 0.259 0.968 1.231 0.951 nan 1.398 1.336 7.207 5.063 3.296 8.994 5.205 4.849 3.116 2969 chr6 108607000 108622163 + 0 NA intron (NR_104577, intron 1 of 6) intron (NR_104577, intron 1 of 6) 8586 NR_040757 75394 Mm.395061 NR_040757 ENSMUSG00000087341 0610040F04Rik - RIKEN cDNA 0610040F04 gene ncRNA 9.268 4.762 1.817 6.485 7.002 3.902 12.113 10.388 6.332 10.377 5.890 4.992 10.719 11.700 8.902 11.230 8.626 7.931 6.239 2.939 2.571 5.184 4.195 2.989 nan 634 chr11 102484355 102486529 + 0 NA intron (NM_001159492, intron 7 of 7) B2_Mm1a|SINE|B2 -15559 NM_010575 16399 Mm.26646 NM_010575 ENSMUSG00000034664 Itga2b AI172977|CD41|CD41B|GpIIb|alphaIIb integrin alpha 2b protein-coding 4.628 nan 0.303 1.300 2.237 0.888 6.181 1.830 1.888 3.220 1.548 0.606 2.953 4.705 4.685 5.735 4.093 3.614 1.764 nan 1.283 2.582 nan nan 8.235 2721 chr5 110771653 110775291 + 0 NA TTS (NM_019700) TTS (NM_019700) -2755 NM_173066 75560 Mm.270487 NM_029337 ENSMUSG00000029505 Ep400 1700020J09Rik|AU023439|mDomino|mKIAA1498|p400 E1A binding protein p400 protein-coding 7.464 0.657 0.228 1.686 1.283 0.652 5.949 3.118 1.399 2.336 0.669 0.249 9.095 10.161 6.451 5.822 8.054 4.814 nan 0.673 0.492 1.109 0.697 0.414 6.351 3595 chrX 137099458 137100352 + 0 NA Intergenic Intergenic 20421 NM_007957 13984 Mm.8017 NM_007957 ENSMUSG00000023443 Esx1 Spx1 extraembryonic, spermatogenesis, homeobox 1 protein-coding 3.722 0.760 0.173 5.109 1.787 0.760 2.161 2.301 3.015 2.742 2.002 0.769 3.892 3.245 3.673 5.742 1.839 5.201 0.641 0.644 0.166 2.267 0.682 0.154 5.973 578 chr11 97659998 97684934 + 0 NA exon (NM_139311, exon 9 of 20) exon (NM_139311, exon 9 of 20) -4594 NR_105892 102465559 NR_105892 ENSMUSG00000098881 Mir6927 Gm27662|mmu-mir-6927 microRNA 6927 ncRNA 6.402 nan 1.375 6.763 5.368 3.293 7.282 7.536 4.486 5.615 4.975 3.527 5.754 8.304 6.740 7.048 nan 6.835 4.973 nan 3.050 5.378 nan nan 7.236 2551 chr4 141779668 141781739 + 0 NA intron (NM_172338, intron 4 of 14) RLTR20C1_MM|LTR|ERVK 9941 NM_172338 214063 Mm.39102 NM_172338 ENSMUSG00000040697 Dnajc16 2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962 DnaJ heat shock protein family (Hsp40) member C16 protein-coding 2.287 1.173 0.424 2.963 1.152 0.620 2.182 2.722 1.560 1.995 2.110 0.808 2.011 1.898 2.690 2.725 1.816 3.463 0.883 0.494 0.508 1.000 nan 0.230 3.924 695 chr11 119835402 119840932 + 0 NA intron (NM_028898, intron 13 of 33) intron (NM_028898, intron 13 of 33) -3802 NR_045312 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 4.814 nan 0.494 4.135 4.622 3.618 6.504 7.579 4.972 5.790 4.532 3.415 6.623 8.433 7.253 7.695 5.279 5.751 2.095 nan 1.201 1.952 1.297 1.185 5.900 978 chr14 21363179 21365804 + 0 NA intron (NM_001243041, intron 7 of 10) IAPEz-int|LTR|ERVK -135279 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 5.483 10.458 4.171 6.067 4.239 4.048 4.006 5.467 nan 8.829 4.519 2.475 4.371 5.514 4.674 6.058 3.519 5.201 4.437 2.037 3.721 3.832 3.020 4.296 8.977 3324 chr8 90181085 90189671 + 0 NA Intergenic Intergenic 162874 NM_172913 244579 Mm.302755 NM_172913 ENSMUSG00000043668 Tox3 500-9|BC052044|C230068E13|CAGF9|Tnrc9 TOX high mobility group box family member 3 protein-coding 0.352 11.950 4.325 0.533 0.233 0.087 0.303 0.278 nan 0.297 0.204 0.153 0.110 0.204 0.331 0.559 0.279 0.369 nan 0.599 0.438 1.867 0.264 0.245 0.631 2144 chr3 9515126 9516924 + 0 NA intron (NM_133218, intron 2 of 8) B4A|SINE|B4 94060 NM_133218 170753 Mm.212908 NM_133218 ENSMUSG00000040209 Zfp704 C030026M03|C030034L19Rik|Gig1|Znf704 zinc finger protein 704 protein-coding 4.215 1.226 0.530 1.633 1.201 0.711 3.395 4.196 1.698 1.372 0.600 0.769 2.718 3.869 3.861 3.968 2.583 3.413 2.060 0.625 0.750 0.929 0.940 0.339 4.645 325 chr10 87851528 87854773 + 0 NA Intergenic Intergenic -5115 NM_001314010 16000 Mm.268521 NM_010512 ENSMUSG00000020053 Igf1 C730016P09Rik|Igf-1|Igf-I insulin-like growth factor 1 protein-coding 5.818 15.091 8.112 4.073 6.227 4.305 2.867 3.876 3.290 3.871 1.711 1.025 2.449 4.717 3.685 4.487 3.235 nan 0.680 1.088 0.910 nan nan 0.659 5.692 378 chr11 3304343 3309207 + 0 NA intron (NR_045108, intron 5 of 5) intron (NR_045108, intron 5 of 5) -2225 NR_045708 100302648 Mm.458664 NR_045708 ENSMUSG00000084941 Gm11944 OTTMUSG00000005017 predicted gene 11944 ncRNA 7.925 3.786 1.524 4.618 2.178 1.894 5.458 6.053 3.357 3.074 4.831 4.182 5.088 5.054 5.121 5.557 4.704 4.657 6.414 nan 2.117 3.762 5.136 4.741 7.034 3331 chr8 90951500 90954498 + 0 NA intron (NM_001310530, intron 1 of 37) intron (NM_001310530, intron 1 of 37) 20750 NM_001310530 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 2.529 0.399 0.374 2.054 6.242 4.402 1.064 1.234 nan 2.229 0.335 0.351 3.067 4.446 1.471 1.725 1.331 1.370 nan 0.868 1.114 0.881 0.578 0.715 1.281 889 chr13 44768433 44770112 + 0 NA intron (NM_001205044, intron 2 of 18) intron (NM_001205044, intron 2 of 18) 38001 NM_001205043 16468 Mm.25059 NM_021878 ENSMUSG00000038518 Jarid2 Jmj|jumonji jumonji, AT rich interactive domain 2 protein-coding 3.064 2.162 1.272 1.712 4.929 2.816 5.324 3.580 2.735 3.265 2.834 2.022 2.676 5.755 5.452 4.122 1.990 3.418 3.352 nan 1.327 2.531 2.266 2.309 2.783 1233 chr15 101254390 101260051 + 0 NA Intergenic Intergenic -9626 NM_010444 15370 Mm.119 NM_010444 ENSMUSG00000023034 Nr4a1 GFRP1|Gfrp|Hbr-1|Hbr1|Hmr|N10|NGFI-B|NGFIB|NP10|TIS1|TR3|nur77 nuclear receptor subfamily 4, group A, member 1 protein-coding 3.874 0.624 0.367 1.525 2.644 1.246 3.235 10.705 2.702 4.226 3.350 1.765 3.935 4.352 3.220 nan 2.770 3.186 5.277 3.272 1.424 4.652 7.145 3.548 3.183 3390 chr8 123007128 123033868 + 0 NA intron (NM_001081379, intron 1 of 12) intron (NM_001081379, intron 1 of 12) 21786 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 5.400 nan 1.631 nan 3.245 2.046 nan 8.274 3.247 5.099 1.788 2.270 5.681 6.421 nan 7.039 4.742 nan nan 3.909 4.107 9.926 3.940 3.993 nan 540 chr11 94263472 94266587 + 0 NA Intergenic RMER1A|Other|Other -22450 NM_181819 278507 Mm.342216 NM_181819 ENSMUSG00000044177 Wfikkn2 2610304F08Rik|AY100450|Gasp1|WFIKKNRP WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2 protein-coding 2.467 nan 0.293 3.155 2.588 1.288 4.369 6.196 3.656 3.083 1.186 1.425 4.501 6.995 5.566 6.270 nan 5.166 0.884 nan 0.433 0.967 nan nan 2.843 1162 chr15 76866839 76868417 + 0 NA intron (NM_001007568, intron 3 of 3) ORR1E|LTR|ERVL-MaLR 3807 NM_001007568 71591 Mm.38195 NM_001007568 ENSMUSG00000022526 Zfp251 9130001M19Rik|AV339307 zinc finger protein 251 protein-coding 5.376 1.525 0.811 4.265 5.197 1.172 9.660 7.173 1.612 2.360 5.259 1.239 3.667 5.588 5.847 3.701 2.530 3.377 1.612 2.017 2.048 nan 1.486 1.581 7.005 1615 chr18 36717156 36721523 + 0 NA Intergenic L1M4|LINE|L1 7476 NM_009841 12475 Mm.3460 NM_009841 ENSMUSG00000051439 Cd14 - CD14 antigen protein-coding 6.372 10.733 3.571 7.238 3.484 2.735 5.047 7.760 4.285 7.306 5.113 3.116 6.899 6.492 6.180 7.405 4.579 6.791 4.648 2.085 2.850 5.090 3.490 4.565 11.168 3137 chr7 80889736 80900387 + 0 NA intron (NR_027976, intron 4 of 6) intron (NR_027976, intron 4 of 6) 6208 NM_028026 71968 Mm.274226 NM_028026 ENSMUSG00000025722 Wdr73 1200011I23Rik|2410008B13Rik|AI848574|C85352 WD repeat domain 73 protein-coding 5.513 0.728 0.419 nan 3.147 1.250 5.057 8.903 5.368 8.205 0.659 1.760 6.784 7.652 5.623 nan 3.819 7.993 2.955 1.559 0.742 2.864 3.446 1.796 6.330 2831 chr6 15737709 15744841 + 0 NA intron (NM_175088, intron 3 of 4) intron (NM_175088, intron 3 of 4) 20614 NM_175088 16543 Mm.1314 NM_175088 ENSMUSG00000041390 Mdfic Kdt1|Mdfid MyoD family inhibitor domain containing protein-coding 4.001 nan 5.706 3.353 2.134 1.176 1.839 2.045 nan 2.777 1.205 0.993 2.251 2.505 2.810 nan 2.701 3.121 1.277 1.341 1.100 2.163 0.980 0.991 2.442 211 chr1 191134248 191137349 + 0 NA Intergenic Lx8|LINE|L1 29019 NM_001109759 619288 Mm.61148 NM_001109759 ENSMUSG00000091017 Fam71a 4933417M04Rik|GARI-L4 family with sequence similarity 71, member A protein-coding 2.405 0.443 0.687 1.313 3.670 4.420 3.010 2.355 1.306 1.144 0.812 0.797 2.252 2.833 1.697 nan 4.273 1.885 1.217 0.980 1.390 0.478 1.537 1.819 1.234 684 chr11 119576437 119580287 + 0 NA Intergenic RMER19B|LTR|ERVK -24543 NM_001306081 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 5.223 nan 0.372 4.437 6.475 3.653 5.833 4.878 5.662 6.624 2.596 2.804 6.488 8.877 6.867 5.958 4.656 6.819 0.741 nan 0.515 0.752 0.832 0.520 4.761 3065 chr7 19575913 19581549 + 0 NA intron (NM_022409, intron 2 of 2) intron (NM_022409, intron 2 of 2) 1444 NM_022409 63872 Mm.23310 NM_022409 ENSMUSG00000011267 Zfp296 2210018A16Rik|Znf296 zinc finger protein 296 protein-coding 3.559 2.897 1.121 2.401 1.262 0.699 4.209 4.274 1.639 2.921 0.722 0.880 1.210 1.815 4.547 5.395 5.261 3.648 2.690 1.936 1.118 2.448 2.570 1.924 5.528 2073 chr2 164735388 164739508 + 0 NA intron (NM_027961, intron 1 of 3) intron (NM_027961, intron 1 of 3) 5819 NM_027961 71856 Mm.330770 NM_027961 ENSMUSG00000076434 Wfdc3 1700015L13Rik|1700127F16Rik WAP four-disulfide core domain 3 protein-coding 10.548 14.607 4.049 11.836 6.261 3.843 7.823 10.049 5.713 11.475 6.998 5.148 8.824 9.225 10.350 12.364 8.105 nan 6.427 3.938 5.125 7.865 4.111 4.659 17.523 1732 chr19 6943380 6946156 + 0 NA intron (NM_001285453, intron 2 of 3) B1_Mus1|SINE|Alu 2206 NM_001285453 12015 Mm.4387 NM_007522 ENSMUSG00000024959 Bad AI325008|Bbc2 BCL2-associated agonist of cell death protein-coding 6.652 6.721 4.893 3.760 9.674 7.764 7.109 7.451 4.673 4.349 5.175 3.783 3.982 5.893 3.620 nan 7.522 5.036 2.283 3.150 3.757 2.109 5.975 4.714 5.482 861 chr13 24712557 24713855 + 0 NA intron (NM_001286100, intron 16 of 22) intron (NM_001286100, intron 16 of 22) 48731 NM_020567 57441 Mm.12239 NM_020567 ENSMUSG00000006715 Gmnn AW546347|Gem geminin protein-coding 4.693 2.944 1.992 2.556 2.550 1.090 2.124 1.574 2.178 2.698 1.237 1.446 1.982 2.963 2.131 1.193 2.000 2.748 0.927 1.830 1.741 0.759 1.697 2.022 1.841 337 chr10 116810274 116814672 + 0 NA intron (NM_001033333, intron 13 of 24) intron (NM_001033333, intron 13 of 24) 83220 NR_131036 75878 Mm.370607 NR_131036 4930579P08Rik - RIKEN cDNA 4930579P08 gene ncRNA 6.758 9.126 3.356 7.182 4.357 3.858 4.252 4.445 4.598 7.748 3.460 3.268 5.029 5.891 6.576 6.597 5.652 nan 5.243 2.976 3.291 4.272 3.783 4.698 8.975 3315 chr8 89281088 89284064 + 0 NA Intergenic MTD|LTR|ERVL-MaLR -238414 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 3.280 3.014 1.170 4.124 3.180 2.398 2.126 4.365 nan 3.246 0.864 0.667 4.126 4.449 5.591 5.893 5.176 4.811 2.422 1.931 2.378 3.418 2.419 2.438 4.044 2406 chr4 97437742 97448690 + 0 NA Intergenic Lx3C|LINE|L1 -138727 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 8.423 nan 1.829 7.362 4.743 2.561 7.151 6.168 nan 11.528 5.551 3.585 7.439 8.746 nan 8.407 6.270 8.667 2.227 2.048 1.750 nan 1.214 1.070 9.869 3172 chr7 118163494 118164557 + 0 NA intron (NM_001031814, intron 38 of 62) L1MB4|LINE|L1 -34400 NM_019419 54208 Mm.29924 NM_019419 ENSMUSG00000030654 Arl6ip1 AIP-6|AL022945|ARMER|AU042858|Aip-1|Arl6ip|C85138|mKIAA0069 ADP-ribosylation factor-like 6 interacting protein 1 protein-coding 1.456 0.933 0.960 1.768 1.921 1.664 2.448 2.396 1.886 1.318 0.803 1.249 1.344 3.235 1.517 1.125 1.909 1.804 0.684 0.378 1.225 1.108 0.954 0.623 1.206 76 chr1 74443706 74445248 + 0 NA exon (NM_001310662, exon 21 of 24) exon (NM_001310662, exon 21 of 24) 35093 NM_009509 22349 Mm.471601 NM_009509 ENSMUSG00000026175 Vil1 Vil villin 1 protein-coding 10.212 8.918 4.850 7.068 5.681 4.741 8.192 6.604 5.606 7.272 6.042 3.067 8.103 9.787 7.476 10.730 9.040 5.826 4.229 nan 3.753 4.333 nan 5.919 nan 1924 chr2 93027820 93034101 + 0 NA intron (NR_110333, intron 4 of 5) intron (NR_110333, intron 4 of 5) 1612 NR_110333 433456 Mm.235231 NM_001002794 ENSMUSG00000075027 4631405J19Rik - RIKEN cDNA 4631405J19 gene ncRNA nan 16.553 5.325 3.979 0.950 0.392 0.833 1.450 2.283 3.108 1.358 2.067 0.746 1.135 1.684 2.301 1.273 3.183 6.164 2.532 2.210 2.808 3.962 3.923 4.333 2718 chr5 108471907 108476103 + 0 NA intron (NM_172716, intron 4 of 10) intron (NM_172716, intron 4 of 10) 12673 NM_172716 69587 Mm.261218 NM_172716 ENSMUSG00000033623 Pcgf3 2310035N15Rik|AI662857|D630042K08Rik|DONG1|E430039C14|RNF3A|Rnf3 polycomb group ring finger 3 protein-coding 0.523 6.501 5.715 0.360 0.319 0.116 nan 0.404 0.321 0.426 0.258 0.266 0.250 0.405 0.465 0.448 0.609 0.437 nan 0.642 0.496 0.413 0.718 0.550 0.458 3042 chr6 143989918 143994651 + 0 NA intron (NM_001113559, intron 6 of 13) intron (NM_001113559, intron 6 of 13) -45178 NM_001347506 20678 Mm.1752 NM_011444 ENSMUSG00000041540 Sox5 A730017D01Rik|AI528773 SRY (sex determining region Y)-box 5 protein-coding nan 0.593 0.413 nan 0.706 0.389 1.849 2.155 1.747 nan 2.729 2.450 nan 1.555 1.699 nan 0.969 1.936 3.028 nan 0.829 4.028 1.606 1.220 nan 982 chr14 21458762 21460896 + 0 NA Intergenic Intergenic -39941 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 10.634 11.900 5.922 8.680 5.558 3.938 9.529 8.732 4.978 7.705 6.695 3.773 6.138 10.632 8.414 8.775 7.006 7.614 6.790 6.816 4.920 6.333 8.788 7.634 12.164 571 chr11 96825934 96842341 + 0 NA Intergenic Intergenic -4169 NM_008686 18023 Mm.6743 NM_008686 ENSMUSG00000038615 Nfe2l1 AA408798|AW212678|LCR-F1|Lcrf1|NRF1|TCF-11|TCF11 nuclear factor, erythroid derived 2,-like 1 protein-coding 8.625 nan 2.170 8.329 6.061 4.339 6.292 6.561 6.493 8.053 6.870 3.387 6.284 10.593 7.732 8.606 nan 7.853 2.060 nan 2.239 2.278 nan nan 8.452 1214 chr15 100249544 100255952 + 0 NA intron (NM_007497, intron 4 of 6) tRNA-Ala-GCY_|tRNA|tRNA 24889 NM_007497 11908 Mm.676 NM_007497 ENSMUSG00000023027 Atf1 - activating transcription factor 1 protein-coding 4.037 4.177 1.419 4.304 2.730 1.873 6.565 8.074 2.856 4.281 1.725 1.829 6.475 6.936 6.046 nan 6.452 4.071 2.689 2.428 1.943 4.221 2.012 1.520 5.940 1190 chr15 84681241 84687715 + 0 NA intron (NM_001346662, intron 2 of 8) intron (NM_001346662, intron 2 of 8) 3480 NM_146061 109270 Mm.291372 NM_146061 ENSMUSG00000036106 Prr5 AU043908|Arhgap8|C030017C09Rik|C78947|Protor-1|Protor1 proline rich 5 (renal) protein-coding nan 3.337 1.216 nan 0.638 0.427 nan nan nan 2.682 0.902 0.995 1.040 1.136 nan nan nan nan nan 1.581 1.419 6.295 2.602 2.904 nan 2592 chr4 151565270 151567918 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 295174 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 3.908 nan 1.808 3.249 5.324 3.237 2.218 4.203 3.210 3.265 2.351 2.867 2.271 2.546 1.633 2.262 2.603 2.652 6.086 7.015 5.197 8.646 6.241 4.859 1.796 389 chr11 6594564 6598866 + 0 NA TTS (NM_001190344) TTS (NM_001190344) 9339 NM_001081652 192950 Mm.337771 NM_001081652 ENSMUSG00000041073 Nacad D230024G13Rik|mKIAA0363 NAC alpha domain containing protein-coding nan 2.072 1.292 1.313 1.510 1.146 0.630 0.798 1.509 1.873 7.496 5.239 0.639 1.164 0.774 1.327 1.043 1.108 0.707 nan 0.596 0.713 0.531 0.542 0.963 1660 chr18 61437263 61440585 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR -38493 NM_133249 170826 Mm.415302 NM_133249 ENSMUSG00000033871 Ppargc1b 4631412G21Rik|Perc peroxisome proliferative activated receptor, gamma, coactivator 1 beta protein-coding 5.681 nan 0.206 nan 3.612 2.354 6.174 7.137 4.242 4.572 3.829 2.848 6.116 6.622 4.303 4.873 3.126 5.905 nan 0.339 0.443 nan 0.600 0.382 4.061 3525 chr9 78023489 78027287 + 0 NA Intergenic (TTTG)n|Simple_repeat|Simple_repeat -26570 NM_008103 14531 Mm.1400 NM_008103 ENSMUSG00000023333 Gcm1 GCMa|Gcm-rs2|Gcm1-rs1|glide glial cells missing homolog 1 (Drosophila) protein-coding 5.736 6.959 2.727 5.794 2.542 1.040 4.918 6.807 4.759 5.950 9.866 5.380 6.148 7.111 5.309 6.038 4.168 5.334 3.572 nan 1.323 4.070 1.920 1.689 nan 3207 chr7 139613717 139615017 + 0 NA intron (NM_001302546, intron 48 of 58) intron (NM_001302546, intron 48 of 58) -31570 NR_027857 14912 Mm.28308 NM_183248 ENSMUSG00000041309 Nkx6-2 Gtx|Nkx6.2 NK6 homeobox 2 protein-coding 2.701 nan 0.760 1.587 2.331 1.763 1.733 0.765 nan 2.636 0.809 0.634 1.825 3.368 1.495 1.068 1.154 2.215 0.380 0.536 0.462 0.411 0.480 0.419 1.732 1171 chr15 79198276 79201651 + 0 NA intron (NR_029470, intron 2 of 4) intron (NR_029470, intron 2 of 4) -29210 NM_008837 18693 Mm.259464 NM_008837 ENSMUSG00000068206 Pick1 Prkcabp protein interacting with C kinase 1 protein-coding 8.840 nan 0.459 12.812 5.129 2.551 8.010 14.320 7.874 8.958 nan 4.138 9.706 10.068 11.130 10.465 nan 12.806 6.198 2.743 2.273 nan 3.848 3.165 14.557 1345 chr16 43494369 43513362 + 0 NA intron (NM_181058, intron 3 of 6) intron (NM_181058, intron 3 of 6) -83669 NR_046026 626693 Mm.447083 NR_046026 ENSMUSG00000085499 Gm15713 OTTMUSG00000025617 predicted gene 15713 ncRNA 2.977 10.060 6.117 2.598 2.493 1.188 1.481 nan 1.694 1.686 1.067 0.901 1.336 2.002 1.660 2.038 2.066 2.662 3.447 2.963 1.685 1.706 2.278 1.615 2.066 2290 chr3 108456065 108457667 + 0 NA 3' UTR (NM_001346518, exon 22 of 22) 3' UTR (NM_001346518, exon 22 of 22) -11607 NM_001204979 20226 Mm.28688 NM_011319 ENSMUSG00000068739 Sars Sars1|Strs|serRS seryl-aminoacyl-tRNA synthetase protein-coding 6.042 6.001 3.675 6.669 8.092 5.913 7.110 6.054 5.556 7.072 4.455 5.365 5.948 6.850 5.230 5.355 5.774 5.809 4.586 4.747 4.807 3.826 5.467 6.334 6.126 966 chr13 114033535 114035184 + 0 NA intron (NM_172595, intron 4 of 4) intron (NM_172595, intron 4 of 4) 117233 NR_045836 319803 Mm.386896 NM_177004 A430090L17Rik - RIKEN cDNA A430090L17 gene ncRNA 1.018 4.450 5.206 0.683 0.958 0.987 0.881 0.145 0.172 0.107 0.104 0.041 0.310 0.613 0.450 0.008 0.141 0.513 0.096 0.138 0.074 0.034 0.104 0.208 nan 1123 chr15 68222701 68227456 + 0 NA intron (NM_001145888, intron 1 of 15) intron (NM_001145888, intron 1 of 15) 33778 NM_001145888 380993 Mm.309526 NM_198644 ENSMUSG00000022335 Zfat Gm922|Zfat1|Zfp406 zinc finger and AT hook domain containing protein-coding 4.830 0.615 0.247 1.876 1.121 0.311 4.436 3.195 2.535 2.384 0.420 0.230 5.112 2.804 4.214 4.511 5.012 5.528 0.515 0.541 0.232 0.793 0.476 0.149 3.488 2314 chr3 130966952 130975799 + 0 NA Intergenic Intergenic -138922 NM_010703 16842 Mm.255219 NM_010703 ENSMUSG00000027985 Lef1 3000002B05|AI451430|Lef-1 lymphoid enhancer binding factor 1 protein-coding 2.984 1.793 1.051 3.450 2.406 1.823 6.021 2.985 2.632 3.210 1.308 1.294 6.296 5.954 4.683 5.114 4.461 4.434 1.252 1.091 0.800 1.168 1.931 1.497 4.309 2216 chr3 88589055 88590379 + 0 NA Intergenic B2_Mm1t|SINE|B2 10046 NM_025448 66256 Mm.7091 NM_025448 ENSMUSG00000041355 Ssr2 1500032E05Rik|AI315033|AU020133|TLAP|TRAPB|TRAPbeta signal sequence receptor, beta protein-coding 7.157 1.260 0.822 1.942 7.790 6.157 4.411 5.005 3.090 3.586 1.050 2.085 3.727 5.337 2.108 2.724 4.268 3.181 nan 1.691 1.172 1.418 1.402 1.544 4.488 992 chr14 26672152 26679435 + 0 NA Intergenic MTC-int|LTR|ERVL-MaLR -5947 NM_178668 211948 Mm.290758 NM_178668 ENSMUSG00000043702 Pde12 2'-PDE|E430028B21Rik phosphodiesterase 12 protein-coding 3.763 3.651 1.809 4.521 5.769 2.783 3.853 8.420 4.338 4.543 3.426 3.383 3.635 6.255 4.876 5.653 nan 5.314 6.286 3.409 2.129 6.883 5.284 3.479 4.542 236 chr10 20308017 20316264 + 0 NA promoter-TSS (NM_001025393) promoter-TSS (NM_001025393) -329 NM_001025392 72567 Mm.294783 NM_153787 ENSMUSG00000037608 Bclaf1 2610102K23Rik|2700025J07Rik|2810454G14Rik|5730534O06Rik|AI450190|AW556225|Btf|mKIAA0164 BCL2-associated transcription factor 1 protein-coding 5.743 0.728 0.705 2.657 3.159 1.793 4.403 4.536 4.358 4.918 0.515 0.710 5.435 6.034 6.472 6.813 6.090 4.999 0.596 0.700 0.601 0.726 0.457 0.316 nan 758 chr12 57537268 57542615 + 0 NA TTS (NM_008259) TTS (NM_008259) 6180 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 5.582 nan 1.062 4.125 2.500 1.694 5.535 2.290 4.794 6.025 0.721 0.751 9.383 8.039 5.925 8.132 6.537 8.683 2.436 0.716 0.541 2.168 1.227 0.586 5.885 1954 chr2 119809988 119816526 + 0 NA exon (NM_019392, exon 18 of 19) exon (NM_019392, exon 18 of 19) 13743 NM_019392 22174 Mm.2901 NM_019392 ENSMUSG00000027298 Tyro3 AI323366|Brt|Dtk|Etk-2|Rse|Sky|TK19-2|Tif|etk2/tyro3|tk19-1 TYRO3 protein tyrosine kinase 3 protein-coding 6.564 0.658 0.536 3.053 3.766 2.428 3.999 6.121 4.574 6.100 0.592 0.875 nan 6.712 4.582 nan 6.927 7.530 0.531 0.651 0.869 0.465 0.472 0.780 nan 2843 chr6 29769901 29779822 + 0 NA intron (NM_001171000, intron 1 of 16) RSINE1|SINE|B4 6418 NM_001171000 74340 Mm.210899 NM_021414 ENSMUSG00000029772 Ahcyl2 4631427C17Rik|AI227036|Adohcyase3|mKIAA0828 S-adenosylhomocysteine hydrolase-like 2 protein-coding 3.858 1.897 1.390 2.089 2.512 1.681 3.127 7.247 2.829 2.544 1.920 1.209 4.821 4.519 4.297 7.063 6.377 3.587 nan 1.047 1.162 0.635 0.737 0.690 2.189 218 chr1 195124031 195131376 + 0 NA intron (NM_013499, intron 3 of 9) intron (NM_013499, intron 3 of 9) 3867 NM_013499 12946 Mm.301652 NM_013499 ENSMUSG00000016481 Cr1l Crry|Mcp|mCRY complement component (3b/4b) receptor 1-like protein-coding 4.097 1.038 0.379 1.830 2.303 0.952 5.143 4.709 3.089 3.469 3.712 2.125 5.008 6.357 4.992 9.211 5.237 4.158 0.873 0.611 0.332 1.200 nan 0.546 7.595 706 chr11 121515832 121517710 + 0 NA intron (NM_178763, intron 1 of 2) intron (NM_178763, intron 1 of 2) 2571 NM_178763 319530 Mm.11395 NM_178763 ENSMUSG00000039238 Zfp750 A030007D23Rik|Znf750 zinc finger protein 750 protein-coding 3.525 3.094 1.148 3.378 3.778 2.282 nan 2.727 2.793 2.621 3.267 2.500 1.978 3.662 2.742 3.646 1.629 3.580 1.194 nan 0.914 0.960 0.877 0.733 3.594 14 chr1 16093829 16097485 + 0 NA Intergenic Intergenic -2332 NM_001243238 75799 Mm.78557 NM_001243238 ENSMUSG00000067795 4930444P10Rik - RIKEN cDNA 4930444P10 gene protein-coding 9.687 10.436 2.726 11.722 4.119 2.825 6.610 6.786 7.102 12.723 8.507 5.876 10.409 8.566 9.640 15.055 7.710 10.274 4.936 1.490 2.429 6.076 2.577 3.992 15.700 2345 chr4 15971217 15973166 + 0 NA intron (NM_013752, intron 8 of 15) intron (NM_013752, intron 8 of 15) 14224 NM_013752 27354 Mm.20866 NM_013752 ENSMUSG00000028224 Nbn Nbs1 nibrin protein-coding 1.944 0.751 0.306 2.607 2.511 2.094 2.786 4.943 2.175 1.933 0.678 0.749 3.421 4.398 2.848 2.212 2.393 2.131 0.900 0.575 0.546 0.409 0.501 0.498 1.472 3124 chr7 71151113 71158150 + 0 NA Intergenic Intergenic -755064 NR_130995 78156 Mm.243818 NR_130995 ENSMUSG00000108669 4930441H08Rik - RIKEN cDNA 4930441H08 gene ncRNA 6.116 6.272 4.987 4.109 5.152 4.058 3.162 6.615 4.414 4.907 4.469 2.097 5.350 9.157 4.079 4.702 4.932 3.453 1.989 2.946 2.322 1.321 2.322 1.807 4.113 2587 chr4 151471605 151473101 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 382783 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 4.697 nan 0.594 3.456 2.464 1.057 5.412 4.780 3.593 3.134 1.020 1.212 3.050 4.744 4.841 7.073 3.689 4.324 4.026 0.721 1.124 5.153 1.016 1.277 8.059 1608 chr18 31793405 31795182 + 0 NA intron (NM_027101, intron 2 of 3) B3A|SINE|B2 5117 NM_027101 69241 Mm.279898 NM_027002 ENSMUSG00000024258 Polr2d 2310002G05Rik|2610028L19Rik|HSRBP4|RBP4 polymerase (RNA) II (DNA directed) polypeptide D protein-coding 7.819 9.657 2.975 6.610 3.807 2.427 4.994 6.655 3.124 5.871 4.983 2.356 5.262 7.865 6.330 8.226 5.824 8.883 nan 2.520 2.564 nan 2.690 2.549 11.559 3391 chr8 123034613 123039329 + 0 NA intron (NM_001081379, intron 1 of 12) B1_Mus1|SINE|Alu 5313 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 0.811 nan 0.388 nan 0.383 0.339 nan 1.521 0.669 0.868 0.555 0.173 0.697 0.786 nan 1.269 0.800 nan nan 1.136 1.481 4.214 0.880 0.738 nan 2973 chr6 108778136 108787629 + 0 NA promoter-TSS (NM_026011) promoter-TSS (NM_026011) -177 NM_026011 67166 Mm.271178 NM_026011 ENSMUSG00000030105 Arl8b 2610313E07Rik|3100002J04Rik|Arl10c|gie1 ADP-ribosylation factor-like 8B protein-coding 7.641 13.507 6.282 5.512 3.527 1.586 5.973 8.234 4.583 6.137 2.543 1.796 6.570 7.834 7.924 10.583 6.767 6.684 nan 1.905 1.498 1.862 1.673 1.382 8.718 2328 chr4 6855628 6865371 + 0 NA intron (NM_145711, intron 1 of 8) intron (NM_145711, intron 1 of 8) 130224 NM_145711 252838 Mm.435828 NM_145711 ENSMUSG00000041272 Tox 1700007F02Rik thymocyte selection-associated high mobility group box protein-coding 1.553 7.544 3.904 1.168 1.052 0.633 0.696 nan 1.696 1.134 0.411 0.918 1.242 0.925 1.189 1.265 1.235 2.233 1.863 nan 0.919 1.961 1.142 0.826 0.950 2999 chr6 124688120 124692474 + 0 NA intron (NM_145130, intron 1 of 12) RSINE1|SINE|B4 21881 NM_013536 14791 Mm.6390 NM_013536 ENSMUSG00000004268 Emg1 C2f|Grcc2f EMG1 N1-specific pseudouridine methyltransferase protein-coding 9.800 14.141 5.168 9.242 6.132 3.311 11.626 10.956 6.062 7.758 7.774 4.133 10.202 11.765 11.918 14.649 10.955 9.586 6.341 4.093 3.616 6.390 4.984 4.296 13.418 2567 chr4 148943278 148947897 + 0 NA TTS (NM_027195) TTS (NM_027195) 141195 NM_027195 69743 Mm.233879 NM_027195 ENSMUSG00000028977 Casz1 2410019P08Rik|AV096627|BC040081|Cst|D4Ertd432e castor zinc finger 1 protein-coding 6.584 nan 0.361 6.059 3.089 2.261 5.667 6.970 3.441 4.235 4.311 1.714 4.962 8.378 6.662 7.328 4.516 6.951 2.812 1.123 1.177 4.964 2.425 2.385 11.257 3232 chr8 23157466 23158651 + 0 NA 3' UTR (NM_029002, exon 3 of 3) 3' UTR (NM_029002, exon 3 of 3) 4787 NM_029002 74561 Mm.290028 NM_029002 ENSMUSG00000063672 Nkx6-3 9130417I07Rik|Nkx6.3 NK6 homeobox 3 protein-coding 1.830 nan 0.030 1.341 1.185 0.538 1.819 4.574 2.861 2.331 0.626 0.910 3.538 3.061 2.098 3.125 2.611 2.999 0.912 0.621 0.070 nan 1.081 0.525 1.787 2474 chr4 128529169 128533868 + 0 NA intron (NM_001281955, intron 55 of 70) intron (NM_001281955, intron 55 of 70) 78580 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 3.149 0.928 0.812 1.253 1.497 0.977 1.783 3.813 2.741 2.660 7.977 3.054 3.202 4.795 nan 3.783 2.363 2.732 1.039 0.863 0.728 1.324 0.686 0.638 2.131 2889 chr6 72300668 72306726 + 0 NA promoter-TSS (NM_001282071) promoter-TSS (NM_001282071) -913 NM_001282071 20388 Mm.46033 NM_147779 ENSMUSG00000056370 Sftpb AI562151|SF-B|SP-B|Sftp-3|Sftp3 surfactant associated protein B protein-coding 5.759 2.313 0.755 4.649 2.326 1.525 5.790 5.758 3.265 4.437 1.717 0.999 6.118 7.646 5.978 9.387 6.983 6.338 0.916 0.826 0.830 1.178 0.625 0.754 7.150 234 chr10 20263284 20273713 + 0 NA intron (NM_001198635, intron 10 of 17) intron (NM_001198635, intron 10 of 17) 29190 NR_105840 102466647 NR_105840 ENSMUSG00000098887 Mir6413 Gm27432|mmu-mir-6413 microRNA 6413 ncRNA 5.914 0.785 0.574 4.923 4.777 2.397 4.339 5.128 nan 7.844 0.916 0.859 5.668 7.846 8.034 8.812 6.820 7.180 0.971 0.858 0.705 1.461 0.659 0.522 nan 594 chr11 98820054 98827049 + 0 NA intron (NM_138660, intron 7 of 13) intron (NM_138660, intron 7 of 13) -13234 NM_001080925 268480 Mm.340766 NM_001080925 ENSMUSG00000038020 Rapgefl1 B230105J10 Rap guanine nucleotide exchange factor (GEF)-like 1 protein-coding 6.468 4.568 0.875 9.571 2.909 1.855 5.558 7.262 3.842 6.665 4.223 2.442 4.269 5.983 6.462 7.970 nan 6.701 1.960 nan 1.981 3.938 nan nan 9.536 2924 chr6 87491470 87493063 + 0 NA intron (NM_001286610, intron 1 of 9) intron (NM_001286610, intron 1 of 9) 4061 NR_104483 232201 Mm.119564 NM_175476 ENSMUSG00000030047 Arhgap25 A130039I20Rik Rho GTPase activating protein 25 protein-coding 4.838 8.223 3.374 2.869 1.996 0.840 3.394 4.187 2.396 3.598 1.673 0.752 3.042 4.814 4.477 4.939 3.273 3.926 nan 1.158 0.721 0.556 0.436 0.362 4.712 1438 chr17 26625484 26627451 + 0 NA intron (NM_026170, intron 4 of 9) intron (NM_026170, intron 4 of 9) -49929 NM_025272 11974 Mm.22602 NM_025272 ENSMUSG00000015575 Atp6v0e Atp6k|Atp6v0e1|M9.2 ATPase, H+ transporting, lysosomal V0 subunit E protein-coding 2.524 1.506 0.685 5.762 1.229 0.586 1.039 1.265 1.555 1.396 1.167 0.869 0.991 1.159 1.761 2.106 0.481 2.709 1.209 1.111 0.693 5.889 1.070 0.530 2.578 3289 chr8 77185164 77188384 + 0 NA intron (NM_001083906, intron 5 of 8) intron (NM_001083906, intron 5 of 8) 284266 NM_001083906 110784 Mm.324393 NM_001083906 ENSMUSG00000031618 Nr3c2 MR|Mlr nuclear receptor subfamily 3, group C, member 2 protein-coding 0.889 nan 0.442 0.321 0.382 0.459 nan nan nan 0.614 0.263 0.310 0.416 0.459 0.377 nan 0.962 0.976 1.980 4.422 4.750 nan 5.210 7.207 nan 3158 chr7 116577404 116588614 + 0 NA Intergenic L1Md_F2|LINE|L1 78640 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 0.827 0.530 0.324 1.681 0.949 0.493 0.365 1.039 0.830 1.073 2.117 3.469 0.329 nan 0.385 0.679 0.565 0.701 5.029 3.377 2.105 7.686 4.107 3.197 0.527 1903 chr2 71576541 71578849 + 0 NA intron (NR_039557, intron 2 of 3).2 B3A|SINE|B2 -30941 NM_010054 13392 Mm.3896 NM_010054 ENSMUSG00000023391 Dlx2 AW121999|Dlx-2|Tes-1 distal-less homeobox 2 protein-coding 7.346 1.148 0.861 2.064 2.353 1.007 5.182 7.106 2.982 2.829 3.425 1.831 7.856 4.739 5.865 6.963 6.446 6.643 1.472 0.684 0.621 1.137 1.077 0.864 7.004 2767 chr5 136145399 136153557 + 0 NA 3' UTR (NM_178751, exon 3 of 3) 3' UTR (NM_178751, exon 3 of 3) 10697 NM_028070 72041 Mm.486605 NM_028070 ENSMUSG00000039754 Alkbh4 2010004B12Rik|Abj4 alkB homolog 4, lysine demethylase protein-coding 4.965 1.601 0.901 4.032 3.446 2.576 8.901 7.719 4.317 4.499 4.086 3.761 6.973 8.949 5.986 7.188 5.755 3.649 3.099 1.486 1.420 1.440 nan 3.214 2.606 2188 chr3 58995244 58999485 + 0 NA Intergenic Intergenic -9614 NM_177855 329650 Mm.240059 NM_177855 ENSMUSG00000056476 Med12l A130035F20|A630079M02|AU044581|TRALPUSH mediator complex subunit 12-like protein-coding 0.491 1.016 0.562 nan 0.396 0.300 0.723 0.582 0.696 0.677 10.690 4.930 0.468 0.393 nan nan 0.505 nan 0.483 0.461 0.172 0.586 0.300 0.314 0.534 3554 chr9 110565932 110573045 + 0 NA intron (NM_001081340, intron 9 of 20) PB1D10|SINE|Alu 36891 NM_001081340 235626 Mm.288949 NM_001081340 ENSMUSG00000044791 Setd2 4921524K10Rik|BC031601|KMT3A SET domain containing 2 protein-coding 2.667 7.134 4.676 1.784 1.820 1.135 1.963 2.705 nan nan 1.721 2.096 1.766 2.340 1.984 2.479 1.787 nan 1.233 1.693 1.379 0.763 1.734 1.138 3.844 1778 chr19 41052323 41054944 + 0 NA intron (NM_009345, intron 9 of 11) intron (NM_009345, intron 9 of 11) 23480 NM_153520 226115 Mm.54119 NM_153520 ENSMUSG00000050121 Opalin Tmem10|Tmp10 oligodendrocytic myelin paranodal and inner loop protein protein-coding nan 8.889 6.097 0.914 0.248 0.165 0.333 nan 0.664 0.633 1.048 1.136 0.391 0.244 0.523 0.687 nan 0.599 0.390 0.850 0.795 0.479 0.450 0.433 0.737 2339 chr4 8888004 8890773 + 0 NA Intergenic Intergenic 198982 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.941 4.935 3.065 1.148 0.588 0.223 0.145 nan 0.577 0.447 0.427 0.250 0.161 0.318 0.416 0.652 0.518 0.902 2.413 nan 1.053 4.098 2.376 1.435 0.621 1859 chr2 33261290 33262793 + 0 NA intron (NM_001290572, intron 7 of 17) intron (NM_001290572, intron 7 of 17) 46080 NM_011923 26360 Mm.208919 NM_011923 ENSMUSG00000004105 Angptl2 AI593246|AW260363|Arp2 angiopoietin-like 2 protein-coding 3.694 0.998 0.969 3.274 3.390 0.995 2.997 5.661 2.083 3.186 1.530 1.117 2.988 3.846 2.917 4.552 4.971 3.272 0.937 1.000 0.545 0.955 0.780 0.299 3.286 160 chr1 137438102 137441959 + 0 NA Intergenic Intergenic -479582 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 5.052 1.271 0.686 nan 0.555 0.354 1.726 0.654 1.224 1.811 0.519 0.408 1.117 nan 2.119 nan 0.603 1.882 0.991 0.742 0.551 1.113 0.772 0.487 nan 3116 chr7 36339818 36344188 + 0 NA Intergenic Intergenic -356115 NM_172298 243931 Mm.44141 NM_172298 ENSMUSG00000021217 Tshz3 A630038G13Rik|Tsh3|Zfp537|mKIAA1474|teashirt3 teashirt zinc finger family member 3 protein-coding 3.960 5.924 1.974 4.630 1.744 1.669 7.749 7.614 3.781 6.569 7.356 3.196 7.874 7.013 6.016 4.949 3.836 4.994 2.974 2.312 2.154 2.852 2.150 3.046 8.119 2776 chr5 136495422 136497772 + 0 NA intron (NM_001291234, intron 1 of 22) intron (NM_001291234, intron 1 of 22) 69384 NM_001291239 13047 Mm.320317 NM_009986 ENSMUSG00000029705 Cux1 CDP|Cutl1|Cux|Cux-1 cut-like homeobox 1 protein-coding 2.718 1.236 0.633 2.690 1.897 1.004 2.262 2.979 1.806 2.151 1.256 0.857 2.252 4.659 3.525 3.799 2.363 2.530 0.726 0.568 0.624 0.755 nan 0.577 4.961 98 chr1 91450545 91452392 + 0 NA intron (NM_011066, intron 1 of 22) intron (NM_011066, intron 1 of 22) 7860 NM_011066 18627 Mm.482463 NM_011066 ENSMUSG00000055866 Per2 mKIAA0347|mPer2 period circadian clock 2 protein-coding 3.501 1.044 0.613 2.816 6.227 3.285 1.321 4.748 1.914 2.866 1.363 0.695 1.054 4.099 1.267 1.777 1.662 2.621 1.953 0.731 0.703 nan 0.998 0.773 2.442 2901 chr6 82700552 82725346 + 0 NA Intergenic Intergenic -60084 NM_025882 66979 Mm.195753 NM_025882 ENSMUSG00000030042 Pole4 2400007P05Rik|5830430F06Rik polymerase (DNA-directed), epsilon 4 (p12 subunit) protein-coding 4.832 3.638 2.003 4.979 5.438 3.490 6.774 6.227 4.724 6.047 3.689 1.601 6.193 10.099 7.574 nan 5.828 7.341 0.984 1.070 0.857 0.931 0.620 0.466 nan 1048 chr15 7067212 7068903 + 0 NA Intergenic Intergenic -61515 NM_001113386 16880 Mm.149720 NM_013584 ENSMUSG00000054263 Lifr A230075M04Rik|AW061234|LIF leukemia inhibitory factor receptor protein-coding 2.613 1.167 0.562 2.315 0.794 0.174 1.524 2.745 2.252 1.868 0.487 0.339 3.845 3.688 1.170 2.034 1.424 1.648 0.689 0.465 0.362 1.107 0.354 0.162 1.321 1278 chr16 13754225 13755205 + 0 NA Intergenic CpG -24231 NM_011987 26565 Mm.4214 NM_011987 ENSMUSG00000022683 Pla2g10 GX sPLA2|PLA2GX|sPLA2-X phospholipase A2, group X protein-coding 6.057 6.691 2.501 6.631 3.867 2.584 3.160 5.001 3.952 5.117 2.694 2.025 3.568 4.111 5.615 8.106 3.956 5.982 4.901 2.668 2.586 5.221 4.367 4.312 9.063 2434 chr4 116795133 116800509 + 0 NA intron (NM_146151, intron 5 of 10) ID4_|SINE|ID 9738 NM_026654 68276 Mm.30534 NM_026654 ENSMUSG00000028688 Toe1 4930584N22Rik|4933424D16Rik|AI413517 target of EGR1, member 1 (nuclear) protein-coding 7.480 16.649 4.374 8.954 5.628 3.212 4.164 6.907 4.332 5.592 6.671 3.909 3.346 6.558 5.385 nan 3.142 5.860 1.618 2.159 1.880 2.767 0.957 0.631 6.429 1000 chr14 47228745 47231287 + 0 NA Intergenic Intergenic -40614 NM_008102 14528 Mm.10651 NM_008102 ENSMUSG00000037580 Gch1 GTP-CH|GTPCH|Gch GTP cyclohydrolase 1 protein-coding 6.223 0.548 0.885 2.532 3.309 2.406 5.448 3.434 2.693 3.569 1.798 0.732 5.638 5.829 5.287 5.554 3.335 4.464 0.605 1.216 1.205 0.578 0.717 0.375 6.329 1381 chr16 95450103 95476130 + 0 NA intron (NM_001302152, intron 3 of 10) intron (NM_001302152, intron 3 of 10) -3768 NM_001302153 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 7.926 0.957 0.683 4.947 5.075 2.839 4.735 5.445 nan 9.674 3.180 1.023 8.654 9.822 nan 7.535 6.105 nan nan 1.313 1.022 2.136 0.889 0.800 5.911 43 chr1 51987283 51990344 + 0 NA intron (NM_001308266, intron 1 of 24) MERVL-int|LTR|ERVL 1665 NM_001308266 20849 Mm.1550 NM_011487 ENSMUSG00000062939 Stat4 - signal transducer and activator of transcription 4 protein-coding 4.426 1.549 0.783 1.390 0.764 0.121 3.946 3.101 2.282 2.007 2.614 1.775 3.699 2.626 3.870 5.686 5.280 3.575 nan 0.975 0.561 0.791 1.050 0.296 3.121 1061 chr15 10635109 10657394 + 0 NA intron (NM_001166408, intron 2 of 17) intron (NM_001166408, intron 2 of 17) 45958 NR_033541 100038608 Mm.450744 NR_033541 Gm10389 ENSMUSG00000072658 predicted gene 10389 ncRNA 7.730 1.308 0.608 5.213 5.153 3.077 10.717 11.020 6.557 9.147 3.437 2.190 11.063 11.335 8.594 8.467 7.972 9.230 0.628 0.763 0.760 0.438 0.595 0.552 8.491 2582 chr4 151359675 151363696 + 0 NA intron (NM_001081557, intron 5 of 23) intron (NM_001081557, intron 5 of 23) 272115 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 6.287 5.860 1.437 5.837 5.299 3.609 7.126 8.043 3.665 6.073 3.687 2.757 5.246 9.360 7.222 7.254 4.745 6.378 4.511 1.986 2.255 6.789 2.728 3.135 9.456 2054 chr2 160967911 160975551 + 0 NA intron (NR_126509, intron 26 of 35) intron (NR_126509, intron 26 of 35) -59392 NM_182840 280635 Mm.330747 NM_182840 ENSMUSG00000050700 Emilin3 1110013O17Rik|EMILIN-3|EMILIN-5|EMILIN-T|Emilin5 elastin microfibril interfacer 3 protein-coding nan 0.515 0.392 1.212 1.594 0.831 3.870 2.010 nan nan 0.611 1.152 nan nan 2.478 3.019 3.840 3.945 7.238 5.327 3.469 4.799 5.886 5.239 3.000 3502 chr9 63824396 63828998 + 0 NA Intergenic Intergenic -68703 NM_016769 17127 Mm.7320 NM_016769 ENSMUSG00000032402 Smad3 AU022421|Madh3 SMAD family member 3 protein-coding 3.227 0.721 0.448 3.034 2.013 1.477 2.453 3.085 2.503 2.572 1.251 1.490 2.536 5.413 3.070 3.407 2.612 3.274 nan 1.034 0.559 0.847 0.709 0.530 5.462 1728 chr19 5988607 5990277 + 0 NA intron (NM_001110504, intron 21 of 21) intron (NM_001110504, intron 21 of 21) -3299 NM_198650 381203 Mm.329638 NM_198650 ENSMUSG00000037451 Slc22a20 Gm963|OAT1-L|mOAT6 solute carrier family 22 (organic anion transporter), member 20 protein-coding 5.547 5.106 2.580 1.626 2.340 1.294 11.705 10.666 nan 1.890 2.770 2.187 2.658 4.982 5.427 5.314 5.685 3.077 1.415 1.922 1.619 1.815 1.711 2.620 4.407 2785 chr5 138181014 138183170 + 0 NA intron (NM_009315, intron 9 of 14) intron (NM_009315, intron 9 of 14) 5094 NM_009315 21343 Mm.248517 NM_009315 ENSMUSG00000036980 Taf6 80kDa|AW549759|TAF(II)80|TAFII70|Taf2e|p80 TATA-box binding protein associated factor 6 protein-coding 1.913 3.129 0.662 3.397 1.632 1.215 2.225 3.524 1.349 3.714 1.675 1.870 1.707 2.922 3.575 2.825 1.524 3.148 5.219 4.306 3.725 6.796 8.545 7.059 3.981 3224 chr8 12396090 12402063 + 0 NA 3' UTR (NM_009233, exon 1 of 1) 3' UTR (NM_009233, exon 1 of 1) 3557 NM_009233 20664 Mm.39088 NM_009233 ENSMUSG00000096014 Sox1 BB176347|Sox-1 SRY (sex determining region Y)-box 1 protein-coding 0.267 0.364 0.351 0.252 0.217 0.079 0.162 0.291 0.197 0.314 0.271 0.072 0.121 0.255 0.167 0.385 0.350 0.219 7.629 2.565 2.086 12.158 6.004 6.095 0.436 193 chr1 173956565 173958002 + 0 NA Intergenic L1Md_F2|LINE|L1 -14611 NM_001302650 15950 Mm.463437 NM_008328 ENSMUSG00000039997 Ifi203 Mndal interferon activated gene 203 protein-coding 5.271 7.738 2.526 4.423 2.170 1.722 4.423 3.736 3.625 5.847 3.227 2.318 3.247 nan 5.709 9.006 5.024 5.548 3.889 3.166 2.939 5.341 3.314 3.928 8.868 288 chr10 79557767 79571815 + 0 NA Intergenic Lx2B|LINE|L1 -9663 NM_027422 70427 Mm.334193 NM_027422 ENSMUSG00000042570 Mier2 2700087H15Rik|mKIAA1193 MIER family member 2 protein-coding 9.567 4.835 2.366 6.314 7.140 4.783 6.708 7.113 4.190 5.887 6.235 3.300 4.778 7.463 nan 6.638 6.056 6.623 nan 2.528 2.509 2.157 2.114 1.901 9.994 119 chr1 127414959 127417062 + 0 NA intron (NM_145128, intron 12 of 17) intron (NM_145128, intron 12 of 17) 211024 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 7.133 1.657 0.731 5.058 3.766 2.636 6.782 7.206 4.300 4.188 6.104 4.057 6.753 5.759 5.622 8.595 4.781 5.830 nan 1.462 1.513 0.983 1.859 1.550 4.405 1555 chr17 65991206 65994249 + 0 NA intron (NM_001025572, intron 8 of 12) Lx2B2|LINE|L1 -41540 NM_023053 65960 Mm.10153 NM_023053 ENSMUSG00000024098 Twsg1 1810013J15Rik|9030422N06Rik|AW552143|D17Ertd403e|Tsg|Twg twisted gastrulation BMP signaling modulator 1 protein-coding 5.608 0.589 0.544 8.256 5.501 1.750 9.560 5.675 6.064 8.435 1.992 1.948 7.568 12.270 10.502 11.886 5.907 11.899 1.199 0.874 0.325 1.876 0.921 0.665 13.305 586 chr11 98304975 98311778 + 0 NA Intergenic Intergenic 21269 NM_010895 18013 Mm.4814 NM_010895 ENSMUSG00000038255 Neurod2 Ndrf|bHLHa1 neurogenic differentiation 2 protein-coding 6.915 nan 0.798 4.508 4.711 3.193 9.518 9.698 4.854 6.637 3.881 2.664 7.865 9.387 7.269 8.164 6.151 6.111 6.678 nan 4.750 8.512 7.022 nan 8.334 2870 chr6 52139897 52142493 + 0 NA Intergenic PB1D10|SINE|Alu 17122 NM_010449 15394 Mm.197 NM_010449 ENSMUSG00000029844 Hoxa1 ERA1|Hox-1.6 homeobox A1 protein-coding 3.152 5.579 1.326 6.651 2.459 1.339 1.164 0.782 1.952 4.408 1.489 0.774 0.988 2.174 1.865 2.601 1.478 nan nan 0.674 1.015 0.910 0.827 0.727 3.019 2859 chr6 43241151 43244331 + 0 NA Intergenic B1_Mus1|SINE|Alu 7131 NM_146370 18346 Mm.222840 NM_146370 ENSMUSG00000061210 Olfr47 IB12|MOR261-9|Olfr13 olfactory receptor 47 protein-coding 3.242 0.486 0.442 1.735 1.594 0.687 8.000 10.116 2.846 2.123 4.161 2.588 4.678 5.669 5.686 5.448 3.238 3.700 nan 1.023 0.728 2.901 0.984 0.773 2.632 410 chr11 45925697 45942601 + 0 NA intron (NM_028185, intron 3 of 3) intron (NM_028185, intron 3 of 3) 10786 NM_028185 72290 Mm.249827 NM_028185 ENSMUSG00000044847 Lsm11 2210404M20Rik|AV079530 U7 snRNP-specific Sm-like protein LSM11 protein-coding 3.989 3.869 1.616 4.297 3.671 2.252 2.176 nan 4.320 5.200 0.999 0.674 4.029 6.036 4.172 nan 3.478 nan nan 0.974 0.614 nan nan 0.411 4.635 3193 chr7 135452922 135454351 + 0 NA Intergenic ID_B1|SINE|B4 43269 NM_183193 270004 Mm.132547 NM_183193 ENSMUSG00000048377 Foxi2 B130055A05Rik forkhead box I2 protein-coding 2.317 nan 0.092 2.531 2.071 0.990 2.282 1.739 2.416 2.180 1.554 0.860 2.288 3.132 3.337 3.565 2.708 2.880 0.828 0.788 0.360 0.900 0.210 0.203 2.876 999 chr14 33326186 33330533 + 0 NA intron (NM_153800, intron 4 of 10) intron (NM_153800, intron 4 of 10) 82665 NM_001310452 26419 Mm.21495 NM_016700 ENSMUSG00000021936 Mapk8 AI849689|JNK|JNK1|Prkm8|SAPK1 mitogen-activated protein kinase 8 protein-coding 4.263 4.048 2.091 2.868 1.549 0.733 3.732 4.506 1.653 2.524 1.688 1.546 2.367 3.232 4.241 5.166 2.730 3.294 2.531 1.386 1.361 1.736 1.793 1.601 7.035 3019 chr6 134054164 134057045 + 0 NA intron (NM_007961, intron 1 of 7) intron (NM_007961, intron 1 of 7) 19904 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 1.523 1.994 0.896 1.958 0.849 0.300 0.937 3.042 1.322 0.873 7.101 1.418 0.750 0.966 1.846 1.945 1.105 1.481 2.228 1.180 0.414 2.451 1.180 0.723 1.694 3374 chr8 122220594 122221717 + 0 NA Intergenic Intergenic -60986 NM_009569 22761 Mm.3105 NM_009569 ENSMUSG00000049577 Zfpm1 FOG|Fog1 zinc finger protein, multitype 1 protein-coding 2.591 0.541 0.143 3.598 2.312 1.260 3.160 8.255 2.573 3.407 2.344 3.646 4.953 4.640 5.668 6.223 2.587 5.071 1.008 0.193 0.146 1.361 0.966 2.899 1180 chr15 81841761 81848065 + 0 NA Intergenic Intergenic 13413 NM_020507 57259 Mm.323595 NM_020507 ENSMUSG00000048546 Tob2 2900090N22Rik|4930545K18Rik|AV071822|mKIAA1663 transducer of ERBB2, 2 protein-coding 6.446 nan 1.406 5.235 3.341 2.452 5.967 9.405 3.143 4.632 nan 1.998 7.111 6.631 5.194 5.049 4.667 4.939 2.392 1.768 1.492 nan 3.092 2.768 6.170 2169 chr3 30396311 30414367 + 0 NA intron (NM_021442, intron 1 of 2) intron (NM_021442, intron 1 of 2) 104148 NM_021442 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 6.534 0.592 0.353 6.383 5.775 3.458 nan 1.416 8.059 11.821 5.050 5.473 9.261 6.981 nan 7.569 7.545 nan 0.745 0.944 0.828 0.619 0.736 0.576 8.007 430 chr11 59222878 59227786 + 0 NA intron (NM_007476, intron 1 of 4) intron (NM_007476, intron 1 of 4) 2830 NM_001130408 11840 Mm.371546 NM_007476 ENSMUSG00000048076 Arf1 - ADP-ribosylation factor 1 protein-coding 0.902 0.814 0.244 1.449 0.441 0.266 0.425 0.508 0.852 0.650 6.720 2.049 0.459 nan 0.552 0.852 0.411 0.817 nan 0.580 0.400 0.947 0.585 0.467 nan 1185 chr15 82168539 82170659 + 0 NA intron (NM_033218, intron 1 of 18) B1F|SINE|Alu 22330 NM_033218 20788 Mm.9002 NM_033218 ENSMUSG00000022463 Srebf2 AI608257|SREBP-2|SREBP2|SREBP2gc|bHLHd2|lop13|nuc sterol regulatory element binding factor 2 protein-coding 5.364 6.119 2.443 5.698 4.259 3.527 4.565 6.480 3.606 4.706 nan 1.723 4.145 5.084 4.539 4.302 nan 4.637 2.613 1.901 2.135 2.806 2.561 2.219 6.498 447 chr11 65619102 65621632 + 0 NA Intergenic L2|LINE|L2 114465 NR_030417 791070 NR_030417 ENSMUSG00000076460 Mir744 Mirn744|mir-744|mmu-mir-744 microRNA 744 ncRNA 7.658 7.792 2.985 9.556 6.493 3.720 5.663 8.026 7.082 7.900 5.458 3.726 6.706 9.553 8.264 9.018 5.305 7.663 4.012 2.346 2.180 4.879 nan 2.599 8.609 3258 chr8 34987950 35002069 + 0 NA Intergenic RLTR9A3|LTR|ERVK -29319 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 5.700 0.998 0.554 4.310 3.188 2.242 4.374 5.505 4.668 4.641 2.111 1.783 7.099 7.496 7.405 7.433 5.019 7.589 1.481 0.635 0.686 1.137 1.384 1.266 6.523 1446 chr17 26813037 26814788 + 0 NA Intergenic Intergenic 27653 NM_008700 18091 Mm.41974 NM_008700 ENSMUSG00000015579 Nkx2-5 Csx|Nkx-2.5|Nkx2.5|tinman NK2 homeobox 5 protein-coding 8.876 9.983 3.350 8.265 4.588 3.580 5.797 6.983 4.593 6.575 4.737 2.040 6.342 9.919 8.359 10.100 5.948 8.240 5.990 2.853 3.609 6.792 3.458 4.075 11.577 1741 chr19 8945284 8947376 + 0 NA exon (NM_011842, exon 6 of 18) exon (NM_011842, exon 6 of 18) 4410 NM_011842 23942 Mm.25339 NM_011842 ENSMUSG00000071646 Mta2 AW550797|Mata1l1|Mta1l1|mmta2 metastasis-associated gene family, member 2 protein-coding 9.959 11.502 5.233 11.977 4.648 5.040 11.057 12.412 nan 9.203 6.539 4.533 7.735 9.146 9.808 10.228 10.369 10.198 2.613 2.824 5.285 5.615 4.163 5.612 16.576 2118 chr2 179829100 179835272 + 0 NA intron (NM_001316723, intron 4 of 5) intron (NM_001316723, intron 4 of 5) 144460 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 0.555 0.599 0.289 0.443 0.265 0.199 0.662 0.710 0.458 0.546 0.308 0.292 0.469 0.472 0.668 nan 0.616 nan 2.849 1.749 2.511 4.232 2.413 2.282 nan 415 chr11 51816157 51819215 + 0 NA exon (NM_199299, exon 12 of 12) exon (NM_199299, exon 12 of 12) 39795 NM_199299 76901 Mm.259996 NM_199299 ENSMUSG00000020387 Jade2 1200017K05Rik|AI480685|Phf15|mKIAA0239 jade family PHD finger 2 protein-coding 9.320 10.834 6.606 6.919 6.961 5.691 6.465 nan 6.525 6.658 7.979 5.679 7.882 9.232 8.640 8.851 8.509 8.344 nan 3.621 2.945 nan nan 2.763 7.000 1130 chr15 73300949 73302387 + 0 NA intron (NM_001130409, intron 11 of 29) intron (NM_001130409, intron 11 of 29) -46786 NR_029561 387169 NR_029561 ENSMUSG00000065612 Mir151 Mirn151|mir-151|mmu-mir-151 microRNA 151 ncRNA 4.594 1.204 0.454 2.193 1.044 0.933 6.666 6.439 2.011 1.704 nan 0.897 4.077 3.701 3.687 4.761 nan 3.030 1.065 0.325 0.564 nan 0.869 0.690 6.566 1315 chr16 23977056 23996299 + 0 NA intron (NM_009744, intron 1 of 9) intron (NM_009744, intron 1 of 9) 1935 NM_009744 12053 Mm.347398 NM_009744 ENSMUSG00000022508 Bcl6 Bcl5 B cell leukemia/lymphoma 6 protein-coding 11.991 8.387 5.831 8.018 8.909 5.791 8.282 12.713 6.520 9.307 6.231 5.038 9.009 12.181 7.587 nan 9.735 8.016 2.764 3.713 2.936 3.651 nan 3.349 10.683 189 chr1 173397787 173400436 + 0 NA Intergenic Intergenic -21493 NM_001013779 383619 Mm.131453 NM_001013779 ENSMUSG00000037860 Aim2 Gm1313|Ifi210 absent in melanoma 2 protein-coding 4.534 0.738 0.624 2.109 5.966 4.223 3.049 3.336 3.302 2.791 2.491 2.033 4.260 nan 4.392 5.864 3.351 3.622 1.123 1.257 1.362 1.262 0.993 0.859 4.163 2597 chr4 152070253 152073572 + 0 NA Intergenic (TG)n|Simple_repeat|Simple_repeat -14951 NR_104381 269608 Mm.332102 NM_001004156 ENSMUSG00000039713 Plekhg5 BC023181|Syx pleckstrin homology domain containing, family G (with RhoGef domain) member 5 protein-coding 0.159 nan 0.182 0.121 0.056 0.111 0.120 0.100 0.078 0.118 0.086 0.153 0.049 0.071 0.190 0.394 0.107 0.226 4.748 0.852 0.480 5.101 1.741 1.183 0.403 1292 chr16 17757190 17760543 + 0 NA promoter-TSS (NM_145479) promoter-TSS (NM_145479) -755 NM_145479 224023 Mm.282807 NM_145479 ENSMUSG00000022750 Klhl22 2610318I18Rik|Kelchl kelch-like 22 protein-coding 14.151 2.260 0.585 4.772 6.305 3.684 13.726 11.947 4.793 8.099 2.453 2.576 12.555 11.773 9.897 13.830 11.100 9.473 3.803 3.791 2.996 2.899 5.671 5.810 13.721 2330 chr4 6909905 6919245 + 0 NA intron (NM_145711, intron 1 of 8) intron (NM_145711, intron 1 of 8) 76148 NM_145711 252838 Mm.435828 NM_145711 ENSMUSG00000041272 Tox 1700007F02Rik thymocyte selection-associated high mobility group box protein-coding 1.997 8.373 3.120 2.423 1.088 0.604 1.499 nan 2.050 2.402 0.297 1.085 1.265 1.171 1.589 1.790 1.622 2.396 7.004 nan 2.838 7.581 4.715 3.904 2.572 1356 chr16 84824545 84825984 + 0 NA 3' UTR (NM_023844, exon 10 of 10) 3' UTR (NM_023844, exon 10 of 10) 9734 NM_001302216 11957 Mm.353 NM_016755 ENSMUSG00000022890 Atp5j CF6 ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F protein-coding 5.260 1.636 0.394 3.906 1.889 0.513 3.638 5.869 3.607 2.355 1.889 3.070 5.755 3.636 3.891 5.827 3.470 4.636 1.063 0.758 0.495 nan 0.699 0.353 4.803 2849 chr6 37371890 37382173 + 0 NA intron (NM_178661, intron 2 of 11) intron (NM_178661, intron 2 of 11) 65117 NM_178661 208647 Mm.169929 NM_178661 ENSMUSG00000038648 Creb3l2 BBF2H7|C530025K05Rik|SCIRR69 cAMP responsive element binding protein 3-like 2 protein-coding 6.051 1.772 0.766 3.981 4.478 2.250 7.613 4.771 4.020 4.738 2.569 1.670 7.836 8.265 6.021 8.893 7.335 6.954 nan 2.254 1.347 nan nan 1.464 nan 480 chr11 72420029 72422388 + 0 NA Intergenic RSINE1|SINE|B4 -9495 NM_177776 276829 Mm.46732 NM_177776 ENSMUSG00000045667 Smtnl2 D130058I21Rik smoothelin-like 2 protein-coding 7.526 11.708 2.612 11.450 4.186 4.123 7.315 8.019 4.725 17.990 7.236 3.519 6.991 9.305 8.091 11.395 5.212 9.440 4.176 1.590 3.753 6.226 nan 3.679 14.983 107 chr1 121562688 121564989 + 0 NA intron (NM_025860, intron 3 of 12) intron (NM_025860, intron 3 of 12) 4142 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 4.395 0.503 0.556 1.669 1.457 0.730 2.814 2.644 2.342 2.273 0.810 0.519 3.310 4.023 2.097 3.700 4.708 2.464 1.492 0.929 0.882 0.663 1.236 0.675 1.643 438 chr11 60130120 60137855 + 0 NA intron (NM_009021, intron 1 of 5) intron (NM_009021, intron 1 of 5) -6095 NM_001037764 19377 Mm.296366 NM_009021 ENSMUSG00000062115 Rai1 Gt1 retinoic acid induced 1 protein-coding 3.146 0.681 0.566 3.181 2.702 1.884 4.027 3.311 3.214 3.357 1.993 1.358 4.657 4.130 4.661 5.571 4.230 5.019 3.816 2.392 1.495 3.457 2.388 1.881 2.995 1153 chr15 76480516 76492092 + 0 NA intron (NR_138589, intron 1 of 8) Lx5c|LINE|L1 8942 NR_138589 15499 Mm.347444 NM_008296 ENSMUSG00000022556 Hsf1 AA960185|HSTF|HSTF 1|Hsf1alpha|Hsf1beta heat shock factor 1 protein-coding 5.606 nan 0.996 nan 2.375 2.064 7.832 10.294 3.156 nan nan 1.847 7.742 6.793 7.207 7.200 nan 5.370 2.198 1.180 1.592 nan 1.750 1.723 8.111 1871 chr2 36079446 36080630 + 0 NA TTS (NM_029309) TTS (NM_029309) 24022 NM_001083126 16874 Mm.12881 NM_008500 ENSMUSG00000026890 Lhx6 Lhx6.1 LIM homeobox protein 6 protein-coding 2.418 0.868 0.299 2.235 1.074 0.202 1.758 2.146 2.425 1.724 1.003 0.343 3.241 3.504 3.336 6.352 2.307 4.611 0.496 0.660 0.172 0.742 0.224 0.083 4.074 2385 chr4 62970731 62972585 + 0 NA intron (NM_028326, intron 1 of 14) intron (NM_028326, intron 1 of 14) 6084 NM_028326 72701 Mm.26479 NM_028326 ENSMUSG00000028358 Zfp618 2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1 zinc finger protein 618 protein-coding 2.358 nan 0.225 3.286 2.934 1.064 1.706 1.561 1.984 2.341 1.053 0.595 1.988 5.187 4.514 3.014 0.992 3.249 nan 0.676 0.522 2.232 0.669 0.464 3.552 87 chr1 82925498 82927260 + 0 NA Intergenic Intergenic 86919 NM_001347077 15463 Mm.392569 NM_010472 ENSMUSG00000026159 Agfg1 AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip ArfGAP with FG repeats 1 protein-coding 4.806 0.828 0.263 2.520 3.789 1.765 1.993 4.668 5.436 6.771 0.751 1.990 7.498 6.567 3.679 7.054 4.784 7.951 nan nan 0.765 0.365 nan 0.539 2.342 1022 chr14 65307170 65308863 + 0 NA intron (NM_015795, intron 7 of 7) intron (NM_015795, intron 7 of 7) 41315 NM_015795 50759 Mm.65308 NM_015795 ENSMUSG00000034532 Fbxo16 4932435C24Rik|Fbx16 F-box protein 16 protein-coding 3.457 5.062 2.953 4.412 1.811 1.229 1.461 5.299 2.638 2.154 1.085 1.531 2.656 2.648 2.975 2.083 0.925 2.534 2.405 nan 1.099 2.978 1.259 1.164 2.178 1832 chr2 26413897 26414804 + 0 NA intron (NM_153125, intron 28 of 29) (CA)n|Simple_repeat|Simple_repeat -5131 NR_110957 64436 Mm.330070 NM_033134 ENSMUSG00000026925 Inpp5e 1200002L24Rik|72kDa|mKIAA0123 inositol polyphosphate-5-phosphatase E protein-coding 2.309 0.957 0.494 2.504 3.212 3.777 4.031 2.681 2.988 1.888 1.918 1.741 2.462 4.141 3.844 3.586 2.956 3.098 0.868 0.841 0.986 1.038 1.258 0.757 3.226 2795 chr5 145093471 145100481 + 0 NA intron (NM_019767, intron 4 of 9) B1_Mm|SINE|Alu 13107 NM_019767 56443 Mm.371610 NM_019767 ENSMUSG00000029621 Arpc1a 0610010H08Rik|1110030K07Rik|41kDa|AA407347|Sid32|Sid329 actin related protein 2/3 complex, subunit 1A protein-coding 3.631 0.624 0.588 nan 4.459 3.261 3.780 5.282 3.870 5.414 1.778 1.876 4.621 6.402 4.860 5.407 4.382 5.075 2.160 1.263 0.996 1.271 2.213 1.988 nan 2704 chr5 106038163 106043523 + 0 NA Intergenic Intergenic 164275 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 3.991 1.635 1.003 3.297 2.446 1.201 4.985 4.346 4.160 4.136 1.243 1.647 5.260 5.098 5.438 4.924 3.443 4.696 nan 0.585 0.480 0.596 0.411 0.558 2.675 953 chr13 94826605 94828165 + 0 NA intron (NM_009321, intron 1 of 3) intron (NM_009321, intron 1 of 3) 38442 NM_009321 21371 Mm.379025 NM_009321 ENSMUSG00000042043 Tbca Tbca13 tubulin cofactor A protein-coding 2.528 1.447 0.672 4.906 1.344 1.548 1.717 2.052 1.393 6.541 0.801 0.549 2.087 3.562 4.044 5.221 nan 3.982 0.565 0.402 1.047 1.693 0.288 0.994 7.308 221 chr1 195249570 195251377 + 0 NA Intergenic RLTR11A|LTR|ERVK -73758 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 6.689 1.260 0.452 0.477 0.504 0.360 10.224 4.607 2.865 1.653 0.632 1.337 7.054 3.885 4.418 8.444 4.333 3.905 2.198 1.284 0.779 1.345 4.686 3.501 6.992 3147 chr7 105669846 105672378 + 0 NA Intergenic (TCTCCC)n|Simple_repeat|Simple_repeat 30572 NM_019502 14356 Mm.220330 NM_019502 ENSMUSG00000089847 Timm10b Fxc1|Tim10b|Tim9b translocase of inner mitochondrial membrane 10B protein-coding 2.965 2.646 1.012 6.560 1.317 0.600 0.778 1.168 1.498 1.807 0.883 0.515 0.656 nan 1.411 1.761 0.831 2.686 nan 0.799 0.468 2.460 0.387 0.274 2.875 3176 chr7 123334461 123337760 + 0 NA intron (NM_001122641, intron 1 of 18) intron (NM_001122641, intron 1 of 18) 33805 NM_001122643 70497 Mm.403318 NM_144529 ENSMUSG00000030766 Arhgap17 5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15 Rho GTPase activating protein 17 protein-coding 0.780 0.754 0.238 0.619 0.732 0.337 0.402 nan 1.076 0.747 6.781 2.046 0.484 0.361 nan 0.745 0.714 0.899 3.115 0.904 0.889 1.281 1.525 1.735 1.100 1424 chr17 24831548 24838382 + 0 NA intron (NM_029197, intron 11 of 13) intron (NM_029197, intron 11 of 13) 15337 NM_023480 68636 Mm.347964 NM_023480 ENSMUSG00000045316 Fahd1 1110025H10Rik|AV002085 fumarylacetoacetate hydrolase domain containing 1 protein-coding 7.129 3.498 1.086 3.273 1.942 0.939 9.763 7.417 2.926 4.032 3.608 2.026 4.851 5.327 6.192 8.288 6.067 4.364 3.797 1.977 1.794 2.965 3.691 3.198 12.183 1560 chr17 66230038 66236068 + 0 NA Intergenic Intergenic 109533 NM_001003919 320209 Mm.259605 NM_001003919 ENSMUSG00000035842 Ddx11 4732462I11Rik|CHL1|CHLR1|KRG2|essa15a DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 protein-coding 6.145 5.823 1.739 5.696 3.636 2.009 5.641 6.936 nan 6.293 4.460 1.845 4.722 7.921 6.550 9.016 5.499 5.920 3.588 2.011 2.007 3.921 2.775 2.389 9.332 417 chr11 51911433 51914273 + 0 NA Intergenic Intergenic -54778 NM_029976 52626 Mm.289456 NM_029976 ENSMUSG00000020392 Cdkn2aipnl A430101B06Rik|AA409260|D11Ertd497e|MNCb-1520 CDKN2A interacting protein N-terminal like protein-coding 8.621 15.517 4.014 13.877 7.577 6.020 7.345 9.443 6.112 15.485 7.530 4.473 7.898 10.014 11.423 11.827 5.929 11.702 6.767 2.638 3.595 8.882 nan 5.283 13.994 784 chr12 80603076 80609373 + 0 NA Intergenic ORR1A2-int|LTR|ERVL-MaLR 37887 NM_007951 13877 Mm.246551 NM_007951 ENSMUSG00000021131 Erh Mer|Prei1 enhancer of rudimentary homolog (Drosophila) protein-coding 5.382 1.288 0.528 2.480 1.790 0.796 4.551 3.688 3.525 3.680 5.285 1.454 7.904 4.168 5.231 5.748 5.674 5.321 0.965 1.180 0.600 1.903 1.005 0.565 4.079 1762 chr19 28404503 28406538 + 0 NA intron (NM_001305671, intron 3 of 9) intron (NM_001305671, intron 3 of 9) -272704 NR_045330 320176 Mm.406716 NR_045330 ENSMUSG00000097735 D930032P07Rik - RIKEN cDNA D930032P07 gene ncRNA nan 0.531 0.641 nan 0.795 0.480 0.539 1.375 1.406 1.016 5.105 2.479 0.422 0.585 0.527 0.609 0.888 0.501 nan 0.970 0.249 1.096 nan 0.995 0.658 260 chr10 43440233 43451801 + 0 NA intron (NM_001168289, intron 7 of 7) intron (NM_001168289, intron 7 of 7) -33123 NM_199028 331623 Mm.490388 NM_199028 ENSMUSG00000038214 Bend3 mKIAA1553 BEN domain containing 3 protein-coding 1.914 nan 0.968 1.388 0.793 0.332 1.543 2.160 1.396 1.205 1.935 1.339 1.333 1.283 1.881 1.746 1.777 1.699 nan 4.705 3.201 6.376 3.845 2.803 1.940 3080 chr7 27894127 27898963 + 0 NA Intergenic L1Md_F3|LINE|L1 32885 NM_028538 73430 Mm.379224 NM_028538 ENSMUSG00000070709 Zfp974 1700049G17Rik|AV321011|BB026409 zinc finger protein 974 protein-coding 5.202 0.485 0.364 2.784 3.411 2.090 3.701 4.540 4.422 6.208 3.684 2.142 6.180 7.648 4.100 5.501 8.475 4.453 0.598 1.034 0.769 0.188 1.238 0.963 3.797 2061 chr2 163315871 163320818 + 0 NA intron (NM_001098799, intron 5 of 8) intron (NM_001098799, intron 5 of 8) 79629 NM_021566 59091 Mm.34459 NM_021566 ENSMUSG00000017817 Jph2 1110002E14Rik|JP-2|Jp2 junctophilin 2 protein-coding 4.294 0.623 0.362 0.916 1.157 0.548 4.703 5.259 2.727 3.095 1.153 3.575 5.184 nan 3.918 7.535 4.760 nan 9.643 4.339 3.400 7.703 7.410 5.814 5.947 1844 chr2 30094862 30099108 + 0 NA TTS (NM_178694) TTS (NM_178694) -3350 NM_001037762 66220 Mm.22538 NM_025428 ENSMUSG00000015335 Zdhhc12 1190004A01Rik zinc finger, DHHC domain containing 12 protein-coding 5.098 2.273 0.701 7.043 2.441 1.989 2.427 5.895 nan 3.198 2.521 2.878 2.716 4.136 2.932 3.998 2.676 5.015 1.056 1.221 1.185 1.426 0.954 0.985 4.772 1530 chr17 47765779 47767810 + 0 NA intron (NM_001161723, intron 1 of 8) intron (NM_001161723, intron 1 of 8) -18950 NM_011549 21425 Mm.2305 NM_011549 ENSMUSG00000023990 Tfeb Tcfeb|bHLHe35 transcription factor EB protein-coding 9.766 7.988 4.939 6.648 7.733 4.978 11.849 10.560 4.235 10.036 6.878 4.621 6.000 12.187 7.518 9.995 12.551 6.058 7.321 11.254 7.822 6.248 14.451 11.773 13.870 2504 chr4 132722121 132731772 + 0 NA 3' UTR (NM_201368, exon 3 of 3) 3' UTR (NM_201368, exon 3 of 3) 5600 NM_201368 381560 Mm.44558 NM_201368 ENSMUSG00000037752 Xkr8 4931440N07Rik|AI597014|Gm1031|XRG8|mXkr8 X-linked Kx blood group related 8 protein-coding 4.769 5.388 3.557 6.193 4.329 3.522 3.182 3.157 3.496 3.523 2.680 2.246 2.222 3.667 nan 2.703 2.703 3.388 1.781 2.667 2.369 2.193 1.753 1.682 2.560 762 chr12 71086387 71090252 + 0 NA intron (NM_001081195, intron 23 of 23) intron (NM_001081195, intron 23 of 23) -23109 NM_029227 75266 Mm.402075 NM_029227 ENSMUSG00000021078 Tomm20l 4930553D19Rik translocase of outer mitochondrial membrane 20 homolog (yeast)-like protein-coding 8.806 7.384 3.639 7.020 6.238 4.808 5.831 4.011 4.129 9.053 6.469 5.693 5.261 6.095 5.291 6.280 6.042 5.953 3.568 2.671 3.143 2.619 3.322 4.386 9.089 1144 chr15 75943301 75950748 + 0 NA intron (NM_030199, intron 1 of 1) intron (NM_030199, intron 1 of 1) 6072 NM_030199 78834 Mm.273264 NM_030199 ENSMUSG00000050846 Zfp623 2610029D06Rik|AI847036 zinc finger protein 623 protein-coding 5.185 nan 0.577 3.775 4.595 2.225 4.017 9.596 3.762 4.991 nan 1.515 5.641 8.328 5.026 5.064 3.476 5.651 4.218 2.629 1.944 4.137 3.332 3.331 7.762 2798 chr5 145132819 145135126 + 0 NA intron (NM_001033313, intron 3 of 5) intron (NM_001033313, intron 3 of 5) 6117 NM_001033313 231887 Mm.188851 NM_001033313 ENSMUSG00000029623 Pdap1 HASPP28|PAP|PAP1 PDGFA associated protein 1 protein-coding 4.026 0.635 0.439 3.633 3.190 2.837 4.598 5.698 4.827 5.362 3.226 3.957 5.544 7.129 6.727 6.831 5.096 4.772 2.554 1.250 0.944 1.570 2.021 1.116 nan 734 chr12 39514846 39515935 + 0 NA Intergenic RLTR24B_MM|LTR|ERV1 521986 NM_007487 11861 Mm.12723 NM_007487 ENSMUSG00000047446 Arl4a AI467555|Arl4 ADP-ribosylation factor-like 4A protein-coding 10.531 nan 0.428 2.649 3.402 3.197 5.494 6.824 1.978 1.671 5.933 5.074 3.148 4.105 4.442 3.498 2.013 3.655 2.306 1.999 1.530 1.043 4.208 2.463 1.035 2952 chr6 98960671 98983790 + 0 NA intron (NM_001347345, intron 11 of 19) intron (NM_001347345, intron 11 of 19) 56068 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 4.005 2.073 1.222 4.411 2.486 1.189 1.752 1.928 3.257 3.385 4.516 2.308 2.110 2.928 nan nan 2.784 4.089 nan nan 1.987 7.329 3.796 2.868 2.885 1723 chr19 5822520 5853985 + 0 NA non-coding (NR_131212, exon 1 of 1) non-coding (NR_131212, exon 1 of 1) 7226 NR_131212 66961 Mm.281895 NR_003513 ENSMUSG00000092274 Neat1 2310043N10Rik|VINC nuclear paraspeckle assembly transcript 1 (non-protein coding) ncRNA 9.357 4.963 1.595 10.006 8.804 4.743 8.057 10.681 nan 9.296 7.845 4.667 6.535 11.258 7.753 9.054 7.514 10.711 3.126 3.179 2.326 5.780 4.192 3.047 11.263 2621 chr5 9147294 9154065 + 0 NA intron (NM_011806, intron 2 of 17) intron (NM_011806, intron 2 of 17) 11097 NM_001110327 23857 Mm.22480 NM_011806 ENSMUSG00000042508 Dmtf1 Dimp|Dmp1 cyclin D binding myb-like transcription factor 1 protein-coding 4.433 0.729 0.417 2.793 2.405 1.437 2.897 1.861 4.410 5.091 1.014 0.721 5.057 6.449 4.163 3.332 4.557 3.867 0.976 0.829 0.395 0.703 0.640 0.649 1.931 2047 chr2 160523827 160528242 + 0 NA Intergenic Intergenic -119863 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 5.978 1.153 0.855 3.507 2.932 2.063 5.315 6.372 nan 3.502 2.692 3.067 5.623 4.395 4.370 5.745 7.039 4.985 nan 0.989 0.555 0.894 0.652 0.579 nan 144 chr1 136593194 136597246 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR -29681 NM_177643 226442 Mm.62521 NM_177643 ENSMUSG00000041483 Zfp281 Znf281 zinc finger protein 281 protein-coding 0.584 0.745 0.445 nan 0.118 0.288 0.392 0.459 0.309 0.371 0.267 0.203 0.275 nan 0.461 0.929 0.414 0.597 2.510 1.870 1.860 5.503 1.664 1.324 nan 1440 chr17 26669200 26673885 + 0 NA Intergenic MurERV4-int|LTR|ERVK -4854 NM_025272 11974 Mm.22602 NM_025272 ENSMUSG00000015575 Atp6v0e Atp6k|Atp6v0e1|M9.2 ATPase, H+ transporting, lysosomal V0 subunit E protein-coding 5.888 7.691 2.223 5.927 3.420 1.260 2.188 3.351 3.286 3.596 4.440 2.137 2.233 3.901 3.114 3.398 1.440 3.522 1.020 1.691 1.111 2.851 0.437 0.253 3.112 2524 chr4 135608837 135613746 + 0 NA Intergenic RMER19B2|LTR|ERVK -15364 NR_015613 73937 Mm.292326 NM_028688 ENSMUSG00000086788 1700029M20Rik 4930406E24Rik RIKEN cDNA 1700029M20 gene ncRNA nan 3.481 1.391 5.558 6.657 5.034 3.621 4.046 4.417 5.056 5.947 2.646 3.304 7.942 3.801 3.119 2.699 nan 2.398 1.540 2.371 2.742 nan 3.160 2.974 381 chr11 5907086 5909761 + 0 NA intron (NM_010292, intron 4 of 9) RMER6A|LTR|ERVK 6712 NM_001287386 103988 Mm.220358 NM_010292 ENSMUSG00000041798 Gck GLK|Gk|Gls006|HK4|HKIV|HXKP|Hlb62|MODY2 glucokinase protein-coding nan 9.073 5.709 2.648 0.323 0.329 0.942 1.308 2.984 1.832 5.181 3.326 0.922 2.528 0.018 0.477 0.687 0.486 0.562 nan 1.682 3.412 1.273 1.323 1.048 1471 chr17 28646467 28663136 + 0 NA intron (NM_001290320, intron 9 of 19) intron (NM_001290320, intron 9 of 19) -32347 NM_016795 20815 Mm.15252 NM_016795 ENSMUSG00000004865 Srpk1 AU017960 serine/arginine-rich protein specific kinase 1 protein-coding 6.455 8.969 3.558 10.650 7.448 5.107 3.731 8.318 5.568 7.440 3.823 3.224 3.385 8.950 3.368 nan 2.540 5.471 1.933 1.794 1.997 3.721 2.302 2.718 3.746 1814 chr2 6000573 6004877 + 0 NA intron (NM_001081132, intron 8 of 21) intron (NM_001081132, intron 8 of 21) 51256 NM_001081132 326622 Mm.31102 NM_001081132 ENSMUSG00000043241 Upf2 - UPF2 regulator of nonsense transcripts homolog (yeast) protein-coding 4.152 0.639 0.453 3.145 2.996 1.997 5.344 5.366 4.120 3.723 4.657 3.412 5.188 5.743 5.101 6.464 3.838 6.610 0.802 0.494 0.710 0.652 0.322 0.203 5.528 906 chr13 47023625 47030492 + 0 NA intron (NM_016785, intron 8 of 8) RLTR17B_Mm|LTR|ERVK -12208 NM_175340 105193 Mm.25593 NM_175340 ENSMUSG00000044231 Nhlrc1 AI505271|B230309E09Rik|EPM2B NHL repeat containing 1 protein-coding 6.556 1.816 0.477 6.900 3.576 1.808 5.740 5.489 5.172 9.715 3.002 1.579 6.762 9.621 8.361 9.567 5.466 8.159 2.181 nan 1.391 2.111 1.496 1.640 12.909 2205 chr3 87886344 87887961 + 0 NA Intergenic Intergenic -1590 NM_033573 94315 Mm.35089 NM_033573 ENSMUSG00000004895 Prcc - papillary renal cell carcinoma (translocation-associated) protein-coding 2.945 4.396 2.618 3.780 4.470 3.712 3.728 2.384 2.832 3.326 1.711 1.282 4.952 6.101 5.252 4.100 3.324 5.916 nan 1.076 1.039 1.034 0.996 0.568 5.066 1349 chr16 64757223 64760028 + 0 NA Intergenic Intergenic 12314 NM_026273 67609 Mm.212157 NM_026273 ENSMUSG00000059920 4930453N24Rik AI649104|din RIKEN cDNA 4930453N24 gene protein-coding 7.617 2.129 0.790 3.455 4.184 2.183 4.106 5.938 5.458 4.268 4.900 3.238 7.263 6.406 5.915 7.136 4.123 7.886 0.957 0.768 0.639 0.671 0.280 0.436 5.242 2966 chr6 100012289 100014620 + 0 NA Intergenic B4|SINE|B4 273904 NM_019743 56353 Mm.321633 NM_019743 ENSMUSG00000072872 Rybp 2410018J24Rik|DEDAF|YEAF1 RING1 and YY1 binding protein protein-coding 2.882 0.761 0.421 2.288 2.779 1.396 1.616 4.408 2.850 3.993 0.544 0.889 2.601 5.187 nan 3.771 2.066 3.018 nan nan 0.515 1.221 1.351 1.070 2.162 177 chr1 167634385 167640126 + 0 NA intron (NM_001159731, intron 8 of 8) intron (NM_001159731, intron 8 of 8) 18990 NM_001159731 20183 Mm.3475 NM_009107 ENSMUSG00000015843 Rxrg Nr2b3 retinoid X receptor gamma protein-coding 5.540 7.268 2.052 5.711 2.222 1.368 1.440 2.390 nan 3.273 2.057 1.003 nan 2.102 2.454 2.829 1.557 3.497 0.978 2.157 1.814 nan nan 0.547 nan 3379 chr8 122409026 122410801 + 0 NA intron (NM_001029994, intron 10 of 17) intron (NM_001029994, intron 10 of 17) -12172 NM_145834 234836 Mm.222808 NM_145834 ENSMUSG00000046108 Il17c IL-17C interleukin 17C protein-coding 4.213 1.174 0.770 2.224 3.130 2.093 4.977 6.669 3.270 2.817 5.514 7.808 5.447 4.515 4.850 4.120 4.025 3.317 5.399 3.883 6.107 8.859 3.698 3.850 4.202 2213 chr3 88325804 88328414 + 0 NA intron (NM_020003, intron 4 of 5) intron (NM_020003, intron 4 of 5) 2086 NM_020003 56700 Mm.439922 NM_020003 ENSMUSG00000001418 Glmp 0610031J06Rik|AB027141|NCU-G1 glycosylated lysosomal membrane protein protein-coding 3.780 1.512 0.668 2.955 3.453 1.800 4.854 4.800 3.458 3.483 3.389 0.970 4.461 5.911 5.300 5.797 3.349 4.432 nan 1.207 1.302 2.225 0.660 0.434 7.442 373 chr10 128357759 128361979 + 0 NA intron (NM_026444, intron 9 of 10) intron (NM_026444, intron 9 of 10) 10168 NM_001081040 210582 Mm.296876 NM_001081040 ENSMUSG00000039914 Coq10a Gm1 coenzyme Q10A protein-coding 8.956 4.616 1.650 6.320 3.807 1.812 7.795 6.450 4.395 6.732 5.274 2.379 6.638 8.001 6.731 7.979 5.410 6.075 2.833 1.712 0.972 2.577 nan 1.446 9.281 2078 chr2 165420237 165428835 + 0 NA exon (NM_054055, exon 9 of 13) exon (NM_054055, exon 9 of 13) -24142 NM_029021 74614 Mm.72179 NM_029021 ENSMUSG00000027670 Ocstamp 4833422F24Rik|OC-STAMP osteoclast stimulatory transmembrane protein protein-coding 9.560 1.207 0.581 4.296 3.603 1.877 5.597 8.873 4.104 5.332 7.085 4.313 8.573 6.106 4.640 7.971 8.922 nan nan 0.837 0.723 0.870 1.038 0.708 13.018 3346 chr8 108698899 108705504 + 0 NA Intergenic Intergenic -12443 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 5.587 0.873 0.302 1.622 1.778 1.146 3.829 6.518 2.381 2.215 2.109 1.846 5.964 4.381 4.390 6.181 8.232 4.678 1.070 1.134 0.915 nan 0.783 0.644 4.226 773 chr12 74387100 74388612 + 0 NA Intergenic L1Md_T|LINE|L1 90382 NM_198866 386753 Mm.341686 NM_198866 ENSMUSG00000029878 Dbpht2 Spot2 DNA binding protein with his-thr domain protein-coding 8.384 8.224 3.232 8.232 1.887 0.747 3.526 4.238 4.516 6.615 5.006 2.351 4.570 4.930 6.595 7.926 3.835 7.108 5.389 1.363 1.325 5.751 2.436 1.873 12.129 1247 chr15 103043988 103047649 + 0 NA Intergenic B1_Mus1|SINE|Alu 11423 NM_013553 15423 Mm.1351 NM_013553 ENSMUSG00000075394 Hoxc4 Hox-3.5 homeobox C4 protein-coding 9.534 2.296 1.659 4.669 3.778 2.304 12.756 12.025 5.906 5.881 3.695 3.042 11.788 7.710 7.576 7.109 10.933 7.526 4.658 2.900 2.193 3.127 4.049 3.470 5.586 2940 chr6 92040409 92042751 + 0 NA intron (NM_172731, intron 5 of 20) MLT1G3|LTR|ERVL-MaLR -49838 NM_011630 22026 Mm.87062 NM_011630 ENSMUSG00000005893 Nr2c2 TAK1|Tr4|mKIAA4145 nuclear receptor subfamily 2, group C, member 2 protein-coding 8.374 13.861 3.505 11.245 5.854 4.271 11.163 10.961 5.169 18.773 6.699 3.944 9.123 11.814 10.487 14.244 7.869 10.229 6.400 1.634 3.260 7.294 3.824 6.291 17.479 22 chr1 33544239 33546246 + 0 NA intron (NM_008922, intron 7 of 13) intron (NM_008922, intron 7 of 13) 124552 NM_008922 19076 Mm.27705 NM_008922 ENSMUSG00000026134 Prim2 AI323589 DNA primase, p58 subunit protein-coding 2.890 0.596 0.706 2.097 2.656 1.768 2.327 0.784 2.616 2.269 0.353 0.303 3.333 3.877 2.460 3.087 1.594 4.305 0.808 0.632 0.488 0.800 1.069 0.380 3.586 205 chr1 181888815 181892674 + 0 NA Intergenic Intergenic -48343 NM_133815 98386 Mm.4538 NM_133815 ENSMUSG00000004880 Lbr AI505894|ic lamin B receptor protein-coding 7.242 3.105 0.980 6.544 3.510 2.368 6.298 6.228 4.695 11.353 3.651 2.790 6.598 7.484 7.203 11.032 6.995 6.766 4.139 2.237 2.065 5.106 3.564 4.008 9.543 3072 chr7 25083880 25085985 + 0 NA Intergenic Intergenic 7686 NM_175477 232976 Mm.41568 NM_175477 ENSMUSG00000045252 Zfp574 A630056B21Rik|Znf574 zinc finger protein 574 protein-coding 4.039 4.453 2.138 4.862 2.279 0.876 1.384 2.543 3.332 5.272 2.004 1.780 1.496 2.799 3.387 3.304 3.277 3.609 4.276 3.963 3.191 4.049 3.891 4.617 4.676 1309 chr16 22540944 22549918 + 0 NA intron (NM_001346673, intron 19 of 23) intron (NM_001346673, intron 19 of 23) -13247 NR_106170 102465887 NR_106170 ENSMUSG00000099071 Mir8095 Gm27566|mmu-mir-8095 microRNA 8095 ncRNA 5.618 2.568 1.067 4.520 3.739 1.977 4.406 4.362 4.283 5.998 1.030 1.080 7.396 7.648 6.021 8.155 5.834 7.619 1.049 1.038 0.887 2.439 0.826 0.617 9.673 1752 chr19 21218367 21222185 + 0 NA Intergenic L1Md_T|LINE|L1 -52002 NM_009551 22682 Mm.292405 NM_009551 ENSMUSG00000024750 Zfand5 2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216 zinc finger, AN1-type domain 5 protein-coding 2.087 1.247 0.528 1.883 1.846 1.059 3.527 7.107 2.822 2.105 3.932 2.490 2.289 2.817 3.559 3.082 3.599 nan 1.018 0.716 0.353 1.586 1.062 0.999 1.916 3213 chr8 3408589 3409608 + 0 NA intron (NM_133962, intron 1 of 19) intron (NM_133962, intron 1 of 19) 16090 NM_133962 102098 Mm.170461 NM_133962 ENSMUSG00000004568 Arhgef18 AI467246|D030053O22Rik rho/rac guanine nucleotide exchange factor (GEF) 18 protein-coding 1.653 0.411 0.565 1.574 1.952 1.823 1.977 3.719 2.508 1.167 6.750 2.097 2.357 3.142 2.104 2.148 1.900 3.330 0.847 0.337 0.468 0.642 0.636 0.600 1.926 1576 chr17 83749492 83752399 + 0 NA intron (NM_001171053, intron 4 of 13) Lx7|LINE|L1 44782 NM_001171052 116871 Mm.277668 NM_054082 ENSMUSG00000055817 Mta3 1110002J22Rik|mKIAA1266 metastasis associated 3 protein-coding 7.344 10.996 3.528 7.999 3.957 2.451 7.609 5.667 nan 9.233 4.732 3.645 6.327 7.862 8.234 10.871 6.073 7.257 3.070 2.303 1.652 3.817 3.379 2.779 10.512 3448 chr9 22207922 22210814 + 0 NA intron (NR_027981, intron 1 of 1) MMERVK9E_I-int|LTR|ERVK 4492 NR_027981 69862 Mm.488068 NM_001033151 ENSMUSG00000090925 1810064F22Rik - RIKEN cDNA 1810064F22 gene ncRNA 3.969 0.590 0.474 2.368 3.809 3.214 3.051 4.076 4.510 4.574 2.995 2.856 5.073 5.769 3.676 3.737 3.869 3.731 1.020 1.351 1.410 1.161 0.667 1.235 3.411 3296 chr8 81031758 81033833 + 0 NA Intergenic MERV1_I-int|LTR|ERV1 -17889 NM_027554 74841 Mm.246018 NM_027554 ENSMUSG00000038250 Usp38 4631402N15Rik|4833420O05Rik|AA536967|AU044701|AW544820|mKIAA1891 ubiquitin specific peptidase 38 protein-coding 10.212 18.419 4.450 14.343 3.800 2.521 8.009 11.206 5.935 14.308 7.862 4.499 9.609 10.597 12.582 15.612 6.910 11.687 6.086 3.639 3.326 12.954 2.892 3.726 20.572 2874 chr6 65619520 65623040 + 0 NA intron (NM_001001495, intron 7 of 7) L1MC|LINE|L1 30882 NM_001001495 414084 Mm.117558 NM_001001495 ENSMUSG00000044162 Tnip3 9030611K07Rik|ABIN-3|LIND TNFAIP3 interacting protein 3 protein-coding 2.568 2.075 0.527 4.628 2.745 1.608 2.310 4.165 2.072 3.754 0.764 1.511 2.197 5.066 4.986 3.603 1.677 7.425 0.490 0.429 0.897 0.762 0.491 0.422 5.512 2681 chr5 77356387 77359267 + 0 NA intron (NM_008048, intron 1 of 4) intron (NM_008048, intron 1 of 4) 47343 NM_153798 231329 Mm.273217 NM_153798 ENSMUSG00000029250 Polr2b Pol2rb|Rpb140|Rpb2 polymerase (RNA) II (DNA directed) polypeptide B protein-coding 5.629 0.931 0.842 4.192 4.025 1.749 5.653 4.854 3.403 4.823 2.228 1.566 5.720 6.415 5.808 5.095 6.470 nan 2.299 2.200 2.060 3.340 2.759 2.193 6.237 1622 chr18 39020686 39029764 + 0 NA intron (NM_175164, intron 1 of 22) intron (NM_175164, intron 1 of 22) 32080 NM_175164 71302 Mm.329396 NM_175164 ENSMUSG00000036452 Arhgap26 1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621 Rho GTPase activating protein 26 protein-coding 8.418 0.633 0.615 4.167 4.470 2.891 8.177 5.055 4.418 5.924 2.530 2.211 9.545 9.997 6.182 7.479 6.912 7.661 1.747 3.223 1.826 2.798 1.959 1.315 7.203 1260 chr16 10450001 10456598 + 0 NA Intergenic Intergenic -5949 NM_001013778 383103 Mm.325732 NM_001013778 ENSMUSG00000050908 Tvp23a Fam18a trans-golgi network vesicle protein 23A protein-coding 8.648 2.701 1.510 5.613 3.340 2.183 7.483 7.237 6.655 6.786 2.695 1.750 10.609 8.005 9.390 10.778 5.966 8.426 2.019 1.318 1.057 2.529 1.086 0.829 10.106 874 chr13 37596039 37602501 + 0 NA Intergenic IMPB_01|Satellite|Satellite -226768 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 5.475 nan 1.250 7.034 3.090 1.833 nan nan 4.413 nan 2.800 1.936 4.181 6.300 5.604 6.850 4.425 nan 3.817 3.261 2.951 7.179 1.636 1.241 nan 975 chr14 17920532 17923421 + 0 NA intron (NM_001113417, intron 2 of 9) B1F|SINE|Alu -59668 NM_009380 21834 Mm.32563 NM_009380 ENSMUSG00000021779 Thrb Nr1a2|T3R[b]|T3Rbeta|Thrb1|Thrb2|c-erbAbeta thyroid hormone receptor beta protein-coding 1.787 0.575 0.215 1.718 1.259 0.630 2.321 1.428 nan 1.689 0.374 0.452 3.487 4.096 4.480 4.165 1.834 3.360 1.024 0.822 0.331 nan 0.789 0.499 2.529 493 chr11 75335408 75337556 + 0 NA intron (NM_026653, intron 4 of 16) intron (NM_026653, intron 4 of 16) 11901 NM_001164223 68275 Mm.102574 NM_026653 ENSMUSG00000000751 Rpa1 5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa replication protein A1 protein-coding 2.652 1.064 0.668 3.428 2.534 0.894 1.900 1.661 2.679 3.070 0.747 0.660 2.573 4.130 3.024 4.055 2.002 5.121 0.601 0.314 nan 1.027 0.382 0.402 4.720 1708 chr19 3332952 3337242 + 0 NA intron (NM_013495, intron 1 of 18) intron (NM_013495, intron 1 of 18) 11796 NM_013495 12894 Mm.18522 NM_013495 ENSMUSG00000024900 Cpt1a C730027G07|CPTI|Cpt1 carnitine palmitoyltransferase 1a, liver protein-coding 2.071 3.960 1.331 3.284 1.592 0.961 2.364 5.531 nan 2.339 1.536 2.142 1.573 2.375 2.601 3.008 1.651 2.585 1.021 0.907 0.779 3.385 1.024 0.882 2.605 2220 chr3 89030431 89043605 + 0 NA intron (NM_138679, intron 9 of 26) B3A|SINE|B2 53013 NM_001083808 72296 Mm.27687 NM_028188 ENSMUSG00000041263 Rusc1 2210403N08Rik|AA408288|NESCA RUN and SH3 domain containing 1 protein-coding 6.186 2.392 0.822 5.714 4.792 2.285 12.539 6.821 4.576 7.308 3.912 2.546 8.425 11.457 7.251 nan 6.952 7.000 nan 3.221 1.888 5.110 4.984 3.013 12.868 1436 chr17 26547671 26567865 + 0 NA Intergenic L1_Mus3|LINE|L1 -3744 NM_026170 67458 Mm.30496 NM_026170 ENSMUSG00000001576 Ergic1 1200007D18Rik|maa-136 endoplasmic reticulum-golgi intermediate compartment (ERGIC) 1 protein-coding 2.800 1.986 0.843 2.102 0.684 0.427 4.106 3.374 1.352 2.043 1.448 0.966 3.798 3.132 4.028 nan 3.394 2.911 6.479 3.587 3.167 8.336 4.024 3.421 7.308 1911 chr2 79445436 79449544 + 0 NA Intergenic RLTR11A2|LTR|ERVK 9146 NM_010894 18012 Mm.4636 NM_010894 ENSMUSG00000034701 Neurod1 BETA2|BHF-1|Nd1|Neurod|bHLHa3 neurogenic differentiation 1 protein-coding 2.839 0.487 0.552 nan 0.521 0.349 3.843 5.556 3.708 2.162 4.284 4.495 3.456 1.828 2.141 4.430 3.343 2.568 0.900 0.756 0.656 0.725 0.696 0.350 nan 2856 chr6 38821146 38827245 + 0 NA intron (NM_001294144, intron 1 of 14) intron (NM_001294144, intron 1 of 14) 13116 NM_001136065 15258 Mm.23790 NM_010433 ENSMUSG00000061436 Hipk2 1110014O20Rik|B230339E18Rik|Stank homeodomain interacting protein kinase 2 protein-coding 7.209 5.686 2.151 7.676 4.669 3.034 7.768 5.809 4.880 9.712 3.450 2.497 7.242 9.973 6.525 8.920 5.997 8.548 nan 2.643 2.198 4.739 nan 3.154 8.663 2528 chr4 137062244 137063341 + 0 NA Intergenic RMER1B|Other|Other -14097 NM_198248 230848 Mm.31068 NM_198248 ENSMUSG00000060862 Zbtb40 BC059177|C230087D24|Gm571|mKIAA0478 zinc finger and BTB domain containing 40 protein-coding nan 0.344 0.250 2.110 2.176 2.966 3.602 2.158 nan 2.474 0.522 1.526 2.242 4.172 2.679 2.339 1.504 nan 0.667 0.318 0.715 0.534 nan 0.179 3.312 1591 chr17 88007936 88014107 + 0 NA exon (NM_001081034, exon 7 of 23) exon (NM_001081034, exon 7 of 23) 35971 NM_010830 17688 Mm.18210 NM_010830 ENSMUSG00000005370 Msh6 AU044881|AW550279|GTBP|Gtmbp mutS homolog 6 protein-coding 3.440 1.234 0.770 2.023 1.417 1.119 5.557 4.538 nan 2.626 5.220 3.759 2.968 3.960 5.490 5.444 4.688 2.922 5.941 3.899 2.970 5.840 5.043 3.646 5.224 1677 chr18 75421261 75425041 + 0 NA Intergenic Intergenic 55786 NM_001042660 17131 Mm.34407 NM_008543 ENSMUSG00000025880 Smad7 Madh7 SMAD family member 7 protein-coding 4.090 6.506 2.568 2.714 1.411 0.704 5.008 6.345 3.078 3.041 0.756 0.854 8.605 4.858 5.040 7.728 4.770 5.324 1.168 nan 0.324 1.057 0.323 0.407 7.663 2199 chr3 84159750 84161649 + 0 NA 3' UTR (NM_030706, exon 12 of 12) 3' UTR (NM_030706, exon 12 of 12) -4913 NM_029797 76915 Mm.274829 NM_029797 ENSMUSG00000033752 Mnd1 2610034E18Rik|AI591601|Gaj meiotic nuclear divisions 1 protein-coding 2.761 1.667 1.408 1.990 2.454 1.858 3.446 2.968 3.166 2.415 1.594 1.010 3.741 4.928 2.939 3.748 4.134 2.499 nan 1.399 1.638 1.034 1.895 1.313 2.395 2174 chr3 31005557 31007417 + 0 NA intron (NM_008857, intron 1 of 17) L1MA4|LINE|L1 10716 NM_008857 18759 Mm.291554 NM_008857 ENSMUSG00000037643 Prkci 2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165 protein kinase C, iota protein-coding 2.980 2.464 1.630 3.026 2.623 1.447 3.257 3.626 nan 2.957 1.720 1.625 4.367 4.607 3.692 4.621 2.817 4.166 3.453 1.478 1.263 3.402 1.254 1.430 3.044 1320 chr16 25672526 25674940 + 0 NA Intergenic Intergenic -10032 NM_001127259 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 4.388 0.791 0.472 1.841 1.658 0.727 5.395 3.057 3.620 3.052 0.968 0.890 5.808 4.620 3.036 3.846 3.200 4.809 0.749 0.773 0.254 0.425 nan 0.267 3.081 1026 chr14 70602803 70612550 + 0 NA intron (NM_013514, intron 11 of 14) intron (NM_013514, intron 11 of 14) -7841 NM_194345 239170 Mm.247582 NM_194345 ENSMUSG00000022095 Fam160b2 G430067P06Rik|Rai16 family with sequence similarity 160, member B2 protein-coding 9.379 2.897 0.880 6.428 3.215 1.588 7.765 14.201 6.692 9.858 4.400 3.446 6.202 8.246 7.385 10.283 5.206 9.527 2.053 nan 1.434 4.596 1.660 1.193 9.253 3002 chr6 124958104 124960485 + 0 NA 3' UTR (NM_012003, exon 8 of 8) 3' UTR (NM_012003, exon 8 of 8) 6103 NM_012003 26894 Mm.244536 NM_012003 ENSMUSG00000030127 Cops7a D6Ertd35e COP9 signalosome subunit 7A protein-coding 8.522 10.589 5.606 7.203 6.259 5.185 11.077 9.504 4.902 9.853 5.745 3.751 6.986 9.355 7.937 10.497 9.813 7.393 4.754 3.855 5.847 4.392 4.969 7.112 11.722 2752 chr5 124130281 124134805 + 0 NA intron (NM_011256, intron 10 of 24) intron (NM_011256, intron 10 of 24) 16435 NM_144509 65105 Mm.29430 NM_144509 ENSMUSG00000029404 Arl6ip4 AA408210|AA408365|Aip-4|Srp25 ADP-ribosylation factor-like 6 interacting protein 4 protein-coding 7.891 5.637 2.209 9.887 6.515 4.962 7.257 7.323 5.690 10.099 7.417 3.913 6.058 8.594 nan 7.488 5.963 7.578 5.230 3.190 3.310 4.819 nan 4.918 nan 1390 chr16 97820948 97823574 + 0 NA intron (NM_144789, intron 6 of 23) intron (NM_144789, intron 6 of 23) 28966 NM_144789 114604 Mm.328741 NM_144789 ENSMUSG00000014039 Prdm15 C21orf83|E130018M06Rik|ORF62|Zfp298 PR domain containing 15 protein-coding 2.333 0.579 0.111 1.400 1.207 0.739 2.024 5.259 2.449 2.016 1.909 1.527 4.076 3.328 3.936 4.342 1.780 3.753 nan 0.830 0.413 2.275 0.963 0.520 3.258 3113 chr7 35895248 35921799 + 0 NA Intergenic B3|SINE|B2 -105534 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 6.664 1.433 0.663 5.842 3.705 2.220 10.330 11.891 5.429 9.100 3.062 2.171 11.117 12.589 9.382 9.118 7.259 8.323 2.122 0.996 1.138 1.809 1.904 1.807 12.425 1993 chr2 148162876 148164852 + 0 NA Intergenic L1_Mus1|LINE|L1 -116895 NM_010446 15376 Mm.938 NM_010446 ENSMUSG00000037025 Foxa2 HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b forkhead box A2 protein-coding 3.360 0.745 0.173 4.426 1.381 0.342 0.909 1.302 3.056 1.846 0.953 1.744 0.682 2.050 1.572 2.215 1.290 3.321 nan 0.906 0.154 1.857 0.659 0.390 1.361 1893 chr2 52457253 52459062 + 0 NA intron (NM_001285426, intron 9 of 13) intron (NM_001285426, intron 9 of 13) -33283 NM_182994 75423 Mm.314378 NM_182994 ENSMUSG00000036093 Arl5a 2410015N24Rik|2810410P22Rik|AA408731|AW610751|Arl5|T25534 ADP-ribosylation factor-like 5A protein-coding 3.299 0.808 0.429 2.532 3.185 1.364 4.751 7.492 2.914 3.949 0.699 0.726 4.457 5.218 5.850 7.860 7.695 2.925 2.259 1.401 1.457 2.830 1.611 0.789 4.668 3544 chr9 106268896 106275330 + 0 NA Intergenic B1_Mus2|SINE|Alu -8948 NM_027354 70235 Mm.23054 NM_027354 ENSMUSG00000023345 Poc1a 2510040D07Rik|Wdr51a|cha POC1 centriolar protein A protein-coding 8.736 8.866 1.921 10.493 4.082 2.432 8.683 7.590 nan 10.288 10.609 4.839 5.650 9.270 7.736 9.086 3.772 9.702 3.300 2.360 2.741 5.237 2.131 2.489 14.948 1469 chr17 28556423 28559764 + 0 NA TTS (NR_105935) TTS (NR_105935) 408 NR_105935 102465585 NR_105935 ENSMUSG00000099152 Mir6969 Gm27305|mmu-mir-6969 microRNA 6969 ncRNA 9.976 6.346 2.044 11.313 5.524 4.239 3.993 6.159 5.841 6.887 7.950 2.548 6.240 8.333 5.208 5.473 5.545 7.607 1.578 1.028 0.883 2.089 0.841 0.825 7.770 1499 chr17 35195437 35197245 + 0 NA TTS (NM_008518) TTS (NM_008518) 1369 NR_105939 102465588 NR_105939 ENSMUSG00000098291 Mir6973a Gm27967|mmu-mir-6973a microRNA 6973a ncRNA 7.580 5.011 1.570 6.021 4.078 1.614 10.016 5.820 2.607 4.170 2.314 0.721 4.869 8.883 8.172 9.998 7.049 6.301 2.070 2.549 1.357 3.099 2.918 1.514 15.026 1646 chr18 55089009 55093944 + 0 NA Intergenic Intergenic -101296 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 5.199 nan 0.741 3.827 4.590 1.939 3.769 2.596 3.934 4.584 2.926 2.795 7.403 5.701 3.569 6.927 5.212 5.510 nan 1.947 0.904 nan 2.850 1.597 4.592 3010 chr6 125361640 125365593 + 0 NA exon (NM_198604, exon 16 of 17) exon (NM_198604, exon 16 of 17) 13893 NM_011609 21937 Mm.1258 NM_011609 ENSMUSG00000030341 Tnfrsf1a CD120a|FPF|TNF-R|TNF-R-I|TNF-R1|TNF-R55|TNF-alphaR1|TNFAR|TNFR60|TNFRI|TNFRp55|TNFalpha-R1|Tnfr-2|Tnfr1|p55|p55-R tumor necrosis factor receptor superfamily, member 1a protein-coding 2.453 nan 0.644 1.108 3.414 2.526 4.553 5.285 2.839 1.835 1.637 4.916 3.475 2.150 2.782 4.673 3.049 2.598 1.123 1.610 1.433 1.226 1.253 1.263 1.530 3572 chrX 71541905 71543299 + 0 NA Intergenic Intergenic -13315 NM_001293624 15354 Mm.336087 NM_008253 ENSMUSG00000015217 Hmgb3 Hmg2a|Hmg4 high mobility group box 3 protein-coding 5.050 5.651 1.392 4.277 2.119 1.408 3.256 4.039 2.578 4.044 3.495 1.934 2.708 4.766 4.012 6.148 1.760 3.623 2.734 1.502 1.527 4.010 1.863 1.103 7.221 400 chr11 16902717 16909205 + 0 NA intron (NM_207655, intron 22 of 27) intron (NM_207655, intron 22 of 27) 45321 NR_110421 72735 Mm.268598 NR_015469 Eldr 2810442I21Rik|4930500E12Rik|Fabl Egfr long non-coding downstream RNA ncRNA nan 9.273 6.101 2.546 1.521 0.853 1.247 1.069 2.019 2.072 1.803 0.843 1.202 1.792 1.697 2.211 1.917 nan 0.839 1.472 1.081 0.443 0.484 0.467 2.045 534 chr11 93994479 93997112 + 0 NA promoter-TSS (NM_001199204) promoter-TSS (NM_001199204) -296 NM_001199203 70834 Mm.260737 NM_027569 ENSMUSG00000020859 Spag9 3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1 sperm associated antigen 9 protein-coding 6.885 nan 0.380 5.073 1.721 0.868 3.622 6.342 3.559 5.011 4.128 2.440 4.516 6.429 5.815 8.710 4.319 5.563 6.539 4.045 2.954 9.465 nan nan 10.046 746 chr12 56560170 56561524 + 0 NA Intergenic L1_Mus3|LINE|L1 -23939 NM_009385 21869 Mm.89972 NM_009385 ENSMUSG00000001496 Nkx2-1 AV026640|Nkx2.1|T/EBP|Titf1|Ttf-1 NK2 homeobox 1 protein-coding 4.625 2.224 1.065 3.744 2.110 2.269 3.066 4.982 2.668 2.359 2.555 2.370 2.929 4.473 3.388 3.772 2.601 3.931 2.350 2.518 1.728 2.636 3.221 1.891 3.144 919 chr13 53069491 53083889 + 0 NA Intergenic L1_Mur3|LINE|L1 -95651 NM_017373 18030 Mm.136604 NM_017373 ENSMUSG00000056749 Nfil3 AV225605|E4BP4 nuclear factor, interleukin 3, regulated protein-coding nan 3.729 1.402 5.779 7.177 4.614 4.354 6.300 4.048 9.038 3.039 1.987 5.645 nan 6.036 nan 3.707 nan 0.908 0.940 0.852 2.093 0.735 0.658 6.522 744 chr12 56543158 56546681 + 0 NA Intergenic Intergenic -8011 NM_009385 21869 Mm.89972 NM_009385 ENSMUSG00000001496 Nkx2-1 AV026640|Nkx2.1|T/EBP|Titf1|Ttf-1 NK2 homeobox 1 protein-coding 6.809 4.582 2.438 6.734 4.359 3.097 3.253 5.919 3.295 3.435 2.851 1.953 3.087 5.558 3.739 4.170 3.395 4.535 4.307 3.068 2.507 2.812 5.199 3.884 5.005 1268 chr16 10968307 10969606 + 0 NA intron (NM_019980, intron 1 of 3) RSINE1|SINE|B4 24165 NM_019980 56722 Mm.294753 NM_019980 ENSMUSG00000022500 Litaf 3222402J11Rik|C85531|N4WBP3|TBX1 LPS-induced TN factor protein-coding 5.544 6.430 1.556 3.397 1.435 0.750 2.630 2.785 2.587 3.750 1.596 2.298 4.220 3.565 3.070 5.100 2.116 4.499 1.053 0.665 0.849 1.694 0.834 0.771 6.656 633 chr11 102463366 102468818 + 0 NA intron (NM_010575, intron 7 of 29) intron (NM_010575, intron 7 of 29) 3791 NM_010575 16399 Mm.26646 NM_010575 ENSMUSG00000034664 Itga2b AI172977|CD41|CD41B|GpIIb|alphaIIb integrin alpha 2b protein-coding 4.158 nan 0.683 2.525 1.676 1.293 5.088 1.997 1.902 3.950 1.823 1.288 3.060 5.200 5.226 6.166 5.624 2.651 0.484 nan 0.725 0.530 nan nan 7.964 1372 chr16 92649782 92659459 + 0 NA intron (NM_001111023, intron 3 of 5) MIRc|SINE|MIR 42709 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 4.935 nan 0.728 2.616 3.887 2.327 5.538 4.563 3.653 3.800 4.492 2.533 7.357 6.622 4.454 6.166 3.633 nan 1.217 1.118 1.174 nan 0.943 0.889 4.947 151 chr1 137042903 137044694 + 0 NA Intergenic ID_B1|SINE|B4 -83350 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 10.199 12.401 2.427 12.213 4.234 2.349 5.372 5.123 4.955 15.392 7.290 3.861 6.673 8.246 8.941 13.118 4.065 9.398 5.325 1.930 2.736 6.956 2.933 4.162 17.172 1977 chr2 130952259 130956482 + 0 NA intron (NM_009730, intron 6 of 28) PB1D10|SINE|Alu 47875 NM_009730 11990 Mm.119936 NM_009730 ENSMUSG00000027312 Atrn AW558010|Mgca|mg attractin protein-coding 3.862 1.450 0.406 6.073 1.715 0.997 1.983 2.233 2.663 3.344 1.091 1.337 1.382 1.830 1.971 nan 1.627 3.929 nan 1.211 0.936 1.023 1.089 0.977 3.528 2023 chr2 156082286 156085256 + 0 NA intron (NM_170590, intron 1 of 15) BC1_Mm|scRNA|scRNA 18558 NM_139151 245865 Mm.330713 NM_139151 ENSMUSG00000038180 Spag4 1700041K21Rik|MNCb-0953|Sun4|mKIAA4118 sperm associated antigen 4 protein-coding 6.886 6.187 3.651 3.611 4.293 2.456 4.016 4.068 3.649 4.719 2.526 1.387 3.650 4.939 4.005 5.227 3.539 nan 1.972 1.977 1.203 1.643 0.933 0.836 4.739 3445 chr9 22029150 22031656 + 0 NA intron (NM_010487, intron 3 of 6) RMER15|LTR|ERVL 21620 NM_010487 15571 Mm.390167 NM_010487 ENSMUSG00000003410 Elavl3 2600009P04Rik|Huc|PLE21|mHuC ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C) protein-coding 7.177 6.962 4.439 8.025 5.706 4.404 3.951 5.795 5.657 8.190 6.062 5.950 3.911 6.580 3.968 4.486 5.316 5.337 3.459 3.086 3.388 2.930 3.081 4.107 8.998 1669 chr18 69503369 69511152 + 0 NA intron (NM_013685, intron 5 of 19) intron (NM_013685, intron 5 of 19) 161539 NM_001083967 21413 Mm.4269 NM_013685 ENSMUSG00000053477 Tcf4 5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19 transcription factor 4 protein-coding 6.069 3.073 1.575 6.026 3.787 2.128 2.481 3.210 4.630 6.242 6.203 4.313 4.067 3.852 3.823 3.953 3.709 4.175 5.381 5.533 4.337 5.636 5.396 5.105 2.988 1825 chr2 25832737 25834660 + 0 NA Intergenic RMER17C|LTR|ERVK 10545 NM_029959 77704 Mm.159974 NM_029959 ENSMUSG00000023210 Lcn9 9230102I19Rik lipocalin 9 protein-coding 3.152 3.701 2.018 3.573 3.741 2.958 1.588 1.766 3.181 3.101 1.658 1.048 3.574 4.047 1.981 2.636 1.788 4.376 2.853 1.698 1.784 1.763 2.192 3.302 3.005 1285 chr16 17011029 17013864 + 0 NA intron (NM_011949, intron 1 of 8) B1_Mur2|SINE|Alu 29064 NM_001038663 26413 Mm.196581 NM_011949 ENSMUSG00000063358 Mapk1 9030612K14Rik|AA407128|AU018647|C78273|ERK|Erk2|MAPK2|PRKM2|Prkm1|p41mapk|p42mapk mitogen-activated protein kinase 1 protein-coding 6.599 1.433 2.032 3.665 7.110 5.370 2.623 3.472 4.892 4.336 1.856 2.772 5.692 5.118 3.672 4.700 5.026 5.559 1.344 1.404 0.817 0.562 1.205 0.983 3.992 1952 chr2 119583372 119584193 + 0 NA intron (NM_019769, intron 5 of 6) PB1|SINE|Alu -10514 NR_027832 66602 Mm.379181 NR_015473 ENSMUSG00000085438 1700020I14Rik 1190006L01Rik|4933437I03Rik|AI451541|AI585852|AW538376|AW558897|Cyrano RIKEN cDNA 1700020I14 gene ncRNA 2.005 5.581 1.732 3.624 1.899 1.127 2.151 3.970 3.418 8.015 0.477 2.228 2.253 1.610 3.553 6.027 3.028 4.033 4.529 1.733 5.512 6.415 5.986 9.409 7.020 287 chr10 79545602 79551045 + 0 NA intron (NM_001316699, intron 6 of 13) intron (NM_001316699, intron 6 of 13) 6805 NM_001316699 70427 Mm.334193 NM_027422 ENSMUSG00000042570 Mier2 2700087H15Rik|mKIAA1193 MIER family member 2 protein-coding 4.549 2.656 1.077 5.373 2.680 2.092 3.522 2.936 2.956 3.359 4.973 1.971 2.268 3.767 4.040 4.023 2.048 4.639 nan 1.309 1.636 4.854 1.303 1.559 5.485 3309 chr8 88015775 88016927 + 0 NA Intergenic Intergenic -56756 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 4.968 4.128 1.184 4.699 1.843 1.333 2.613 7.022 nan 5.079 2.347 1.568 4.079 5.217 6.501 8.773 6.003 5.082 3.002 1.828 1.839 5.820 2.621 1.840 9.608 475 chr11 70500322 70501931 + 0 NA Intergenic B4|SINE|B4 -4148 NM_029360 75604 Mm.24400 NM_029360 ENSMUSG00000018919 Tm4sf5 2010003F10Rik|AI323987 transmembrane 4 superfamily member 5 protein-coding 9.213 15.785 4.161 12.501 5.424 2.733 6.604 6.866 6.227 11.356 6.672 4.053 5.539 8.493 8.568 10.452 5.790 9.591 7.566 4.856 4.798 8.875 5.131 5.530 13.478 3594 chrX 137070107 137079205 + 0 NA intron (NM_146261, intron 5 of 5) intron (NM_146261, intron 5 of 5) 25062 NM_146261 245622 Mm.260106 NM_146261 ENSMUSG00000042595 Fam199x - family with sequence similarity 199, X-linked protein-coding 7.177 5.981 1.700 7.701 3.492 2.394 3.843 5.655 4.825 7.012 4.672 1.889 5.678 7.076 5.311 6.704 3.721 6.710 1.355 1.591 0.943 2.308 1.017 0.703 6.480 2595 chr4 151594367 151605234 + 0 NA intron (NM_001081557, intron 3 of 23) B4|SINE|B4 261968 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 2.452 nan 0.617 2.929 1.350 0.804 1.359 3.390 2.162 3.278 1.381 0.661 4.573 4.535 3.181 4.843 3.213 2.221 1.604 1.049 0.709 2.709 0.601 0.550 9.859 932 chr13 55793493 55795431 + 0 NA intron (NM_001252488, intron 2 of 7) L1MA4A|LINE|L1 9883 NM_001252487 76856 Mm.159795 NM_029772 ENSMUSG00000021499 Catsper3 4921522D01Rik|CACRC cation channel, sperm associated 3 protein-coding 6.967 16.538 5.357 11.195 5.667 7.873 7.437 6.111 6.163 14.809 6.716 4.412 6.655 7.597 8.897 8.959 4.458 9.621 6.521 2.365 5.126 7.590 4.700 8.851 13.323 1549 chr17 56969010 56970396 + 0 NA intron (NM_175731, intron 1 of 5) MYSERV-int|LTR|ERVK 12423 NM_175731 171168 Mm.218784 NM_175731 ENSMUSG00000045019 Acer1 2310024P18Rik|AI662009|Alkcdase1|Asah3|Cer1 alkaline ceramidase 1 protein-coding 2.610 4.162 0.816 5.398 2.505 1.914 2.070 1.960 2.201 5.138 2.879 1.363 1.407 4.365 4.125 4.405 2.103 3.918 3.512 1.204 0.955 2.365 2.997 2.802 8.322 1959 chr2 119927631 119932226 + 0 NA intron (NM_001164274, intron 9 of 22) intron (NM_001164274, intron 9 of 22) 32700 NM_013720 29808 Mm.87532 NM_013720 ENSMUSG00000033943 Mga AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5 MAX gene associated protein-coding 4.093 1.835 0.857 4.889 2.425 1.389 3.197 3.081 3.430 2.886 2.254 1.764 5.315 4.906 4.445 5.702 4.855 5.916 0.853 1.010 0.662 1.007 0.837 0.419 4.639 515 chr11 85010168 85014942 + 0 NA intron (NM_001029934, intron 26 of 33) B3A|SINE|B2 54801 NM_007607 12351 Mm.1641 NM_007607 ENSMUSG00000000805 Car4 AW456718|Ca4 carbonic anhydrase 4 protein-coding nan 7.934 7.438 nan 0.421 0.468 0.579 0.692 0.796 0.610 0.458 0.526 0.337 0.517 0.513 0.588 0.955 0.554 2.267 1.937 1.359 nan 2.331 2.002 nan 1525 chr17 47276957 47279574 + 0 NA intron (NM_001097623, intron 4 of 19) B1_Mus1|SINE|Alu 48035 NM_172622 224829 Mm.260989 NM_172622 Trerf1 9430096I18Rik|AI429294|B830015H24|RAPA|Trep-132|Trep132 transcriptional regulating factor 1 protein-coding 8.057 12.068 7.195 6.053 2.361 1.180 10.633 5.306 2.809 4.186 4.246 4.019 4.293 6.181 5.180 4.189 6.554 2.167 7.400 5.974 4.261 7.356 6.671 7.698 5.543 2545 chr4 141507387 141511133 + 0 NA intron (NM_001347235, intron 3 of 14) B1_Mur3|SINE|Alu 29337 NM_001347235 56381 Mm.299906 NM_019763 ENSMUSG00000040761 Spen Mint|mKIAA0929 SPEN homolog, transcriptional regulator (Drosophila) protein-coding 2.964 8.895 4.371 4.003 3.132 2.170 2.024 2.220 nan 4.019 1.213 0.930 2.509 3.702 2.424 3.359 1.722 nan 2.472 1.154 1.653 3.573 nan 1.430 2.914 1242 chr15 102401189 102404362 + 0 NA Intergenic Intergenic -3541 NM_013672 20683 Mm.4618 NM_013672 ENSMUSG00000001280 Sp1 1110003E12Rik|AA450830|AI845540|Sp1-1 trans-acting transcription factor 1 protein-coding 5.869 0.680 0.433 2.864 4.362 3.659 9.016 9.664 5.165 4.440 4.455 4.881 10.887 7.397 6.060 4.818 7.170 6.245 1.943 1.096 0.766 0.870 1.751 1.998 2.669 2761 chr5 134577057 134579419 + 0 NA Intergenic L1Md_F2|LINE|L1 -4452 NM_020022 19718 Mm.332739 NM_020022 ENSMUSG00000023104 Rfc2 2610008M13Rik|40kDa|AI326953|Recc2 replication factor C (activator 1) 2 protein-coding 4.275 1.622 0.592 1.799 3.372 1.609 4.505 4.105 2.734 3.003 2.923 2.666 3.134 4.554 5.420 3.042 2.248 3.809 1.491 1.057 0.989 1.496 nan 1.257 2.935 2996 chr6 122773181 122777532 + 0 NA Intergenic Intergenic -32611 NM_011401 20527 Mm.395108 NM_011401 ENSMUSG00000003153 Slc2a3 AA408729|AL023014|AL024341|AU040424|C78366|Glut-3|Glut3 solute carrier family 2 (facilitated glucose transporter), member 3 protein-coding 4.137 3.069 2.159 3.847 5.457 3.670 7.353 7.479 3.196 3.871 3.093 2.061 4.963 8.760 6.001 8.583 5.855 4.882 2.646 2.446 1.982 2.246 nan 2.556 6.580 138 chr1 135132934 135135418 + 0 NA intron (NM_177081, intron 2 of 9) intron (NM_177081, intron 2 of 9) 1451 NM_177081 320139 Mm.258388 NM_177081 ENSMUSG00000031506 Ptpn7 BPTP-4|C920001D21Rik|HEPTP|LC-PTP|LPTP protein tyrosine phosphatase, non-receptor type 7 protein-coding 4.611 1.559 0.695 nan 1.988 1.348 5.965 4.145 1.978 2.742 2.041 1.604 4.806 4.784 4.145 7.096 4.232 3.420 1.000 1.058 0.656 0.488 1.121 0.675 5.586 1107 chr15 59279149 59280881 + 0 NA Intergenic L2c|LINE|L2 -26933 NR_045613 100416830 Mm.490788 NR_045613 ENSMUSG00000098528 Zfp572 4930472F24Rik zinc finger protein 572 pseudo 5.030 1.104 0.298 3.763 2.519 1.266 5.283 8.951 3.991 4.005 4.387 3.019 10.798 7.358 8.364 6.749 6.581 5.624 3.144 0.909 0.571 3.103 2.840 1.587 4.086 1208 chr15 99720353 99722788 + 0 NA intron (NM_010271, intron 5 of 7) B1_Mur1|SINE|Alu 3977 NM_010271 14555 Mm.252391 NM_010271 ENSMUSG00000023019 Gpd1 AI747587|Gdc-1|Gdc1|mKIAA4010 glycerol-3-phosphate dehydrogenase 1 (soluble) protein-coding 6.225 3.377 2.552 4.891 4.734 3.947 6.582 11.377 5.067 4.556 3.319 3.577 10.534 6.906 6.302 6.012 7.607 5.230 6.510 4.668 5.554 5.571 6.223 7.959 5.518 1874 chr2 36125780 36128295 + 0 NA intron (NM_001159635, intron 3 of 5) intron (NM_001159635, intron 3 of 5) -9361 NM_026422 67871 Mm.378232 NM_026422 ENSMUSG00000026887 Mrrf 2400002D02Rik|MRFF|MTRRF|RRF mitochondrial ribosome recycling factor protein-coding 4.725 0.529 0.413 2.752 1.423 0.473 2.019 3.008 2.066 3.488 1.105 0.437 4.523 4.758 3.225 4.175 3.458 3.000 0.571 0.344 0.320 0.641 0.278 0.303 5.234 3499 chr9 62920690 62923686 + 0 NA intron (NM_019663, intron 4 of 13) MER103C|DNA|hAT-Charlie 58691 NM_019663 56469 Mm.431253 NM_019663 ENSMUSG00000032405 Pias1 2900068C24Rik|Ddxbp1|GBP protein inhibitor of activated STAT 1 protein-coding 3.583 0.953 0.621 2.158 1.553 1.088 1.870 nan 2.327 2.887 1.115 0.746 2.064 2.582 2.041 3.111 1.725 4.111 0.943 0.744 0.706 0.528 1.161 0.602 5.662 1803 chr19 53255473 53261191 + 0 NA Intergenic Intergenic -3127 NR_036590 69319 Mm.57452 NR_036590 1700001K23Rik - RIKEN cDNA 1700001K23 gene ncRNA 4.378 nan 1.530 5.904 3.957 2.213 2.519 nan 4.421 4.225 3.186 3.222 3.461 3.501 2.687 4.828 5.611 4.850 0.720 1.890 1.211 0.726 1.374 1.200 nan 3542 chr9 106209827 106212137 + 0 NA intron (NM_011876, intron 2 of 8) ID_B1|SINE|B4 7874 NM_011876 23999 Mm.274346 NM_011876 ENSMUSG00000023277 Twf2 A6-related|AU014993|Ptk9l|Ptk9r twinfilin actin binding protein 2 protein-coding 3.668 2.657 1.198 4.724 1.457 0.430 1.461 1.698 nan 2.709 5.144 1.761 2.206 3.016 2.263 2.739 1.423 4.243 0.709 0.757 0.247 0.843 0.456 0.163 4.420 724 chr12 33852635 33862939 + 0 NA Intergenic L1Md_F2|LINE|L1 -70638 NM_033522 114712 Mm.204643 NM_033522 ENSMUSG00000046518 Ferd3l Mnato3|N-twist|Nato|Nato3|Ntwist|Ptfb|bHLHa31|fer3 Fer3-like (Drosophila) protein-coding 9.872 7.687 3.091 5.167 5.381 3.130 6.990 6.035 nan 6.879 4.002 1.611 7.842 9.241 7.123 8.755 6.987 7.578 nan 0.873 0.787 1.047 0.779 0.663 12.209 1201 chr15 98747129 98749436 + 0 NA intron (NM_007478, intron 1 of 4) intron (NM_007478, intron 1 of 4) 14836 NM_007478 11842 Mm.221298 NM_007478 ENSMUSG00000051853 Arf3 5430400P17Rik|AI854770 ADP-ribosylation factor 3 protein-coding 7.588 9.542 5.106 7.594 6.721 6.528 8.250 12.296 3.920 6.526 4.607 4.277 7.867 8.903 6.295 7.874 9.471 5.493 4.824 4.420 5.930 5.208 4.722 5.450 7.931 519 chr11 85165765 85167423 + 0 NA Intergenic B2_Mm1t|SINE|B2 -4502 NM_028589 73634 Mm.48850 NM_028589 ENSMUSG00000018479 1700125H20Rik - RIKEN cDNA 1700125H20 gene protein-coding 11.000 5.581 3.107 6.856 8.876 4.001 5.914 8.206 4.521 8.214 7.173 3.704 5.140 11.727 5.093 6.729 6.228 6.280 4.311 6.968 3.553 4.159 6.585 4.318 6.989 3534 chr9 96760409 96764815 + 0 NA Intergenic T-rich|Low_complexity|Low_complexity -2950 NR_102295 319707 Mm.392191 NR_102293 ENSMUSG00000101581 C430002N11Rik - RIKEN cDNA C430002N11 gene ncRNA 3.984 1.020 0.636 3.962 1.946 1.046 4.702 5.400 5.154 5.802 3.426 1.858 5.356 7.179 6.784 7.142 4.770 5.181 2.089 1.702 1.264 2.001 1.102 0.986 5.651 1195 chr15 89144672 89146615 + 0 NA intron (NM_011161, intron 7 of 11) intron (NM_011161, intron 7 of 11) 3963 NM_011161 19094 Mm.91969 NM_011161 ENSMUSG00000053137 Mapk11 P38b|Prkm11|Sapk2|Sapk2b|p38-2|p38beta|p38beta2 mitogen-activated protein kinase 11 protein-coding 6.882 8.144 2.266 7.146 1.959 1.451 6.484 8.801 2.682 6.413 4.784 2.202 5.123 5.624 6.634 7.452 3.774 6.229 nan 1.154 1.948 3.650 1.555 1.614 11.511 3300 chr8 84924992 84927651 + 0 NA intron (NM_019945, intron 7 of 25) intron (NM_019945, intron 7 of 25) 11032 NM_019945 56527 Mm.154614 NM_019945 ENSMUSG00000053693 Mast1 9430008B02Rik|SAST|SAST170 microtubule associated serine/threonine kinase 1 protein-coding 9.952 5.499 2.537 6.619 2.889 1.004 5.552 7.029 4.975 5.062 6.083 1.474 7.813 7.007 7.749 8.662 7.062 7.425 nan 1.271 0.645 1.177 0.409 0.429 11.909 17 chr1 20824741 20827802 + 0 NA Intergenic Intergenic -6058 NM_008563 17215 Mm.4502 NM_008563 ENSMUSG00000041859 Mcm3 AL033361|C80350|Mcmd|P1|p1.m minichromosome maintenance complex component 3 protein-coding 12.324 0.470 0.196 3.466 7.176 4.257 7.114 4.370 5.117 7.405 2.042 1.476 8.886 10.885 6.363 11.638 9.671 6.854 0.638 0.842 0.734 0.454 0.679 0.492 8.433 2451 chr4 120077366 120080015 + 0 NA intron (NM_010657, intron 3 of 8) intron (NM_010657, intron 3 of 8) -82516 NM_007902 13615 Mm.284855 NM_007902 ENSMUSG00000028635 Edn2 ET-2|PPET2|VIC endothelin 2 protein-coding 6.454 7.477 2.973 6.894 4.964 3.852 6.412 4.509 4.870 12.218 4.174 3.440 7.011 7.105 6.149 7.764 5.009 8.113 7.221 2.874 5.102 8.541 4.630 7.283 13.484 1327 chr16 30036582 30039113 + 0 NA intron (NR_045878, intron 2 of 3) intron (NR_045878, intron 2 of 3) 1632 NR_045878 71528 Mm.297640 NR_045878 9030404E10Rik - RIKEN cDNA 9030404E10 gene ncRNA 6.194 5.216 2.405 3.065 2.747 1.692 3.830 3.108 3.163 4.627 1.484 1.147 4.994 9.345 5.112 6.955 3.608 6.800 0.713 0.785 0.542 0.878 nan 1.219 7.104 3337 chr8 95751745 95754580 + 0 NA promoter-TSS (NR_106041) promoter-TSS (NR_106041) 52 NR_106041 102465650 NR_106041 ENSMUSG00000106145 Mir7073 mmu-mir-7073 microRNA 7073 ncRNA 7.109 0.206 0.232 3.316 2.659 1.689 4.843 8.574 2.936 4.794 1.742 2.083 8.359 8.197 6.067 7.459 8.274 6.280 1.394 1.209 0.622 0.656 1.503 1.113 7.388 2192 chr3 62237467 62240588 + 0 NA Intergenic Intergenic -99750 NM_001081295 622434 Mm.153974 NM_001081295 ENSMUSG00000036885 Arhgef26 4631416L12Rik|8430436L14Rik|AI303572|AW491953|SGEF Rho guanine nucleotide exchange factor (GEF) 26 protein-coding 4.883 0.484 0.276 2.815 3.838 3.009 7.946 2.142 3.291 3.202 1.518 0.791 6.078 5.659 2.920 nan 3.666 5.614 0.922 1.377 0.997 1.201 1.222 0.822 3.414 1274 chr16 11170737 11176435 + 0 NA intron (NM_145931, intron 1 of 22) intron (NM_145931, intron 1 of 22) 2807 NR_027502 106205 Mm.226860 NM_145931 ENSMUSG00000037965 Zc3h7a A430104C18Rik|AI447294|AW556219|HSPC055|Zc3h7|Zc3hdc7 zinc finger CCCH type containing 7 A protein-coding 11.263 5.558 2.668 5.590 5.733 3.529 8.399 13.181 3.658 5.905 4.332 2.900 8.306 9.931 7.508 9.841 7.043 7.124 3.818 2.484 2.207 3.104 3.295 2.968 10.692 2667 chr5 53629892 53637558 + 0 NA intron (NM_001080928, intron 2 of 10) intron (NM_001080928, intron 2 of 10) 43239 NM_001080927 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 1.918 0.632 0.247 1.082 1.050 0.656 1.712 2.056 1.629 1.401 2.039 1.361 1.963 2.524 2.254 nan 1.751 1.728 4.133 1.975 1.202 5.751 2.574 1.812 1.959 110 chr1 121976626 121982331 + 0 NA Intergenic (TTCC)n|Simple_repeat|Simple_repeat -411498 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 9.764 0.764 0.962 3.795 6.884 5.056 6.105 6.830 3.899 4.800 1.355 1.371 5.514 7.143 4.060 7.230 5.721 5.478 0.732 0.940 0.881 0.595 0.897 0.668 5.658 333 chr10 107598220 107600941 + 0 NA intron (NM_001081432, intron 26 of 44) AT_rich|Low_complexity|Low_complexity -104851 NM_008657 17878 Mm.11 NM_008657 ENSMUSG00000035923 Myf6 MRF4|bHLHc4|herculin myogenic factor 6 protein-coding 15.454 18.785 5.841 15.949 8.362 6.457 11.672 11.336 nan 18.691 10.277 5.476 10.050 12.652 12.459 12.861 9.740 13.659 7.571 4.786 4.798 8.951 5.885 6.365 22.899 1995 chr2 148663400 148665806 + 0 NA Intergenic MERVK26-int|LTR|ERVK -8012 NM_019761 56488 Mm.34663 NM_019761 ENSMUSG00000036992 Nxt1 1110001N02Rik NTF2-related export protein 1 protein-coding 4.970 0.589 0.265 2.271 2.109 1.347 5.674 2.371 3.307 5.070 0.484 0.418 5.197 5.240 5.212 6.295 6.879 3.927 nan 0.295 0.162 0.220 0.265 0.294 4.664 2356 chr4 40745640 40751398 + 0 NA intron (NM_021535, intron 6 of 11) intron (NM_021535, intron 6 of 11) 9366 NM_021535 74255 Mm.289929 NM_021535 ENSMUSG00000028409 Smu1 2600001O03Rik|2610203K23Rik|AB044414|AI845086|AW556129|Bwd smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) protein-coding 2.040 1.054 0.360 1.416 1.345 0.502 1.367 2.129 2.578 1.913 7.810 2.763 1.478 2.170 2.124 nan 1.137 2.682 1.005 0.487 0.427 0.759 0.403 0.480 2.888 2210 chr3 88292534 88302704 + 0 NA promoter-TSS (NM_029801) promoter-TSS (NM_029801) 484 NM_009836 12462 Mm.256034 NM_009836 ENSMUSG00000001416 Cct3 AL024092|Cctg|Tcp1-rs3|TriC-P5 chaperonin containing Tcp1, subunit 3 (gamma) protein-coding 7.278 2.451 1.014 7.148 6.249 4.607 8.057 7.597 5.465 5.720 7.993 5.291 7.076 9.133 6.910 nan 5.285 7.083 nan 2.639 3.263 4.381 3.344 3.739 7.832 2658 chr5 35399394 35401605 + 0 NA Intergenic Intergenic 11382 NM_010445 15371 Mm.358606 NM_010445 ENSMUSG00000067438 Hmx1 Nkx5-3 H6 homeobox 1 protein-coding 0.567 0.606 0.449 1.626 0.503 0.548 0.437 0.959 1.317 2.084 0.595 1.432 0.621 0.671 nan 1.858 nan nan 6.872 1.993 2.873 6.411 6.115 6.860 1.831 2780 chr5 137971622 137976645 + 0 NA Intergenic Intergenic -7388 NM_013478 12007 Mm.30061 NM_013478 ENSMUSG00000037053 Azgp1 Zag alpha-2-glycoprotein 1, zinc protein-coding 10.689 10.920 4.260 10.214 5.607 3.110 9.575 8.121 5.908 10.430 7.055 3.681 6.992 11.854 9.356 9.243 7.408 8.410 6.127 4.000 3.316 5.550 5.618 5.150 12.584 646 chr11 115887898 115893565 + 0 NA Intergenic Intergenic -9408 NM_183259 66528 Mm.275740 NM_183259 ENSMUSG00000048442 Smim5 2210020M01Rik small integral membrane protein 5 protein-coding 7.413 7.868 3.311 7.903 5.859 4.402 nan 6.671 5.851 6.679 4.136 3.084 4.790 6.386 6.124 7.303 4.536 7.306 3.401 nan 2.225 4.130 1.889 2.183 7.416 446 chr11 62838472 62843287 + 0 NA exon (NM_053169, exon 6 of 6) exon (NM_053169, exon 6 of 6) -6244 NM_001033669 213980 Mm.482259 NM_001033669 ENSMUSG00000090173 Fbxw10 Fbw10|HREP|SM25H2|SM2SH2 F-box and WD-40 domain protein 10 protein-coding 4.036 1.026 0.298 3.473 2.826 0.877 2.212 3.123 3.692 5.280 1.573 1.079 2.954 5.191 2.847 3.951 2.988 5.338 nan 0.819 0.320 1.372 0.840 0.499 3.111 2181 chr3 51381182 51383567 + 0 NA Intergenic Intergenic 14173 NM_026358 67749 Mm.273339 NM_026358 ENSMUSG00000037161 Mgarp 4930583H14Rik|AI195347|CESP-1|HUMMR|Osap|Qsap mitochondria localized glutamic acid rich protein protein-coding 3.198 0.631 0.260 2.484 3.896 2.300 4.216 5.341 2.263 2.885 4.567 1.149 4.986 7.863 4.968 5.175 5.864 4.104 2.055 0.902 1.284 1.577 1.817 1.435 6.118 2229 chr3 89689657 89694446 + 0 NA Intergenic Intergenic -22971 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 0.950 3.305 1.234 1.445 0.342 0.263 1.025 1.444 0.785 0.841 0.927 1.552 0.595 0.822 0.957 nan 0.671 1.258 nan 1.434 0.881 5.870 1.626 1.305 0.934 1220 chr15 100576957 100581284 + 0 NA intron (NM_001304965, intron 10 of 10) (TA)n|Simple_repeat|Simple_repeat 7245 NM_010127 19009 Mm.28825 NM_010127 ENSMUSG00000009739 Pou6f1 2310038G18Rik|C79593|Emb|cns-1 POU domain, class 6, transcription factor 1 protein-coding 9.130 1.557 1.301 1.739 3.674 2.115 8.772 11.550 4.039 5.470 1.413 1.353 9.262 6.919 5.211 nan 9.694 4.025 1.203 2.030 1.855 0.914 1.775 1.573 5.332 1582 chr17 84724556 84726447 + 0 NA intron (NM_028233, intron 29 of 37) intron (NM_028233, intron 29 of 37) 42380 NM_026180 67470 Mm.26581 NM_026180 ENSMUSG00000024254 Abcg8 1300003C16Rik|AI114946|sterolin-2 ATP-binding cassette, sub-family G (WHITE), member 8 protein-coding 1.587 2.272 0.662 1.326 0.756 0.091 1.554 1.353 nan 1.220 6.705 2.664 1.068 0.930 1.411 1.772 1.489 2.200 0.877 0.593 0.330 0.650 0.413 0.181 3.674 2842 chr6 29496512 29499618 + 0 NA intron (NM_001029985, intron 13 of 37) intron (NM_001029985, intron 13 of 37) 9887 NM_001029985 333088 Mm.332961 NM_001029985 ENSMUSG00000059022 Kcp AW060220|CRIM-2|Crim2|Gm793|KCP-1 kielin/chordin-like protein protein-coding 1.162 0.477 0.495 0.544 0.255 0.459 0.983 0.873 0.843 0.566 5.961 2.616 0.950 0.747 1.104 nan 0.722 nan nan 0.546 0.236 0.312 0.472 0.231 0.613 1599 chr18 11034684 11035807 + 0 NA Intergenic Tigger17c|DNA|TcMar-Tigger -17265 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding 3.562 0.658 0.782 1.644 3.219 2.238 7.804 4.448 2.422 2.664 0.359 1.033 5.942 4.414 4.541 5.768 5.646 5.120 0.623 0.485 0.218 0.814 0.691 1.136 3.881 3013 chr6 127479054 127480597 + 0 NA intron (NM_001346513, intron 4 of 5) MTE2a|LTR|ERVL-MaLR 26102 NM_181402 101187 Mm.110818 NM_181402 ENSMUSG00000037997 Parp11 5330431N24Rik|AI851877|ARTD11|HIN1L|PARP-11 poly (ADP-ribose) polymerase family, member 11 protein-coding 4.162 nan 0.256 1.675 1.592 0.930 5.532 4.344 1.346 3.098 0.416 0.186 4.995 6.183 5.408 5.071 4.891 1.952 0.908 0.755 0.369 0.976 0.608 0.183 5.140 2306 chr3 126393136 126398874 + 0 NA intron (NM_173451, intron 1 of 1) MT2B2|LTR|ERVL 32153 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 6.815 8.446 4.932 6.864 6.012 2.632 6.197 nan 6.865 5.627 4.560 4.011 7.547 8.873 6.328 nan 5.117 nan 4.090 1.981 1.390 1.909 3.530 2.514 5.771 1149 chr15 76094146 76095567 + 0 NA Intergenic Intergenic -4843 NM_144847 223649 Mm.101946 NM_144847 ENSMUSG00000075590 Nrbp2 BC011468 nuclear receptor binding protein 2 protein-coding 2.984 nan 0.499 nan 1.813 0.729 3.622 9.563 2.237 2.034 1.760 1.363 2.396 4.147 2.188 1.933 1.902 2.093 1.421 0.858 0.223 nan 0.603 0.543 1.319 2900 chr6 82672980 82674721 + 0 NA Intergenic Intergenic -20985 NM_025882 66979 Mm.195753 NM_025882 ENSMUSG00000030042 Pole4 2400007P05Rik|5830430F06Rik polymerase (DNA-directed), epsilon 4 (p12 subunit) protein-coding 2.805 0.763 0.089 2.778 1.752 0.816 3.214 1.254 1.821 2.410 0.721 0.512 2.293 4.193 2.960 7.230 3.093 4.677 0.648 0.578 0.358 0.546 0.209 0.290 5.081 2652 chr5 34162007 34164990 + 0 NA intron (NM_146159, intron 4 of 4) intron (NM_146159, intron 4 of 4) 5926 NM_146159 231123 Mm.319286 NM_146159 ENSMUSG00000079555 Haus3 D4S43h|D5H4S43|D5H4S43E HAUS augmin-like complex, subunit 3 protein-coding 5.280 13.915 4.978 8.022 2.942 2.103 4.512 4.073 3.356 10.897 4.131 2.799 3.651 5.530 7.176 7.249 nan 6.545 6.340 2.515 4.867 7.402 4.727 8.715 10.654 2337 chr4 8864661 8867865 + 0 NA exon (NM_001277149, exon 38 of 38) exon (NM_001277149, exon 38 of 38) 175857 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.898 3.082 2.386 1.298 1.460 0.792 0.334 nan 0.980 0.992 1.129 0.990 0.278 0.558 0.626 0.781 0.539 0.943 4.985 nan 3.388 8.093 8.487 5.618 0.763 2603 chr4 154496072 154497424 + 0 NA intron (NM_001177995, intron 2 of 15) intron (NM_001177995, intron 2 of 15) 139619 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 2.737 1.208 0.560 3.204 1.841 1.422 3.781 2.359 2.625 2.977 1.930 2.110 2.540 4.292 3.172 4.918 2.840 3.793 1.103 0.698 1.164 1.401 1.214 1.399 5.402 2283 chr3 105710632 105722254 + 0 NA exon (NM_001163356, exon 2 of 2) exon (NM_001163356, exon 2 of 2) 10985 NM_001163356 109050 Mm.212591 NM_175398 ENSMUSG00000048458 Fam212b 6530418L21Rik|inka2 family with sequence similarity 212, member B protein-coding 5.455 1.355 0.698 3.461 3.972 2.930 5.226 3.148 4.162 4.893 1.688 0.571 6.773 7.826 nan 6.052 5.265 5.358 0.642 0.789 0.882 0.560 0.542 0.535 6.773 2243 chr3 93358297 93361123 + 0 NA Intergenic Intergenic -33989 NM_009100 20129 Mm.1417 NM_009100 ENSMUSG00000041984 Rptn - repetin protein-coding 7.270 6.093 1.324 7.971 5.927 2.334 5.678 9.254 4.224 5.648 8.030 2.126 6.542 9.582 7.601 9.722 6.224 8.055 1.429 1.544 1.351 2.321 0.504 0.369 9.712 2407 chr4 97475355 97477086 + 0 NA Intergenic Lx8|LINE|L1 -105723 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 3.213 nan 0.157 2.366 2.129 0.774 2.040 4.109 3.369 4.787 1.135 0.766 2.397 5.428 2.948 4.824 2.277 4.101 1.034 0.827 0.268 nan 0.786 0.382 3.289 2695 chr5 103787896 103790616 + 0 NA intron (NM_001080798, intron 3 of 19) intron (NM_001080798, intron 3 of 19) 34683 NM_001080798 17355 Mm.6949 NM_133919 ENSMUSG00000029313 Aff1 9630032B01Rik|AW319193|Af4|Mllt2h|Rob AF4/FMR2 family, member 1 protein-coding 2.500 4.461 2.275 2.783 2.598 1.513 nan 2.670 3.517 3.114 7.317 2.475 2.350 4.479 2.647 2.866 1.843 3.126 nan 1.436 0.826 1.382 1.992 2.031 2.312 1087 chr15 38335770 38340611 + 0 NA Intergenic Intergenic -37479 NM_001289471 21847 Mm.4292 NM_013692 ENSMUSG00000037465 Klf10 AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF Kruppel-like factor 10 protein-coding 3.533 1.029 0.488 2.292 2.108 0.945 3.845 8.765 2.080 2.617 4.196 2.574 3.522 3.854 3.910 3.545 3.059 3.342 3.102 1.595 1.328 4.484 2.621 2.221 3.374 1288 chr16 17246637 17252426 + 0 NA intron (NM_178922, intron 1 of 2) ID4_|SINE|ID 15944 NM_178922 58180 Mm.261602 NM_178922 ENSMUSG00000050240 Hic2 AA409108|HRG22|mKIAA1020 hypermethylated in cancer 2 protein-coding 7.074 0.758 0.597 0.657 1.433 0.956 2.859 4.344 0.882 nan 0.750 0.424 1.757 2.379 2.489 1.857 2.411 3.122 0.597 0.494 0.742 0.726 0.684 0.660 5.494 810 chr12 86310608 86312485 + 0 NA Intergenic Intergenic -49571 NM_001159500 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 12.342 10.200 5.063 5.830 8.859 4.605 6.234 7.356 3.982 5.634 4.540 3.589 4.975 8.566 6.340 7.154 8.550 5.603 2.949 4.009 2.878 3.388 4.336 2.963 10.107 1238 chr15 102288991 102291243 + 0 NA Intergenic B1_Mus1|SINE|Alu -6176 NM_001014976 105988 Mm.288324 NM_001014976 ENSMUSG00000058290 Espl1 AL024103|AU045071|Cerp|ESP1|PRCE|SSE extra spindle pole bodies 1, separase protein-coding 10.950 9.414 5.990 7.799 8.831 5.905 9.979 17.562 5.775 4.882 3.995 4.316 10.315 11.893 8.581 7.405 8.385 6.904 4.550 4.746 4.315 3.703 5.733 5.312 6.293 33 chr1 38053136 38056490 + 0 NA exon (NM_019570, exon 19 of 23) exon (NM_019570, exon 19 of 23) 56803 NM_198303 226982 Mm.260943 NM_198303 ENSMUSG00000026083 Eif5b A030003E17Rik|BC018347|IF2 eukaryotic translation initiation factor 5B protein-coding 12.061 10.258 3.117 8.105 4.584 2.573 7.284 7.188 5.621 8.108 6.802 4.043 7.723 9.210 8.473 12.396 7.738 8.705 4.405 2.407 2.379 4.872 2.411 2.638 12.035 1587 chr17 86565787 86567420 + 0 NA intron (NM_011104, intron 11 of 14) intron (NM_011104, intron 11 of 14) -187261 NM_010137 13819 Mm.1415 NM_010137 ENSMUSG00000024140 Epas1 HIF-2alpha|HIF2A|HLF|HRF|MOP2|bHLHe73 endothelial PAS domain protein 1 protein-coding 11.032 13.542 3.368 16.137 6.044 3.569 11.637 10.832 nan 17.277 8.289 5.351 9.376 13.567 13.610 15.456 8.950 10.935 6.872 2.783 3.610 7.833 4.444 7.240 22.982 2866 chr6 51473741 51475239 + 0 NA intron (NM_007624, intron 2 of 5) B1_Mm|SINE|Alu 3874 NM_007624 12417 Mm.280968 NM_007624 ENSMUSG00000029836 Cbx3 HP1g|M32 chromobox 3 protein-coding 5.828 7.170 3.428 4.268 2.757 1.530 4.655 5.209 2.894 4.936 1.979 1.466 2.030 3.644 4.093 5.188 2.556 nan nan 1.981 4.270 3.876 1.827 2.204 4.716 1559 chr17 66131656 66133872 + 0 NA intron (NM_001003919, intron 5 of 26) intron (NM_001003919, intron 5 of 26) 9244 NM_001003919 320209 Mm.259605 NM_001003919 ENSMUSG00000035842 Ddx11 4732462I11Rik|CHL1|CHLR1|KRG2|essa15a DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 protein-coding 7.572 14.643 4.625 14.174 5.773 5.085 9.709 7.891 6.669 23.711 8.825 3.829 6.522 9.585 10.881 13.422 6.693 11.242 6.556 2.049 3.499 7.109 3.272 6.096 20.552 7 chr1 10147450 10148990 + 0 NA intron (NM_001102430, intron 32 of 37) intron (NM_001102430, intron 32 of 37) 84450 NM_001102430 211673 Mm.229141 NM_001102430 ENSMUSG00000067851 Arfgef1 ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200 ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited) protein-coding 10.456 0.866 0.717 1.757 1.610 1.030 3.450 3.300 1.793 1.893 0.219 0.393 3.750 4.749 4.157 6.175 6.912 4.918 0.827 0.732 0.435 0.752 0.247 0.475 5.017 1793 chr19 46540156 46542344 + 0 NA intron (NM_019718, intron 5 of 5) intron (NM_019718, intron 5 of 5) 31835 NM_019718 56350 Mm.22085 NM_019718 ENSMUSG00000025035 Arl3 - ADP-ribosylation factor-like 3 protein-coding 2.502 14.590 7.352 nan 2.207 2.058 1.772 3.643 2.367 3.109 2.002 1.338 1.385 2.650 2.883 2.651 1.931 nan 0.670 1.391 1.305 1.279 0.942 0.723 2.496 227 chr10 4749308 4755108 + 0 NA intron (NM_001302531, intron 3 of 8) intron (NM_001302531, intron 3 of 8) 42050 NM_001302533 13982 Mm.9213 NM_007956 ENSMUSG00000019768 Esr1 ER|ER-alpha|ERa|ERalpha|ESR|Estr|Estra|Nr3a1 estrogen receptor 1 (alpha) protein-coding 7.147 0.867 0.662 4.441 1.419 0.552 3.152 1.287 3.881 3.990 0.931 0.677 4.067 3.028 2.455 3.015 3.813 5.242 0.810 0.794 0.417 0.514 0.355 0.189 3.815 1701 chr18 82981238 82982680 + 0 NA intron (NM_183033, intron 2 of 5) intron (NM_183033, intron 2 of 5) -61399 NR_033307 75853 Mm.420737 NR_033307 4930592I03Rik - RIKEN cDNA 4930592I03 gene ncRNA 5.645 2.898 1.095 6.255 1.744 0.261 6.986 3.732 4.765 4.884 4.914 3.920 3.274 4.285 5.417 5.179 2.308 5.210 4.199 nan 1.758 7.959 3.226 2.155 7.640 1860 chr2 33281418 33289125 + 0 NA intron (NM_001290570, intron 3 of 16) intron (NM_001290570, intron 3 of 16) 69310 NM_011923 26360 Mm.208919 NM_011923 ENSMUSG00000004105 Angptl2 AI593246|AW260363|Arp2 angiopoietin-like 2 protein-coding 6.676 3.367 1.718 5.139 2.979 2.599 5.455 8.206 4.259 nan 2.445 1.922 4.664 5.674 5.577 7.436 6.389 5.865 1.911 1.717 2.237 2.196 1.983 2.449 8.492 2443 chr4 119514416 119520281 + 0 NA Intergenic B1_Mur3|SINE|Alu 21421 NM_001004178 433752 Mm.425205 NM_001004178 ENSMUSG00000087385 AA415398 - expressed sequence AA415398 protein-coding 4.635 0.986 0.500 2.553 1.505 1.043 3.456 5.109 3.872 3.278 4.404 4.318 4.132 4.311 4.372 4.523 3.080 4.402 7.091 4.394 2.175 7.603 5.151 2.916 3.865 1937 chr2 103405142 103410431 + 0 NA Intergenic B1_Mur1|SINE|Alu -4312 NM_001145813 13711 Mm.20888 NM_010125 ENSMUSG00000027186 Elf5 ESE-2|ESE-5|ESE-5. E74-like factor 5 protein-coding 1.603 5.630 1.513 3.323 0.564 0.373 0.706 1.799 1.178 1.842 1.230 0.723 1.126 1.256 1.979 2.128 0.925 2.260 2.323 1.370 1.011 4.299 1.812 1.056 3.619 2013 chr2 153338066 153342103 + 0 NA Intergenic Intergenic 5726 NR_040318 72326 Mm.400102 NR_040318 ENSMUSG00000073236 2500004C02Rik - RIKEN cDNA 2500004C02 gene ncRNA nan 1.308 0.791 2.104 1.557 0.976 1.724 3.667 nan nan 0.353 0.395 nan nan 1.643 2.401 1.069 nan 2.825 2.543 2.511 3.522 1.739 1.276 3.562 255 chr10 42549459 42555981 + 0 NA Intergenic ID_B1|SINE|B4 30868 NM_152229 21907 Mm.287100 NM_152229 ENSMUSG00000019803 Nr2e1 Mtl1|Mtll|TLL|Tlx|XTLL|fierce|frc|tailless nuclear receptor subfamily 2, group E, member 1 protein-coding 5.575 1.351 0.614 2.880 2.573 1.482 3.975 3.827 4.774 5.091 1.073 0.798 5.349 6.135 5.946 7.413 5.654 6.333 1.377 1.058 0.647 1.340 0.851 0.563 7.412 264 chr10 61682828 61687640 + 0 NA intron (NM_009120, intron 3 of 6) intron (NM_009120, intron 3 of 6) 4913 NM_009120 20224 Mm.391794 NM_009120 ENSMUSG00000020088 Sar1a 1600019H17Rik|Sara|Sara1 secretion associated Ras related GTPase 1A protein-coding 6.370 0.556 0.543 3.373 3.671 2.335 4.060 5.531 4.157 4.848 2.084 3.739 3.048 4.861 4.513 5.985 5.510 6.256 4.883 2.726 2.468 3.206 5.007 4.258 6.132 806 chr12 85542030 85545404 + 0 NA Intergenic Intergenic -55388 NM_001205052 81703 Mm.103560 NM_030887 ENSMUSG00000034271 Jdp2 Jundm2|Jundp2|TIF Jun dimerization protein 2 protein-coding 5.085 12.709 5.288 4.711 3.572 2.220 3.021 7.215 2.885 4.928 6.016 3.221 3.560 7.472 4.680 5.368 3.799 5.264 4.161 2.036 1.499 2.894 1.870 1.175 6.655 2230 chr3 89699699 89711058 + 0 NA Intergenic Intergenic -9644 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 3.874 3.747 1.849 3.172 2.822 1.734 4.115 6.335 2.019 2.739 2.751 2.459 4.493 7.366 3.281 nan 3.026 3.301 nan 1.743 1.517 3.543 4.551 3.579 2.947 1885 chr2 38780655 38783212 + 0 NA intron (NM_010264, intron 3 of 10) intron (NM_010264, intron 3 of 10) 2582 NM_001159548 14536 Mm.439703 NM_010264 ENSMUSG00000063972 Nr6a1 1700113M01Rik|Gcnf|NCNF|RTR nuclear receptor subfamily 6, group A, member 1 protein-coding 8.181 3.250 2.156 5.814 3.140 1.698 7.192 8.763 3.690 nan 5.999 3.018 7.462 7.765 7.328 9.716 10.076 5.804 3.108 1.559 2.134 3.514 2.388 2.938 12.051 3422 chr9 14530530 14535253 + 0 NA Intergenic Intergenic 32272 NM_023153 66070 Mm.245938 NM_023153 ENSMUSG00000004096 Cwc15 0610040D20Rik|2900052N06Rik|Ed1|c11orf5|mED1 CWC15 spliceosome-associated protein protein-coding 6.453 2.488 1.098 4.033 1.854 0.807 3.967 4.891 5.375 6.491 2.762 1.365 6.423 7.364 5.885 7.716 4.549 5.740 1.695 0.903 0.486 1.015 1.497 1.117 9.018 182 chr1 167929541 167933935 + 0 NA Intergenic Lx8|LINE|L1 242180 NM_033652 110648 Mm.330081 NM_033652 ENSMUSG00000026686 Lmx1a Lmx1.1|dr|dreher|sst LIM homeobox transcription factor 1 alpha protein-coding 6.813 13.646 5.984 nan 4.011 3.159 4.378 5.000 nan 8.264 4.585 3.044 nan 5.561 nan 9.297 6.418 6.753 4.321 1.964 2.254 nan nan 3.959 nan 2905 chr6 83405467 83411312 + 0 NA intron (NM_001347313, intron 3 of 11) intron (NM_001347313, intron 3 of 11) -7287 NR_105793 102465194 NR_105793 ENSMUSG00000099045 Mir6374 Gm27292|mmu-mir-6374 microRNA 6374 ncRNA 8.148 6.543 2.219 7.656 3.007 2.130 9.136 8.766 4.568 10.680 5.619 2.953 10.016 9.962 9.569 12.495 7.876 8.171 nan 1.896 2.896 5.265 2.335 3.608 13.221 1817 chr2 15067071 15070133 + 0 NA intron (NM_029466, intron 2 of 5) intron (NM_029466, intron 2 of 5) 13240 NM_029466 75869 Mm.174068 NM_029466 ENSMUSG00000017418 Arl5b 4930587A11Rik|AW146430|Arl8 ADP-ribosylation factor-like 5B protein-coding 6.543 0.353 0.341 1.868 2.347 1.566 8.308 11.112 3.304 3.952 0.522 2.255 9.199 6.136 6.050 7.533 6.846 6.037 0.450 0.441 0.360 0.204 0.287 0.342 3.178 2707 chr5 106108203 106115731 + 0 NA Intergenic Intergenic -209373 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 1.313 11.056 5.862 1.638 1.379 0.932 nan 1.928 1.380 1.211 0.724 1.260 1.331 1.665 1.239 1.177 0.896 1.358 nan 0.896 0.800 0.836 0.775 0.905 0.951 556 chr11 95573013 95576533 + 0 NA intron (NM_033217, intron 3 of 5) intron (NM_033217, intron 3 of 5) 12925 NM_033217 18053 Mm.283893 NM_033217 ENSMUSG00000000120 Ngfr LNGFR|Tnfrsf16|p75|p75NGFR|p75NTR nerve growth factor receptor (TNFR superfamily, member 16) protein-coding 7.208 7.943 2.733 6.273 4.930 3.146 5.163 5.896 4.127 10.738 4.937 3.284 4.505 7.450 5.367 6.730 5.308 6.466 5.353 nan 3.559 5.030 nan 4.653 7.570 717 chr12 13083679 13085812 + 0 NA Intergenic Intergenic -142909 NM_008709 18109 Mm.16469 NM_008709 ENSMUSG00000037169 Mycn N-myc|Nmyc|Nmyc-1|Nmyc1|bHLHe37|c-nmyc v-myc avian myelocytomatosis viral related oncogene, neuroblastoma derived protein-coding 4.920 1.074 0.520 1.758 0.313 0.193 3.990 1.216 2.455 2.698 0.838 0.349 2.638 4.040 5.484 5.861 3.060 3.134 1.324 0.391 0.189 1.190 0.486 0.464 7.858 2817 chr5 151964286 151979979 + 0 NA Intergenic Intergenic -320924 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 5.229 0.745 0.578 5.212 3.691 1.899 3.697 3.906 nan 6.097 2.855 1.395 4.897 7.549 5.395 nan 4.138 8.061 1.475 0.891 0.621 1.418 1.438 1.099 nan 815 chr12 86524843 86526315 + 0 NA Intergenic Intergenic 103935 NM_011934 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 2.624 0.766 0.700 1.491 1.842 0.746 2.910 2.808 1.201 1.851 1.201 0.257 4.306 4.029 2.523 4.440 3.058 1.565 1.563 1.044 1.709 2.123 1.424 1.091 3.752 3486 chr9 53149086 53151576 + 0 NA intron (NM_029936, intron 15 of 17) intron (NM_029936, intron 15 of 17) 97781 NM_029936 77591 Mm.133560 NM_029936 ENSMUSG00000053289 Ddx10 4632415A01Rik|AI646054 DEAD (Asp-Glu-Ala-Asp) box polypeptide 10 protein-coding 5.429 0.858 0.573 5.632 2.741 2.040 4.471 5.100 6.593 5.797 7.178 6.319 5.750 6.228 5.485 6.021 4.004 7.696 2.782 2.985 2.027 3.527 3.058 2.523 8.347 671 chr11 118259527 118265719 + 0 NA intron (NM_001033528, intron 18 of 20) intron (NM_001033528, intron 18 of 20) -14031 NM_011180 19157 Mm.86413 NM_011180 ENSMUSG00000017132 Cyth1 CLM1|CTH-1|CYTIP|Pscd1 cytohesin 1 protein-coding 6.811 nan 2.997 7.130 3.914 2.314 nan nan 4.736 nan 3.315 3.209 5.363 7.090 6.649 7.425 4.698 nan 4.604 nan 1.943 4.570 3.203 2.298 8.400 1511 chr17 44903704 44905272 + 0 NA intron (NM_178652, intron 2 of 11) RLTR18B|LTR|ERVK -23603 NM_029257 75341 Mm.386821 NM_029257 4930564C03Rik - RIKEN cDNA 4930564C03 gene protein-coding 2.779 1.710 1.057 1.363 2.360 0.910 4.639 1.104 2.956 2.490 3.500 3.877 4.002 4.616 2.760 4.049 2.827 3.748 0.832 0.331 0.060 0.226 0.221 0.123 1.534 2249 chr3 94912095 94915647 + 0 NA Intergenic L1MD1|LINE|L1 -19212 NM_009150 20341 Mm.196558 NM_009150 ENSMUSG00000068874 Selenbp1 Lp56|Lpsb|SBP56 selenium binding protein 1 protein-coding 5.606 3.487 3.068 3.849 5.457 4.939 8.355 6.528 3.661 4.592 nan 2.742 5.827 8.065 4.548 4.023 5.443 4.211 2.207 2.923 2.462 2.020 2.585 2.959 5.408 167 chr1 155746073 155749806 + 0 NA Intergenic Intergenic -5912 NM_010712 16872 Mm.103624 NM_010712 ENSMUSG00000026468 Lhx4 A330062J17Rik|Gsh-4|Gsh4 LIM homeobox protein 4 protein-coding 9.841 8.326 2.523 12.114 5.318 4.099 5.545 8.596 6.324 10.334 7.111 4.207 8.710 10.685 5.932 5.986 4.967 7.774 nan 3.271 3.270 6.124 nan 4.436 5.048 3353 chr8 108859975 108862940 + 0 NA intron (NM_007496, intron 4 of 9) ID_B1|SINE|B4 -75403 NR_037295 100526511 NR_037295 ENSMUSG00000093241 Mir3108 mir-3108|mmu-mir-3108 microRNA 3108 ncRNA 2.711 3.799 2.105 1.810 1.131 0.624 2.484 3.872 1.099 1.410 0.684 1.003 1.921 2.387 2.672 2.537 2.957 2.008 6.282 5.737 5.444 10.383 6.876 6.353 2.465 2423 chr4 107594095 107596517 + 0 NA intron (NM_147221, intron 4 of 10) intron (NM_147221, intron 4 of 10) 88856 NM_019872 56296 Mm.141324 NM_019872 ENSMUSG00000028610 Dmrtb1 Dmrt6|Prp13 DMRT-like family B with proline-rich C-terminal, 1 protein-coding 8.992 6.085 2.246 7.942 6.440 3.711 6.101 10.094 5.805 7.920 5.437 4.096 5.972 9.295 8.474 9.135 5.480 7.928 4.488 4.202 3.132 5.966 9.091 4.586 8.247 692 chr11 119802584 119811181 + 0 NA intron (NM_001306081, intron 9 of 32) intron (NM_001306081, intron 9 of 32) 27483 NR_045313 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 6.348 nan 0.976 6.707 4.548 2.832 nan nan 5.026 8.168 4.083 2.704 5.989 9.219 6.772 7.400 5.050 nan 3.261 nan 1.902 4.044 2.649 2.718 7.314 1605 chr18 23961123 23974784 + 0 NA Intergenic B1_Mur2|SINE|Alu 13265 NM_027007 69256 Mm.218343 NM_027007 ENSMUSG00000024276 Zfp397 2810411K16Rik|6720480F11Rik|AI461664 zinc finger protein 397 protein-coding 4.236 9.581 4.577 4.393 1.988 1.172 2.676 6.978 3.700 3.194 1.160 1.690 5.390 4.154 3.410 5.413 3.980 5.166 nan 1.625 1.032 nan 1.819 1.208 3.650 663 chr11 116907736 116909611 + 0 NA Intergenic MYSERV6-int|LTR|ERVK -10190 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 1.405 nan 0.474 1.097 0.557 0.505 nan nan 0.711 nan 1.406 1.127 0.706 0.818 0.984 1.234 0.735 1.231 7.736 nan 3.583 8.564 4.485 3.276 1.186 3564 chrX 11709444 11714317 + 0 NA Intergenic B3A|SINE|B2 368673 NM_175045 71458 Mm.196328 NM_029510 ENSMUSG00000040363 Bcor 2900008C10Rik|5830466J11Rik|8430401K06Rik|BcorR|D930024N20Rik|mKIAA1575 BCL6 interacting corepressor protein-coding 3.564 4.810 1.247 3.920 1.913 1.124 3.128 3.882 2.273 3.791 1.402 1.465 2.865 5.146 3.631 4.227 2.664 3.370 3.606 2.353 2.794 4.790 3.083 2.638 7.262 2431 chr4 114183575 114185019 + 0 NA intron (NM_001166027, intron 1 of 6) intron (NM_001166027, intron 1 of 6) 20913 NM_001166027 230623 Mm.124482 NM_177669 ENSMUSG00000057977 Skint11 A630098G03Rik|Gm569 selection and upkeep of intraepithelial T cells 11 protein-coding 2.020 0.287 0.179 0.375 0.159 0.174 1.850 1.205 0.426 0.341 0.736 0.339 0.812 3.521 1.813 nan 0.993 0.965 0.702 0.363 0.400 0.412 0.410 0.231 1.327 1907 chr2 73253068 73256619 + 0 NA Intergenic L1Md_F2|LINE|L1 -17083 NM_001005343 381373 Mm.330293 NM_001005343 ENSMUSG00000068859 Sp9 - trans-acting transcription factor 9 protein-coding 3.117 0.667 0.352 nan 0.515 0.137 0.965 1.753 2.734 2.351 2.760 0.709 1.647 1.245 1.644 2.211 1.671 2.280 3.811 1.512 0.905 5.516 2.154 1.824 2.964 854 chr13 23646432 23649002 + 0 NA Intergenic MTA_Mm|LTR|ERVL-MaLR -25159 NM_015787 50709 Mm.170587 NM_015787 ENSMUSG00000051627 Hist1h1e H1-4|H1.4|H1e|H1f4|H1s-4|H1var2 histone cluster 1, H1e protein-coding 7.547 10.305 3.480 7.253 2.867 1.516 3.319 4.840 5.621 5.479 5.219 3.004 4.750 7.708 8.554 9.516 4.402 9.704 3.232 1.131 0.858 3.046 0.953 0.988 9.562 1945 chr2 119147723 119156866 + 0 NA intron (NM_001033136, intron 4 of 12) intron (NM_001033136, intron 4 of 12) 4740 NM_001033136 67809 Mm.475909 NM_001033136 ENSMUSG00000070730 Rmdn3 1200015F23Rik|AI131757|Fam82a2|Ptpip51|RMD-3|Rmd3 regulator of microtubule dynamics 3 protein-coding 3.094 2.252 0.830 3.204 1.124 0.415 2.176 3.897 1.951 2.400 0.933 0.500 nan 2.050 2.511 nan 3.400 2.978 3.639 3.154 2.657 7.146 5.230 4.623 nan 3120 chr7 71076007 71085532 + 0 NA Intergenic Intergenic -714023 NM_183261 11819 Mm.158143 NM_009697 ENSMUSG00000030551 Nr2f2 2700033K02Rik|9430015G03Rik|ARP-1|Aporp1|COUP-TF2|COUP-TFII|COUPTFB|EAR3|SVP40|Tcfcoup2 nuclear receptor subfamily 2, group F, member 2 protein-coding nan 12.196 3.776 11.682 4.697 3.732 5.182 9.626 5.628 11.731 6.767 3.002 7.143 10.245 7.354 8.476 5.436 8.611 3.920 1.836 2.946 4.067 2.680 3.495 11.708 969 chr13 115895913 115897127 + 0 NA Intergenic (TTC)n|Simple_repeat|Simple_repeat 413168 NM_021459 16392 Mm.42242 NM_021459 ENSMUSG00000042258 Isl1 - ISL1 transcription factor, LIM/homeodomain protein-coding 4.520 0.773 0.921 4.174 1.110 0.786 3.195 2.485 1.779 2.218 0.352 0.854 3.564 2.381 3.834 2.434 1.199 3.944 0.332 0.534 0.277 0.814 0.150 0.177 2.425 1174 chr15 79513377 79515995 + 0 NA Intergenic Intergenic -1722 NM_134090 105785 Mm.298199 NM_134090 ENSMUSG00000010830 Kdelr3 AI173274 KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 3 protein-coding 3.823 1.572 0.525 3.177 2.313 0.687 4.059 15.750 2.472 2.584 3.396 1.954 4.845 5.264 4.176 4.104 4.796 4.090 2.750 1.353 0.598 3.291 2.045 0.969 3.152 1946 chr2 119233115 119235979 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR -2813 NM_016907 20732 Mm.104955 NM_016907 ENSMUSG00000027315 Spint1 HAI-1 serine protease inhibitor, Kunitz type 1 protein-coding 6.743 0.946 0.382 4.452 2.362 2.143 5.342 4.557 4.123 4.171 1.083 1.236 5.303 4.153 3.055 5.722 7.079 6.380 1.787 1.859 2.108 2.212 2.706 2.718 5.817 510 chr11 80002264 80005654 + 0 NA intron (NM_199196, intron 4 of 15) intron (NM_199196, intron 4 of 15) 10853 NM_199196 52615 Mm.283410 NM_199196 ENSMUSG00000017548 Suz12 2610028O16Rik|AI195385|AU016842|AW536442|D11Ertd530e|mKIAA0160 suppressor of zeste 12 homolog (Drosophila) protein-coding 3.485 0.760 0.491 3.047 5.450 4.241 5.795 5.859 3.715 3.589 0.740 0.743 5.262 5.521 4.948 5.314 6.137 3.610 0.657 0.499 nan 0.594 0.923 0.865 4.499 3020 chr6 134061820 134065500 + 0 NA intron (NM_007961, intron 1 of 7) RSINE1|SINE|B4 27960 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 2.828 3.977 1.771 1.960 0.910 0.356 2.362 5.599 1.952 1.565 3.608 1.352 1.275 1.474 3.444 2.645 2.414 2.761 nan 1.502 0.920 1.563 0.653 0.494 nan 393 chr11 11643303 11656977 + 0 NA Intergenic RMER17B|LTR|ERVK -22302 NM_001305143 102631730 Mm.159430 NM_001305143 ENSMUSG00000062511 4930512M02Rik - RIKEN cDNA 4930512M02 gene protein-coding nan 9.679 3.929 0.636 0.209 0.117 0.264 0.217 0.402 0.311 0.182 0.206 0.141 0.247 0.335 0.573 0.394 0.569 0.684 nan 0.196 0.568 0.301 0.249 0.439 2276 chr3 101996874 101999517 + 0 NA Intergenic L3|LINE|CR1 -11950 NM_178777 18072 Mm.137286 NM_178777 ENSMUSG00000048540 Nhlh2 6230401I09Rik|Hen2|NSCL2|Nscl-2|bHLHa34 nescient helix loop helix 2 protein-coding 1.432 1.374 0.657 1.077 0.579 0.284 2.330 1.890 0.913 1.179 7.013 2.574 0.795 1.375 2.007 nan 1.157 2.701 1.265 0.766 0.201 1.135 1.173 0.736 1.443 1501 chr17 35479140 35480927 + 0 NA Intergenic MMVL30-int|LTR|ERV1 9944 NM_010391 15007 Mm.88795 NM_010391 ENSMUSG00000067235 H2-Q10 H-2Q10|Q10|Qa10 histocompatibility 2, Q region locus 10 protein-coding 3.408 4.958 1.500 4.160 1.860 1.210 3.746 5.103 2.659 4.123 0.446 0.998 4.077 4.686 5.938 8.208 2.863 5.063 3.661 1.059 1.158 1.716 0.844 1.074 13.115 3262 chr8 35085619 35089119 + 0 NA Intergenic MTEb|LTR|ERVL-MaLR -121679 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 3.628 2.120 1.728 1.251 1.422 1.761 3.868 6.115 2.090 1.524 0.940 1.260 5.744 3.655 3.065 3.442 3.406 2.256 0.467 0.626 0.800 0.571 0.599 0.904 1.463 658 chr11 116364005 116366922 + 0 NA intron (NM_027258, intron 2 of 18) intron (NM_027258, intron 2 of 18) -30109 NM_008240 15223 Mm.378938 NM_008240 ENSMUSG00000034227 Foxj1 FKHL-13|HFH-4|Hfh4 forkhead box J1 protein-coding 1.711 nan 0.699 2.565 3.769 4.222 2.050 3.639 2.931 nan 1.618 1.291 4.474 5.693 2.223 1.791 1.584 2.574 0.634 nan 1.755 0.919 0.503 1.005 2.262 274 chr10 67516214 67518721 + 0 NA Intergenic Intergenic -20402 NM_010118 13654 Mm.290421 NM_010118 ENSMUSG00000037868 Egr2 Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6 early growth response 2 protein-coding 2.587 0.777 0.889 1.670 2.604 2.470 3.111 1.153 2.471 2.813 0.497 1.043 4.597 5.188 1.973 2.357 2.982 nan 0.488 1.041 0.653 0.518 0.553 0.379 1.748 3550 chr9 108693965 108695223 + 0 NA intron (NM_008924, intron 1 of 10) B2_Mm2|SINE|B2 2451 NM_008924 19087 Mm.253102 NM_008924 ENSMUSG00000032601 Prkar2a 1110061A24Rik|AI317181|AI836829|RII(alpha) protein kinase, cAMP dependent regulatory, type II alpha protein-coding 2.342 3.117 1.766 1.799 2.240 1.276 1.385 3.001 2.161 2.244 1.267 0.875 1.434 3.765 1.678 1.830 1.253 2.670 1.871 2.584 1.025 1.955 1.823 0.949 nan 549 chr11 95153910 95156265 + 0 NA intron (NR_040279, intron 1 of 2) intron (NR_040279, intron 1 of 2) -9286 NM_007867 13394 Mm.439766 NM_007867 ENSMUSG00000020871 Dlx4 Dlx-4|Dlx7 distal-less homeobox 4 protein-coding 4.631 5.809 2.887 5.003 2.387 1.377 1.538 1.263 2.935 2.297 1.726 1.215 1.326 2.208 1.997 2.871 1.942 3.341 1.154 nan 1.062 1.074 nan nan 1.944 877 chr13 37748465 37752066 + 0 NA Intergenic HAL1ME|LINE|L1 -75773 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 7.135 nan 3.431 4.380 4.576 4.012 nan 4.431 nan nan 4.818 3.093 4.303 5.887 2.903 nan 3.938 nan 1.371 2.444 2.551 1.534 1.226 1.224 nan 3465 chr9 32517092 32519122 + 0 NA intron (NM_008026, intron 1 of 8) intron (NM_008026, intron 1 of 8) 23345 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 4.916 12.034 3.210 5.916 2.326 0.954 3.379 3.001 4.809 4.753 6.592 4.020 2.899 4.591 4.183 4.721 2.005 5.189 2.269 1.735 0.695 2.971 2.532 1.443 4.349 1508 chr17 44827458 44828858 + 0 NA intron (NM_178652, intron 2 of 11) L1M3|LINE|L1 -13361 NR_073392 12393 Mm.391013 NM_009820 ENSMUSG00000039153 Runx2 AML3|Cbf|Cbfa-1|Cbfa1|LS3|Osf2|PEBP2aA|Pebp2a1|Pebpa2a runt related transcription factor 2 protein-coding 3.804 1.586 1.566 1.786 2.793 2.207 4.946 2.675 1.967 2.697 4.169 3.974 2.458 4.220 4.042 3.580 2.483 2.265 0.844 1.903 0.864 2.237 0.623 0.380 2.114 3034 chr6 136501833 136504756 + 0 NA Intergenic Intergenic -15557 NM_019426 54343 Mm.173271 NM_019426 ENSMUSG00000030213 Atf7ip 2610204M12Rik|AM|Mcaf1 activating transcription factor 7 interacting protein protein-coding 4.607 5.668 3.724 3.536 2.832 1.177 5.489 5.565 5.547 5.378 1.397 2.387 7.081 5.386 8.047 8.085 10.751 6.672 nan 1.598 0.520 1.611 1.202 0.847 4.197 1128 chr15 73235958 73239231 + 0 NA intron (NM_001130409, intron 24 of 29) intron (NM_001130409, intron 24 of 29) 17288 NR_029561 387169 NR_029561 ENSMUSG00000065612 Mir151 Mirn151|mir-151|mmu-mir-151 microRNA 151 ncRNA 5.821 nan 0.678 3.209 2.792 2.154 7.129 5.343 3.146 4.059 nan 0.681 7.409 6.749 5.735 5.310 7.395 4.481 3.926 2.182 2.317 nan 3.776 3.463 5.242 1771 chr19 36203352 36204760 + 0 NA Intergenic MTA_Mm|LTR|ERVL-MaLR -84212 NM_013468 107765 Mm.10279 NM_013468 ENSMUSG00000024803 Ankrd1 Alrp|CARP|Crap|MARP1 ankyrin repeat domain 1 (cardiac muscle) protein-coding 3.301 2.102 0.700 3.202 1.362 1.078 2.023 2.890 1.540 1.382 6.083 1.592 2.147 4.484 3.209 1.381 nan 3.703 0.868 0.689 0.490 2.345 1.165 1.271 4.130 2891 chr6 72319859 72325912 + 0 NA intron (NM_138592, intron 10 of 12) intron (NM_138592, intron 10 of 12) 18275 NM_147779 20388 Mm.46033 NM_147779 ENSMUSG00000056370 Sftpb AI562151|SF-B|SP-B|Sftp-3|Sftp3 surfactant associated protein B protein-coding 6.620 2.961 1.603 4.452 3.963 3.007 9.464 8.450 4.476 4.902 9.740 4.746 7.515 10.711 7.508 10.975 11.103 5.737 1.462 1.723 1.612 1.399 1.864 1.342 7.465 946 chr13 67858237 67861668 + 0 NA Intergenic Lx3_Mus|LINE|L1 -3374 NM_001001185 408058 Mm.177840 NM_001001185 ENSMUSG00000064063 BC048507 - cDNA sequence BC048507 protein-coding 1.400 0.447 0.372 2.631 3.372 2.294 1.716 0.209 0.840 1.482 0.556 0.264 4.347 10.074 2.960 nan 0.281 5.154 0.560 0.379 0.302 0.352 0.233 0.250 4.784 3515 chr9 69300381 69309480 + 0 NA intron (NM_001289916, intron 1 of 9) PB1D7|SINE|Alu 15089 NM_001289916 19883 Mm.378450 NM_013646 ENSMUSG00000032238 Rora 9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26 RAR-related orphan receptor alpha protein-coding 9.493 3.092 1.270 8.289 4.924 2.689 7.691 10.252 7.804 9.871 9.538 4.685 9.107 11.022 8.960 10.556 5.593 10.298 nan 2.012 1.621 2.318 2.288 2.105 11.727 1724 chr19 5855782 5856985 + 0 NA intron (NM_026169, intron 10 of 10) B1_Mur4|SINE|Alu -10903 NR_003513 66961 Mm.281895 NR_003513 ENSMUSG00000092274 Neat1 2310043N10Rik|VINC nuclear paraspeckle assembly transcript 1 (non-protein coding) ncRNA 1.045 0.800 0.832 1.972 2.452 2.221 2.942 4.204 nan 2.274 0.477 0.578 2.700 3.810 2.270 3.066 2.890 4.091 0.392 0.585 1.433 1.496 1.004 1.015 2.424 1520 chr17 46745955 46751200 + 0 NA intron (NM_028065, intron 1 of 5) intron (NM_028065, intron 1 of 5) 3637 NM_001305989 72029 Mm.240325 NM_028065 ENSMUSG00000023973 Cnpy3 1600025D17Rik|2410050O22Rik|AI413153|CAG4A|ERDA5|PRAT4A|Tnrc5 canopy FGF signaling regulator 3 protein-coding 5.073 0.544 0.271 3.272 3.481 2.427 9.217 5.902 2.882 4.106 5.528 3.967 4.590 6.094 5.964 8.326 6.339 4.553 1.692 0.921 0.890 1.634 0.924 0.729 7.321 2644 chr5 31998492 32002618 + 0 NA intron (NM_144541, intron 7 of 11) intron (NM_144541, intron 7 of 11) -135917 NM_008037 14284 Mm.24684 NM_008037 ENSMUSG00000029135 Fosl2 Fra-2 fos-like antigen 2 protein-coding 7.017 6.763 2.954 nan 6.309 2.682 5.631 6.574 5.531 7.385 6.535 3.851 4.683 7.702 6.544 6.742 4.512 5.944 3.969 2.596 2.331 4.563 3.532 2.994 6.311 2148 chr3 19086690 19089808 + 0 NA Intergenic ORR1A2-int|LTR|ERVL-MaLR 74816 NM_028840 74252 Mm.200383 NM_028840 ENSMUSG00000027599 Armc1 2310016N05Rik|2900046P06Rik|3110009G21Rik|AA409258|AW048872|Arcp|C330014L16Rik armadillo repeat containing 1 protein-coding 5.140 nan 1.809 4.890 3.464 2.538 7.138 5.603 3.299 5.476 4.722 2.282 6.575 8.215 6.381 6.230 5.031 5.768 2.461 1.681 1.061 3.283 2.303 1.837 7.772 250 chr10 41964990 41974889 + 0 NA intron (NM_001034858, intron 8 of 17) intron (NM_001034858, intron 8 of 17) 48443 NM_001034858 213402 Mm.211320 NM_001034858 ENSMUSG00000071324 Armc2 2610018I05Rik armadillo repeat containing 2 protein-coding 6.114 1.133 0.593 5.469 5.030 2.715 2.486 5.916 3.378 4.209 2.789 1.158 3.748 6.215 3.108 3.936 4.873 5.938 1.077 1.124 0.725 1.395 1.688 0.991 4.628 303 chr10 80391437 80404720 + 0 NA intron (NM_001306143, intron 1 of 6) intron (NM_001306143, intron 1 of 6) 1453 NM_013595 17192 Mm.7142 NM_013595 ENSMUSG00000035478 Mbd3 AI181826|AU019209 methyl-CpG binding domain protein 3 protein-coding 5.537 7.372 2.859 nan 2.661 1.468 5.055 5.243 3.495 4.831 4.654 2.648 4.256 6.477 nan 6.448 4.324 5.877 nan 3.713 2.819 8.259 4.458 3.808 8.421 1361 chr16 87688426 87689921 + 0 NA Intergenic B1_Mm|SINE|Alu -9781 NM_007520 12013 Mm.26147 NM_007520 ENSMUSG00000025612 Bach1 6230421P05Rik|AI323795 BTB and CNC homology 1, basic leucine zipper transcription factor 1 protein-coding 6.435 nan 1.030 3.702 4.978 3.985 3.908 5.944 3.085 3.387 2.670 1.751 4.558 4.353 3.153 4.238 3.676 3.898 1.085 1.311 1.408 nan 0.382 1.044 3.212 614 chr11 100979330 100982514 + 0 NA Intergenic Intergenic -10305 NM_008986 19285 Mm.21864 NM_008986 ENSMUSG00000004044 Ptrf 2310075E07Rik|AW546441|Cav-p60|Cavin polymerase I and transcript release factor protein-coding 5.893 8.826 2.586 7.264 3.747 1.488 6.608 5.832 4.028 6.084 5.600 2.892 4.837 6.298 5.983 6.795 4.725 5.897 5.026 nan 2.018 5.573 nan nan 8.399 2963 chr6 99213697 99218123 + 0 NA intron (NM_001347345, intron 4 of 19) intron (NM_001347345, intron 4 of 19) 50605 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 5.965 3.262 1.580 5.405 3.475 1.081 8.658 8.349 7.352 6.814 3.722 4.254 8.949 9.378 9.821 12.027 9.348 8.036 nan nan 1.010 3.306 1.780 1.146 6.920 1765 chr19 29229319 29233681 + 0 NA Intergenic Intergenic -20303 NM_001048177 16452 Mm.275839 NM_008413 ENSMUSG00000024789 Jak2 Fd17 Janus kinase 2 protein-coding 3.577 1.127 0.879 nan 1.635 1.786 3.738 2.236 4.551 5.864 nan 0.473 5.679 6.648 2.034 4.558 5.216 5.364 nan 0.782 0.641 0.560 nan 0.952 7.594 3155 chr7 112883908 112888162 + 0 NA intron (NM_009346, intron 10 of 12) intron (NM_009346, intron 10 of 12) -67927 NM_175279 78748 Mm.349943 NM_175279 ENSMUSG00000098132 Rassf10 4632411J06Rik Ras association (RalGDS/AF-6) domain family (N-terminal) member 10 protein-coding 8.840 8.909 4.186 10.922 5.893 3.546 6.603 8.106 5.608 7.111 5.255 4.432 7.331 8.848 8.352 7.884 7.261 8.552 nan 3.785 2.936 3.486 3.222 2.748 10.771 2959 chr6 99147663 99151596 + 0 NA intron (NM_001347345, intron 5 of 19) intron (NM_001347345, intron 5 of 19) 116886 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 2.943 1.155 0.778 2.353 3.284 1.256 2.135 6.560 3.709 3.193 4.456 3.289 2.384 3.992 nan 3.089 2.164 3.548 nan nan 0.397 1.020 0.751 0.454 1.239 3280 chr8 74665573 74666854 + 0 NA Intergenic L1_Rod|LINE|L1 -206961 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 2.846 1.512 0.944 2.969 2.302 0.870 2.455 2.975 nan 1.543 1.300 0.668 2.044 3.906 3.280 3.070 3.037 3.144 0.824 0.863 0.478 nan 0.547 0.238 3.389 130 chr1 134223113 134225699 + 0 NA intron (NM_001291930, intron 1 of 1) intron (NM_001291930, intron 1 of 1) 10450 NM_001291928 11539 Mm.298908 NM_009629 ENSMUSG00000042429 Adora1 A1-AR|A1AR|A1R|AA1R|AI848715|BB176431|Ri adenosine A1 receptor protein-coding 5.157 2.547 0.755 2.856 1.444 0.530 1.945 4.076 1.987 1.935 1.216 0.444 3.621 3.738 2.577 3.877 1.858 3.317 4.077 1.166 0.703 4.307 1.546 1.109 4.865 53 chr1 64081067 64083648 + 0 NA intron (NM_033563, intron 1 of 3) intron (NM_033563, intron 1 of 3) 39032 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 6.695 1.274 0.706 6.513 1.777 0.518 2.755 4.825 2.707 2.261 0.826 1.955 5.153 2.578 3.157 7.262 3.315 4.363 2.882 2.571 1.149 2.313 2.145 1.403 4.343 1373 chr16 92673475 92677626 + 0 NA intron (NM_001111023, intron 2 of 5) intron (NM_001111023, intron 2 of 5) 21779 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 6.687 nan 1.280 5.988 7.058 4.231 7.179 7.348 6.191 6.922 4.802 2.083 8.992 9.818 7.430 10.865 5.019 8.963 0.863 1.051 1.000 nan 0.775 0.744 9.775 2925 chr6 87570436 87571992 + 0 NA Intergenic Intergenic 19487 NM_021381 58182 Mm.333226 NM_021381 ENSMUSG00000049409 Prokr1 EG-VEGFR1|Gpr73|Pkr1 prokineticin receptor 1 protein-coding 3.125 1.331 0.407 nan 0.852 0.323 3.142 0.886 2.226 3.148 1.815 0.633 4.209 4.044 4.205 4.785 1.925 nan nan 0.407 0.236 1.399 0.161 0.060 4.903 1465 chr17 28378086 28380024 + 0 NA Intergenic B4|SINE|B4 -13912 NM_021478 22157 Mm.42102 NM_021478 ENSMUSG00000037446 Tulp1 Tulp1l tubby like protein 1 protein-coding 3.176 1.503 0.384 1.988 1.393 0.871 3.904 2.432 1.910 2.059 1.933 1.023 2.004 4.008 3.514 3.884 1.789 3.538 2.308 0.810 0.696 1.778 1.619 0.659 6.304 2990 chr6 117864419 117871156 + 0 NA intron (NM_001001792, intron 2 of 3) intron (NM_001001792, intron 2 of 3) 4710 NM_001001792 22685 Mm.249661 NM_008616 ENSMUSG00000042097 Zfp239 Mok-2|Mok2|Znf239 zinc finger protein 239 protein-coding 5.773 7.649 3.966 5.059 3.454 2.100 7.737 6.833 3.533 4.557 4.220 2.482 6.519 7.097 7.300 8.362 5.669 6.163 4.351 2.237 1.875 3.876 nan 2.295 6.532 1302 chr16 19059163 19067944 + 0 NA Intergenic Intergenic 186803 NM_010435 15260 Mm.15694 NM_010435 ENSMUSG00000022702 Hira AA138857|D16Ertd95e|Gm15797|N28177|OTTMUSG00000026264|Tuple1 histone cell cycle regulator protein-coding 0.519 10.427 5.595 0.770 0.413 0.197 0.349 0.451 0.614 nan 0.266 0.159 0.251 0.394 0.559 nan 0.587 0.582 0.535 1.202 0.675 0.347 0.238 0.253 0.374 2239 chr3 90425272 90427168 + 0 NA intron (NM_145540, intron 1 of 29) intron (NM_145540, intron 1 of 29) 7416 NM_145540 229543 Mm.268564 NM_145540 ENSMUSG00000027933 Ints3 C77668 integrator complex subunit 3 protein-coding 1.333 1.121 0.407 1.346 2.698 0.932 5.479 4.541 2.903 2.227 2.168 2.219 3.819 3.836 4.291 5.290 2.112 4.208 4.015 1.871 0.559 4.198 2.994 1.783 1.301 1397 chr17 5006818 5010073 + 0 NA intron (NM_001085355, intron 1 of 19) intron (NM_001085355, intron 1 of 19) 13371 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 2.230 2.932 1.842 3.301 1.706 1.126 2.429 2.418 2.261 2.967 1.194 0.756 2.016 3.497 2.845 4.508 nan 2.988 nan 1.784 1.464 2.482 2.108 1.527 2.882 941 chr13 56698402 56706605 + 0 NA promoter-TSS (NM_008541) promoter-TSS (NM_008541) -507 NM_008541 17129 Mm.272920 NM_008541 ENSMUSG00000021540 Smad5 1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP SMAD family member 5 protein-coding 3.426 1.484 0.714 3.137 1.753 0.939 2.303 1.249 5.031 6.671 5.036 1.813 3.538 5.157 3.584 4.441 1.494 4.379 0.807 0.518 0.448 1.001 0.336 0.280 nan 3341 chr8 107057734 107059913 + 0 NA non-coding (NR_028367, exon 4 of 4) non-coding (NR_028367, exon 4 of 4) 1946 NR_028367 66164 Mm.334789 NM_025391 ENSMUSG00000031917 Nip7 1110017C15Rik|6330509M23Rik|AA408773|AA410017|PEachy NIP7, nucleolar pre-rRNA processing protein protein-coding 7.452 8.757 2.452 9.487 3.369 2.050 3.952 7.950 5.313 8.511 4.925 3.179 6.947 6.202 9.533 11.467 5.472 9.657 5.540 1.996 2.505 9.815 2.534 2.457 12.211 3029 chr6 134846516 134848761 + 0 NA intron (NM_177687, intron 1 of 4) intron (NM_177687, intron 1 of 4) 17439 NM_177687 232430 Mm.267010 NM_177687 ENSMUSG00000032652 Crebl2 AI046348|B230205M03 cAMP responsive element binding protein-like 2 protein-coding 8.019 11.307 4.764 7.446 3.206 1.316 7.044 7.209 6.040 7.330 5.256 5.492 7.528 7.531 nan 8.827 8.854 6.776 8.565 5.682 4.107 8.343 7.103 6.029 nan 583 chr11 98216713 98228262 + 0 NA intron (NM_001109628, intron 4 of 13) intron (NM_001109628, intron 4 of 13) 19182 NM_001109626 69131 Mm.260516 NM_026952 ENSMUSG00000003119 Cdk12 1810022J16Rik|AI646528|Crk7|Crkrs|D11Ertd752e|Pksc cyclin-dependent kinase 12 protein-coding 7.812 nan 0.869 6.179 4.411 2.603 5.772 6.812 5.574 7.109 3.540 2.636 6.541 9.586 6.990 8.358 5.432 8.189 1.699 nan 1.234 1.942 nan nan 8.786 2392 chr4 69876465 69883778 + 0 NA Intergenic Intergenic 530314 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 1.751 0.769 0.388 0.844 0.374 0.285 1.195 0.734 0.743 0.469 0.722 0.314 0.674 1.134 1.718 nan 0.469 1.222 2.169 1.844 1.486 nan nan 1.143 nan 3587 chrX 103344015 103347009 + 0 NA Intergenic Lx4B|LINE|L1 -10964 NM_009767 12212 Mm.42223 NM_009767 ENSMUSG00000031327 Chic1 Brx|ENSMUSG00000073019|Gm10454 cysteine-rich hydrophobic domain 1 protein-coding 4.512 0.706 1.179 1.656 3.633 2.864 1.007 3.189 1.930 2.478 1.984 0.705 1.396 3.418 1.669 1.958 nan 1.608 0.620 0.969 1.190 0.368 0.411 0.464 1.479 3436 chr9 21527024 21535625 + 0 NA intron (NM_206536, intron 2 of 5) B1_Mur1|SINE|Alu 5147 NM_001198794 382062 Mm.325205 NM_206536 ENSMUSG00000057191 AB124611 Gm1706 cDNA sequence AB124611 protein-coding 4.203 3.124 2.011 4.587 3.026 2.249 2.486 4.864 3.842 4.421 4.993 3.724 2.698 5.213 3.817 4.624 2.500 4.615 4.469 3.817 4.075 4.473 4.882 4.687 6.059 1879 chr2 37619142 37625478 + 0 NA intron (NM_009261, intron 9 of 16) intron (NM_009261, intron 9 of 16) 24975 NM_009261 20744 Mm.237095 NM_009261 ENSMUSG00000026915 Strbp 6430510M02Rik|AI852513|C230082I21Rik|C86322|Spnr spermatid perinuclear RNA binding protein protein-coding 1.154 12.748 3.778 1.264 0.361 0.177 1.067 nan 0.705 nan 0.342 0.414 0.816 0.834 1.191 1.983 1.188 1.434 1.173 0.924 0.778 2.735 0.507 0.269 1.928 3313 chr8 89122109 89123950 + 0 NA Intergenic B1_Mus1|SINE|Alu -78867 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 5.697 0.680 0.608 2.330 1.218 0.202 3.092 9.210 3.010 3.720 0.672 0.216 4.433 4.018 5.045 7.790 4.330 4.671 nan 0.548 0.200 0.827 0.275 0.051 5.964 1824 chr2 25823299 25827612 + 0 NA TTS (NM_029959) TTS (NM_029959) 2302 NM_029959 77704 Mm.159974 NM_029959 ENSMUSG00000023210 Lcn9 9230102I19Rik lipocalin 9 protein-coding 6.039 1.588 1.237 4.504 3.831 2.148 3.726 4.072 5.308 5.109 1.508 1.765 6.441 7.720 2.895 4.233 4.211 6.730 4.601 2.456 1.800 3.607 7.963 5.631 5.292 2917 chr6 86532557 86536687 + 0 NA intron (NR_037960, intron 3 of 4) intron (NR_037960, intron 3 of 4) 7221 NR_037961 72012 Mm.349174 NR_037960 ENSMUSG00000097048 1600020E01Rik - RIKEN cDNA 1600020E01 gene ncRNA 6.130 3.675 1.222 nan 5.045 2.196 6.664 6.165 4.252 5.665 3.208 2.134 5.645 8.660 6.474 7.902 5.076 5.802 nan 2.212 1.413 4.195 2.271 2.134 7.568 1869 chr2 34962444 34966329 + 0 NA Intergenic B4|SINE|B4 -2614 NM_001326601 22029 Mm.239514 NM_009421 ENSMUSG00000026875 Traf1 4732496E14Rik TNF receptor-associated factor 1 protein-coding 9.210 8.337 3.173 6.745 3.910 2.124 3.174 5.996 5.376 9.236 2.901 1.952 6.503 7.553 5.368 9.232 7.128 8.040 3.601 2.022 2.125 3.230 2.524 2.280 8.549 3190 chr7 128216590 128219954 + 0 NA Intergenic MT2A|LTR|ERVL -11906 NM_009943 12862 Mm.43824 NM_009943 ENSMUSG00000030785 Cox6a2 CoxVIaH|VIaH cytochrome c oxidase subunit VIa polypeptide 2 protein-coding 7.141 2.359 1.204 4.106 4.006 2.591 5.272 10.041 3.397 5.007 6.466 3.003 5.834 5.534 6.783 5.127 3.906 6.250 2.234 0.750 0.781 1.697 0.711 0.668 4.717 2342 chr4 11116774 11120976 + 0 NA Intergenic B4|SINE|B4 -15222 NR_030455 735261 NR_030455 ENSMUSG00000105333 Mir684-2 Mirn684-2 microRNA 684-2 ncRNA 2.725 4.696 2.046 2.938 1.542 1.230 3.229 2.991 1.417 3.653 2.112 1.283 2.418 3.182 3.664 4.557 2.078 3.571 6.229 nan 2.919 7.057 4.752 6.035 5.280 591 chr11 98763808 98769574 + 0 NA intron (NM_001313983, intron 9 of 9) intron (NM_001313983, intron 9 of 9) 8686 NM_145434 217166 Mm.390397 NM_145434 ENSMUSG00000020889 Nr1d1 A530070C09Rik|R75201 nuclear receptor subfamily 1, group D, member 1 protein-coding 6.371 nan 1.327 3.815 6.631 5.069 8.314 7.522 4.951 4.889 4.347 4.041 5.910 7.104 6.603 7.511 6.877 6.174 1.685 nan 1.539 1.632 nan nan 5.614 3516 chr9 69313086 69322551 + 0 NA intron (NM_001289916, intron 1 of 9) intron (NM_001289916, intron 1 of 9) 27977 NM_001289916 19883 Mm.378450 NM_013646 ENSMUSG00000032238 Rora 9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26 RAR-related orphan receptor alpha protein-coding 3.054 1.148 0.539 2.660 2.192 1.309 3.761 3.116 2.908 2.781 4.689 2.541 2.210 4.101 nan 3.244 1.619 3.199 nan 1.118 0.685 0.963 1.174 0.865 2.918 2304 chr3 126345368 126348153 + 0 NA Intergenic B3|SINE|B2 -17092 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 2.836 0.700 0.500 2.624 3.165 1.584 6.306 4.774 3.279 2.358 1.929 2.133 5.085 5.488 3.968 3.669 3.549 5.517 5.434 1.982 1.426 2.008 5.990 4.390 3.055 832 chr12 113163668 113167094 + 0 NA TTS (NM_134041) TTS (NM_134041) 8960 NM_134041 104732 Mm.87616 NM_134041 ENSMUSG00000037466 4930427A07Rik AA536649|mFLJ00116 RIKEN cDNA 4930427A07 gene protein-coding 3.650 1.328 0.374 1.933 1.052 0.528 2.740 1.967 1.794 2.103 2.198 0.670 2.885 6.495 4.491 4.844 2.563 4.011 0.965 0.743 0.624 1.759 0.610 0.406 9.749 3481 chr9 44410330 44414257 + 0 NA intron (NM_201372, intron 8 of 10) intron (NM_201372, intron 8 of 10) 4579 NM_024266 75617 Mm.292027 NM_024266 ENSMUSG00000009927 Rps25 2810009D21Rik ribosomal protein S25 protein-coding 14.125 21.776 11.747 12.126 10.221 8.450 13.629 10.307 9.416 19.465 10.189 6.242 10.789 14.588 nan nan 7.856 11.816 8.566 6.689 10.192 nan 8.981 11.143 nan 2804 chr5 147136156 147138465 + 0 NA Intergenic C-rich|Low_complexity|Low_complexity -51386 NM_008178 14842 Mm.4797 NM_008178 ENSMUSG00000053129 Gsx1 Gsh-1|Gsh1 GS homeobox 1 protein-coding 4.737 2.065 1.091 5.695 2.135 1.310 2.204 3.244 4.400 5.382 1.256 0.793 5.143 5.145 4.566 nan 2.735 5.278 1.764 1.349 1.017 1.271 1.452 1.004 6.072 2341 chr4 8938297 8944626 + 0 NA Intergenic Intergenic 251055 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.984 1.148 0.630 1.238 0.745 0.414 0.361 nan 0.997 0.722 0.552 0.602 0.557 0.747 0.806 0.795 0.467 1.095 4.843 5.347 3.144 8.781 3.641 2.334 0.855 2135 chr2 181270921 181272734 + 0 NA intron (NM_198169, intron 2 of 9) B1_Mur1|SINE|Alu 16139 NM_198169 229004 Mm.220423 NM_198169 ENSMUSG00000038705 Gmeb2 AI839884 glucocorticoid modulatory element binding protein 2 protein-coding 5.855 2.200 1.967 3.847 5.274 3.545 1.921 4.850 3.199 3.402 1.903 1.359 2.016 3.498 2.405 2.230 3.743 2.606 1.358 2.643 1.063 0.770 0.863 0.932 nan 3583 chrX 100687370 100689357 + 0 NA intron (NM_008446, intron 12 of 29) intron (NM_008446, intron 12 of 29) -41484 NM_023608 71584 Mm.283495 NM_023608 ENSMUSG00000019359 Gdpd2 9130017L10Rik|Gde3|Obdpf glycerophosphodiester phosphodiesterase domain containing 2 protein-coding 6.016 5.659 3.964 4.118 3.588 2.163 5.084 7.534 3.964 7.236 4.226 2.863 5.275 6.198 5.234 6.050 9.730 5.028 3.924 4.230 5.398 6.246 4.063 4.266 6.145 828 chr12 112680964 112682822 + 0 NA 3' UTR (NM_001100460, exon 2 of 2) 3' UTR (NM_001100460, exon 2 of 2) 3053 NM_001100460 382639 Mm.11350 NM_001100460 ENSMUSG00000037638 Zbtb42 EG382639|Gm5188|simiRP58 zinc finger and BTB domain containing 42 protein-coding 6.060 4.025 0.623 5.565 1.339 0.333 5.098 4.347 2.104 3.129 6.542 1.914 1.601 3.951 3.300 3.962 1.159 3.763 0.927 0.552 0.463 1.337 0.371 0.207 6.876 276 chr10 67552564 67559563 + 0 NA Intergenic RCHARR1|DNA|hAT-Charlie -7108 NM_001005419 211488 Mm.297250 NM_001005419 ENSMUSG00000057134 Ado Gm237 2-aminoethanethiol (cysteamine) dioxygenase protein-coding 8.213 1.143 0.451 4.577 4.127 1.687 4.995 3.719 5.838 7.143 1.482 1.018 8.956 10.582 5.740 8.274 6.425 7.686 1.013 1.163 0.473 1.348 0.498 0.598 9.208 102 chr1 93767073 93770966 + 0 NA intron (NM_174874, intron 3 of 12) MTD|LTR|ERVL-MaLR 13986 NM_174874 66615 Mm.29087 NM_174874 ENSMUSG00000026280 Atg4b 2510009N07Rik|AW048066|Apg4b|Atg4bl|Autl1 autophagy related 4B, cysteine peptidase protein-coding 1.299 nan 0.370 1.025 0.344 0.211 3.397 2.622 0.769 0.862 0.418 0.442 1.028 1.246 1.440 3.297 0.974 1.704 nan 1.530 0.761 5.788 1.689 1.027 1.468 1920 chr2 92105980 92107218 + 0 NA Intergenic RMER12|LTR|ERVK -77583 NM_138755 192285 Mm.330408 NM_138755 ENSMUSG00000058318 Phf21a 80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1 PHD finger protein 21A protein-coding 2.826 1.108 0.736 1.963 1.056 0.537 3.671 4.622 2.127 2.577 1.226 1.074 4.863 4.191 3.859 5.257 4.772 4.994 1.065 0.221 0.198 0.940 0.478 0.257 2.315 2465 chr4 126429463 126436048 + 0 NA Intergenic Intergenic -3213 NM_153402 214150 Mm.440915 NM_153402 ENSMUSG00000028842 Ago3 AW048688|C130014L07Rik|Eif2c3 argonaute RISC catalytic subunit 3 protein-coding 5.921 4.329 1.746 4.831 1.832 1.084 5.423 5.778 3.254 4.776 2.518 1.938 5.473 6.126 nan 6.105 3.381 5.401 4.549 3.862 3.362 8.290 2.013 2.180 8.533 1831 chr2 26403501 26413343 + 0 NA exon (NM_033134, exon 1 of 10) exon (NM_033134, exon 1 of 10) 705 NM_001290437 64436 Mm.330070 NM_033134 ENSMUSG00000026925 Inpp5e 1200002L24Rik|72kDa|mKIAA0123 inositol polyphosphate-5-phosphatase E protein-coding 3.833 1.921 0.535 5.234 1.432 0.676 2.315 3.530 nan 3.317 10.037 2.101 3.102 3.507 3.922 5.411 2.307 5.286 0.651 0.767 0.599 1.260 0.546 0.297 6.981 3523 chr9 74818729 74820502 + 0 NA Intergenic (CA)n|Simple_repeat|Simple_repeat -28822 NR_045284 100503019 Mm.482658 NR_045284 ENSMUSG00000066477 Gm16551 - predicted gene 16551 ncRNA 4.068 1.221 0.766 3.282 1.781 1.893 2.383 3.809 3.513 3.543 1.465 1.203 3.187 5.107 2.620 4.125 3.444 3.043 1.108 2.038 1.269 1.353 0.805 0.864 nan 2992 chr6 117885287 117888265 + 0 NA Intergenic ORR1A1|LTR|ERVL-MaLR -13564 NM_001166432 98758 Mm.422979 NM_133834 ENSMUSG00000042079 Hnrnpf 4833420I20Rik|AA407306|Hnrpf heterogeneous nuclear ribonucleoprotein F protein-coding 4.085 1.219 0.608 2.288 3.302 2.045 4.029 4.312 2.230 2.592 1.963 0.855 5.316 6.974 4.044 6.403 3.167 4.628 0.864 0.618 0.823 0.975 nan 0.411 7.346 2639 chr5 31189137 31192325 + 0 NA intron (NM_010122, intron 7 of 12) intron (NM_010122, intron 7 of 12) 2408 NM_001127355 13667 Mm.29394 NM_010122 ENSMUSG00000029145 Eif2b4 Eif2b eukaryotic translation initiation factor 2B, subunit 4 delta protein-coding 7.331 10.821 2.995 9.104 3.528 1.753 7.240 8.059 5.372 7.926 4.808 3.838 6.781 8.994 9.635 10.807 6.353 7.944 5.291 2.992 2.194 7.136 4.361 4.454 9.758 3483 chr9 45927805 45929725 + 0 NA TTS (NM_011526) TTS (NM_011526) 7293 NM_011526 21345 Mm.283283 NM_011526 ENSMUSG00000032085 Tagln Sm22|Sm22a|Ws310 transgelin protein-coding 4.597 2.032 0.563 3.345 2.619 1.504 3.280 3.948 3.507 2.467 4.910 3.126 3.022 4.170 3.738 4.171 2.219 4.916 1.479 1.406 0.769 nan 0.719 0.625 3.908 1218 chr15 100494129 100500485 + 0 NA Intergenic B1_Mur1|SINE|Alu -2068 NM_153407 207785 Mm.294969 NM_153407 ENSMUSG00000044636 Csrnp2 CSRNP-2|Csnrp2|taip-12 cysteine-serine-rich nuclear protein 2 protein-coding 5.661 9.638 3.504 3.238 1.645 1.009 4.000 7.563 2.275 2.471 2.178 0.944 3.264 3.501 4.459 3.914 4.686 2.956 0.824 1.529 1.412 0.918 0.682 0.618 4.496 1404 chr17 5261123 5262310 + 0 NA intron (NM_001085355, intron 5 of 19) intron (NM_001085355, intron 5 of 19) 157051 NM_175349 106557 Mm.432764 NM_175349 ENSMUSG00000101959 Ldhal6b 4933402O15Rik|AI326310|LDHL|Ldhal lactate dehydrogenase A-like 6B protein-coding 4.442 1.413 0.444 2.550 1.434 0.443 2.100 2.758 3.358 2.784 0.503 0.940 3.922 3.902 1.801 4.391 1.364 5.943 5.245 0.917 0.804 3.777 3.812 1.484 3.571 2398 chr4 82333754 82338171 + 0 NA intron (NM_001113210, intron 6 of 11) RLTR17B_Mm|LTR|ERVK 169817 NM_001286127 18028 Mm.317947 NM_008687 ENSMUSG00000008575 Nfib 6720429L07Rik|CTF|E030026I10Rik|NF-I/B|NF1-B|NFI-B nuclear factor I/B protein-coding 0.842 0.566 0.371 0.408 0.148 0.112 0.409 0.399 0.498 0.565 0.300 0.147 0.308 0.240 0.479 0.831 0.451 0.823 4.593 6.784 4.325 10.552 2.065 1.315 0.802 1543 chr17 56301373 56307224 + 0 NA promoter-TSS (NM_001111080) promoter-TSS (NM_001111080) -15 NM_001111078 18140 Mm.42196 NM_010931 ENSMUSG00000001228 Uhrf1 AL022808|ICBP90|Np95|RNF106 ubiquitin-like, containing PHD and RING finger domains, 1 protein-coding 3.337 4.032 1.501 2.582 1.827 0.770 4.002 3.885 2.374 2.935 2.421 2.378 2.817 3.597 3.788 4.941 2.132 3.611 3.891 2.353 2.714 5.473 2.462 2.920 5.125 259 chr10 43408556 43414904 + 0 NA intron (NM_027772, intron 6 of 7) intron (NM_027772, intron 6 of 7) -67410 NM_199028 331623 Mm.490388 NM_199028 ENSMUSG00000038214 Bend3 mKIAA1553 BEN domain containing 3 protein-coding 2.938 nan 0.677 1.503 1.018 0.601 3.215 5.159 1.930 1.556 2.719 2.745 2.336 2.327 3.360 2.962 1.932 2.405 nan 1.795 1.342 3.143 2.299 1.250 2.232 424 chr11 57784385 57787632 + 0 NA 3' UTR (NM_134189, exon 12 of 12) 3' UTR (NM_134189, exon 12 of 12) 15459 NR_131042 76516 Mm.28485 NR_131042 ENSMUSG00000087165 2010001A14Rik - RIKEN cDNA 2010001A14 gene ncRNA 6.296 0.896 0.507 3.606 4.955 3.691 6.805 4.883 2.456 4.778 2.673 1.472 4.936 7.790 4.613 5.836 5.283 5.310 nan 0.897 1.552 1.445 1.528 1.815 7.437 1625 chr18 39088090 39089834 + 0 NA intron (NM_175164, intron 1 of 22) MIR|SINE|MIR 95817 NM_175164 71302 Mm.329396 NM_175164 ENSMUSG00000036452 Arhgap26 1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621 Rho GTPase activating protein 26 protein-coding 10.469 2.880 0.832 9.847 4.003 1.531 11.813 8.159 6.631 8.271 6.868 2.489 11.605 13.005 10.786 11.929 5.691 10.202 1.443 1.528 0.799 2.956 0.983 0.482 13.693 163 chr1 153473660 153476223 + 0 NA intron (NM_007842, intron 7 of 27) B1F|SINE|Alu 12719 NM_007842 13211 Mm.20000 NM_007842 ENSMUSG00000042699 Dhx9 AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5 DEAH (Asp-Glu-Ala-His) box polypeptide 9 protein-coding 3.835 0.733 0.347 2.349 2.072 0.718 1.815 1.508 3.377 2.346 1.345 1.072 2.890 3.017 2.803 4.751 3.255 3.530 nan 0.435 0.448 0.649 nan 0.222 3.081 1106 chr15 59260320 59263075 + 0 NA Intergenic Intergenic -45251 NR_045613 100416830 Mm.490788 NR_045613 ENSMUSG00000098528 Zfp572 4930472F24Rik zinc finger protein 572 pseudo 3.899 1.530 0.927 3.173 1.303 0.363 4.772 6.157 nan 2.806 2.058 2.208 6.331 6.090 6.628 nan 5.066 4.996 2.528 0.776 0.469 2.321 0.864 0.573 3.943 1402 chr17 5205546 5208414 + 0 NA intron (NM_001085355, intron 4 of 19) intron (NM_001085355, intron 4 of 19) 211787 NM_175349 106557 Mm.432764 NM_175349 ENSMUSG00000101959 Ldhal6b 4933402O15Rik|AI326310|LDHL|Ldhal lactate dehydrogenase A-like 6B protein-coding 4.479 1.774 0.709 3.735 2.896 1.327 1.945 1.944 2.418 2.660 1.788 1.458 2.139 3.491 3.068 4.926 2.897 3.338 nan 1.103 0.507 1.790 1.374 0.498 3.543 1836 chr2 26480734 26486304 + 0 NA intron (NM_008714, intron 4 of 33) intron (NM_008714, intron 4 of 33) -13400 NR_105962 102465602 NR_105962 ENSMUSG00000098548 Mir6996 Gm27531|mmu-mir-6996 microRNA 6996 ncRNA 3.718 1.245 0.443 2.918 1.429 1.005 3.147 2.816 nan 4.779 1.062 0.819 3.926 4.836 3.268 4.992 5.448 3.632 0.761 0.920 1.020 2.073 0.716 0.987 7.373 2986 chr6 116583820 116591131 + 0 NA Intergenic L1_Mus3|LINE|L1 -4531 NM_146446 258438 Mm.357743 NM_146446 ENSMUSG00000050654 Olfr215 MOR119-2 olfactory receptor 215 protein-coding 4.314 1.373 0.403 5.916 3.268 1.860 4.524 9.217 4.544 4.332 1.216 2.506 5.751 8.981 6.571 8.331 3.323 7.968 1.334 0.438 0.539 1.718 nan 0.460 5.381 2402 chr4 94949841 94951573 + 0 NA intron (NM_177239, intron 17 of 19) RLTR10|LTR|ERVK -21864 NM_001290623 67753 Mm.25097 NM_027089 ENSMUSG00000028575 Eqtn 1700028B15Rik|4930579C15Rik|Afaf|C81058|Eqtl|Eqts equatorin, sperm acrosome associated protein-coding 2.222 nan 0.527 2.606 1.295 0.708 3.477 4.205 nan nan 0.486 0.577 4.586 4.054 5.626 6.436 2.584 2.390 2.694 0.916 0.516 3.987 2.665 1.677 3.511 1531 chr17 47799769 47803722 + 0 NA Intergenic B4A|SINE|B4 16001 NM_011549 21425 Mm.2305 NM_011549 ENSMUSG00000023990 Tfeb Tcfeb|bHLHe35 transcription factor EB protein-coding 2.775 0.539 0.644 2.870 5.749 4.705 4.441 1.842 2.542 2.705 2.041 1.186 4.800 7.956 4.932 5.341 4.309 4.719 0.541 0.711 0.677 0.536 0.506 0.580 5.627 2731 chr5 118594269 118595266 + 0 NA intron (NM_001347445, intron 2 of 30) intron (NM_001347445, intron 2 of 30) 34048 NM_172424 76199 Mm.206238 NM_172424 ENSMUSG00000018076 Med13l 2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025 mediator complex subunit 13-like protein-coding 3.052 1.201 0.132 2.982 1.294 0.814 2.257 2.077 2.938 3.507 1.960 0.746 2.111 3.313 2.084 3.626 1.638 3.731 nan nan 0.626 nan 0.094 2.190 2929 chr6 87997414 88005647 + 0 NA intron (NM_001293652, intron 7 of 7) intron (NM_001293652, intron 7 of 7) 18265 NM_001293654 19349 Mm.333233 NM_009005 ENSMUSG00000079477 Rab7 Rab7a RAB7, member RAS oncogene family protein-coding 4.238 0.809 0.680 nan 2.148 1.340 3.893 7.245 1.824 1.869 1.699 1.021 4.881 5.967 3.601 5.441 4.090 nan nan 0.907 0.666 1.170 1.493 1.332 4.109 1841 chr2 28979892 28981861 + 0 NA intron (NM_001166705, intron 3 of 5) intron (NM_001166705, intron 3 of 5) -64436 NM_001164186 54422 Mm.21390 NM_019446 ENSMUSG00000026805 Barhl1 Dres115|MBH2 BarH-like 1 (Drosophila) protein-coding 7.083 11.452 3.747 7.607 2.960 2.287 6.485 7.463 nan 7.654 4.577 3.780 7.590 7.054 8.235 10.267 7.484 7.078 5.458 2.026 2.121 6.232 2.327 4.150 12.509 347 chr10 126477974 126479456 + 0 NA Intergenic Intergenic 231676 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 6.670 8.662 2.536 6.191 2.724 1.174 5.924 5.499 2.799 4.243 3.432 2.381 4.082 4.748 8.922 7.936 5.516 5.719 4.227 2.877 3.044 5.970 nan 3.104 12.215 3558 chr9 112136583 112137950 + 0 NA intron (NM_001177617, intron 10 of 14) intron (NM_001177617, intron 10 of 14) -18555 NR_029823 723815 NR_029823 ENSMUSG00000065441 Mir128-2 Mirn128-2|Mirn128b|mir-128-2|mir-128b microRNA 128-2 ncRNA 0.502 0.520 0.092 0.217 0.070 0.088 0.273 0.759 nan nan 0.059 0.123 0.241 0.311 0.199 nan 0.219 nan 6.184 6.255 4.645 6.757 6.579 5.050 nan 3294 chr8 77625165 77633201 + 0 NA TTS (NR_045467) TTS (NR_045467) 5011 NR_045467 67357 Mm.71129 NR_045467 ENSMUSG00000086781 1700092C02Rik - RIKEN cDNA 1700092C02 gene ncRNA 4.370 nan 1.075 2.720 3.382 2.722 nan 4.410 nan 3.587 1.423 1.006 7.174 7.055 6.114 7.362 7.843 3.681 1.956 1.877 1.580 nan 1.316 1.349 nan 2738 chr5 122040945 122044903 + 0 NA intron (NM_001312908, intron 2 of 22) intron (NM_001312908, intron 2 of 22) 4901 NM_007804 13048 Mm.156172 NM_007804 ENSMUSG00000042589 Cux2 1700051K22Rik|Cutl2|Cux-2|ENSMUSG00000072641 cut-like homeobox 2 protein-coding 7.097 4.409 1.000 10.169 2.229 2.006 6.810 8.260 4.980 7.799 3.289 2.438 7.199 8.400 8.348 9.999 5.517 7.662 nan nan 1.714 1.578 nan 1.199 10.872 1333 chr16 36770377 36778393 + 0 NA intron (NM_001145899, intron 5 of 6) intron (NM_001145899, intron 5 of 6) 10577 NM_001145899 57738 Mm.281804 NM_021301 ENSMUSG00000022899 Slc15a2 8430408C16Rik|C78862|Pept2 solute carrier family 15 (H+/peptide transporter), member 2 protein-coding 8.071 0.646 0.497 3.126 3.971 1.786 7.820 7.336 4.246 5.533 1.571 0.645 9.335 10.152 5.937 8.086 7.195 8.098 1.550 0.998 0.588 0.994 1.433 0.924 nan 2586 chr4 151460450 151462947 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 372128 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 3.061 nan 1.462 4.218 0.924 0.536 2.496 2.405 2.524 5.687 2.068 1.803 2.289 4.536 4.265 5.772 1.951 5.170 4.635 1.240 1.053 8.145 1.552 1.366 8.758 434 chr11 59520256 59522235 + 0 NA Intergenic Intergenic -14605 NM_172941 268417 Mm.239793 NM_172941 ENSMUSG00000020472 Zkscan17 Nizp1|Zfp496|Znf496 zinc finger with KRAB and SCAN domains 17 protein-coding 3.349 1.299 0.553 4.911 1.280 0.882 1.643 1.473 2.398 2.560 1.930 1.275 1.231 2.072 2.062 1.847 1.138 2.816 nan 1.512 0.852 2.166 0.899 0.654 2.317 865 chr13 31418497 31425186 + 0 NA Intergenic Intergenic -136329 NM_008239 15220 Mm.44235 NM_008239 ENSMUSG00000038415 Foxq1 HFH-1|Hfh1|Hfh1l|sa forkhead box Q1 protein-coding 1.653 1.012 0.832 0.570 0.754 0.712 2.507 4.029 1.939 1.588 7.651 3.822 1.840 2.455 1.753 1.859 1.163 1.682 0.728 0.790 0.385 0.664 0.501 0.354 2.344 1184 chr15 82053135 82056931 + 0 NA Intergenic MLTR25C|LTR|ERVK -4118 NM_001166475 328573 Mm.399189 NM_001166475 ENSMUSG00000075524 4930407I10Rik Gm747 RIKEN cDNA 4930407I10 gene protein-coding nan 16.373 6.714 nan 0.203 0.225 nan 0.326 0.344 nan nan 0.211 0.274 nan 0.473 0.610 nan 0.533 0.744 0.837 0.656 nan 0.528 0.606 0.714 3165 chr7 116813082 116817132 + 0 NA Intergenic Intergenic 310738 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 4.395 1.619 0.574 6.881 2.331 1.095 3.374 3.921 3.186 3.354 3.829 1.620 3.242 nan 4.214 4.685 2.629 6.125 1.536 0.772 0.575 2.885 0.676 0.883 5.956 2770 chr5 136269469 136270940 + 0 NA 3' UTR (NM_009986, exon 24 of 24) 3' UTR (NM_009986, exon 24 of 24) -25264 NM_018825 23921 Mm.425294 NM_018825 ENSMUSG00000005057 Sh2b2 Aps SH2B adaptor protein 2 protein-coding 4.374 4.799 1.694 2.976 1.969 1.031 3.920 4.002 3.028 2.800 3.558 1.467 2.687 5.454 3.969 3.470 1.999 3.007 2.067 2.178 0.733 4.174 3.310 1.455 5.434 3087 chr7 28386190 28387433 + 0 NA exon (NM_026042, exon 4 of 4) exon (NM_026042, exon 4 of 4) 5879 NM_026042 67224 Mm.41647 NM_026042 ENSMUSG00000003444 Med29 2810405O22Rik|AU020902|Ixl mediator complex subunit 29 protein-coding 3.811 2.113 0.517 3.622 2.201 0.998 3.478 4.015 2.981 2.939 0.854 1.205 2.320 2.862 3.016 3.474 2.116 5.567 3.656 1.555 1.301 2.662 2.989 1.507 4.348 442 chr11 62371176 62373149 + 0 NA intron (NM_011308, intron 19 of 44) intron (NM_011308, intron 19 of 44) 66353 NM_001252313 20185 Mm.271814 NM_011308 ENSMUSG00000018501 Ncor1 5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047 nuclear receptor co-repressor 1 protein-coding 2.869 1.685 0.853 2.463 3.562 2.092 2.892 4.257 2.488 2.553 1.062 2.530 3.118 4.178 2.660 2.141 1.761 2.697 nan 0.728 0.765 0.647 0.921 0.540 nan 2156 chr3 21882223 21891426 + 0 NA Intergenic Intergenic -189828 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 3.372 9.604 4.676 3.730 1.824 0.885 3.902 3.536 3.667 3.083 2.519 1.092 5.166 3.664 4.558 4.777 3.794 4.694 0.706 0.880 0.481 1.158 0.345 0.270 2.813 1577 chr17 83775685 83777627 + 0 NA intron (NM_001171053, intron 9 of 13) PB1|SINE|Alu 70134 NM_025325 107766 Mm.30100 NM_025325 ENSMUSG00000000673 Haao 0610007K21Rik|0610012J07Rik|3-HAO|3-HAOxase|3HAO 3-hydroxyanthranilate 3,4-dioxygenase protein-coding 3.527 1.841 1.281 1.499 2.445 1.489 5.366 3.697 2.373 2.457 1.170 2.701 5.239 4.514 4.463 4.659 4.314 3.644 3.561 3.415 1.426 2.849 5.091 2.219 2.679 1572 chr17 80368257 80370130 + 0 NA intron (NM_001145452, intron 12 of 17) MIRb|SINE|MIR 4349 NR_028385 791338 Mm.204722 NR_028385 Gm10190 ENSMUSG00000066938 predicted gene 10190 ncRNA 3.297 5.643 1.755 3.819 4.199 1.906 7.896 3.284 nan 3.890 4.102 3.081 6.486 8.017 6.932 8.040 7.288 5.969 0.853 0.688 0.646 0.742 0.797 0.657 6.519 2851 chr6 38703473 38704597 + 0 NA intron (NM_001294144, intron 12 of 14) intron (NM_001294144, intron 12 of 14) 40966 NM_001101507 665180 Mm.349066 NM_001101507 ENSMUSG00000079598 Clec2l AI414054|AW122724|Gm1064 C-type lectin domain family 2, member L protein-coding 3.358 1.252 0.565 3.309 1.142 0.352 2.717 4.950 2.986 2.506 0.831 0.414 4.832 4.951 4.015 6.099 2.782 7.224 nan 0.485 0.109 nan nan 0.330 2.869 3129 chr7 73470195 73471279 + 0 NA intron (NM_001081345, intron 24 of 38) RSINE1|SINE|B4 71009 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 2.399 1.381 0.252 2.037 2.030 0.904 3.149 1.341 2.441 2.644 1.219 0.805 1.479 3.622 2.517 2.361 2.076 2.583 1.797 2.011 0.284 1.866 1.439 0.606 3.347 689 chr11 119690816 119700135 + 0 NA intron (NM_028898, intron 3 of 33) intron (NM_028898, intron 3 of 33) 92570 NM_028898 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 0.692 nan 0.449 0.764 0.480 0.264 nan nan 1.063 nan 0.780 2.124 0.404 0.564 0.622 0.744 0.438 nan 6.440 nan 2.590 6.758 5.969 4.232 0.592 886 chr13 42183449 42185020 + 0 NA exon (NM_007772, exon 9 of 9) exon (NM_007772, exon 9 of 9) -117242 NM_010104 13614 Mm.14543 NM_010104 ENSMUSG00000021367 Edn1 ET-1|PPET1|preproET endothelin 1 protein-coding 3.796 1.882 0.798 2.617 2.601 1.344 5.499 6.065 3.743 5.271 0.991 1.273 4.838 4.894 6.173 5.895 2.489 5.189 2.497 1.214 0.134 5.731 0.737 0.738 6.029 3462 chr9 32256485 32259106 + 0 NA intron (NM_001195632, intron 21 of 21) intron (NM_001195632, intron 21 of 21) 33546 NM_177379 330914 Mm.46683 NM_177379 ENSMUSG00000041444 Arhgap32 3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap Rho GTPase activating protein 32 protein-coding 0.723 0.941 1.037 0.599 0.373 0.192 0.487 0.263 0.396 0.340 0.316 0.395 0.274 0.300 0.295 nan 0.519 0.526 7.311 5.145 5.051 6.368 5.545 4.910 0.565 1116 chr15 62264843 62265997 + 0 NA Intergenic Intergenic -45969 NR_003523 67552 Mm.484027 NM_026230 H2afy3 4933432H23Rik H2A histone family, member Y3 pseudo 1.185 1.300 1.483 1.034 1.469 0.202 nan 3.601 nan nan 0.074 0.282 1.868 3.863 3.760 2.320 1.114 1.807 0.373 0.228 0.245 0.495 0.322 0.229 0.762 2835 chr6 28210867 28212681 + 0 NA Intergenic Intergenic 49827 NM_001081678 627049 Mm.84441 NM_001081678 ENSMUSG00000039841 Zfp800 AA407452|Znf800 zinc finger protein 800 protein-coding 5.679 13.721 1.984 8.921 1.790 1.446 6.448 5.539 3.169 13.382 4.872 2.608 5.085 5.807 9.422 10.045 4.419 8.940 4.118 1.065 2.769 5.109 2.393 5.300 14.491 1329 chr16 30050232 30072156 + 0 NA Intergenic Intergenic -4163 NM_008235 15205 Mm.390859 NM_008235 ENSMUSG00000022528 Hes1 Hry|bHLHb39 hairy and enhancer of split 1 (Drosophila) protein-coding 9.143 2.823 1.074 6.370 4.425 2.970 9.416 10.465 5.610 8.887 6.171 4.434 nan 11.654 9.290 nan 6.924 9.689 3.448 1.562 1.329 3.603 nan 2.268 13.583 2869 chr6 52124823 52130676 + 0 NA Intergenic MTD|LTR|ERVL-MaLR 24800 NR_110440 102635415 Mm.333063 NR_110440 ENSMUSG00000085412 Halr1 Gm15055|Haunt|Linchoxa1|OTTMUSG00000018881|linc-Evx1|linc-Hoxa1|linc1547 Hoxa adjacent long noncoding RNA 1 ncRNA 4.021 2.428 0.835 5.742 2.270 1.106 1.305 1.088 2.685 3.211 1.071 0.688 1.054 2.326 2.139 3.272 1.550 3.332 nan 0.737 0.426 0.732 0.384 0.326 3.303 1725 chr19 5910463 5914332 + 0 NA intron (NM_011262, intron 1 of 10) CpG 474 NM_011262 19708 Mm.2651 NM_011262 ENSMUSG00000024826 Dpf2 2210010M07Rik|BAF45D|Req|ubi-d4 D4, zinc and double PHD fingers family 2 protein-coding 7.832 7.229 3.618 7.267 5.264 2.670 6.834 8.276 5.195 6.202 5.016 3.429 4.614 7.611 6.342 7.339 7.923 7.261 2.504 3.145 2.461 4.018 4.192 3.010 9.579 3568 chrX 48370175 48372915 + 0 NA intron (NM_178782, intron 5 of 14) MIRb|SINE|MIR 30187 NM_178782 320376 Mm.210146 NM_178782 ENSMUSG00000036959 Bcorl1 6720425J07Rik|B930011H20Rik BCL6 co-repressor-like 1 protein-coding 5.982 6.839 2.756 5.679 2.912 1.696 4.265 4.769 3.203 6.585 4.596 2.376 4.061 5.240 5.130 6.610 2.799 6.057 3.005 1.562 1.566 3.207 1.777 2.025 9.134 2379 chr4 58997304 59000358 + 0 NA Intergenic Intergenic -4362 NM_001033165 72429 Mm.317801 NM_001033165 ENSMUSG00000070972 Dnajc25 2010109C08Rik|2010203O07Rik DnaJ heat shock protein family (Hsp40) member C25 protein-coding 5.590 nan 0.808 3.734 2.124 2.408 6.651 6.264 4.940 4.152 2.844 3.352 5.735 5.253 6.414 7.074 5.362 6.203 nan 1.535 1.482 4.548 1.631 1.767 8.297 727 chr12 33996222 34001512 + 0 NA Intergenic L1Md_A|LINE|L1 41196 NM_011658 22160 Mm.3280 NM_011658 ENSMUSG00000035799 Twist1 M-Twist|Pde|Ska10|Ska|Twist|bHLHa38|pdt twist basic helix-loop-helix transcription factor 1 protein-coding 4.679 11.314 5.062 3.909 1.842 0.793 1.191 2.879 nan 2.798 1.767 0.947 3.225 3.430 3.262 4.210 2.381 3.937 nan 1.832 1.130 4.070 2.450 1.778 6.495 3243 chr8 26228165 26231150 + 0 NA Intergenic Intergenic 71488 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 0.799 9.854 6.201 1.263 0.720 0.727 0.597 0.927 0.769 1.038 0.401 0.681 0.496 0.539 0.970 1.015 1.176 0.951 0.681 1.349 1.340 nan 0.424 0.439 0.833 320 chr10 82791764 82801052 + 0 NA Intergenic B3A|SINE|B2 -15715 NR_038042 70003 Mm.48789 NR_038042 ENSMUSG00000056821 1700028I16Rik - RIKEN cDNA 1700028I16 gene ncRNA 2.707 13.022 6.942 nan 0.915 0.697 0.769 0.867 1.376 2.233 0.550 0.583 0.990 1.242 nan 1.560 1.279 1.902 nan 2.594 1.947 2.244 2.009 1.659 2.271 939 chr13 56214370 56218267 + 0 NA Intergenic Intergenic 27622 NR_131023 75245 Mm.159475 NR_131023 ENSMUSG00000097361 4930550C17Rik - RIKEN cDNA 4930550C17 gene ncRNA 6.694 1.683 0.977 6.883 5.128 2.856 4.176 5.182 5.702 8.084 3.059 2.242 4.956 8.161 4.644 7.288 3.526 8.296 2.104 1.413 1.484 2.428 0.637 0.636 8.242 3528 chr9 78063766 78066732 + 0 NA 3' UTR (NM_008103, exon 6 of 6) 3' UTR (NM_008103, exon 6 of 6) 13291 NM_008103 14531 Mm.1400 NM_008103 ENSMUSG00000023333 Gcm1 GCMa|Gcm-rs2|Gcm1-rs1|glide glial cells missing homolog 1 (Drosophila) protein-coding 2.526 0.672 0.434 1.290 0.859 0.333 2.991 5.001 3.008 2.194 2.029 4.675 3.170 2.845 3.671 3.856 2.246 3.366 0.571 nan 0.289 0.526 0.528 0.481 nan 2619 chr5 9101665 9116429 + 0 NA intron (NM_001081029, intron 2 of 4) intron (NM_001081029, intron 2 of 4) 8310 NM_001081029 652925 Mm.439954 NM_001081029 ENSMUSG00000079659 Tmem243 4930420K17Rik|E030031F02Rik transmembrane protein 243, mitochondrial protein-coding 6.844 4.766 2.341 6.525 4.703 2.617 5.268 5.037 6.996 9.356 1.322 1.344 7.607 10.091 8.591 8.173 7.344 9.255 0.743 0.971 0.702 0.781 0.542 0.283 6.624 811 chr12 86319525 86321510 + 0 NA Intergenic Intergenic -40600 NM_001159500 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 7.617 0.508 1.036 2.622 8.852 9.149 3.868 8.226 2.548 5.416 0.567 0.553 7.647 7.954 3.747 1.976 10.251 3.768 0.666 0.517 0.679 0.492 0.918 0.536 5.615 1670 chr18 69574084 69578845 + 0 NA intron (NM_013685, intron 8 of 19) intron (NM_013685, intron 8 of 19) 230743 NM_001083967 21413 Mm.4269 NM_013685 ENSMUSG00000053477 Tcf4 5730422P05Rik|ASP-I2|E2-2|E2.2|ITF-2|ITF-2b|ITF2|ME2|MITF-2A|MITF-2B|SEF-2|SEF2|SEF2-1|TFE|Tcf-4|bHLHb19 transcription factor 4 protein-coding 5.648 1.934 0.732 6.156 2.835 2.120 1.793 1.928 4.216 3.932 2.457 2.530 2.926 3.274 3.117 3.104 2.159 4.617 3.667 2.600 1.279 4.126 2.314 1.879 2.274 2010 chr2 153247808 153265122 + 0 NA intron (NM_080463, intron 4 of 6) MIR|SINE|MIR 14933 NM_080463 140484 Mm.293761 NM_080463 ENSMUSG00000046020 Pofut1 O-FucT-1|mKIAA0180 protein O-fucosyltransferase 1 protein-coding nan 1.094 0.467 3.734 1.384 0.802 5.091 7.753 nan nan 0.987 1.343 nan nan 4.890 5.702 3.212 nan nan 0.993 0.706 1.609 0.845 0.724 nan 2834 chr6 22300570 22306740 + 0 NA Intergenic Intergenic 15428 NM_053116 93735 Mm.137403 NM_053116 ENSMUSG00000029671 Wnt16 E130309I19Rik wingless-type MMTV integration site family, member 16 protein-coding 5.655 4.502 1.769 3.684 3.005 1.544 12.798 10.731 4.209 4.813 1.586 4.813 9.277 8.191 8.521 11.201 8.685 4.788 2.419 1.519 1.442 2.349 2.304 1.987 5.889 465 chr11 69792616 69797459 + 0 NA intron (NM_009601, intron 2 of 10) intron (NM_009601, intron 2 of 10) 900 NM_009601 11443 Mm.86425 NM_009601 ENSMUSG00000041189 Chrnb1 Achr-2|Acrb cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) protein-coding 7.398 8.680 3.257 7.289 3.954 2.385 6.620 6.804 3.972 7.353 5.036 3.227 5.855 8.517 7.892 8.967 5.685 6.770 3.822 2.775 2.849 5.441 3.002 3.116 9.476 249 chr10 41950645 41951876 + 0 NA intron (NM_001034858, intron 11 of 17) MTD|LTR|ERVL-MaLR 63821 NM_001013370 140742 Mm.139418 NM_001013370 ENSMUSG00000038332 Sesn1 1110002G11Rik|AU044290|Pa26|Sest1 sestrin 1 protein-coding 2.830 0.872 0.891 3.130 5.520 3.065 1.942 5.699 1.529 2.319 1.605 1.058 2.329 3.414 2.546 1.833 3.220 3.439 0.868 0.983 1.187 1.941 0.705 0.480 1.955 3342 chr8 107114681 107117917 + 0 NA Intergenic Intergenic -19754 NR_104410 21750 Mm.6402 NM_009353 ENSMUSG00000031921 Terf2 TRF2 telomeric repeat binding factor 2 protein-coding 3.465 3.444 1.385 2.888 1.720 0.602 2.663 4.687 1.857 2.828 2.311 1.519 3.630 3.664 3.798 5.672 3.237 3.851 1.775 2.763 1.762 nan 2.043 1.295 3.895 1612 chr18 35879567 35883065 + 0 NA Intergenic Intergenic 51498 NM_133687 67393 Mm.94560 NM_133687 ENSMUSG00000046668 Cxxc5 4930415K17Rik CXXC finger 5 protein-coding 5.718 2.549 1.092 6.022 2.565 0.941 2.047 3.391 3.064 3.869 2.437 2.014 2.468 2.699 2.817 nan 2.228 5.487 1.672 1.262 1.204 1.863 1.138 1.164 4.304 819 chr12 86812545 86817578 + 0 NA Intergenic Intergenic 69753 NM_145836 238330 Mm.248358 NM_145836 ENSMUSG00000034168 Irf2bpl 6430527G18Rik|Eap1 interferon regulatory factor 2 binding protein-like protein-coding 9.780 5.603 1.877 10.201 4.748 2.629 7.002 8.532 6.647 9.817 4.986 4.928 8.370 11.416 9.845 11.955 8.002 8.839 4.130 1.813 1.489 5.321 2.656 2.172 14.050 1177 chr15 81626931 81643332 + 0 NA intron (NM_177821, intron 20 of 30) intron (NM_177821, intron 20 of 30) -28758 NM_001289712 214669 Mm.280768 NM_145993 ENSMUSG00000022394 L3mbtl2 4732493N06Rik|M4mbt l(3)mbt-like 2 (Drosophila) protein-coding 6.454 nan 0.729 6.803 3.122 2.024 nan 10.701 5.082 nan nan 1.952 10.849 10.959 5.601 7.774 nan 7.950 2.374 1.391 1.233 nan 2.192 1.706 6.759 1189 chr15 83392853 83397613 + 0 NA intron (NM_011862, intron 2 of 10) intron (NM_011862, intron 2 of 10) -27936 NR_027980 69291 Mm.66794 NM_001033147 1700001L05Rik - RIKEN cDNA 1700001L05 gene ncRNA 9.957 7.562 2.792 9.827 6.571 4.411 9.862 14.805 nan 7.158 6.636 4.345 10.014 11.226 nan 9.179 7.042 nan nan 3.004 2.887 nan 2.321 2.636 10.805 1127 chr15 73224524 73225777 + 0 NA intron (NM_001130409, intron 27 of 29) intron (NM_001130409, intron 27 of 29) 29732 NR_029561 387169 NR_029561 ENSMUSG00000065612 Mir151 Mirn151|mir-151|mmu-mir-151 microRNA 151 ncRNA 3.482 nan 0.248 1.879 1.671 1.141 3.698 4.368 2.312 1.549 nan 0.931 5.829 3.799 2.299 2.069 4.536 3.202 1.954 2.292 0.891 1.390 3.208 3.316 0.985 1537 chr17 53617409 53620154 + 0 NA intron (NM_020005, intron 2 of 17) intron (NM_020005, intron 2 of 17) 34655 NM_001190846 18519 Mm.255025 NM_020005 ENSMUSG00000000708 Kat2b A930006P13Rik|AI461839|AW536563|Pcaf|p/CAF K(lysine) acetyltransferase 2B protein-coding 9.397 12.471 3.862 11.570 7.688 5.231 8.483 6.779 6.772 12.458 7.290 4.344 6.837 9.450 8.732 12.012 6.880 9.041 4.753 2.740 3.170 5.288 3.152 4.104 15.186 894 chr13 45625922 45628676 + 0 NA intron (NM_001199304, intron 5 of 6) intron (NM_001199304, intron 5 of 6) 119855 NM_025508 66355 Mm.290802 NM_025508 ENSMUSG00000000253 Gmpr 2310004P21Rik|AV028449|GMPR 1 guanosine monophosphate reductase protein-coding 3.150 0.567 0.328 nan 4.552 1.789 3.000 2.223 1.602 2.843 0.988 0.509 2.916 6.767 4.147 5.127 3.807 3.588 0.535 nan 0.372 0.475 0.730 0.489 6.266 1748 chr19 10598553 10600709 + 0 NA intron (NM_145496, intron 2 of 16) intron (NM_145496, intron 2 of 16) 4627 NM_145496 225913 Mm.374868 NM_145496 ENSMUSG00000034371 Tkfc BC021917|Dak triokinase, FMN cyclase protein-coding 8.243 14.313 5.757 9.736 7.542 6.342 9.258 9.485 nan 11.119 6.440 3.422 5.603 10.419 8.079 8.386 8.085 7.616 2.909 2.335 4.237 5.966 3.772 5.125 14.073 3425 chr9 15332389 15340508 + 0 NA intron (NM_176976, intron 11 of 26) intron (NM_176976, intron 11 of 26) -10118 NR_028568 100216535 NR_028568 Scarna9 Z32 small Cajal body-specific RNA 9 ncRNA 3.091 8.228 3.849 2.865 1.145 0.481 1.693 3.440 1.998 2.046 1.445 0.712 1.731 2.203 2.134 1.969 1.851 2.979 1.991 2.104 1.187 2.462 2.631 1.294 3.224 2127 chr2 180065822 180070026 + 0 NA 3' UTR (NM_178750, exon 11 of 11) 3' UTR (NM_178750, exon 11 of 11) -2669 NM_001083328 52856 Mm.219658 NM_028422 ENSMUSG00000039069 Mtg2 1810011P19Rik|2900056P18Rik|D2Bwg0647e|Gtpbp5 mitochondrial ribosome associated GTPase 2 protein-coding 0.977 0.585 0.154 2.775 0.475 0.290 1.056 2.493 3.483 3.229 7.936 6.094 1.455 1.195 0.830 nan 0.764 nan 0.651 0.251 0.204 1.082 0.298 0.159 1.786 858 chr13 23775166 23778193 + 0 NA Intergenic Intergenic -5862 NM_001029935 214158 Mm.314151 NM_001029935 ENSMUSG00000064140 Trim38 Gm23 tripartite motif-containing 38 protein-coding 5.480 8.406 3.280 6.857 3.504 1.596 3.055 5.101 4.384 4.379 5.161 3.305 4.394 7.072 5.736 6.270 3.905 5.526 3.728 2.222 1.775 3.186 1.798 1.388 5.532 1298 chr16 18777037 18779729 + 0 NA TTS (NM_013805) TTS (NM_013805) 1536 NM_013805 12741 Mm.22768 NM_013805 ENSMUSG00000041378 Cldn5 AI854493|MBEC1|Tmvcf claudin 5 protein-coding 3.172 1.320 0.366 9.002 0.795 0.402 1.786 1.254 2.258 3.764 1.269 0.455 1.437 1.942 2.861 4.084 1.204 6.234 0.777 0.734 0.659 1.593 0.277 0.425 5.373 140 chr1 135293743 135298551 + 0 NA Intergenic Intergenic -12063 NM_001159624 215615 Mm.291048 NM_145417 ENSMUSG00000041926 Rnpep - arginyl aminopeptidase (aminopeptidase B) protein-coding 3.108 0.748 0.659 6.109 1.567 0.947 0.975 1.218 2.128 1.914 2.819 2.562 0.860 nan 1.413 2.263 1.249 3.039 5.432 2.685 2.443 5.001 5.080 4.252 3.029 2222 chr3 89054619 89056566 + 0 NA intron (NM_138679, intron 15 of 26) B3|SINE|B2 34439 NM_001083808 72296 Mm.27687 NM_028188 ENSMUSG00000041263 Rusc1 2210403N08Rik|AA408288|NESCA RUN and SH3 domain containing 1 protein-coding 6.491 9.915 1.840 8.046 2.063 1.102 7.033 8.063 5.433 5.284 1.702 2.166 9.947 6.540 7.995 8.494 4.668 9.018 2.963 1.585 0.692 3.831 3.348 1.640 10.518 1900 chr2 70344594 70347825 + 0 NA intron (NM_177376, intron 30 of 34) intron (NM_177376, intron 30 of 34) -128714 NM_022435 64406 Mm.423397 NM_022435 ENSMUSG00000075304 Sp5 - trans-acting transcription factor 5 protein-coding 5.799 0.923 0.446 2.638 0.967 0.450 3.616 3.169 2.032 2.096 0.418 0.619 4.141 1.611 4.285 5.814 6.045 5.073 1.483 0.779 0.678 1.919 1.027 1.113 10.712 3460 chr9 31922554 31927147 + 0 NA Intergenic B2_Mm2|SINE|B2 -11565 NM_013800 12023 Mm.261044 NM_013800 ENSMUSG00000032033 Barx2 2310006E12Rik|Barx2b BarH-like homeobox 2 protein-coding 2.516 0.717 0.698 1.375 0.745 0.435 3.146 5.979 1.660 1.157 9.743 4.935 2.581 1.956 1.639 nan 1.155 2.386 2.544 1.929 1.020 2.092 2.146 1.645 0.660 385 chr11 6426555 6429661 + 0 NA 3' UTR (NM_029938, exon 5 of 5) 3' UTR (NM_029938, exon 5 of 5) 12238 NM_008907 268373 Mm.5246 NM_008907 ENSMUSG00000071866 Ppia 2700098C05|Cphn|CyP-18|CypA peptidylprolyl isomerase A protein-coding 8.302 12.310 6.388 5.227 4.953 4.397 7.353 7.234 6.777 5.843 6.246 5.469 5.596 5.694 7.130 9.309 7.548 7.506 3.588 nan 3.809 3.465 2.919 3.411 8.379 954 chr13 94862582 94865234 + 0 NA Intergenic B3|SINE|B2 -11719 NM_011021 18420 Mm.42051 NM_011021 ENSMUSG00000021685 Otp - orthopedia homeobox protein-coding 4.086 0.666 0.404 2.181 2.667 1.411 3.876 3.305 3.682 4.180 0.904 0.692 3.527 5.106 6.230 6.928 4.647 4.375 0.799 0.809 0.800 0.663 0.686 0.666 4.288 1359 chr16 85150593 85153837 + 0 NA intron (NM_007471, intron 1 of 15) intron (NM_007471, intron 1 of 15) 21492 NM_001198825 11820 Mm.277585 NM_007471 ENSMUSG00000022892 App Abeta|Abpp|Adap|Ag|Cvap|E030013M08Rik|betaApp amyloid beta (A4) precursor protein protein-coding 5.465 nan 0.849 5.199 4.954 1.835 3.679 6.067 4.044 3.362 3.459 1.352 5.077 7.079 4.690 4.869 3.315 6.115 1.089 0.867 0.302 nan 0.287 0.390 5.322 1479 chr17 31987508 32002993 + 0 NA intron (NM_028902, intron 6 of 7) intron (NM_028902, intron 6 of 7) 39258 NM_028902 74377 Mm.75856 NM_028902 ENSMUSG00000002076 Hsf2bp 4932437G14Rik heat shock transcription factor 2 binding protein protein-coding 5.286 4.378 1.745 7.098 5.185 2.905 4.815 5.112 5.850 10.306 6.846 3.460 4.084 7.703 4.309 6.556 4.498 6.460 3.592 3.543 2.615 6.409 3.525 2.972 6.819 2578 chr4 150537866 150545820 + 0 NA intron (NM_001085492, intron 11 of 22) B2_Mm1t|SINE|B2 110331 NM_173774 242773 Mm.29280 NM_173774 ENSMUSG00000039838 Slc45a1 C230078B22|Dnb5 solute carrier family 45, member 1 protein-coding 0.287 nan 0.164 0.693 0.108 0.138 0.239 0.148 0.445 0.308 0.127 0.152 0.104 0.245 0.402 0.448 0.188 0.701 4.164 1.797 1.179 10.129 1.161 0.651 0.636 801 chr12 84206106 84207585 + 0 NA intron (NM_001163501, intron 1 of 12) L2|LINE|L2 12036 NM_001163501 238317 Mm.31256 NM_001163501 ENSMUSG00000042507 Elmsan1 9430029N19Rik|C130039O16Rik|Gm260 ELM2 and Myb/SANT-like domain containing 1 protein-coding 3.511 0.907 0.298 2.438 1.104 0.338 2.900 2.971 1.957 2.551 0.713 0.442 4.745 4.968 6.384 nan 2.864 3.748 0.581 0.348 0.011 0.462 0.171 0.066 nan 985 chr14 21525956 21527726 + 0 NA intron (NM_017479, intron 2 of 16) ID_B1|SINE|B4 27056 NM_017479 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 8.965 9.557 2.506 10.658 4.878 4.429 5.766 9.448 4.750 10.910 6.902 3.169 6.520 9.469 9.532 9.924 5.078 7.630 6.808 2.619 3.790 7.256 4.954 6.513 14.723 971 chr14 12514725 12515928 + 0 NA intron (NM_012061, intron 11 of 28) intron (NM_012061, intron 11 of 28) -169461 NM_080433 54713 Mm.34644 NM_080433 ENSMUSG00000021743 Fezf2 AI451466|AI852056|Fez|Fezl|Zfp312 Fez family zinc finger 2 protein-coding 2.438 0.216 0.605 1.756 2.412 1.282 3.173 3.118 3.456 2.065 2.029 1.631 2.855 3.360 4.078 4.199 2.555 4.351 0.985 0.784 0.988 1.004 1.185 0.020 2.637 754 chr12 57459050 57460443 + 0 NA Intergenic Intergenic 86375 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 4.744 nan 1.082 2.633 7.560 6.947 3.818 1.357 3.342 3.257 1.615 0.812 4.359 3.945 2.056 2.794 5.599 4.783 0.817 0.773 1.171 0.642 1.365 1.205 3.609 3151 chr7 112759185 112773183 + 0 NA intron (NM_009346, intron 2 of 12) L2b|LINE|L2 6800 NM_001166585 21676 Mm.24685 NM_009346 ENSMUSG00000055320 Tead1 2610024B07Rik|B230114H05Rik|Gtrgeo5|TEAD-1|TEF-1|Tcf13|mTEF-1 TEA domain family member 1 protein-coding 7.336 0.719 0.458 3.872 4.717 2.272 6.504 6.906 3.344 5.837 1.835 1.155 8.076 10.081 5.549 6.421 5.838 6.606 nan 1.106 0.475 0.740 1.131 0.722 8.684 479 chr11 70729810 70734043 + 0 NA TTS (NM_153103) TTS (NM_153103) 25936 NR_105890 102465557 NR_105890 ENSMUSG00000105932 Mir6925 mmu-mir-6925 microRNA 6925 ncRNA 5.021 1.271 1.151 2.008 4.422 2.988 5.712 3.427 4.581 5.390 1.026 1.502 5.122 5.477 4.018 5.703 3.706 4.620 0.868 1.180 0.941 1.106 nan 0.664 3.264 847 chr13 14179919 14186169 + 0 NA intron (NM_198122, intron 17 of 22) intron (NM_198122, intron 17 of 22) 119260 NM_198122 94246 Mm.439784 NM_194262 ENSMUSG00000039219 Arid4b BCAA|BRCAA1|RBBP1L1|Rbp1l1|SAP180 AT rich interactive domain 4B (RBP1-like) protein-coding 3.138 0.555 0.686 2.826 4.808 3.593 2.719 2.202 3.095 3.269 0.765 0.835 3.888 nan 2.670 3.457 nan 3.584 0.768 0.779 0.828 0.542 0.890 0.888 nan 1166 chr15 78970627 78972768 + 0 NA intron (NM_001039156, intron 8 of 24) intron (NM_001039156, intron 8 of 24) -11359 NM_001024716 110253 Mm.123714 NM_138579 ENSMUSG00000033088 Triobp AI428493|EST478828|Tara|mKIAA1662 TRIO and F-actin binding protein protein-coding 7.043 nan 2.268 6.656 3.544 2.104 6.411 11.311 3.609 5.205 nan 3.608 6.146 7.150 6.889 6.269 5.803 6.080 3.820 2.599 2.492 nan 3.569 3.199 7.536 3061 chr7 6237601 6238526 + 0 NA intron (NM_133204, intron 5 of 5) intron (NM_133204, intron 5 of 5) -14647 NM_001177416 627821 Mm.99441 NM_001177416 ENSMUSG00000053367 Gm6792 EG627821 predicted gene 6792 protein-coding 5.530 10.388 2.420 5.146 3.265 0.853 2.221 4.791 2.357 4.107 1.815 1.130 2.341 4.010 4.495 6.062 3.435 4.897 4.234 3.726 3.175 4.142 4.632 3.339 7.066 3091 chr7 29706988 29748501 + 0 NA promoter-TSS (NM_029714) promoter-TSS (NM_029714) -729 NM_029714 76718 Mm.69030 NM_029714 ENSMUSG00000049123 Catsperg2 1700067C01Rik|CATSPERG catsper channel auxiliary subunit gamma 2 protein-coding 6.921 2.569 1.449 5.743 6.508 3.936 7.654 7.856 5.171 5.771 5.134 3.176 7.526 9.473 7.478 6.816 5.909 6.744 2.343 2.174 1.599 2.451 2.634 2.114 8.105 2166 chr3 30143783 30146405 + 0 NA Intergenic Intergenic -131890 NM_007963 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 7.327 0.540 0.437 5.768 3.255 0.816 7.202 2.226 9.612 9.175 3.427 6.002 11.410 5.623 6.623 10.031 6.721 11.840 0.696 0.938 0.295 1.637 0.368 0.145 10.990 1563 chr17 66278690 66281626 + 0 NA Intergenic Lx7|LINE|L1 156638 NM_001003919 320209 Mm.259605 NM_001003919 ENSMUSG00000035842 Ddx11 4732462I11Rik|CHL1|CHLR1|KRG2|essa15a DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 protein-coding 4.167 1.523 0.832 3.260 2.224 1.622 2.614 4.954 nan 3.598 2.341 1.077 2.520 5.682 3.333 5.660 3.836 3.979 1.545 1.699 1.085 2.184 0.977 0.663 3.912 1003 chr14 48750287 48751893 + 0 NA intron (NR_029384, intron 4 of 4) intron (NR_029384, intron 4 of 4) 81802 NR_029384 606497 Mm.165199 NR_029384 ENSMUSG00000098682 Otx2os1 - orthodenticle homeobox 2 opposite strand 1 ncRNA 5.416 1.787 0.306 4.231 1.679 0.854 1.587 1.405 2.897 3.595 4.494 1.354 1.203 2.994 2.551 2.869 1.170 2.533 0.523 0.764 0.381 0.703 0.368 0.418 4.251 1378 chr16 93533032 93535708 + 0 NA Intergenic Intergenic 69445 NM_145482 224440 Mm.10628 NM_145482 ENSMUSG00000022948 Setd4 AY037804|C21orf18|ORF21 SET domain containing 4 protein-coding 7.508 0.726 0.379 1.592 0.708 0.216 2.343 4.793 nan 2.134 4.265 1.693 5.541 2.639 nan 3.620 4.026 nan nan 1.376 0.340 2.084 0.882 0.559 5.490 1054 chr15 8391865 8397670 + 0 NA intron (NM_201232, intron 1 of 45) MIRb|SINE|MIR 49696 NM_027707 71175 Mm.240329 NM_027707 ENSMUSG00000022141 Nipbl Idn3 Nipped-B homolog (Drosophila) protein-coding 9.264 11.211 4.504 9.008 5.281 3.597 9.587 11.166 5.844 10.094 5.869 4.478 9.990 9.536 9.357 8.785 8.484 8.648 5.748 2.963 3.270 5.422 3.910 4.875 10.346 1800 chr19 47031310 47038349 + 0 NA intron (NR_133574, intron 9 of 9) intron (NR_133574, intron 9 of 9) 16077 NM_027654 71041 Mm.35413 NM_027654 ENSMUSG00000025050 Pcgf6 4933407A11Rik|AI604840|MBLR|Rnf134 polycomb group ring finger 6 protein-coding 3.864 4.475 1.574 nan 3.090 2.166 4.419 6.293 3.250 4.944 5.050 3.233 3.612 5.760 5.312 6.388 4.914 5.514 2.878 1.975 1.818 5.533 3.031 3.025 6.072 2821 chr5 152117780 152119477 + 0 NA Intergenic Intergenic -467420 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 3.834 0.699 0.540 3.052 5.492 2.878 2.809 2.616 3.404 3.596 3.010 1.852 2.018 3.770 2.534 4.090 2.599 4.025 1.052 0.919 1.085 1.097 1.330 0.335 2.373 2101 chr2 169457642 169467283 + 0 NA Intergenic Intergenic -171184 NM_080455 228911 Mm.315789 NM_080455 ENSMUSG00000047907 Tshz2 2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2 teashirt zinc finger family member 2 protein-coding 4.618 1.245 0.708 1.608 1.151 0.729 5.842 8.980 2.570 2.712 2.949 3.998 3.346 nan 3.499 3.701 4.262 nan nan 2.894 2.062 2.385 5.356 4.696 nan 619 chr11 101487859 101489588 + 0 NA TTS (NM_009764) TTS (NM_009764) 20385 NM_009708 11858 Mm.378883 NM_009708 ENSMUSG00000001313 Rnd2 Arhn|Rohn Rho family GTPase 2 protein-coding 11.484 9.451 7.233 6.593 7.417 4.159 7.336 9.569 7.072 9.520 7.546 4.611 7.116 12.306 7.881 9.172 10.087 7.964 5.742 nan 5.290 5.185 8.631 6.207 9.266 1717 chr19 5429049 5434407 + 0 NA Intergenic Intergenic 6584 NM_001256515 107242 Mm.329658 NM_134149 ENSMUSG00000047423 AI837181 Bles03|N28173 expressed sequence AI837181 protein-coding 2.859 2.610 0.681 3.967 3.477 1.235 4.192 5.397 2.380 3.018 2.187 1.575 3.107 6.123 4.689 3.957 1.963 3.896 1.376 1.581 0.654 4.155 1.208 0.757 5.044 2557 chr4 148119839 148121452 + 0 NA intron (NM_027426, intron 1 of 6) intron (NM_027426, intron 1 of 6) 10053 NM_027426 70433 Mm.275288 NM_027426 ENSMUSG00000029005 Draxin 2610109H07Rik|neucrin dorsal inhibitory axon guidance protein protein-coding 0.482 nan 0.408 0.752 0.487 0.243 0.774 0.618 0.507 0.387 0.441 0.459 0.446 0.224 0.988 1.180 0.251 1.159 5.671 2.009 1.939 5.074 6.017 5.970 0.855 698 chr11 120432236 120435885 + 0 NA intron (NM_199469, intron 1 of 15) B3|SINE|B2 3640 NM_001195023 217365 Mm.309520 NM_199469 ENSMUSG00000039703 Nploc4 AK129375|Npl4|mKIAA1499 NPL4 homolog, ubiquitin recognition factor protein-coding 7.315 10.335 2.859 7.788 4.146 2.650 5.622 nan 4.597 7.687 5.322 3.828 6.571 7.592 8.787 10.270 4.738 8.262 4.205 nan 1.810 6.039 1.982 2.012 10.063 1634 chr18 50199946 50208067 + 0 NA Intergenic Intergenic -74363 NM_001004061 225497 Mm.329435 NM_001004061 ENSMUSG00000035420 Fam170a Gm93|Znfd family with sequence similarity 170, member A protein-coding 1.827 9.379 6.215 1.225 0.401 0.320 1.041 1.461 1.009 1.027 1.261 0.883 0.929 0.838 1.230 0.979 0.909 nan 0.595 0.553 0.489 0.431 0.392 0.308 2.211 621 chr11 101518726 101520575 + 0 NA intron (NM_009764, intron 11 of 22) intron (NM_009764, intron 11 of 22) 32305 NM_009764 12189 Mm.244975 NM_009764 ENSMUSG00000017146 Brca1 - breast cancer 1, early onset protein-coding 6.265 nan 3.879 7.053 7.838 8.018 5.427 6.809 5.855 5.778 4.260 3.227 6.446 8.373 6.173 6.887 5.616 6.899 3.664 nan 2.737 3.556 nan nan 5.154 524 chr11 86381689 86430418 + 0 NA Intergenic B1_Mur2|SINE|Alu -9791 NR_030571 100124487 NR_030571 ENSMUSG00000077049 Mir467c Mirn467c|mir-467c microRNA 467c ncRNA 11.161 11.101 6.734 8.404 10.436 7.996 8.223 9.226 9.620 9.139 10.568 8.159 8.297 10.985 7.774 7.824 7.590 9.226 6.000 5.223 4.931 nan 4.708 4.708 nan 2176 chr3 34546913 34565822 + 0 NA Intergenic Intergenic -4014 NR_015580 320478 Mm.444063 NR_015580 ENSMUSG00000105265 Sox2ot B230215L15Rik SOX2 overlapping transcript (non-protein coding) ncRNA 0.407 0.439 0.414 1.415 0.377 0.164 0.388 0.314 nan 1.597 4.189 5.283 0.637 0.748 0.951 0.537 0.654 0.490 nan 4.672 2.893 nan 6.805 5.366 0.552 1848 chr2 31622625 31628223 + 0 NA Intergenic RMER20A|LTR|ERVK 13003 NR_105964 102466214 NR_105964 ENSMUSG00000098904 Mir6998 Gm28024|mmu-mir-6998 microRNA 6998 ncRNA 8.556 2.347 1.000 6.593 4.797 1.888 5.310 9.029 4.038 5.343 3.337 2.087 7.215 7.549 6.049 7.571 7.664 6.520 2.324 1.912 1.151 1.965 2.037 1.275 8.659 2714 chr5 106246213 106248981 + 0 NA Intergenic Lx9|LINE|L1 -73743 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 2.280 0.950 0.420 2.968 1.287 0.532 nan 2.031 2.734 2.499 1.537 0.908 5.202 5.758 4.649 6.417 2.719 4.019 1.966 1.024 0.531 2.004 0.809 0.278 3.778 2310 chr3 127628836 127635474 + 0 NA promoter-TSS (NM_009718) promoter-TSS (NM_009718) -990 NM_009718 11924 Mm.42017 NM_009718 ENSMUSG00000027967 Neurog2 Atoh4|Math4A|bHLHa8|ngn-2|ngn2 neurogenin 2 protein-coding 3.142 0.712 0.367 2.769 3.536 2.331 4.754 4.992 4.714 4.355 6.666 4.464 5.441 6.254 3.533 nan nan nan 1.257 1.228 0.812 1.299 1.112 0.874 3.155 3418 chr9 13286255 13288949 + 0 NA intron (NM_025534, intron 8 of 8) intron (NM_025534, intron 8 of 8) 40646 NM_025534 66396 Mm.290620 NM_025534 ENSMUSG00000079084 Ccdc82 2310043N13Rik coiled-coil domain containing 82 protein-coding 6.042 1.955 0.988 4.306 3.218 1.489 3.542 4.212 5.135 5.786 2.539 2.893 3.838 5.808 4.422 5.445 4.276 4.341 0.624 1.645 0.955 0.770 0.844 0.498 4.691 2495 chr4 129486335 129489670 + 0 NA 3' UTR (NM_133889, exon 11 of 11) 3' UTR (NM_133889, exon 11 of 11) 2768 NM_080442 58864 Mm.143802 NM_080442 ENSMUSG00000000411 Tssk3 1700014N07Rik|4930594I21Rik|Stk22c|Stk22d|Tsk-3|Tssk-3|Tssk3b testis-specific serine kinase 3 protein-coding 6.293 13.258 6.146 8.190 10.108 7.582 8.798 5.038 6.145 6.212 6.014 3.794 6.343 7.818 7.210 8.061 3.523 7.820 1.175 1.757 2.140 1.049 0.991 1.027 7.621 598 chr11 98965808 98968702 + 0 NA intron (NM_001176528, intron 2 of 7) intron (NM_001176528, intron 2 of 7) 6784 NM_001176528 19401 Mm.439744 NM_009024 ENSMUSG00000037992 Rara Nr1b1|RAR|RARalpha1 retinoic acid receptor, alpha protein-coding 2.205 nan 0.641 1.321 0.664 0.516 4.589 4.502 2.637 2.106 7.660 3.758 3.311 2.839 2.433 2.232 nan 1.844 0.858 nan 0.364 1.012 nan nan 1.619 3395 chr8 123259058 123268597 + 0 NA intron (NM_020497, intron 6 of 10) B3|SINE|B2 -9605 NM_028200 72325 Mm.276193 NM_028200 ENSMUSG00000001062 Vps9d1 1300018I17Rik|2410004N05Rik|5DOS1|Vsp9d1 VPS9 domain containing 1 protein-coding 5.492 15.550 5.282 4.335 1.703 0.901 nan 5.707 3.108 3.417 2.359 1.482 3.407 4.035 3.822 4.016 2.097 3.727 nan 1.274 1.345 nan 0.839 nan 4.921 3052 chr7 3642782 3646928 + 0 NA promoter-TSS (NM_146176) promoter-TSS (NM_146176) -414 NM_146176 232791 Mm.358731 NM_146176 ENSMUSG00000035632 Cnot3 A930039N10Rik CCR4-NOT transcription complex, subunit 3 protein-coding 8.380 11.011 3.162 8.186 3.908 2.041 9.257 10.340 4.082 7.721 6.359 2.656 8.941 10.308 10.133 10.123 7.503 7.424 3.815 2.856 2.033 4.663 3.430 2.623 13.491 2486 chr4 128734664 128737663 + 0 NA intron (NM_001195083, intron 1 of 6) intron (NM_001195083, intron 1 of 6) 8592 NM_001195083 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 7.098 13.242 3.591 8.578 4.475 2.883 4.705 4.449 4.289 11.922 5.038 3.588 5.428 7.200 7.270 8.482 4.491 7.723 6.110 3.494 3.542 8.977 3.981 4.810 11.637 2322 chr3 144246675 144249711 + 0 NA Intergenic Intergenic -42938 NM_010723 16911 Mm.29187 NM_010723 ENSMUSG00000028266 Lmo4 A730077C12Rik|Crp3|Etohi4 LIM domain only 4 protein-coding 4.477 4.071 2.441 2.751 2.601 1.499 6.494 3.372 4.191 3.655 1.934 2.232 9.412 6.454 6.227 4.946 4.431 5.634 3.825 2.490 1.453 2.670 3.286 1.623 3.129 780 chr12 79326307 79328969 + 0 NA intron (NM_009014, intron 7 of 10) intron (NM_009014, intron 7 of 10) 30287 NM_001252562 19363 Mm.341756 NM_009014 ENSMUSG00000059060 Rad51b AI553500|R51H2|Rad51l1|mREC2 RAD51 paralog B protein-coding 10.252 10.459 4.211 9.838 6.642 4.979 7.830 6.368 4.710 11.620 6.463 3.541 6.988 9.949 8.429 10.007 7.580 8.441 6.180 4.315 4.328 5.961 4.318 6.189 19.580 2438 chr4 117919433 117923242 + 0 NA Intergenic Lx8|LINE|L1 -6338 NM_146152 230673 Mm.287810 NM_146152 ENSMUSG00000033365 Ipo13 Imp13|Kap13|Ranbp13 importin 13 protein-coding 1.417 0.686 0.434 2.040 1.718 0.868 2.039 2.035 1.648 1.992 1.881 0.725 1.971 3.468 2.846 4.036 1.076 3.115 0.746 0.492 0.483 1.539 0.547 0.224 4.367 3547 chr9 108563852 108565335 + 0 NA intron (NM_011830, intron 9 of 13) intron (NM_011830, intron 9 of 13) 2749 NM_023247 66706 Mm.29471 NM_023247 ENSMUSG00000070283 Ndufaf3 4733401H18Rik NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, assembly factor 3 protein-coding 4.321 6.083 3.108 4.788 3.034 1.857 3.509 5.664 3.464 4.322 2.235 1.432 3.123 4.148 4.927 5.333 3.260 4.634 3.373 1.869 1.873 3.610 2.544 2.536 5.712 3334 chr8 94430149 94433868 + 0 NA Intergenic Intergenic 3095 NR_015514 320377 Mm.486022 NR_015514 9330175E14Rik A630085K21 RIKEN cDNA 9330175E14 gene ncRNA 2.234 0.448 0.245 2.535 1.006 0.397 2.750 0.715 3.163 2.990 0.605 0.457 5.087 2.292 3.461 5.923 2.851 4.463 0.878 0.852 0.349 1.572 1.675 1.115 6.310 3277 chr8 74192482 74197291 + 0 NA Intergenic L1Md_T|LINE|L1 -678288 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 3.044 nan 0.935 1.860 2.952 1.861 nan 11.100 nan 2.839 1.567 2.793 3.342 3.643 5.363 4.298 5.330 4.236 3.431 3.714 4.348 nan 3.916 3.841 4.448 2317 chr3 133263027 133265465 + 0 NA Intergenic L1Md_F3|LINE|L1 -29357 NM_029953 77669 Mm.98630 NM_029953 ENSMUSG00000040969 Arhgef38 9130221D24Rik|D630013G24Rik Rho guanine nucleotide exchange factor (GEF) 38 protein-coding 1.694 nan 0.699 1.251 1.153 0.445 nan 1.805 1.548 1.867 7.664 4.150 2.583 2.658 2.195 2.013 1.989 2.286 1.130 0.610 0.527 0.565 0.864 0.692 1.456 3490 chr9 57095127 57096821 + 0 NA intron (NM_001110350, intron 5 of 20) intron (NM_001110350, intron 5 of 20) 19598 NM_011378 20466 Mm.15755 NM_011378 ENSMUSG00000042557 Sin3a AW553200|Sin3|mKIAA4126|mSin3A transcriptional regulator, SIN3A (yeast) protein-coding 2.172 0.882 0.111 1.514 1.136 0.325 2.832 4.021 2.320 2.769 1.526 0.788 2.804 3.786 2.593 3.832 1.415 3.046 1.602 0.416 0.120 1.767 1.270 0.796 3.820 3246 chr8 26362232 26369936 + 0 NA Intergenic B3|SINE|B2 207915 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 7.721 nan 0.626 5.814 3.886 2.230 4.552 8.415 3.433 4.509 1.892 1.532 6.594 7.513 6.220 7.561 4.898 5.655 0.848 1.203 0.864 nan 1.052 1.009 7.623 240 chr10 25079084 25083554 + 0 NA Intergenic Intergenic 118851 NM_001347460 432442 Mm.485937 NM_018747 ENSMUSG00000039166 Akap7 6430401D08|AI662165|AKAP15|Akap18|BB170514 A kinase (PRKA) anchor protein 7 protein-coding 3.932 7.828 3.455 5.580 2.329 1.715 3.310 2.433 2.786 3.995 2.069 2.584 2.151 3.194 3.812 4.138 2.366 3.651 1.724 1.289 1.735 2.128 1.389 1.315 3.495 1433 chr17 26512534 26514717 + 0 NA Intergenic Intergenic -5153 NM_013642 19252 Mm.239041 NM_013642 ENSMUSG00000024190 Dusp1 3CH134|MKP1|Ptpn16|U19515|erp|mkp-1 dual specificity phosphatase 1 protein-coding 1.357 0.529 0.193 1.306 0.992 0.228 4.273 2.236 1.124 1.136 0.711 0.228 3.017 3.379 4.381 4.213 2.288 2.613 1.040 1.243 0.649 2.470 0.921 0.523 4.585 1666 chr18 65655673 65657674 + 0 NA intron (NM_207255, intron 3 of 5) intron (NM_207255, intron 3 of 5) -37058 NR_105742 100526497 NR_105742 ENSMUSG00000077113 Mir466p mmu-mir-466p microRNA 466p ncRNA 9.221 0.475 0.748 2.362 5.549 4.517 5.562 11.578 2.676 3.566 1.389 3.017 6.040 5.882 3.123 2.745 3.510 2.406 1.945 1.776 2.329 2.018 2.966 3.128 4.196 2209 chr3 88137928 88141181 + 0 NA Intergenic Intergenic -2818 NM_001310587 17261 Mm.28184 NM_133665 ENSMUSG00000001419 Mef2d C80750 myocyte enhancer factor 2D protein-coding 11.389 8.850 4.139 9.011 7.897 5.402 12.230 9.863 6.512 9.233 8.720 5.136 8.905 13.610 10.163 9.995 11.025 8.777 5.139 3.664 4.294 4.611 5.595 5.190 13.534 230 chr10 19310823 19319972 + 0 NA Intergenic Intergenic -41142 NM_053008 94222 Mm.156946 NM_053008 ENSMUSG00000045591 Olig3 Bhlhb7|bHLHe20|oligo3 oligodendrocyte transcription factor 3 protein-coding 8.488 7.830 2.898 5.103 2.809 1.706 1.938 8.666 nan 6.683 6.393 2.569 6.650 7.498 4.575 6.251 5.712 6.985 1.990 1.661 1.128 1.532 1.523 1.537 nan 115 chr1 127310807 127313278 + 0 NA intron (NM_145128, intron 3 of 17) intron (NM_145128, intron 3 of 17) 107056 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 8.257 nan 1.036 2.424 5.103 2.547 4.876 4.976 3.020 3.452 3.324 1.437 6.106 6.683 4.462 6.851 5.855 4.803 nan 1.160 0.491 0.388 1.036 0.429 3.118 377 chr11 3295826 3299817 + 0 NA intron (NR_045108, intron 3 of 5) intron (NR_045108, intron 3 of 5) 7364 NM_019574 56218 Mm.275563 NM_019574 ENSMUSG00000020453 Patz1 8430401L15Rik|AI447519|Mazr|Patz|Zfp278 POZ (BTB) and AT hook containing zinc finger 1 protein-coding 1.496 0.985 0.579 1.157 1.196 0.574 1.262 1.564 1.408 0.866 0.692 1.619 0.900 1.570 1.223 1.088 0.998 1.441 7.102 nan 3.214 5.008 7.631 5.872 1.068 2374 chr4 55542461 55547668 + 0 NA Intergenic Intergenic -12589 NM_010637 16600 Mm.4325 NM_010637 ENSMUSG00000003032 Klf4 EZF|Gklf|Zie Kruppel-like factor 4 (gut) protein-coding 5.348 nan 1.119 9.326 3.474 2.285 4.449 5.772 3.732 5.788 4.785 3.700 3.402 5.255 5.880 5.793 2.100 6.164 nan 1.407 1.236 4.274 1.685 1.771 6.666 2050 chr2 160554651 160572178 + 0 NA Intergenic Intergenic -82483 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 6.283 5.484 1.489 7.297 2.699 1.320 3.685 5.549 nan 5.838 3.176 1.874 nan 5.909 5.734 8.078 4.986 6.927 nan 1.566 1.114 2.960 0.916 0.804 10.020 602 chr11 100773357 100775274 + 0 NA Intergenic ORR1B2|LTR|ERVL-MaLR -3358 NM_031871 80860 Mm.37308 NM_031871 ENSMUSG00000017747 Ghdc D11Lgp1e GH3 domain containing protein-coding 3.616 nan 1.169 4.687 7.365 6.479 4.078 3.923 4.391 3.514 1.488 1.924 4.545 6.650 5.356 5.838 4.036 5.782 3.804 1.786 2.182 1.562 nan nan 3.776 922 chr13 54525086 54529844 + 0 NA intron (NM_176987, intron 2 of 9) intron (NM_176987, intron 2 of 9) 23660 NM_176987 319719 Mm.376151 NM_176987 ENSMUSG00000043183 Simc1 4732471D19Rik SUMO-interacting motifs containing 1 protein-coding nan 6.237 4.219 1.141 0.293 0.130 2.071 2.513 1.334 1.051 0.275 0.654 1.731 nan 1.907 2.342 1.333 nan 8.143 5.706 3.776 8.068 7.381 5.346 nan 2319 chr3 137805490 137807844 + 0 NA Intergenic Intergenic -57820 NM_001316995 51788 Mm.117541 NM_016750 ENSMUSG00000037894 H2afz H2A.Z|H2a.z-1 H2A histone family, member Z protein-coding 8.798 11.082 4.916 9.324 3.834 1.571 9.966 6.669 6.128 8.278 8.384 4.947 10.984 11.618 9.935 8.264 9.364 8.822 6.783 3.932 1.359 6.235 3.643 2.146 9.807 1311 chr16 22966833 22968722 + 0 NA Intergenic MYSERV-int|LTR|ERVK 16705 NM_053176 94175 Mm.358794 NM_053176 ENSMUSG00000022877 Hrg AI265597|AW413091|D16jh2|D18020|Hprg|Hrgp histidine-rich glycoprotein protein-coding 2.687 0.359 0.174 0.795 0.880 0.673 3.109 5.127 2.557 2.487 1.279 0.880 5.728 4.602 5.342 4.345 3.536 4.699 0.878 0.621 0.324 0.857 0.354 0.232 2.034 2741 chr5 122947791 122954136 + 0 NA intron (NM_001003953, intron 6 of 22) intron (NM_001003953, intron 6 of 22) 38136 NM_001003953 30841 Mm.86406 NM_013910 ENSMUSG00000029475 Kdm2b Cxxc2|Fbl10|Fbxl10|Jhdm1b|PCCX2 lysine (K)-specific demethylase 2B protein-coding 6.285 7.583 3.263 6.516 4.955 3.721 6.462 5.681 5.440 11.473 5.054 3.798 6.689 9.948 7.773 7.576 6.271 6.835 nan nan 3.310 4.684 nan 4.853 8.746 2628 chr5 20708654 20710720 + 0 NA Intergenic L1_Mus1|LINE|L1 172437 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 5.138 5.196 3.097 4.294 5.074 2.967 3.175 2.114 5.501 5.963 2.421 1.603 3.799 7.011 5.286 6.647 4.662 5.942 1.278 1.852 0.905 1.026 1.563 1.506 4.906 1072 chr15 12161147 12163222 + 0 NA exon (NM_011767, exon 14 of 20) exon (NM_011767, exon 14 of 20) -9308 NR_035443 100316684 NR_035443 ENSMUSG00000084592 Mir1898 Mirn1898|mmu-mir-1898 microRNA 1898 ncRNA 5.305 2.204 0.847 4.080 1.836 0.940 4.602 9.835 3.901 5.024 2.118 1.235 4.737 5.867 5.179 4.889 4.035 6.842 2.121 0.781 0.878 1.898 1.508 0.664 6.958 2470 chr4 128461525 128466786 + 0 NA intron (NM_001281955, intron 31 of 70) intron (NM_001281955, intron 31 of 70) 145943 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 1.067 14.710 7.424 1.302 0.748 0.421 0.533 0.751 0.763 1.076 0.645 0.547 0.489 0.624 nan 0.962 0.787 1.041 1.131 1.125 0.711 0.832 0.621 0.507 1.134 1787 chr19 46111862 46121610 + 0 NA Intergenic L1M2|LINE|L1 -15163 NM_007703 12686 Mm.21806 NM_007703 ENSMUSG00000038754 Elovl3 CIN-2|Cig30 elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 3 protein-coding 7.857 7.427 2.635 nan 4.369 3.001 9.328 9.081 3.930 6.760 4.896 2.511 5.503 8.601 7.538 8.567 8.160 nan 2.349 2.579 2.904 4.085 3.920 3.622 13.498 1394 chr16 97978369 97987937 + 0 NA Intergenic Intergenic -14194 NR_130962 245305 Mm.148033 NR_130962 B230307C23Rik EG245305|OTTMUSG00000028475 RIKEN cDNA B230307C23 gene ncRNA 5.537 1.222 0.458 3.907 2.974 1.653 6.227 9.908 nan 4.559 5.448 4.588 7.676 6.532 nan 9.442 5.167 7.165 nan 1.348 0.897 3.480 2.007 1.527 8.734 612 chr11 100946262 100953362 + 0 NA Intergenic B2_Mm2|SINE|B2 -10272 NM_011486 20848 Mm.249934 NM_011486 ENSMUSG00000004040 Stat3 1110034C02Rik|AW109958|Aprf signal transducer and activator of transcription 3 protein-coding 3.815 nan 1.077 3.929 3.251 1.847 3.301 5.162 3.537 4.176 2.000 1.016 3.666 6.739 5.201 5.778 nan 4.330 2.083 nan 0.708 3.260 nan nan 5.926 2772 chr5 136379178 136395998 + 0 NA intron (NM_001291239, intron 4 of 22) L2c|LINE|L2 -11785 NR_030500 723975 NR_030500 ENSMUSG00000106479 Mir721 Mirn721|miRY|mir-721|mmu-mir-721 microRNA 721 ncRNA 4.472 1.409 0.579 5.055 5.800 4.027 4.168 7.314 4.213 5.282 2.231 2.107 4.726 8.809 6.483 5.329 3.038 5.287 1.556 1.178 1.107 1.439 nan 0.905 3.487 936 chr13 56061580 56064592 + 0 NA Intergenic Intergenic 72464 NM_012015 26914 Mm.283802 NM_012015 ENSMUSG00000015937 H2afy H2AF12M|mH2a1|macroH2A1 H2A histone family, member Y protein-coding nan 0.419 0.392 0.418 0.334 0.165 0.267 0.426 0.445 0.466 7.287 0.383 0.349 nan 0.389 nan 0.490 nan 0.492 0.319 0.432 0.400 0.113 0.317 nan 1391 chr16 97830916 97833535 + 0 NA intron (NM_144789, intron 5 of 23) intron (NM_144789, intron 5 of 23) 19002 NM_144789 114604 Mm.328741 NM_144789 ENSMUSG00000014039 Prdm15 C21orf83|E130018M06Rik|ORF62|Zfp298 PR domain containing 15 protein-coding 6.046 0.408 0.151 4.226 2.266 1.272 7.310 10.250 nan 3.778 2.399 2.507 9.308 8.335 8.455 11.647 5.941 7.617 nan 0.568 0.739 2.500 1.713 1.133 14.615 3456 chr9 31043481 31045740 + 0 NA intron (NM_172765, intron 1 of 5) B2_Mm1a|SINE|B2 13966 NM_172765 235132 Mm.239355 NM_172765 ENSMUSG00000047412 Zbtb44 6030404E16Rik|Btbd15|E230011F09 zinc finger and BTB domain containing 44 protein-coding 1.564 0.522 0.884 1.175 2.071 1.515 1.459 1.501 2.969 3.060 0.504 1.128 0.551 0.843 0.790 nan 1.751 1.181 2.886 5.886 4.701 3.236 6.492 7.450 1.228 2251 chr3 95031144 95037969 + 0 NA intron (NM_001282017, intron 6 of 9) intron (NM_001282017, intron 6 of 9) 8058 NM_001282017 19185 Mm.2261 NM_008951 ENSMUSG00000005625 Psmd4 Af1|Mcb1|angiocidin proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 protein-coding 11.463 16.206 6.002 10.137 7.629 3.929 14.802 11.682 6.854 11.165 10.432 4.665 12.484 15.032 11.413 11.701 9.026 10.599 3.738 3.520 3.015 4.091 3.675 2.754 15.290 1277 chr16 11315422 11318226 + 0 NA intron (NM_011608, intron 2 of 2) intron (NM_011608, intron 2 of 2) 3015 NM_011608 21935 Mm.12935 NM_011608 ENSMUSG00000022496 Tnfrsf17 BCM|BCMA|Tnfrsf13|Tnfrsf13a tumor necrosis factor receptor superfamily, member 17 protein-coding 4.375 2.221 1.332 2.107 1.252 0.707 4.281 3.325 2.228 2.048 0.917 0.698 6.712 5.827 5.900 6.320 4.260 4.021 1.502 1.568 0.668 0.796 0.966 0.736 5.037 3579 chrX 96330481 96337656 + 0 NA intron (NM_001310755, intron 3 of 10) L1MEd|LINE|L1 33851 NM_001310754 245525 Mm.166749 NM_172931 ENSMUSG00000045802 Hsf3 B230358A15Rik|HSF 3|HSTF 3 heat shock transcription factor 3 protein-coding 6.130 5.005 1.726 7.197 2.990 1.937 5.136 6.419 3.747 6.595 4.940 2.817 4.882 7.991 6.023 7.437 3.599 6.696 1.808 0.951 0.713 1.172 2.374 1.926 9.924 1086 chr15 38310922 38316198 + 0 NA Intergenic PB1D10|SINE|Alu -12849 NM_001289471 21847 Mm.4292 NM_013692 ENSMUSG00000037465 Klf10 AI115143|EGR[a]|Egral|Gdnfif|TIEG-1|Tieg|Tieg1|mGIF Kruppel-like factor 10 protein-coding 6.910 3.140 1.721 4.323 3.500 2.569 6.756 11.007 2.980 3.668 4.057 2.678 4.823 4.848 4.443 4.092 4.739 4.541 4.276 3.254 2.218 nan 4.639 3.152 nan 2794 chr5 145069742 145085071 + 0 NA Intergenic PB1D10|SINE|Alu -6463 NM_019767 56443 Mm.371610 NM_019767 ENSMUSG00000029621 Arpc1a 0610010H08Rik|1110030K07Rik|41kDa|AA407347|Sid32|Sid329 actin related protein 2/3 complex, subunit 1A protein-coding 3.847 0.646 0.443 nan 4.665 3.611 6.555 5.783 nan 4.818 3.770 3.658 4.920 7.189 7.135 nan 4.432 6.038 2.507 0.951 0.943 1.697 2.225 1.900 nan 701 chr11 120586717 120595694 + 0 NA Intergenic Intergenic 7160 NM_011568 21681 Mm.1886 NM_011568 ENSMUSG00000025134 Alyref ALY|REF1|Refbp1|Thoc4 Aly/REF export factor protein-coding 4.376 nan 0.347 5.096 3.469 2.221 nan nan 3.842 nan 6.821 3.441 4.719 6.761 3.812 5.585 5.501 nan 1.157 nan 1.264 1.136 1.240 1.095 4.095 214 chr1 191184033 191189083 + 0 NA Intergenic Intergenic -3225 NM_007498 11910 Mm.2706 NM_007498 ENSMUSG00000026628 Atf3 LRG-21 activating transcription factor 3 protein-coding 3.204 0.432 0.489 2.120 2.121 1.205 4.699 2.116 2.066 2.064 1.981 1.302 5.606 4.387 4.231 6.376 4.967 4.496 3.047 1.375 0.607 2.675 2.031 1.366 3.595 564 chr11 96195311 96217837 + 0 NA Intergenic Intergenic 3120 NR_108029 432593 Mm.342467 NR_108029 Gm11538 OTTMUSG00000001983 predicted gene 11538 ncRNA 1.647 nan 0.698 2.439 1.087 0.535 0.938 0.550 1.038 1.286 0.659 0.587 0.472 1.110 0.669 1.092 nan 1.068 7.978 nan 2.680 5.362 nan nan 1.121 3070 chr7 19822928 19825599 + 0 NA Intergenic Intergenic -1508 NM_033601 12051 Mm.439658 NM_033601 ENSMUSG00000053175 Bcl3 AI528691|Bcl-3 B cell leukemia/lymphoma 3 protein-coding 3.140 1.636 1.006 3.162 3.735 3.415 5.388 4.922 2.902 3.761 0.889 1.109 5.120 4.557 6.064 5.969 4.332 5.499 2.774 1.723 2.010 2.202 2.650 3.315 6.703 2708 chr5 106124467 106133319 + 0 NA Intergenic ID4_|SINE|ID -192447 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 8.535 7.892 3.584 8.169 6.173 4.121 8.880 8.082 5.402 8.992 3.224 2.751 7.210 11.108 8.634 8.776 6.919 8.248 nan 2.118 2.689 3.341 2.836 3.523 9.335 2562 chr4 148435595 148445023 + 0 NA intron (NM_027873, intron 1 of 1) intron (NM_027873, intron 1 of 1) 4442 NM_027873 71707 Mm.292503 NM_027873 ENSMUSG00000047719 Ubiad1 1200002M06Rik|AI426463|AW320947|Tere1 UbiA prenyltransferase domain containing 1 protein-coding 1.129 nan 0.301 1.770 0.647 0.442 0.730 0.726 1.085 0.782 0.649 0.588 0.743 1.099 1.178 1.119 1.104 1.454 6.363 1.721 1.200 7.661 4.610 3.630 2.047 3094 chr7 30022447 30024788 + 0 NA exon (NM_001167873, exon 10 of 10) exon (NM_001167873, exon 10 of 10) 27779 NM_011748 243906 Mm.347644 NM_011748 ENSMUSG00000053985 Zfp14 4732429I09Rik|Krox-9|Zfp-14|mKIAA1559 zinc finger protein 14 protein-coding 4.422 5.652 4.619 7.062 7.375 6.244 6.083 6.381 3.840 3.975 2.961 2.323 6.261 7.731 5.249 6.044 5.502 6.067 3.665 3.151 4.221 3.303 4.495 4.372 5.716 2789 chr5 139624443 139627057 + 0 NA Intergenic Intergenic 81852 NM_013702 22255 Mm.42190 NM_013702 ENSMUSG00000029546 Uncx Chx4|Uncx4.1 UNC homeobox protein-coding 6.060 4.233 2.026 4.591 3.526 1.168 5.192 4.698 2.969 6.328 3.808 1.815 3.666 7.220 4.808 5.574 4.462 4.381 3.083 2.860 1.554 2.851 nan 3.326 7.198 1650 chr18 55649832 55652462 + 0 NA Intergenic Intergenic -660967 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 4.075 nan 0.209 1.683 1.311 0.403 3.985 2.246 1.933 1.881 1.088 0.397 2.784 2.251 2.708 4.067 3.363 5.288 nan 0.422 0.105 nan 0.468 0.275 nan 2074 chr2 164884916 164887163 + 0 NA exon (NM_146129, exon 7 of 17) exon (NM_146129, exon 7 of 17) 6671 NM_146129 228866 Mm.241134 NM_146129 ENSMUSG00000039849 Pcif1 2310022K11Rik|C20orf67|F730014I05Rik PDX1 C-terminal inhibiting factor 1 protein-coding 0.907 6.212 6.632 1.439 1.036 0.943 0.315 0.359 0.761 0.362 0.112 0.470 0.306 nan 0.580 0.672 0.635 nan nan 1.007 1.610 0.492 0.551 1.004 nan 2539 chr4 141197297 141200205 + 0 NA intron (NM_172518, intron 8 of 9) (TGGG)n|Simple_repeat|Simple_repeat -15205 NM_001081174 76166 Mm.271064 NM_001081174 ENSMUSG00000073733 Rsg1 6330545A04Rik|Gm723 REM2 and RAB-like small GTPase 1 protein-coding 4.845 1.923 0.563 4.496 1.467 0.877 1.260 1.625 nan 2.981 1.558 0.608 1.192 2.093 1.982 2.666 1.169 nan 2.947 2.909 1.465 6.416 nan 1.597 4.976 2850 chr6 37389317 37393532 + 0 NA intron (NM_178661, intron 1 of 11) intron (NM_178661, intron 1 of 11) 50724 NM_178661 208647 Mm.169929 NM_178661 ENSMUSG00000038648 Creb3l2 BBF2H7|C530025K05Rik|SCIRR69 cAMP responsive element binding protein 3-like 2 protein-coding 7.523 5.472 2.001 7.673 3.373 2.090 8.377 6.886 6.074 7.012 5.882 3.487 8.951 9.847 8.945 11.089 8.617 nan nan 4.161 2.807 nan nan 3.737 9.585 2547 chr4 141555330 141557074 + 0 NA Intergenic Intergenic 10040 NR_030695 320456 Mm.32859 NM_177163 B330016D10Rik - RIKEN cDNA B330016D10 gene ncRNA 4.039 2.986 2.392 1.696 2.197 1.283 5.075 4.845 nan 3.022 2.262 3.531 5.136 4.491 4.445 4.700 3.742 nan 0.797 1.158 0.789 1.379 nan 4.984 4.600 731 chr12 36882174 36885167 + 0 NA Intergenic Intergenic 67465 NR_039558 100628578 NR_039558 ENSMUSG00000092998 Mir5099 mmu-mir-5099|mu-mir-5099 microRNA 5099 ncRNA 11.721 11.867 3.910 9.088 2.387 0.852 9.259 8.266 5.403 8.376 7.619 4.031 10.477 10.021 12.556 13.254 9.110 9.681 nan 2.439 1.942 7.835 3.599 2.360 20.135 1967 chr2 121273441 121279478 + 0 NA Intergenic ORR1A4|LTR|ERVL-MaLR -5052 NM_013735 27223 Mm.215389 NM_013735 ENSMUSG00000043909 Trp53bp1 53BP1|Tp53bp1|m53BP1|p53BP1 transformation related protein 53 binding protein 1 protein-coding 8.447 6.097 3.060 6.897 4.375 3.273 6.194 8.252 4.552 7.461 4.265 2.388 nan 8.472 6.193 nan 7.319 6.379 2.810 2.343 2.298 2.973 2.846 2.892 nan 2779 chr5 136611108 136613011 + 0 NA Intergenic RMER1B|Other|Other -44569 NM_001291238 13047 Mm.320317 NM_009986 ENSMUSG00000029705 Cux1 CDP|Cutl1|Cux|Cux-1 cut-like homeobox 1 protein-coding 5.653 9.405 4.230 6.792 3.981 3.969 6.010 5.191 4.737 5.479 4.939 3.229 4.629 6.345 6.601 6.642 4.445 5.705 4.312 3.152 5.478 4.382 4.774 5.627 8.354 657 chr11 116289974 116299019 + 0 NA intron (NM_001347636, intron 10 of 18) intron (NM_001347636, intron 10 of 18) 12242 NM_016857 53413 Mm.22530 NM_016857 ENSMUSG00000020792 Exoc7 Exo70|sec70 exocyst complex component 7 protein-coding 6.232 8.903 3.878 5.360 3.846 2.543 nan 8.346 4.203 5.022 6.389 4.161 4.609 6.130 5.099 4.953 4.138 nan 4.791 nan 2.763 4.657 3.789 3.511 5.339 2139 chr2 181404704 181406715 + 0 NA intron (NM_027656, intron 2 of 3) intron (NM_027656, intron 2 of 3) 18679 NM_027656 72147 Mm.486504 NM_027656 ENSMUSG00000027583 Zbtb46 2610019F01Rik|4933406L05Rik|BZEL|Btbd4 zinc finger and BTB domain containing 46 protein-coding 2.824 1.330 0.669 7.332 0.711 0.500 1.421 1.043 2.055 4.556 0.806 0.168 1.219 1.889 2.195 2.727 0.915 4.817 0.913 0.636 0.731 0.817 0.413 0.565 5.904 1865 chr2 34382061 34383439 + 0 NA Intergenic (TTTA)n|Simple_repeat|Simple_repeat -10705 NM_016768 18516 Mm.239941 NM_016768 ENSMUSG00000038718 Pbx3 - pre B cell leukemia homeobox 3 protein-coding 1.666 1.037 0.119 2.966 1.554 0.333 2.228 1.815 2.061 2.483 0.672 0.364 3.282 4.197 4.069 4.474 3.141 3.695 1.240 0.687 0.334 2.765 0.677 0.561 3.307 1783 chr19 44528858 44535478 + 0 NA intron (NM_001033343, intron 9 of 25) intron (NM_001033343, intron 9 of 25) 13680 NM_001033343 240667 Mm.329873 NM_001033343 ENSMUSG00000051984 Sec31b Gm341|Sec31l2 Sec31 homolog B (S. cerevisiae) protein-coding 2.182 1.344 0.832 nan 3.015 1.501 4.003 6.663 3.668 6.411 2.325 0.880 5.091 7.349 3.800 4.428 2.926 3.068 0.368 0.551 0.379 1.167 0.619 0.284 4.110 768 chr12 72985824 72989434 + 0 NA Intergenic (GGGAGA)n|Simple_repeat|Simple_repeat 47747 NM_011384 20476 Mm.57138 NM_011384 ENSMUSG00000021099 Six6 Optx2|Six9 sine oculis-related homeobox 6 protein-coding 5.392 2.348 0.999 6.320 2.371 0.547 1.395 2.988 4.384 5.431 5.238 2.151 3.119 4.933 2.972 5.096 1.958 5.446 1.543 0.670 0.475 1.913 0.867 0.368 6.660 1928 chr2 101632536 101638627 + 0 NA Intergenic Intergenic -6595 NM_026592 68170 Mm.31263 NM_026592 ENSMUSG00000027165 B230118H07Rik NWC RIKEN cDNA B230118H07 gene protein-coding 6.097 2.010 0.838 4.007 2.495 1.019 7.852 4.548 2.648 3.556 1.536 0.470 7.956 6.474 7.045 7.707 7.180 7.148 0.691 0.739 0.493 0.510 0.643 0.471 7.282 1092 chr15 54326770 54328833 + 0 NA Intergenic Intergenic -49317 NM_008764 18383 Mm.15383 NM_008764 ENSMUSG00000063727 Tnfrsf11b OCIF|Opg|TR1 tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin) protein-coding 3.372 0.406 0.440 nan 4.039 1.989 5.272 4.802 3.270 nan 3.353 3.791 5.374 4.660 3.433 3.481 4.542 2.717 1.091 1.654 0.917 0.887 1.861 1.605 1.325 503 chr11 78212008 78214391 + 0 NA intron (NM_009297, intron 29 of 36) intron (NM_009297, intron 29 of 36) 19807 NM_001045516 216974 Mm.50974 NM_001045516 ENSMUSG00000044122 Proca1 4933404M19Rik protein interacting with cyclin A1 protein-coding nan 0.909 0.272 1.785 1.353 0.404 nan 2.459 1.450 1.696 0.533 0.465 2.409 nan 3.402 3.018 1.494 2.871 1.208 0.656 nan 2.764 0.382 0.366 3.754 2255 chr3 95115122 95124903 + 0 NA intron (NM_009336, intron 4 of 5) intron (NM_009336, intron 4 of 5) -4502 NM_016712 50874 Mm.71935 NM_016712 ENSMUSG00000005628 Tmod4 MTMOD|Sk-Tmod tropomodulin 4 protein-coding 9.164 4.716 1.998 6.179 8.386 6.664 11.251 10.188 6.925 9.783 nan 4.353 11.752 14.253 8.176 9.434 9.414 8.596 1.726 1.724 1.924 1.007 1.838 1.886 12.218 1756 chr19 23106269 23108468 + 0 NA Intergenic LTR33A|LTR|ERVL -33858 NM_010638 16601 Mm.291595 NM_010638 ENSMUSG00000033863 Klf9 2310051E17Rik|AA589643|BTEB-1|Bteb1|ENSMUSG00000055440|Gm9971 Kruppel-like factor 9 protein-coding 2.289 0.718 1.485 2.449 3.316 1.912 1.636 3.028 1.717 1.930 nan 0.780 1.478 4.387 1.604 1.566 1.956 1.899 nan 0.991 0.673 0.568 nan 0.452 1.696 1636 chr18 50221169 50226879 + 0 NA Intergenic L1_Mus2|LINE|L1 -54345 NM_001004061 225497 Mm.329435 NM_001004061 ENSMUSG00000035420 Fam170a Gm93|Znfd family with sequence similarity 170, member A protein-coding 2.315 9.118 4.657 1.526 0.933 0.561 1.296 1.255 1.432 1.233 3.098 1.138 1.104 1.175 1.043 0.861 0.834 nan 0.402 0.770 0.471 0.679 0.603 0.368 1.777 2491 chr4 129315389 129318302 + 0 NA intron (NM_009030, intron 11 of 11) RMER16B3|LTR|ERVK 18525 NM_009030 19646 Mm.12145 NM_009030 ENSMUSG00000057236 Rbbp4 RBAP48|mRbAp48 retinoblastoma binding protein 4 protein-coding 5.248 5.283 1.516 7.230 2.891 1.708 4.630 4.534 4.817 6.447 4.775 2.033 6.258 7.031 7.102 8.477 4.413 6.967 5.200 2.411 2.193 5.642 3.350 2.717 11.699 1483 chr17 32075493 32078374 + 0 NA intron (NR_027316, intron 8 of 8) intron (NR_027316, intron 8 of 8) 14490 NR_027316 435518 Mm.328944 NR_027316 ENSMUSG00000002791 Pdxk-ps ENSMUSG00000002791|Gm9743 pyridoxal (pyridoxine, vitamin B6) kinase, pseudogene pseudo 4.946 3.478 0.889 3.697 2.325 1.116 4.560 3.285 2.316 2.962 1.753 1.160 5.705 6.724 2.383 nan 1.544 5.696 1.668 1.315 0.473 4.750 0.683 0.463 5.580 338 chr10 118443802 118452437 + 0 NA Intergenic Lx3C|LINE|L1 7073 NM_008337 15978 Mm.240327 NM_008337 ENSMUSG00000055170 Ifng IFN-g|Ifg interferon gamma protein-coding 3.546 0.830 0.471 2.149 1.687 0.961 2.641 2.818 2.241 2.842 1.204 1.632 2.958 4.001 3.738 3.462 2.467 nan 5.139 5.230 3.630 6.300 4.980 3.348 3.997 3105 chr7 35050476 35054789 + 0 NA intron (NM_009884, intron 1 of 1) intron (NM_009884, intron 1 of 1) 3934 NM_009884 12611 Mm.273090 NM_009884 ENSMUSG00000056216 Cebpg C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP CCAAT/enhancer binding protein (C/EBP), gamma protein-coding 4.539 1.751 1.072 5.743 5.798 2.540 5.264 3.643 3.754 3.017 1.529 1.531 6.549 6.862 4.424 3.618 2.897 7.634 2.161 1.384 0.625 2.915 1.048 0.813 3.823 576 chr11 97162313 97166809 + 0 NA intron (NM_008379, intron 19 of 21) intron (NM_008379, intron 19 of 21) -14849 NM_198100 73174 Mm.27882 NM_198100 ENSMUSG00000038517 Tbkbp1 3110043L15Rik|ProSAPiP2|SINTBAD TBK1 binding protein 1 protein-coding 5.104 nan 1.068 4.252 6.741 6.606 3.151 5.077 4.280 4.109 4.646 3.880 3.454 5.240 3.218 3.724 3.487 4.449 1.928 nan 3.267 3.710 nan nan 2.977 761 chr12 71074484 71080665 + 0 NA intron (NM_001081195, intron 21 of 23) MT2_Mm|LTR|ERVL -33854 NM_029227 75266 Mm.402075 NM_029227 ENSMUSG00000021078 Tomm20l 4930553D19Rik translocase of outer mitochondrial membrane 20 homolog (yeast)-like protein-coding 2.435 7.759 5.519 1.797 1.760 1.360 0.803 0.911 1.567 1.351 1.450 1.223 1.271 1.324 1.163 nan 2.017 1.955 2.926 1.539 1.650 1.354 1.850 1.507 1.156 1996 chr2 148682219 148683675 + 0 NA intron (NM_028986, intron 1 of 5) intron (NM_028986, intron 1 of 5) 1827 NM_028986 74533 Mm.136913 NM_028986 ENSMUSG00000027439 Gzf1 8430437G08Rik|Zfp336|mGZF1 GDNF-inducible zinc finger protein 1 protein-coding 9.621 2.979 1.721 5.466 5.050 2.752 6.900 9.440 4.259 4.923 2.278 3.183 5.917 7.617 5.834 7.745 7.098 6.571 nan 1.706 0.589 2.897 2.608 1.519 4.734 738 chr12 53097944 53100429 + 0 NA intron (NM_198111, intron 11 of 13) MER5A|DNA|hAT-Charlie -149491 NM_013780 27386 Mm.247044 NM_013780 ENSMUSG00000021010 Npas3 4930423H22Rik|bHLHe12 neuronal PAS domain protein 3 protein-coding 6.158 nan 0.473 1.651 2.185 1.920 3.340 1.928 1.773 1.993 0.431 0.311 3.345 4.889 2.589 4.051 3.401 3.803 0.483 0.509 0.232 0.312 0.294 0.063 6.399 1775 chr19 36996710 36998731 + 0 NA intron (NM_001080706, intron 30 of 37) intron (NM_001080706, intron 30 of 37) 71641 NM_001080706 107182 Mm.295062 NM_001080706 ENSMUSG00000040565 Btaf1 AI414500|AI447930|E430027O22Rik|TAF170 B-TFIID TATA-box binding protein associated factor 1 protein-coding 5.285 1.147 0.706 3.602 4.307 3.468 3.231 2.148 5.378 5.841 1.868 1.054 4.841 6.266 5.544 6.165 6.006 7.208 0.428 1.029 1.305 0.720 0.674 0.960 8.522 1415 chr17 23797483 23799219 + 0 NA Intergenic B4|SINE|B4 -4836 NM_175229 75956 Mm.5222 NM_175229 ENSMUSG00000039218 Srrm2 5033413A03Rik|AA410130|SRm300|mKIAA0324 serine/arginine repetitive matrix 2 protein-coding 2.915 1.164 0.410 2.351 0.719 0.889 4.595 4.484 1.559 2.194 1.830 1.246 2.481 4.101 4.135 4.612 3.197 3.667 2.365 1.354 1.334 2.564 2.578 1.327 5.109 484 chr11 74864660 74868436 + 0 NA intron (NM_197943, intron 9 of 22) intron (NM_197943, intron 9 of 22) 1646 NR_105891 102465558 NR_105891 ENSMUSG00000098317 Mir6926 Gm27949|mmu-mir-6926 microRNA 6926 ncRNA 3.565 2.285 1.108 5.386 2.634 0.992 2.751 4.258 3.278 4.308 2.397 1.862 2.929 3.927 nan 4.579 3.182 3.295 2.135 2.242 nan 3.163 1.465 0.777 3.172 3408 chr8 126697580 126698720 + 0 NA Intergenic Intergenic -104714 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 5.214 nan 1.766 1.597 3.555 1.988 4.079 4.305 3.355 3.063 1.438 1.962 4.924 3.915 3.030 4.826 4.562 nan 1.657 3.433 4.566 nan 2.515 nan 3.487 2334 chr4 8789308 8806079 + 0 NA intron (NM_001277149, intron 3 of 37) intron (NM_001277149, intron 3 of 37) 107287 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.515 1.073 0.662 0.545 0.351 0.154 0.291 nan 0.513 0.450 0.457 0.300 0.220 0.295 0.423 0.606 0.362 0.584 2.185 nan 1.901 7.483 1.915 1.414 0.565 1036 chr14 99696895 99710525 + 0 NA Intergenic Intergenic 405019 NM_009769 12224 Mm.30262 NM_009769 ENSMUSG00000005148 Klf5 4930520J07Rik|Bteb2|CKLF|IKLF Kruppel-like factor 5 protein-coding 4.933 nan 0.374 4.842 4.325 2.361 4.851 8.321 7.633 8.423 7.033 6.789 6.388 8.067 8.306 8.955 4.410 8.379 4.523 2.066 1.517 3.743 3.921 3.349 7.516 1078 chr15 31400858 31404709 + 0 NA Intergenic Intergenic -35024 NM_027496 67434 Mm.102470 NM_026153 ENSMUSG00000022237 Ankrd33b 0610012A05Rik|3021401C12Rik|5730557B15Rik ankyrin repeat domain 33B protein-coding 5.818 1.430 1.014 2.221 2.146 2.135 7.306 4.849 3.673 4.216 3.250 2.733 8.438 7.004 5.558 4.438 7.595 5.140 1.220 0.399 0.415 0.829 0.753 0.847 2.813 1243 chr15 102452446 102457338 + 0 NA TTS (NM_144547) TTS (NM_144547) -4278 NM_001170911 66151 Mm.393955 NM_025385 ENSMUSG00000023048 Prr13 1110020C13Rik|2010324E22Rik proline rich 13 protein-coding 9.615 6.655 2.596 5.214 5.377 2.236 10.682 12.690 4.349 5.811 5.711 3.330 8.951 9.978 7.946 8.158 9.637 5.960 2.424 3.027 2.075 2.262 3.187 2.239 8.503 2530 chr4 138265314 138268857 + 0 NA intron (NM_010623, intron 1 of 14) intron (NM_010623, intron 1 of 14) 4834 NM_010623 16559 Mm.271936 NM_010623 ENSMUSG00000028758 Kif17 5930435E01Rik|AW492270|Kif17b|mKIAA1405 kinesin family member 17 protein-coding nan 0.463 0.156 0.346 0.189 0.113 0.618 1.612 nan 1.409 1.196 0.829 1.681 0.542 1.251 1.301 0.765 nan 6.991 2.964 2.222 9.589 4.624 2.247 0.992 3492 chr9 57108725 57111527 + 0 NA intron (NM_001110350, intron 14 of 20) intron (NM_001110350, intron 14 of 20) -20651 NM_028636 73744 Mm.30110 NM_028636 ENSMUSG00000032295 Man2c1 1110025H24Rik mannosidase, alpha, class 2C, member 1 protein-coding 9.049 13.667 3.619 9.113 3.170 2.897 6.736 8.782 5.050 9.914 5.422 3.193 5.923 7.728 7.917 9.428 4.843 7.931 5.256 2.326 3.849 5.632 3.622 4.414 17.759 2065 chr2 163420823 163423538 + 0 NA Intergenic B2_Mm2|SINE|B2 -2710 NM_025699 66680 Mm.25119 NM_025699 ENSMUSG00000035399 Oser1 3230401D17Rik|AI256769|Perit1 oxidative stress responsive serine rich 1 protein-coding 5.893 2.861 0.913 7.886 2.231 1.537 3.271 5.468 3.640 4.667 1.601 1.314 4.143 6.341 3.703 5.952 4.612 5.304 1.742 2.820 2.406 3.062 1.421 1.254 4.181 1265 chr16 10768932 10773292 + 0 NA Intergenic Intergenic 14424 NM_009896 12703 Mm.130 NM_009896 ENSMUSG00000038037 Socs1 Cish1|Cish7|JAB|SOCS-1|SSI-1 suppressor of cytokine signaling 1 protein-coding 3.711 9.074 3.492 1.911 1.190 0.480 nan 1.931 1.337 1.813 1.211 1.550 1.409 1.039 1.377 1.787 1.723 1.671 1.208 1.790 1.106 1.485 1.006 0.783 3.593 544 chr11 94944546 94951023 + 0 NA intron (NM_007742, intron 39 of 50) intron (NM_007742, intron 39 of 50) 11560 NM_007742 12842 Mm.277735 NM_007742 ENSMUSG00000001506 Col1a1 Col1a-1|Cola-1|Cola1|Mov-13|Mov13 collagen, type I, alpha 1 protein-coding 2.973 nan 0.679 4.558 3.445 2.053 3.435 4.205 2.779 2.743 6.319 5.537 2.563 4.446 3.554 2.767 nan 2.780 0.768 nan 0.896 2.570 nan nan 2.152 623 chr11 101691802 101694374 + 0 NA Intergenic Intergenic 27547 NM_025404 80981 Mm.266840 NM_025404 ENSMUSG00000034936 Arl4d 1110036H21Rik|ARL6|AW456149|Arf4l|Arfl4|Arl5 ADP-ribosylation factor-like 4D protein-coding 2.067 nan 0.525 0.884 1.270 0.868 1.449 0.899 1.326 1.259 0.589 0.536 0.696 1.017 1.013 1.433 nan 1.329 4.037 5.228 4.262 5.869 5.654 3.690 1.366 1512 chr17 45380725 45385879 + 0 NA Intergenic ORR1E|LTR|ERVL-MaLR 50405 NM_152810 71702 Mm.28270 NM_152810 ENSMUSG00000023932 Cdc5l 1200002I02Rik|AA408004|PCDC5RP cell division cycle 5-like (S. pombe) protein-coding 0.978 0.991 0.420 0.721 0.662 0.450 1.034 0.758 0.715 0.974 7.360 1.370 0.713 nan 1.187 1.984 nan 0.820 1.275 0.732 0.575 1.360 0.707 0.381 2.059 3253 chr8 34905599 34910900 + 0 NA intron (NM_175091, intron 3 of 26) intron (NM_175091, intron 3 of 26) 57441 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 3.228 1.170 0.466 3.156 1.219 0.739 3.336 5.161 2.148 2.671 2.996 2.236 4.311 5.251 5.355 5.280 2.211 4.092 0.717 0.665 0.793 1.855 1.046 0.659 5.659 2956 chr6 99090495 99095505 + 0 NA intron (NM_001347345, intron 5 of 19) intron (NM_001347345, intron 5 of 19) -64702 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 3.878 0.806 0.673 4.595 2.542 2.027 5.322 6.353 6.095 5.919 3.766 2.352 6.584 7.534 5.633 7.865 4.940 5.830 nan nan 0.829 1.319 1.188 0.760 4.161 1196 chr15 89190606 89194706 + 0 NA intron (NM_027081, intron 1 of 19) intron (NM_027081, intron 1 of 19) 3818 NM_027081 69440 Mm.482128 NM_027081 ENSMUSG00000015377 Dennd6b 1700027J05Rik|AI414881|Fam116b DENN/MADD domain containing 6B protein-coding 5.611 0.762 0.473 2.411 1.645 1.218 7.395 8.243 nan 1.477 0.609 0.502 6.685 5.473 5.109 5.483 5.920 5.190 nan 0.693 0.718 nan 0.591 0.576 6.331 1114 chr15 62047489 62049678 + 0 NA intron (NR_132746, intron 1 of 6) intron (NR_132746, intron 1 of 6) 9326 NR_132746 19296 Mm.4608 NM_011222 ENSMUSG00000097039 Pvt1 Ayu21-84Imeg|Gt(pU21)84Imeg|Mis-1|Mlvi-1|Pvt-1 plasmacytoma variant translocation 1 ncRNA 3.880 1.416 0.945 nan 2.399 1.055 4.660 5.938 nan nan 0.662 0.714 3.732 5.904 4.254 3.160 3.049 2.542 1.183 1.046 0.371 0.741 0.794 0.618 2.359 2389 chr4 63059240 63067683 + 0 NA intron (NM_028326, intron 2 of 14) intron (NM_028326, intron 2 of 14) 90711 NM_007443 11699 Mm.2197 NM_007443 ENSMUSG00000028356 Ambp AI194774|ASPI|HI-30|Intin4|Itil|UTI alpha 1 microglobulin/bikunin protein-coding 8.476 19.185 5.861 8.494 3.873 1.661 6.660 6.586 4.533 6.098 3.980 1.480 5.387 8.776 7.299 7.976 3.638 6.640 2.803 2.283 1.709 nan nan 1.448 10.446 2946 chr6 97769575 97771891 + 0 NA Intergenic Intergenic -36325 NM_001113198 17342 Mm.333284 NM_008601 ENSMUSG00000035158 Mitf BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit microphthalmia-associated transcription factor protein-coding 5.473 1.751 0.945 2.906 4.113 1.604 2.173 1.818 2.680 3.239 1.752 1.086 1.444 5.196 3.638 5.524 3.698 3.413 nan nan 0.582 0.791 0.613 0.244 2.524 2564 chr4 148551863 148554745 + 0 NA intron (NM_020009, intron 56 of 57) intron (NM_020009, intron 56 of 57) -5123 NM_016699 50912 Mm.266635 NM_016699 ENSMUSG00000017264 Exosc10 PM-Scl|PM/Scl-100|Pmscl2|RRP6|p2|p3|p4 exosome component 10 protein-coding 8.201 nan 0.991 7.381 8.180 5.982 4.185 5.746 4.397 5.373 2.090 1.689 5.129 8.401 5.853 6.257 3.960 7.896 0.911 1.230 0.936 1.052 1.216 1.226 9.269 2382 chr4 62225849 62234387 + 0 NA Intergenic B3|SINE|B2 -21572 NM_001290350 22696 Mm.5011 NM_009554 ENSMUSG00000028389 Zfp37 Tzn|Zfp-37 zinc finger protein 37 protein-coding 4.005 nan 0.795 2.339 4.668 3.067 nan 2.661 2.971 4.334 0.799 1.152 6.184 8.086 3.351 2.868 3.357 4.400 nan 1.647 1.223 1.584 1.114 0.950 4.759 328 chr10 91192664 91196137 + 0 NA Intergenic RMER13B|LTR|ERVK -22781 NM_001080130 21917 Mm.159684 NM_011605 ENSMUSG00000019961 Tmpo 5630400D24Rik|AI195756|AI606875|AW214352|AW547477|LAP2|TP thymopoietin protein-coding nan 0.548 0.377 0.345 0.038 0.155 0.437 0.331 0.299 0.215 0.086 0.148 nan 0.312 0.492 0.235 nan 1.796 1.215 0.313 nan nan 0.111 0.307 239 chr10 24937485 24940219 + 0 NA Intergenic Intergenic -11382 NM_007482 11846 Mm.154144 NM_007482 ENSMUSG00000019987 Arg1 AI|AI256583|Arg-1|PGIF arginase, liver protein-coding 3.132 1.104 0.407 2.348 0.869 0.520 1.713 1.707 2.623 2.173 0.364 0.532 4.500 2.619 2.936 3.785 4.211 2.163 0.637 0.448 0.377 0.700 0.324 0.217 5.864 2635 chr5 28117069 28118779 + 0 NA Intergenic Intergenic 46512 NM_153526 231070 Mm.30221 NM_153526 ENSMUSG00000045294 Insig1 1810013C12Rik|Insig-1 insulin induced gene 1 protein-coding 8.384 13.863 4.132 13.550 2.567 2.261 6.937 6.868 6.623 16.285 7.222 3.856 7.961 10.282 9.374 11.014 4.546 10.427 5.726 1.522 2.495 8.518 3.733 4.980 15.280 122 chr1 127445023 127449267 + 0 NA intron (NM_145128, intron 13 of 17) (TA)n|Simple_repeat|Simple_repeat 230876 NM_028135 72160 Mm.281287 NM_028135 ENSMUSG00000026347 Tmem163 2610024A01Rik|SV31 transmembrane protein 163 protein-coding 12.059 nan 0.435 3.404 6.579 4.125 9.396 8.891 5.709 6.009 6.417 5.398 10.402 9.237 6.859 11.495 10.474 7.121 nan 1.174 0.635 0.553 1.471 1.249 4.262 269 chr10 62494646 62496411 + 0 NA intron (NM_011157, intron 2 of 2) intron (NM_011157, intron 2 of 2) -8723 NM_133672 30930 Mm.260703 NM_133672 ENSMUSG00000020078 Vps26a AA407240|HB58|Vps26 VPS26 retromer complex component A protein-coding 7.034 0.403 0.221 2.908 4.335 4.359 5.721 3.770 3.548 5.253 2.622 1.135 5.961 5.429 4.187 5.267 7.462 3.466 nan 1.047 1.129 0.513 0.718 0.758 4.737 628 chr11 102195382 102201203 + 0 NA intron (NM_001077696, intron 20 of 26) intron (NM_001077696, intron 20 of 26) 8593 NM_175935 68401 Mm.22385 NM_175935 ENSMUSG00000034793 G6pc3 0710001K01Rik|AU019276|AU045429|AV128920|AW545836|UGRP glucose 6 phosphatase, catalytic, 3 protein-coding 3.734 nan 0.659 2.642 2.378 2.064 2.120 4.209 2.817 3.109 1.467 0.822 2.226 4.443 3.555 4.908 nan 3.488 1.493 nan 1.436 2.154 nan nan 3.360 878 chr13 37756540 37760653 + 0 NA Intergenic RMER4B|LTR|ERVK -67442 NM_026830 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 8.086 nan 0.790 4.851 5.206 2.213 nan 6.259 nan 8.371 6.286 4.168 5.300 8.324 6.089 nan 4.099 8.000 1.161 1.945 1.283 3.106 1.382 0.914 8.452 1223 chr15 100605145 100611011 + 0 NA Intergenic (TTTA)n|Simple_repeat|Simple_repeat 7032 NR_045701 78445 Mm.44383 NR_045701 ENSMUSG00000097093 C330013E15Rik - RIKEN cDNA C330013E15 gene ncRNA 1.259 10.415 3.623 0.833 0.617 0.313 1.716 2.040 0.996 1.601 0.562 0.466 1.632 1.001 1.479 nan 0.863 1.430 0.875 0.409 0.606 0.741 0.811 0.639 1.342 2277 chr3 102538218 102562662 + 0 NA Intergenic RLTR34C_MM|LTR|ERVK 80521 NM_013609 18049 Mm.1259 NM_013609 ENSMUSG00000027859 Ngf Ngfb nerve growth factor protein-coding 5.994 1.529 0.565 6.719 6.127 2.863 6.544 6.337 6.501 8.272 nan 3.497 9.747 12.718 7.461 7.657 4.636 10.554 3.477 1.457 1.129 3.193 2.792 1.890 8.107 363 chr10 127706990 127710059 + 0 NA intron (NM_001081219, intron 7 of 26) intron (NM_001081219, intron 7 of 26) 3268 NM_001081219 432516 Mm.90450 NM_001081219 ENSMUSG00000025401 Myo1a BBM-I|Myhl myosin IA protein-coding 6.037 nan 2.119 5.484 4.884 4.133 3.229 4.317 3.391 4.513 2.880 2.792 2.856 5.410 3.824 4.839 4.471 4.391 3.713 2.995 1.788 2.633 nan 2.971 4.936 2353 chr4 40668161 40672506 + 0 NA Intergenic Intergenic 32583 NM_025545 66408 Mm.430710 NM_025545 ENSMUSG00000028411 Aptx 2410016G21Rik|AA388047|FHA-HIT aprataxin protein-coding 8.514 10.485 3.160 12.421 4.038 3.084 6.907 7.024 8.191 11.295 6.610 4.257 7.741 9.341 9.993 11.493 5.518 11.163 6.916 1.870 2.567 5.322 2.475 2.918 13.319 3538 chr9 99600644 99611877 + 0 NA Intergenic Intergenic -6242 NM_001077424 333424 Mm.297753 NM_001077424 ENSMUSG00000037953 A4gnt AV080780|Alpha4gnt|Gm798 alpha-1,4-N-acetylglucosaminyltransferase protein-coding 8.927 0.417 0.320 4.980 3.601 1.544 7.751 5.950 8.878 10.358 1.183 2.820 9.088 13.182 8.819 10.346 6.501 12.240 0.489 0.728 0.186 0.319 0.439 0.304 13.127 3198 chr7 135765254 135767456 + 0 NA Intergenic Intergenic -49976 NM_001081117 17345 Mm.4078 NM_001081117 ENSMUSG00000031004 Mki67 D630048A14Rik|Ki-67|Ki67 antigen identified by monoclonal antibody Ki 67 protein-coding 4.850 7.473 6.595 4.772 4.692 3.297 4.206 6.355 4.716 4.602 5.472 3.895 7.096 5.637 4.856 4.343 3.663 7.039 4.000 2.501 1.873 3.870 1.919 1.782 2.770 3215 chr8 8648574 8649876 + 0 NA intron (NM_010111, intron 1 of 4) intron (NM_010111, intron 1 of 4) 11548 NM_010111 13642 Mm.209813 NM_010111 ENSMUSG00000001300 Efnb2 ELF-2|Epl5|Eplg5|Htk-L|LERK-5|Lerk5|NLERK-1 ephrin B2 protein-coding 2.398 0.948 0.197 1.862 1.277 0.663 2.706 6.446 1.795 1.662 2.205 1.241 1.990 3.716 3.593 4.024 2.335 2.981 0.686 1.241 0.367 1.447 0.678 0.426 3.148 733 chr12 39504356 39509327 + 0 NA Intergenic Lx4B|LINE|L1 530535 NM_007487 11861 Mm.12723 NM_007487 ENSMUSG00000047446 Arl4a AI467555|Arl4 ADP-ribosylation factor-like 4A protein-coding 11.674 nan 0.547 5.535 2.625 1.082 4.553 5.370 nan 2.673 3.476 5.595 2.959 5.093 6.673 4.955 2.355 4.365 nan 3.511 1.476 6.033 4.249 2.942 2.670 2159 chr3 21988186 21994233 + 0 NA Intergenic ID_B1|SINE|B4 -85443 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 4.374 nan 1.893 3.251 4.190 2.470 6.033 5.933 3.796 3.219 2.929 3.079 4.518 4.809 4.345 4.801 3.595 4.904 2.069 1.838 1.205 2.566 1.973 1.714 3.648 3059 chr7 6095484 6115066 + 0 NA TTS (NM_031389) TTS (NM_031389) 50696 NM_001013012 67109 Mm.3254 NM_001013012 ENSMUSG00000046792 Zfp787 2210018M03Rik|Znf787 zinc finger protein 787 protein-coding 6.597 2.953 1.181 5.387 3.697 2.253 5.362 9.478 5.366 7.707 3.081 2.528 6.330 8.000 6.080 7.248 7.144 7.760 3.371 2.437 2.180 4.256 4.166 3.122 8.516 630 chr11 102291182 102295648 + 0 NA intron (NM_001098836, intron 6 of 12) intron (NM_001098836, intron 6 of 12) 3214 NM_001098836 217218 Mm.390381 NM_001098836 ENSMUSG00000059995 Atxn7l3 E030022H21Rik ataxin 7-like 3 protein-coding 5.616 9.690 3.847 5.979 3.167 1.585 2.990 2.984 2.934 4.240 2.641 1.455 2.622 4.640 4.175 5.513 nan 4.476 2.395 nan 2.366 4.873 nan nan 6.782 997 chr14 32480804 32484081 + 0 NA Intergenic Intergenic -16533 NM_009891 12647 Mm.442817 NM_009891 ENSMUSG00000021919 Chat B230380D24Rik choline acetyltransferase protein-coding 7.059 7.118 2.203 7.610 3.435 1.816 4.189 4.261 5.297 5.103 7.867 5.016 4.270 6.213 5.841 5.913 nan 6.355 4.690 2.515 2.046 nan 2.358 1.387 7.772 3394 chr8 123080240 123084332 + 0 NA intron (NM_153176, intron 9 of 16) CT-rich|Low_complexity|Low_complexity 16778 NM_153176 234847 Mm.292075 NM_153176 ENSMUSG00000000738 Spg7 AI452278|AU015315|Cmar|PGN spastic paraplegia 7 homolog (human) protein-coding 1.476 nan 0.282 nan 0.999 0.669 nan nan 0.728 1.451 0.506 0.261 0.918 1.353 nan 1.875 1.146 2.016 nan 0.958 1.074 4.131 0.523 nan 3.131 1449 chr17 27689511 27699087 + 0 NA intron (NM_178365, intron 1 of 9) MuRRS4-int|LTR|ERV1 9060 NM_178365 23969 Mm.4926 NM_011861 ENSMUSG00000040276 Pacsin1 A830061D09Rik|H74|mKIAA1379|syndapin protein kinase C and casein kinase substrate in neurons 1 protein-coding 2.920 9.027 2.533 4.011 1.943 1.457 6.351 5.231 2.315 5.026 4.703 2.739 3.989 5.686 6.015 nan 3.426 3.668 2.785 1.314 1.775 5.098 1.366 2.003 8.726 608 chr11 100854581 100856620 + 0 NA Intergenic Intergenic -3751 NM_011488 20850 Mm.277403 NM_011488 ENSMUSG00000004043 Stat5a AA959963|STAT5 signal transducer and activator of transcription 5A protein-coding 6.503 nan 0.772 3.803 5.481 3.694 7.061 6.888 3.851 3.767 2.951 2.117 4.066 5.925 5.467 6.394 8.081 4.456 0.881 1.614 1.310 0.638 nan nan 3.691 3263 chr8 35102315 35104735 + 0 NA Intergenic Intergenic -137835 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 9.085 0.892 0.216 3.582 5.988 4.328 11.025 11.204 4.116 4.246 2.480 1.974 7.647 8.614 6.687 6.842 6.919 6.944 0.789 0.886 0.982 0.674 1.075 0.827 8.109 2873 chr6 53522201 53524318 + 0 NA intron (NM_001327821, intron 5 of 10) MTC|LTR|ERVL-MaLR -50115 NM_172728 231991 Mm.227444 NM_172728 ENSMUSG00000053007 Creb5 9430076C15Rik|CRE-BPa|Crebpa|D430026C09Rik cAMP responsive element binding protein 5 protein-coding 5.567 2.410 1.571 4.178 5.037 1.619 2.011 3.456 2.941 3.236 5.972 4.368 2.069 4.247 4.002 3.761 2.887 3.094 nan 1.269 0.516 1.371 1.273 0.769 3.828 1234 chr15 102161756 102162862 + 0 NA intron (NM_146064, intron 13 of 14) intron (NM_146064, intron 13 of 14) 11734 NM_146064 223920 Mm.358862 NM_146064 ENSMUSG00000023045 Soat2 ACAT2|D15Wsu97e sterol O-acyltransferase 2 protein-coding 4.881 6.806 1.857 5.371 2.011 1.584 4.644 7.520 2.794 3.796 2.723 1.808 4.557 6.232 7.168 6.163 4.885 4.681 5.168 2.504 0.871 4.472 2.777 2.082 7.749 1649 chr18 55469086 55470155 + 0 NA Intergenic Intergenic -479440 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 6.020 nan 0.941 1.911 2.994 0.987 5.031 1.824 4.371 5.613 2.180 0.783 6.082 3.792 2.904 4.930 5.125 5.791 nan 0.837 0.705 nan 1.012 0.899 4.534 2226 chr3 89634682 89636982 + 0 NA intron (NM_080466, intron 3 of 7) MLT1F2|LTR|ERVL-MaLR -79190 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 2.497 1.146 0.496 5.811 1.116 1.120 0.838 0.744 1.432 4.071 0.652 0.482 1.106 1.282 1.546 2.151 1.063 2.986 nan 0.492 1.280 1.027 0.591 1.086 3.180 2878 chr6 71442393 71446090 + 0 NA Intergenic ORR1E|LTR|ERVL-MaLR -3604 NM_024288 68477 Mm.28474 NM_024288 ENSMUSG00000002222 Rmnd5a 1110007A06Rik|AJ237586|AW125795|Gid2|MTA.D02.090 required for meiotic nuclear division 5 homolog A protein-coding 6.393 6.989 2.459 8.614 4.146 3.808 8.431 10.049 4.909 9.540 4.952 4.290 7.674 8.059 7.998 9.992 7.551 8.227 6.900 4.247 3.786 5.795 6.900 7.038 9.191 3591 chrX 136312431 136314291 + 0 NA Intergenic Intergenic 43108 NM_001110234 12070 Mm.90787 NM_009750 ENSMUSG00000046432 Bex3 AL033356|DXWsu67e|Gcap27|Nade|Ngfrap1 brain expressed X-linked 3 protein-coding 2.420 0.451 0.136 0.883 1.356 0.685 1.079 1.814 1.318 1.351 2.152 0.525 1.397 3.456 2.283 1.496 1.424 1.453 1.128 0.746 0.348 0.418 1.187 0.775 3.055 1314 chr16 23165909 23168875 + 0 NA Intergenic Intergenic 20856 NM_009605 11450 Mm.3969 NM_009605 ENSMUSG00000022878 Adipoq 30kDa|APN|Acdc|Acrp30|Ad|GBP28|adipo|apM1 adiponectin, C1Q and collagen domain containing protein-coding 3.857 1.063 0.598 2.120 1.817 1.285 2.463 5.047 2.654 3.015 4.302 4.657 2.903 2.981 1.789 2.485 2.339 2.772 1.134 1.285 0.771 0.978 nan 1.140 1.598 2748 chr5 123401373 123402816 + 0 NA intron (NM_133917, intron 1 of 16) B2_Mm2|SINE|B2 7296 NM_177582 208104 Mm.83277 NM_133917 ENSMUSG00000038342 Mlxip AW228700|Mir|bHLHe36 MLX interacting protein protein-coding 3.054 5.684 1.327 5.154 1.551 0.729 3.313 4.650 2.706 5.479 1.120 1.144 3.516 4.441 6.072 6.768 nan 4.012 5.757 2.056 3.462 11.636 3.616 3.541 8.289 1798 chr19 46595831 46600198 + 0 NA Intergenic B1F|SINE|Alu -1092 NM_001177812 226178 Mm.329895 NM_146099 ENSMUSG00000047731 Wbp1l D19Wsu162e|Opal1 WW domain binding protein 1 like protein-coding 9.260 4.805 2.018 5.295 8.142 4.197 9.333 9.338 3.401 5.422 5.314 4.345 5.541 11.033 7.654 7.002 9.924 6.409 2.751 4.436 3.903 5.022 6.293 5.521 10.287 1474 chr17 30163114 30165554 + 0 NA intron (NM_148926, intron 3 of 4) intron (NM_148926, intron 3 of 4) 92201 NR_105839 102465223 NR_105839 ENSMUSG00000098522 Mir6412 Gm27364|mmu-mir-6412 microRNA 6412 ncRNA 5.439 1.458 0.974 4.049 4.642 2.896 4.924 4.136 4.356 3.569 1.658 1.894 3.278 4.925 4.664 5.186 4.629 5.264 3.006 2.166 1.625 2.629 1.780 1.450 3.635 2535 chr4 140669193 140671994 + 0 NA Intergenic Intergenic -4688 NM_001112722 72754 Mm.29329 NM_172415 ENSMUSG00000040964 Arhgef10l 2810441C07Rik Rho guanine nucleotide exchange factor (GEF) 10-like protein-coding nan 1.235 0.689 2.647 1.630 0.924 1.935 2.152 nan 2.988 0.524 0.409 3.448 6.064 3.814 4.982 2.335 3.822 1.232 0.607 0.465 0.775 nan 0.275 7.861 125 chr1 133407553 133411812 + 0 NA intron (NM_011439, intron 1 of 13) Charlie12|DNA|hAT-Charlie 14530 NM_011439 20668 Mm.8575 NM_011439 ENSMUSG00000070643 Sox13 AA407916|AW259412|AW540933|Sox-13 SRY (sex determining region Y)-box 13 protein-coding 7.360 0.832 0.747 nan 2.355 1.444 1.964 1.720 2.200 2.055 2.253 1.288 2.479 2.046 2.247 nan 3.407 3.491 0.977 0.718 0.580 0.643 0.882 0.570 nan 522 chr11 86169294 86171784 + 0 NA intron (NM_178309, intron 6 of 19) intron (NM_178309, intron 6 of 19) 30654 NM_178309 237911 Mm.186143 NM_178309 ENSMUSG00000034329 Brip1 3110009N10Rik|8030460J03Rik|Bach1|FACJ|Fancj|OF BRCA1 interacting protein C-terminal helicase 1 protein-coding 9.602 15.836 9.098 12.388 9.423 7.062 8.537 8.151 8.125 16.931 9.039 10.155 7.196 11.322 8.829 9.254 9.650 9.037 6.230 4.300 4.665 5.792 4.458 8.307 11.475 1632 chr18 46900526 46903120 + 0 NA intron (NM_029008, intron 19 of 19) MERVL_2A-int|LTR|ERVL -19992 NM_001033446 381142 Mm.329423 NM_001033446 ENSMUSG00000073568 Arl14epl Gm949 ADP-ribosylation factor-like 14 effector protein-like protein-coding 10.894 9.526 2.485 9.339 5.971 2.513 6.726 10.430 5.753 10.726 5.674 3.823 9.141 9.333 8.793 10.219 5.944 8.821 4.329 3.142 1.974 6.528 3.608 3.351 15.125 44 chr1 52112167 52115108 + 0 NA Intergenic Intergenic -5801 NM_009283 20846 Mm.277406 NM_009283 ENSMUSG00000026104 Stat1 2010005J02Rik|AA408197 signal transducer and activator of transcription 1 protein-coding 2.776 1.944 0.860 1.956 0.839 0.527 1.151 0.734 2.380 2.198 5.196 1.074 2.795 1.569 1.454 2.860 1.960 2.589 nan 0.431 0.553 0.710 0.583 0.445 1.710 1423 chr17 24805510 24810688 + 0 NA intron (NM_029197, intron 1 of 13) intron (NM_029197, intron 1 of 13) 3717 NM_029197 75178 Mm.52592 NM_029197 ENSMUSG00000024155 Meiob 4930528F23Rik|MLZ-675 meiosis specific with OB domains protein-coding 5.350 4.088 1.525 5.284 4.292 4.091 8.365 6.787 3.927 6.329 3.507 3.023 5.663 7.512 6.907 8.586 5.022 5.820 4.215 2.291 3.670 4.345 2.708 3.705 9.175 3352 chr8 108836618 108848293 + 0 NA intron (NM_007496, intron 3 of 9) intron (NM_007496, intron 3 of 9) -94405 NR_037295 100526511 NR_037295 ENSMUSG00000093241 Mir3108 mir-3108|mmu-mir-3108 microRNA 3108 ncRNA 0.700 1.215 0.812 0.668 0.294 0.117 0.475 1.619 0.862 0.659 0.405 0.861 0.556 0.495 0.896 1.053 0.726 1.054 4.062 2.542 1.182 7.478 2.913 1.885 0.847 2412 chr4 97652635 97654187 + 0 NA intron (NM_001122952, intron 1 of 10) intron (NM_001122952, intron 1 of 10) -68820 NR_015513 319865 Mm.373807 NM_177023 E130114P18Rik - RIKEN cDNA E130114P18 gene ncRNA 3.465 nan 0.591 3.273 2.281 0.722 3.874 4.124 3.823 3.610 2.478 2.172 3.218 4.516 3.321 3.445 1.937 4.115 1.089 0.717 0.326 nan 0.394 0.235 3.465 2152 chr3 21565179 21572948 + 0 NA Intergenic Intergenic -507589 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 0.912 nan 0.498 1.016 0.887 0.319 2.015 1.468 2.187 1.662 7.778 3.541 1.062 1.002 1.166 0.969 1.009 2.014 0.863 0.518 0.241 0.558 0.587 0.366 0.898 1687 chr18 79303842 79307185 + 0 NA Intergenic MTEa|LTR|ERVL-MaLR -196122 NM_053099 240427 Mm.312871 NM_053099 ENSMUSG00000024548 Setbp1 C130092E12|Seb|mKIAA0437 SET binding protein 1 protein-coding 6.228 12.657 5.014 6.608 2.867 3.403 3.904 8.101 3.649 11.445 5.796 4.814 4.480 4.216 4.386 5.396 5.061 6.600 5.330 nan 3.753 4.586 4.111 6.975 12.587 667 chr11 116961902 116966123 + 0 NA intron (NM_172948, intron 8 of 16) B4A|SINE|B4 45149 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 4.004 nan 1.442 6.268 2.133 2.164 2.909 2.963 3.340 3.203 2.614 1.611 3.072 3.749 3.471 4.015 2.083 nan 1.085 nan 1.337 1.298 0.814 0.766 4.401 1188 chr15 83380306 83382638 + 0 NA intron (NM_011862, intron 8 of 10) intron (NM_011862, intron 8 of 10) -14175 NR_027980 69291 Mm.66794 NM_001033147 1700001L05Rik - RIKEN cDNA 1700001L05 gene ncRNA 4.156 0.826 0.529 nan 1.687 1.324 7.522 6.310 nan 2.638 1.044 0.812 6.564 4.139 3.412 5.290 5.567 nan nan 0.762 0.876 nan 0.832 0.661 2.742 3142 chr7 97292900 97297978 + 0 NA intron (NM_001162477, intron 3 of 9) Lx3B|LINE|L1 30525 NM_001177412 244144 Mm.297541 NM_001177412 ENSMUSG00000035713 Usp35 Gm1088|Gm493 ubiquitin specific peptidase 35 protein-coding 5.879 2.552 2.072 4.364 6.965 4.100 5.269 7.021 4.659 4.236 1.838 2.209 5.886 7.747 5.785 4.850 5.522 5.682 nan 1.683 1.400 1.095 1.736 1.368 2.759 2008 chr2 152914902 152918643 + 0 NA intron (NM_001081044, intron 5 of 11) intron (NM_001081044, intron 5 of 11) 5420 NM_001081044 228785 Mm.250604 NM_001081044 ENSMUSG00000027470 Mylk2 9830004H17Rik|BB138278 myosin, light polypeptide kinase 2, skeletal muscle protein-coding 6.910 3.632 1.861 2.477 1.389 1.182 3.224 6.607 1.494 2.091 1.941 0.408 2.916 3.012 2.834 4.213 6.873 2.873 nan 1.059 0.738 0.366 0.421 0.519 5.280 2862 chr6 48150758 48153610 + 0 NA Intergenic L1Md_F2|LINE|L1 -65591 NM_001163475 69228 Mm.207555 NM_001163475 ENSMUSG00000057691 Zfp746 2810407L07Rik|AI317225|Znf746 zinc finger protein 746 protein-coding 0.272 0.480 0.092 0.403 0.267 0.093 0.386 0.367 0.293 0.321 0.290 0.099 0.214 0.124 0.237 0.760 0.474 nan 2.221 1.709 1.303 4.472 0.746 0.586 0.602 714 chr12 4455754 4457381 + 0 NA intron (NM_010881, intron 1 of 22) intron (NM_010881, intron 1 of 22) 20615 NM_010881 17977 Mm.301039 NM_010881 ENSMUSG00000020647 Ncoa1 KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1 nuclear receptor coactivator 1 protein-coding 3.475 5.705 3.064 2.694 1.108 0.507 3.112 3.490 2.473 2.165 0.629 0.702 4.181 3.649 4.245 4.389 3.187 3.713 1.215 0.632 0.520 1.798 0.421 0.488 2.783 1280 chr16 15945559 15953154 + 0 NA intron (NM_146068, intron 10 of 19) intron (NM_146068, intron 10 of 19) 62070 NM_007679 12609 Mm.347407 NM_007679 ENSMUSG00000071637 Cebpd c/EBPdelta CCAAT/enhancer binding protein (C/EBP), delta protein-coding 7.091 1.456 0.842 5.985 8.190 5.568 4.156 8.040 5.132 nan 3.008 3.199 5.156 5.339 3.560 nan 3.619 5.644 2.997 2.232 1.563 1.836 3.593 3.269 3.178 1564 chr17 71334868 71344504 + 0 NA intron (NR_028023, intron 2 of 2) L1M4|LINE|L1 2118 NR_028023 100043644 Mm.362377 NR_028023 Gm4566 - ubiquitin specific peptidase 16 pseudogene pseudo 8.840 5.773 2.545 8.213 6.397 3.822 8.523 7.329 6.071 7.770 3.751 2.568 7.847 9.883 9.056 11.357 8.683 9.586 2.798 1.815 2.008 2.392 2.157 1.853 12.330 313 chr10 80779526 80784684 + 0 NA intron (NM_199322, intron 11 of 27) intron (NM_199322, intron 11 of 27) 16521 NM_023900 78670 Mm.41479 NM_023900 ENSMUSG00000035278 Plekhj1 9530063M10Rik pleckstrin homology domain containing, family J member 1 protein-coding 6.337 6.064 2.100 6.057 3.156 1.688 4.553 6.156 3.164 6.524 3.769 2.304 4.288 7.431 5.797 6.319 4.734 5.324 nan 2.280 1.997 3.829 2.901 2.495 9.054 2017 chr2 154643788 154648548 + 0 NA 3' UTR (NM_199304, exon 15 of 15) 3' UTR (NM_199304, exon 15 of 15) -10858 NM_029362 75608 Mm.262480 NM_029362 ENSMUSG00000038467 Chmp4b 2010012F05Rik|C76846|Snf7-2 charged multivesicular body protein 4B protein-coding 6.206 1.290 0.933 2.534 3.585 2.487 1.906 2.949 3.928 nan 2.256 1.574 nan 2.772 2.538 3.140 4.915 4.728 nan 1.604 0.901 0.972 1.037 0.906 3.790 2663 chr5 53437257 53451639 + 0 NA Intergenic Intergenic -111331 NM_001080928 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 6.968 0.606 0.434 5.365 3.059 1.713 8.094 5.581 7.752 11.207 2.228 1.000 7.960 10.235 9.589 10.726 6.398 10.424 0.960 0.915 0.682 1.671 0.527 0.567 10.426 3023 chr6 134107478 134108886 + 0 NA intron (NM_001303102, intron 2 of 8) intron (NM_001303102, intron 2 of 8) 72482 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 3.206 1.745 1.364 1.723 1.361 0.607 1.306 2.712 2.904 1.573 3.480 1.482 1.038 2.405 1.949 2.179 1.896 2.571 1.737 0.852 0.698 0.889 0.953 0.404 1.499 2884 chr6 72183171 72186100 + 0 NA Intergenic MLTR14|LTR|ERV1 50942 NM_153778 71093 Mm.87449 NM_153778 ENSMUSG00000037621 Atoh8 4933425C05Rik|Hath6|Math6|bHLHa21|okadin atonal bHLH transcription factor 8 protein-coding 2.668 4.388 1.004 5.892 1.445 1.078 10.958 4.374 3.291 6.137 1.465 1.366 5.681 6.585 9.615 6.999 3.043 6.544 0.779 0.824 1.602 2.500 0.594 1.025 8.221 2661 chr5 46247379 46248688 + 0 NA Intergenic L1Md_A|LINE|L1 -315624 NR_110478 78106 Mm.243807 NR_110478 ENSMUSG00000106602 4930405L22Rik - RIKEN cDNA 4930405L22 gene ncRNA 8.451 11.663 4.236 7.718 4.116 3.602 7.163 8.939 3.494 12.530 5.881 1.809 4.819 6.640 7.961 7.724 5.845 6.274 7.396 4.149 5.749 8.044 6.439 9.348 14.578 1324 chr16 25860422 25862269 + 0 NA intron (NM_001127259, intron 4 of 13) intron (NM_001127259, intron 4 of 13) 59429 NM_001127264 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 4.361 0.857 0.626 2.047 2.063 1.147 4.927 4.342 3.079 2.763 6.200 2.190 5.395 5.499 3.738 6.830 4.728 4.388 0.845 0.484 0.466 0.751 nan 0.443 4.319 397 chr11 11719762 11738724 + 0 NA intron (NM_001301866, intron 3 of 5) intron (NM_001301866, intron 3 of 5) 39066 NM_001301863 22778 Mm.103545 NM_009578 ENSMUSG00000018654 Ikzf1 5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227 IKAROS family zinc finger 1 protein-coding nan 1.164 0.632 1.951 1.211 0.638 5.571 2.573 1.389 1.385 0.791 0.623 3.630 3.508 4.353 6.473 5.310 3.056 1.990 nan 0.898 1.707 2.002 1.453 4.115 1096 chr15 57677792 57688517 + 0 NA Intergenic Intergenic -11513 NM_199449 387609 Mm.36557 NM_199449 ENSMUSG00000071757 Zhx2 Afr-1|Afr1|Raf|mKIAA0854 zinc fingers and homeoboxes 2 protein-coding 2.270 0.972 0.440 nan 1.502 0.872 nan nan nan nan 0.759 0.631 3.164 3.432 2.401 nan 2.032 2.201 3.062 2.804 1.581 6.568 2.199 1.556 1.947 3077 chr7 25668674 25677339 + 0 NA intron (NM_001290498, intron 2 of 3) intron (NM_001290498, intron 2 of 3) 2160 NM_001290497 320208 Mm.207484 NM_177102 ENSMUSG00000061702 Tmem91 A830041P22Rik|DSPC3 transmembrane protein 91 protein-coding 6.769 8.117 3.172 6.397 5.771 3.827 6.799 9.123 4.868 7.207 3.628 2.147 7.954 9.473 7.890 7.942 7.132 8.821 2.269 1.954 2.168 2.489 1.847 1.612 9.598 3305 chr8 87977408 87981136 + 0 NA Intergenic Intergenic -19677 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 0.559 0.637 0.440 0.390 0.805 0.448 0.756 0.878 nan 0.523 0.431 0.268 0.415 0.654 0.664 0.893 0.951 0.760 nan 1.943 2.031 4.346 1.642 1.847 0.687 3285 chr8 74791528 74795920 + 0 NA Intergenic Intergenic -79450 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 3.093 6.413 3.651 7.250 2.374 1.692 nan 2.178 nan 2.115 1.213 1.430 1.039 2.115 1.695 nan 1.807 2.923 0.472 1.660 1.893 nan 0.520 0.501 nan 3433 chr9 21396463 21398971 + 0 NA intron (NM_001042708, intron 13 of 18) intron (NM_001042708, intron 13 of 18) 14003 NR_045742 330902 Mm.437044 NR_045742 ENSMUSG00000097665 Gm16853 4930565O14 predicted gene, 16853 ncRNA 5.925 7.562 1.593 6.597 2.338 1.348 4.443 6.332 3.166 6.388 4.111 1.669 4.287 6.969 6.924 7.811 3.257 5.933 3.527 2.144 1.319 4.438 2.645 2.090 12.267 2934 chr6 90412217 90416932 + 0 NA intron (NM_173775, intron 5 of 16) intron (NM_173775, intron 5 of 16) 13906 NM_173775 243538 Mm.386876 NM_173775 ENSMUSG00000048794 Cfap100 AW048498|C030041G11Rik|C230069K22Rik|Ccdc37 cilia and flagella associated protein 100 protein-coding 3.240 1.942 0.354 7.754 1.542 0.840 2.253 7.149 3.963 6.687 1.603 1.029 3.306 4.682 3.555 8.154 2.710 4.939 nan 0.453 0.379 2.726 0.567 0.548 4.597 1657 chr18 61297434 61298700 + 0 NA TTS (NM_133249) TTS (NM_133249) 77568 NM_146086 225600 Mm.391106 NM_146086 ENSMUSG00000024575 Pde6a Pdea|nmf282 phosphodiesterase 6A, cGMP-specific, rod, alpha protein-coding 3.738 nan 0.393 nan 0.962 0.562 6.263 4.132 0.948 0.834 0.366 0.332 3.755 3.342 3.358 3.642 2.989 3.723 nan 0.667 0.194 nan 0.756 0.470 4.115 3009 chr6 125326933 125331168 + 0 NA intron (NM_011324, intron 1 of 11) intron (NM_011324, intron 1 of 11) 7710 NM_011324 20276 Mm.144114 NM_011324 ENSMUSG00000030340 Scnn1a ENaC|SCNEA|Scnn1|mENaC sodium channel, nonvoltage-gated 1 alpha protein-coding 2.846 nan 0.338 2.496 1.373 0.841 6.821 8.189 1.618 2.621 5.465 2.821 5.391 4.322 6.388 7.995 4.871 3.634 1.188 0.938 1.090 1.886 1.181 1.164 5.389 2185 chr3 52262234 52263305 + 0 NA Intergenic Intergenic -5568 NM_019739 56458 Mm.29891 NM_019739 ENSMUSG00000044167 Foxo1 AI876417|Afxh|FKHR|Fkhr1|Foxo1a forkhead box O1 protein-coding 2.184 12.250 4.268 3.736 2.143 0.451 1.409 1.354 2.517 2.569 0.287 1.519 3.184 3.861 2.143 3.225 1.430 3.425 2.042 1.453 0.801 2.094 0.415 0.482 2.541 2717 chr5 108465050 108469287 + 0 NA intron (NM_172716, intron 1 of 10) intron (NM_172716, intron 1 of 10) 5836 NM_172716 69587 Mm.261218 NM_172716 ENSMUSG00000033623 Pcgf3 2310035N15Rik|AI662857|D630042K08Rik|DONG1|E430039C14|RNF3A|Rnf3 polycomb group ring finger 3 protein-coding 0.534 8.462 9.125 0.410 0.584 0.609 nan 0.345 0.480 0.440 0.354 0.423 0.275 0.376 0.351 0.593 0.709 0.471 nan 0.575 0.707 0.405 0.639 0.893 0.347 1191 chr15 85172730 85183163 + 0 NA Intergenic Intergenic -21814 NR_040360 100502602 Mm.390830 NR_040360 Gm19277 - predicted gene, 19277 ncRNA 4.843 0.911 0.508 nan 4.387 3.097 nan 9.238 nan 4.086 1.888 1.737 7.798 6.728 nan nan 5.981 nan nan 0.751 0.449 nan 0.633 0.529 nan 3477 chr9 44290590 44298525 + 0 NA Intergenic Intergenic -6313 NM_138955 192663 Mm.101876 NM_138955 ENSMUSG00000032131 Abcg4 6430517O04Rik ATP-binding cassette, sub-family G (WHITE), member 4 protein-coding 11.777 7.209 2.290 10.398 4.866 3.162 10.110 11.816 5.611 11.764 8.268 3.838 9.244 13.550 9.346 11.243 6.091 9.292 2.329 2.458 2.351 nan 1.662 1.975 19.386 459 chr11 69704468 69705584 + 0 NA Intergenic L1MC4|LINE|L1 -8928 NM_001159503 619441 Mm.8983 NM_001034097 ENSMUSG00000018752 Tnfsfm13 Tnfsf12-Tnfsf13|Tnfsf12Tnfsf13|Tnfsf12tnfsf13|Twe-pril tumor necrosis factor (ligand) superfamily, membrane-bound member 13 protein-coding 2.543 1.824 1.112 1.675 1.831 0.545 2.430 1.492 1.564 2.316 3.733 1.535 1.415 3.782 2.740 1.702 1.657 2.041 1.030 1.485 0.684 0.865 nan 0.417 3.074 823 chr12 104584494 104586040 + 0 NA Intergenic Intergenic -112031 NM_010351 14836 Mm.129 NM_010351 ENSMUSG00000021095 Gsc - goosecoid homeobox protein-coding 8.199 5.520 3.423 nan 2.552 1.039 3.326 2.268 nan 2.449 1.308 1.033 3.936 4.898 2.236 2.632 3.181 2.239 0.730 1.964 1.394 0.439 1.595 0.670 5.351 1495 chr17 35077698 35079225 + 0 NA 3' UTR (NM_027366, exon 3 of 3) 3' UTR (NM_027366, exon 3 of 3) 1519 NM_027366 70274 Mm.250491 NM_027366 ENSMUSG00000013766 Ly6g6e 2310011I02Rik|G6e lymphocyte antigen 6 complex, locus G6E protein-coding 1.781 1.867 1.421 2.175 2.948 2.676 3.735 4.511 2.904 2.497 1.487 2.535 2.574 4.060 2.964 3.619 3.919 2.801 0.643 1.699 1.809 0.884 1.509 1.218 2.930 771 chr12 73770950 73776707 + 0 NA intron (NM_001313977, intron 13 of 14) intron (NM_001313977, intron 13 of 14) -127496 NM_001313920 15251 Mm.3879 NM_010431 ENSMUSG00000021109 Hif1a AA959795|HIF-1-alpha|HIF1-alpha|HIF1alpha|MOP1|bHLHe78 hypoxia inducible factor 1, alpha subunit protein-coding 4.244 0.628 0.558 1.639 2.128 1.177 2.474 2.722 1.669 2.185 0.951 0.558 3.107 7.119 2.241 2.594 2.753 2.066 3.622 1.370 0.928 1.384 4.096 3.234 4.332 1753 chr19 21345545 21350626 + 0 NA Intergenic Lx9|LINE|L1 75807 NM_009551 22682 Mm.292405 NM_009551 ENSMUSG00000024750 Zfand5 2310057A04Rik|5830475F03Rik|AA415485|Za20d2|Zfp216 zinc finger, AN1-type domain 5 protein-coding 9.515 10.877 4.150 9.587 7.428 4.594 9.280 13.562 6.980 12.358 7.427 4.201 8.442 11.546 9.880 10.770 11.661 11.463 3.819 2.214 2.751 5.840 4.246 4.012 13.006 401 chr11 18917351 18921172 + 0 NA intron (NM_001193271, intron 8 of 12) B1_Mus1|SINE|Alu 99708 NM_001193271 17268 Mm.356578 NM_010789 ENSMUSG00000020160 Meis1 C530044H18Rik|Evi8 Meis homeobox 1 protein-coding 4.845 nan 0.946 7.183 2.219 1.281 1.945 1.083 2.799 3.605 6.411 3.875 1.390 3.201 2.401 2.748 2.109 4.167 1.092 2.035 1.604 1.779 2.545 2.503 3.982 3187 chr7 127262790 127265158 + 0 NA Intergenic RLTR14|LTR|ERV1 -3307 NM_023203 66422 Mm.29898 NM_023203 ENSMUSG00000042462 Dctpp1 2410015N17Rik|AI854235|RS21-C6 dCTP pyrophosphatase 1 protein-coding 2.704 0.741 0.496 2.922 1.604 0.592 1.224 nan 2.227 1.744 0.880 0.744 2.181 2.495 2.733 3.483 2.498 3.437 0.511 0.255 0.333 0.391 0.243 0.277 6.329 2688 chr5 100801634 100802950 + 0 NA intron (NM_026826, intron 3 of 5) intron (NM_026826, intron 3 of 5) 3533 NM_026826 68735 Mm.25585 NM_026826 ENSMUSG00000016833 Mrps18c 1110037D14Rik mitochondrial ribosomal protein S18C protein-coding 1.696 0.713 0.571 1.211 0.765 0.590 1.660 1.197 0.716 1.442 0.558 0.323 1.128 2.993 1.383 1.375 1.275 1.485 0.761 0.378 0.093 0.533 0.464 0.485 1.364 186 chr1 172091595 172095448 + 0 NA intron (NM_009938, intron 6 of 32) ID_B1|SINE|B4 -10772 NM_021607 59287 Mm.218203 NM_021607 ENSMUSG00000003458 Ncstn 9430068N19Rik|AA727311|Aph2|D1Dau13e|Kiaa0253|Nct|mKIAA0253 nicastrin protein-coding 9.529 1.362 1.108 nan 2.180 1.023 2.980 4.294 nan 4.109 5.064 3.401 5.487 5.226 4.977 5.868 5.552 5.047 1.228 0.779 0.477 nan nan 0.344 nan 1797 chr19 46591005 46594565 + 0 NA intron (NM_053196, intron 11 of 11) intron (NM_053196, intron 11 of 11) -6321 NM_001177812 226178 Mm.329895 NM_146099 ENSMUSG00000047731 Wbp1l D19Wsu162e|Opal1 WW domain binding protein 1 like protein-coding 2.797 4.817 1.982 nan 3.450 2.418 3.363 4.465 2.023 2.807 3.547 2.340 2.388 4.808 3.591 3.500 3.826 nan 1.329 2.024 2.023 2.817 3.707 3.452 4.204 1119 chr15 66640847 66649149 + 0 NA 3' UTR (NM_001081409, exon 21 of 21) 3' UTR (NM_001081409, exon 21 of 21) -25772 NM_009375 21819 Mm.441333 NM_009375 ENSMUSG00000053469 Tg Tgn|cog thyroglobulin protein-coding 6.106 10.618 3.668 4.287 1.242 0.404 1.325 1.305 2.875 3.162 2.463 0.943 1.551 2.576 2.573 2.735 1.977 3.376 1.066 1.485 0.910 0.857 0.395 0.217 3.081 1914 chr2 91159131 91165708 + 0 NA intron (NM_001177720, intron 17 of 34) intron (NM_001177720, intron 17 of 34) 16902 NM_001177720 228355 Mm.36410 NM_145527 ENSMUSG00000040687 Madd 9630059K23Rik|IG20 MAP-kinase activating death domain protein-coding 2.692 0.624 0.409 3.251 1.228 0.773 1.561 2.474 2.444 2.212 0.787 1.136 2.247 2.553 2.227 3.180 2.430 3.474 2.603 2.444 1.483 5.369 2.780 2.135 2.645 3039 chr6 136886774 136890621 + 0 NA Intergenic Intergenic -12874 NM_008597 17313 Mm.243085 NM_008597 ENSMUSG00000030218 Mgp Mglap matrix Gla protein protein-coding 5.582 18.180 8.299 3.520 2.412 0.962 1.851 3.117 2.382 3.565 2.634 1.865 2.305 3.349 nan 2.460 2.188 2.698 nan 2.317 1.481 1.025 0.390 0.446 nan 2756 chr5 124826782 124827699 + 0 NA intron (NM_019536, intron 69 of 78) intron (NM_019536, intron 69 of 78) 34981 NM_144819 215707 Mm.389693 NM_144819 ENSMUSG00000037979 Ccdc92 AW050178|D5Bwg0834e coiled-coil domain containing 92 protein-coding 3.488 2.256 1.434 2.548 3.944 2.690 4.042 5.198 2.504 2.663 2.749 2.276 2.608 4.523 nan 1.822 1.262 3.128 2.851 3.848 3.448 3.712 3.568 3.169 1.783 1705 chr18 84254060 84261701 + 0 NA intron (NM_001033341, intron 8 of 8) intron (NM_001033341, intron 8 of 8) 169722 NM_146090 225791 Mm.147052 NM_146090 ENSMUSG00000049090 Zadh2 C530046K17Rik|PTGR-3|Pthr3 zinc binding alcohol dehydrogenase, domain containing 2 protein-coding nan 13.262 5.803 9.800 6.101 3.444 6.259 10.284 7.451 17.562 6.465 4.204 7.285 9.542 7.267 9.224 7.514 nan 4.312 3.214 3.037 4.007 3.097 4.178 15.269 1919 chr2 92022975 92026357 + 0 NA promoter-TSS (NM_011957) promoter-TSS (NM_011957) -496 NM_011957 26427 Mm.10353 NM_011957 ENSMUSG00000027230 Creb3l1 Oasis cAMP responsive element binding protein 3-like 1 protein-coding 14.509 11.670 5.215 10.388 7.853 5.371 11.270 10.844 5.461 14.877 7.588 5.056 8.993 14.311 9.146 11.971 11.593 9.231 6.762 6.496 6.170 5.509 7.715 9.876 17.568 1938 chr2 115865150 115872000 + 0 NA intron (NM_001346047, intron 11 of 13) intron (NM_001346047, intron 11 of 13) 196044 NM_001346044 17536 Mm.247566 NM_010825 ENSMUSG00000027210 Meis2 A430109D20Rik|Mrg1|Stra10 Meis homeobox 2 protein-coding 0.715 0.702 0.564 0.493 0.289 0.144 0.428 0.415 0.382 0.327 0.306 0.226 nan 0.208 0.353 nan 0.474 0.441 6.440 2.851 1.594 2.122 3.773 2.834 nan 3000 chr6 124705715 124709426 + 0 NA intron (NM_013536, intron 1 of 5) B3|SINE|B2 4608 NM_013536 14791 Mm.6390 NM_013536 ENSMUSG00000004268 Emg1 C2f|Grcc2f EMG1 N1-specific pseudouridine methyltransferase protein-coding 10.794 6.581 3.273 6.780 10.965 7.178 14.482 11.128 4.440 13.343 6.914 4.227 7.906 14.613 8.099 10.577 12.372 6.320 4.787 8.065 5.877 5.217 9.476 8.005 12.936 915 chr13 48557199 48559417 + 0 NA Intergenic B1_Mur1|SINE|Alu -20036 NR_029725 387244 NR_029725 ENSMUSG00000065421 Mirlet7a-1 Let-7a|Mirnlet7a|Mirnlet7a-1|let-7a-1 microRNA let7a-1 ncRNA nan 0.815 0.768 nan 0.331 0.165 0.437 0.504 0.561 0.347 0.638 0.222 0.303 0.238 0.382 0.642 0.318 nan 4.454 3.589 3.603 2.911 5.343 5.240 nan 3107 chr7 35085594 35092054 + 0 NA Intergenic Intergenic -30469 NM_001287521 12606 Mm.349667 NM_007678 ENSMUSG00000034957 Cebpa C/ebpalpha|CBF-A|Cebp CCAAT/enhancer binding protein (C/EBP), alpha protein-coding 5.606 2.256 1.484 7.379 5.307 4.174 2.765 2.694 4.313 4.655 2.075 1.277 2.511 3.815 3.270 4.538 2.823 5.341 1.172 1.328 1.290 1.288 0.838 0.668 3.360 2978 chr6 113291198 113295420 + 0 NA intron (NM_170673, intron 13 of 19) intron (NM_170673, intron 13 of 19) 11002 NM_170673 211232 Mm.65597 NM_170673 ENSMUSG00000030270 Cpne9 A730016F12Rik|mKIAA4217 copine family member IX protein-coding 8.203 2.031 0.622 7.132 3.458 1.606 7.251 7.025 4.689 6.849 2.395 1.883 5.107 9.123 8.045 10.597 5.332 7.243 1.777 2.844 1.812 2.554 nan 1.132 9.471 1586 chr17 85455475 85457196 + 0 NA intron (NM_028576, intron 10 of 10) intron (NM_028576, intron 10 of 10) 162061 NR_038084 100043902 Mm.150838 NR_015385 ENSMUSG00000093460 Six3os1 D17Mgi26|E130112H22Rik|Rncr1|Six3os SIX homeobox 3, opposite strand 1 ncRNA 1.123 0.598 0.570 1.872 1.746 0.752 5.537 3.380 2.175 2.678 0.731 0.533 3.711 4.463 4.804 3.558 2.280 2.027 2.148 2.024 1.197 2.795 1.723 2.370 2.361 1986 chr2 146109774 146112713 + 0 NA Intergenic Intergenic -110754 NM_016889 53626 Mm.379070 NM_016889 ENSMUSG00000068154 Insm1 IA-1 insulinoma-associated 1 protein-coding 0.675 0.467 0.757 0.413 0.800 0.697 0.838 1.827 0.566 0.419 0.242 0.650 0.390 0.661 0.435 0.702 0.983 0.619 3.872 3.296 3.124 2.720 6.810 6.400 0.444 3441 chr9 21600597 21603997 + 0 NA Intergenic Intergenic 6032 NR_003372 666043 Mm.247282 NR_003372 Gm7904 EG666043 predicted gene 7904 pseudo 8.590 3.192 0.610 10.083 4.059 2.671 6.493 6.767 6.135 11.800 3.224 2.479 6.823 11.067 7.373 10.336 5.273 10.386 4.638 3.158 4.144 5.735 3.647 3.107 15.078 1456 chr17 27932414 27940482 + 0 NA intron (NM_001286040, intron 1 of 24) intron (NM_001286040, intron 1 of 24) 27142 NM_181413 224650 Mm.32556 NM_181413 ENSMUSG00000024219 Anks1 Anks1a|mKIAA0229 ankyrin repeat and SAM domain containing 1 protein-coding 5.583 1.466 0.754 3.391 3.686 2.696 6.332 6.762 4.840 4.452 5.763 5.729 4.767 6.310 5.929 7.456 6.376 4.758 3.999 2.188 2.271 4.891 3.331 3.100 6.525 2606 chr4 154535394 154539905 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 98718 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 6.187 3.542 1.102 6.933 3.575 2.165 3.942 5.701 4.424 4.683 2.843 2.490 4.058 5.865 5.117 6.010 2.021 6.066 2.311 0.953 1.327 3.954 2.004 1.747 6.349 404 chr11 24034012 24036979 + 0 NA Intergenic Intergenic -42561 NM_016707 14025 Mm.53687 NM_016707 ENSMUSG00000000861 Bcl11a 2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809 B cell CLL/lymphoma 11A (zinc finger protein) protein-coding 0.531 5.874 4.214 nan 0.157 0.083 0.229 0.337 0.464 0.333 0.267 0.366 0.144 0.264 0.290 0.429 nan 0.471 0.472 0.650 0.213 0.325 0.235 0.097 0.305 516 chr11 85046494 85049479 + 0 NA intron (NM_001029934, intron 11 of 33) L1Md_F2|LINE|L1 90232 NM_007607 12351 Mm.1641 NM_007607 ENSMUSG00000000805 Car4 AW456718|Ca4 carbonic anhydrase 4 protein-coding 10.272 10.511 4.886 10.785 9.064 6.140 8.605 9.183 7.484 10.623 8.224 5.727 7.177 10.484 8.923 10.316 8.489 9.183 6.648 5.488 5.600 nan 6.452 7.537 nan 1813 chr2 5995166 5999263 + 0 NA intron (NM_001081132, intron 8 of 21) intron (NM_001081132, intron 8 of 21) 45745 NM_001081132 326622 Mm.31102 NM_001081132 ENSMUSG00000043241 Upf2 - UPF2 regulator of nonsense transcripts homolog (yeast) protein-coding 4.502 0.647 0.350 2.578 3.747 2.329 3.515 5.785 3.126 3.664 1.742 1.229 3.670 5.469 3.162 4.245 3.193 4.722 0.651 0.500 0.359 0.542 0.595 0.516 4.011 2004 chr2 152156841 152165307 + 0 NA Intergenic Intergenic 17465 NM_009328 21407 Mm.3881 NM_009328 ENSMUSG00000068079 Tcf15 Meso1|bHLH-EC2 transcription factor 15 protein-coding 7.419 3.966 1.599 5.084 3.396 2.194 6.366 8.408 3.847 5.188 2.618 1.452 7.096 7.708 6.453 8.901 7.759 6.377 nan 1.343 1.392 2.108 1.394 1.206 12.149 2060 chr2 163296618 163299037 + 0 NA intron (NM_001098799, intron 3 of 8) intron (NM_001098799, intron 3 of 8) 72373 NM_001098799 269389 Mm.207709 NM_001098799 ENSMUSG00000074607 Tox2 AI851523|AV026525|BI987407|Gcx1|RxHMG1 TOX high mobility group box family member 2 protein-coding 7.564 3.825 0.998 6.174 4.061 3.301 5.952 10.973 6.035 8.410 3.021 2.275 7.498 8.761 7.911 10.593 8.136 7.403 nan 1.582 2.285 4.327 2.272 2.932 13.751 3561 chr9 122926052 122933188 + 0 NA exon (NM_009544, exon 4 of 4) exon (NM_009544, exon 4 of 4) 6542 NM_009544 22646 Mm.290595 NM_009544 ENSMUSG00000057895 Zfp105 AW557864 zinc finger protein 105 protein-coding 5.895 4.465 1.768 4.316 2.071 1.674 3.882 3.908 6.035 8.354 1.837 1.099 6.460 5.886 5.510 7.410 5.356 7.958 2.336 1.475 1.710 2.640 nan 2.046 10.694 1551 chr17 57045419 57047535 + 0 NA intron (NM_025877, intron 9 of 9) intron (NM_025877, intron 9 of 9) -4823 NM_175333 103775 Mm.33647 NM_175333 ENSMUSG00000011486 Slc25a41 4933406J04Rik|AI507137 solute carrier family 25, member 41 protein-coding 7.001 1.501 0.489 5.738 4.479 3.010 13.060 8.086 4.679 6.300 6.844 2.708 8.566 10.721 10.839 13.030 8.066 8.778 3.140 2.888 1.921 5.440 3.225 2.171 15.734 702 chr11 120611659 120613345 + 0 NA exon (NM_024229, exon 8 of 14) exon (NM_024229, exon 8 of 14) 4025 NM_001347616 208990 Mm.29444 NM_153288 ENSMUSG00000044034 Npb - neuropeptide B protein-coding 1.194 nan 0.262 2.460 1.592 0.931 1.664 2.902 2.341 2.859 4.078 3.020 3.506 3.648 2.399 2.382 1.907 2.817 1.053 nan 0.654 1.017 1.352 0.802 1.314 2297 chr3 121993241 121996965 + 0 NA intron (NM_172525, intron 12 of 22) intron (NM_172525, intron 12 of 22) 41777 NM_172525 214137 Mm.229287 NM_172525 ENSMUSG00000039831 Arhgap29 6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1 Rho GTPase activating protein 29 protein-coding 8.759 5.265 1.662 9.038 3.222 2.593 6.740 8.489 5.577 10.693 6.268 5.417 6.915 9.892 8.296 9.218 6.347 9.706 3.110 1.820 1.538 3.886 nan 2.433 10.789 2163 chr3 29945790 29948539 + 0 NA Intergenic Intergenic 56147 NR_110437 102636083 NR_110437 ENSMUSG00000102590 Mannr Manr Mecom adjacent non-protein coding RNA ncRNA 1.631 0.413 0.224 nan 1.551 1.229 nan 0.847 nan 1.933 6.712 3.534 2.544 2.015 nan 2.049 1.994 2.271 0.669 0.604 0.268 0.532 0.362 0.450 1.378 2214 chr3 88339998 88341156 + 0 NA intron (NM_178246, intron 1 of 21) intron (NM_178246, intron 1 of 21) 4317 NM_178246 229512 Mm.439830 NM_173188 ENSMUSG00000001415 Smg5 BC024683|mKIAA1089 Smg-5 homolog, nonsense mediated mRNA decay factor (C. elegans) protein-coding 2.329 7.431 1.502 7.440 0.985 0.442 0.936 5.581 3.883 7.399 2.895 2.462 6.272 3.748 5.921 4.452 1.955 7.744 3.271 0.754 1.195 1.979 1.164 1.158 6.851 2904 chr6 83390015 83391559 + 0 NA intron (NM_001347313, intron 4 of 11) intron (NM_001347313, intron 4 of 11) 10315 NR_105793 102465194 NR_105793 ENSMUSG00000099045 Mir6374 Gm27292|mmu-mir-6374 microRNA 6374 ncRNA 7.237 4.677 3.003 5.349 6.571 4.408 12.047 9.726 3.481 6.656 6.453 3.392 4.716 10.367 4.551 6.508 7.931 4.229 6.023 7.334 5.938 3.608 13.794 10.270 7.113 2346 chr4 15994679 15996480 + 0 NA Intergenic Intergenic 18298 NM_145950 209212 Mm.46455 NM_145950 ENSMUSG00000041153 Osgin2 BC010311|C230027H09Rik oxidative stress induced growth inhibitor family member 2 protein-coding 2.546 0.452 0.574 1.986 1.867 0.813 3.021 4.778 3.390 2.787 1.732 1.069 4.075 3.631 2.717 3.036 3.169 2.911 1.854 1.617 0.926 0.938 2.717 2.580 2.189 2195 chr3 67266909 67268409 + 0 NA intron (NM_025822, intron 6 of 9) intron (NM_025822, intron 6 of 9) -106438 NM_010801 17349 Mm.10414 NM_010801 ENSMUSG00000048416 Mlf1 HLS7 myeloid leukemia factor 1 protein-coding 6.283 5.214 1.374 8.495 1.931 0.989 8.089 5.243 2.665 5.156 4.040 2.778 5.086 5.525 7.561 7.235 4.057 6.566 3.025 1.209 1.062 2.811 1.883 1.731 8.448 561 chr11 96132806 96147852 + 0 NA intron (NM_172799, intron 6 of 14) intron (NM_172799, intron 6 of 14) 6543 NM_172799 237930 Mm.249912 NM_172799 ENSMUSG00000038756 Ttll6 4932418K24Rik|D11Moh43e|D11Moh44e|t8130b59 tubulin tyrosine ligase-like family, member 6 protein-coding 0.646 nan 0.422 0.737 0.747 0.382 0.809 0.412 0.417 0.677 0.354 0.298 0.251 0.596 0.318 0.488 nan 0.377 2.588 nan 3.090 6.278 nan nan 0.632 2112 chr2 178398116 178399780 + 0 NA intron (NM_177191, intron 6 of 43) intron (NM_177191, intron 6 of 43) 8710 NM_177191 320558 Mm.70781 NM_177191 ENSMUSG00000060445 Sycp2 3830402K23Rik|4930518F03Rik synaptonemal complex protein 2 protein-coding 2.039 0.453 0.076 2.191 1.745 0.808 2.086 0.721 3.293 3.549 0.468 0.604 2.050 3.220 2.754 5.432 3.485 3.388 0.675 0.668 0.333 0.579 0.674 0.153 4.949 2555 chr4 142884630 142892957 + 0 NA Intergenic L2b|LINE|L2 247369 NR_105988 102465618 NR_105988 ENSMUSG00000106597 Mir7021 mmu-mir-7021 microRNA 7021 ncRNA nan 1.131 0.604 1.685 2.711 1.540 6.539 0.482 nan 0.787 3.451 0.678 3.504 5.235 3.687 2.749 2.296 nan 0.466 0.340 0.255 0.307 nan 0.296 4.981 2221 chr3 89046815 89052201 + 0 NA intron (NM_138679, intron 11 of 26) intron (NM_138679, intron 11 of 26) 40523 NM_001083808 72296 Mm.27687 NM_028188 ENSMUSG00000041263 Rusc1 2210403N08Rik|AA408288|NESCA RUN and SH3 domain containing 1 protein-coding 4.509 4.413 1.787 5.083 3.255 2.115 8.830 4.527 2.436 3.755 2.310 1.989 5.267 7.054 5.226 5.903 5.142 4.871 nan 3.506 2.940 5.438 4.546 4.096 7.884 2982 chr6 115369805 115376061 + 0 NA intron (NM_001308354, intron 1 of 7) B1_Mus2|SINE|Alu 10584 NM_001308354 19016 Mm.3020 NM_011146 ENSMUSG00000000440 Pparg Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2 peroxisome proliferator activated receptor gamma protein-coding 3.952 0.523 0.398 1.850 1.267 0.663 4.132 5.850 2.766 2.925 0.697 1.182 5.009 6.013 5.210 5.587 6.525 3.471 0.805 0.515 0.103 0.431 nan 0.321 2.263 357 chr10 126817154 126819140 + 0 NA Intergenic Intergenic -24437 NR_131015 75813 Mm.159583 NR_131015 4930484H19Rik - RIKEN cDNA 4930484H19 gene ncRNA 6.123 8.804 3.022 5.725 5.708 4.771 5.362 4.631 4.001 13.353 4.286 2.766 5.349 7.284 6.183 6.991 5.439 6.892 3.324 1.319 3.892 4.001 2.195 5.003 10.900 1307 chr16 22508445 22513492 + 0 NA promoter-TSS (NR_130988) promoter-TSS (NR_130988) -512 NR_130988 78082 Mm.243927 NR_130988 ENSMUSG00000089874 9230117E06Rik - RIKEN cDNA 9230117E06 gene ncRNA 6.150 0.835 0.605 3.380 3.522 2.238 4.588 4.414 4.183 4.768 1.718 0.979 6.379 6.989 4.946 7.016 5.965 6.427 1.088 1.655 1.415 3.548 0.860 0.729 7.109 3236 chr8 23867720 23869303 + 0 NA intron (NM_001277239, intron 4 of 7) L1MC5|LINE|L1 198850 NM_177086 320158 Mm.121274 NM_177086 ENSMUSG00000037492 Zmat4 9630048M01Rik zinc finger, matrin type 4 protein-coding 3.290 nan 0.788 3.418 1.339 0.846 2.567 3.602 1.630 2.036 2.370 1.116 2.135 3.296 4.263 3.405 1.401 3.101 1.423 1.386 0.738 nan 1.996 0.494 3.144 1812 chr19 59148200 59151071 + 0 NA Intergenic Intergenic 20394 NM_009501 22326 Mm.23801 NM_009501 ENSMUSG00000006270 Vax1 - ventral anterior homeobox 1 protein-coding 5.727 nan 1.195 4.161 1.759 1.301 4.327 7.465 3.170 5.749 1.978 1.375 3.770 5.055 nan 6.896 4.923 6.556 1.990 1.325 1.178 4.292 1.406 1.656 10.241 1941 chr2 119060767 119069934 + 0 NA intron (NM_029617, intron 6 of 23) B1_Mus2|SINE|Alu 18231 NM_029617 76464 Mm.202518 NM_029617 ENSMUSG00000027326 Knl1 2310043D08Rik|5730505K17Rik|Casc5 kinetochore scaffold 1 protein-coding 5.809 1.473 0.539 3.377 1.891 1.297 6.134 8.726 2.804 4.601 3.068 2.474 nan 5.198 5.955 7.802 4.681 6.580 4.660 1.588 1.493 3.950 3.617 3.315 10.512 2826 chr6 14848285 14853203 + 0 NA Intergenic L1Md_F2|LINE|L1 -50605 NM_053242 114142 Mm.332919 NM_053242 ENSMUSG00000029563 Foxp2 2810043D05Rik|AI449000|CAG-16|D0Kist7 forkhead box P2 protein-coding 4.342 nan 0.957 3.040 2.921 1.767 5.059 1.608 nan 3.641 0.412 0.880 7.530 4.887 8.850 nan 10.020 6.283 2.039 0.459 0.546 1.912 3.962 3.796 6.985 1769 chr19 29998457 30007560 + 0 NA promoter-TSS (NM_025741) promoter-TSS (NM_025741) -782 NM_025741 66745 Mm.158128 NM_025741 ENSMUSG00000024815 Trpd52l3 4931412G03Rik tumor protein D52-like 3 protein-coding 5.681 1.377 1.000 nan 4.372 2.905 3.970 3.293 7.105 6.795 nan 1.698 4.984 6.223 4.564 7.729 9.683 7.463 nan 0.795 0.593 0.674 nan 0.496 6.120 2475 chr4 128563139 128572068 + 0 NA TTS (NM_001281955) TTS (NM_001281955) 42495 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 2.994 0.877 0.290 3.836 2.279 1.199 1.527 4.014 2.164 3.084 1.154 0.496 3.334 4.123 nan 3.963 1.626 4.248 4.693 2.676 1.723 9.062 2.758 1.821 5.309 455 chr11 69608602 69610218 + 0 NA Intergenic Intergenic -3450 NM_013415 11932 Mm.235204 NM_013415 ENSMUSG00000041329 Atp1b2 Amog|Atpb-2 ATPase, Na+/K+ transporting, beta 2 polypeptide protein-coding 4.469 7.216 2.225 6.986 2.100 0.560 5.670 5.147 3.815 4.816 1.521 1.710 4.654 6.190 7.643 8.923 3.938 6.544 1.909 0.940 0.864 2.880 nan 1.128 8.828 1875 chr2 36133974 36134969 + 0 NA intron (NR_027515, intron 1 of 5) intron (NR_027515, intron 1 of 5) -1927 NM_026422 67871 Mm.378232 NM_026422 ENSMUSG00000026887 Mrrf 2400002D02Rik|MRFF|MTRRF|RRF mitochondrial ribosome recycling factor protein-coding 3.503 0.604 0.719 1.296 1.717 0.731 3.391 5.078 1.687 1.598 0.429 0.411 4.485 3.997 3.870 4.832 3.556 2.471 0.812 0.521 0.123 0.413 0.103 0.360 1.574 1673 chr18 70686630 70700506 + 0 NA Intergenic Intergenic 125276 NM_010773 17191 Mm.322 NM_010773 ENSMUSG00000024513 Mbd2 MBD2a methyl-CpG binding domain protein 2 protein-coding 3.094 10.324 6.022 2.202 1.172 0.631 2.891 3.638 1.988 2.080 1.461 1.680 3.248 2.560 2.572 2.785 2.931 2.562 3.233 1.944 1.184 2.791 2.242 1.795 2.905 2132 chr2 181193443 181194699 + 0 NA Intergenic B1_Mur2|SINE|Alu 6728 NM_025598 66496 Mm.213943 NM_025598 ENSMUSG00000016344 Ppdpf 0610012G23Rik|2610317A05Rik|2700038C09Rik|3110053G12Rik pancreatic progenitor cell differentiation and proliferation factor protein-coding 2.882 6.681 0.813 8.658 1.112 0.564 1.562 1.318 1.607 8.335 1.492 1.194 2.015 2.778 4.373 4.899 0.778 nan 2.114 0.237 2.037 5.107 0.997 2.230 8.254 297 chr10 79894915 79901991 + 0 NA intron (NM_198107, intron 9 of 14) intron (NM_198107, intron 9 of 14) 7600 NM_001291915 11537 Mm.4407 NM_013459 ENSMUSG00000061780 Cfd Adn|DF complement factor D (adipsin) protein-coding 3.706 8.077 2.562 nan 2.015 1.432 4.193 5.485 3.040 4.785 4.339 2.436 3.687 4.816 nan 5.640 2.975 4.269 nan 2.241 1.555 3.407 2.338 2.223 5.532 963 chr13 111665161 111667853 + 0 NA Intergenic MLT2B1|LTR|ERVL -19671 NM_172593 218613 Mm.31012 NM_172593 ENSMUSG00000032727 Mier3 5730509D14|AU015422|D130064H19Rik MIER family member 3 protein-coding nan nan 0.490 0.326 0.223 0.171 0.296 0.377 nan nan 5.340 2.017 0.352 0.324 0.510 0.698 0.491 nan 1.225 0.621 0.237 nan 1.366 0.704 0.495 3181 chr7 125736560 125738812 + 0 NA intron (NM_001081022, intron 2 of 27) MER2|DNA|TcMar-Tigger 29810 NM_001081022 233865 Mm.274389 NM_001081022 ENSMUSG00000032743 D430042O09Rik Kiaa0556 RIKEN cDNA D430042O09 gene protein-coding 1.569 0.458 0.198 2.161 1.084 0.636 2.580 7.383 2.463 2.143 1.120 1.602 5.565 3.664 3.057 3.016 1.585 2.908 0.845 0.303 0.381 1.453 0.680 0.391 2.789 2612 chr4 154607819 154612989 + 0 NA intron (NM_001177995, intron 1 of 15) RLTR17B_Mm|LTR|ERVK 25963 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 10.733 3.127 1.142 11.520 4.525 2.247 11.441 10.282 6.777 10.662 4.322 1.722 11.394 9.369 10.245 14.858 7.161 11.791 1.314 1.539 1.421 4.580 0.603 0.425 20.478 2031 chr2 156270901 156278443 + 0 NA intron (NM_172674, intron 8 of 17) intron (NM_172674, intron 8 of 17) -37801 NM_027585 70873 Mm.475234 NM_027585 ENSMUSG00000038085 Cnbd2 4921517L17Rik|5430421B09Rik|Cris cyclic nucleotide binding domain containing 2 protein-coding 6.258 0.549 0.248 4.079 4.140 2.557 7.783 9.888 nan nan 4.576 3.185 8.171 8.958 5.835 8.328 6.450 5.855 nan 1.606 1.357 2.749 2.052 1.624 7.436 2272 chr3 96433035 96434452 + 0 NA TTS (NM_001256180) TTS (NM_001256180) 18563 NM_001256181 329716 Mm.275223 NM_183223 ENSMUSG00000046317 BC107364 D730018G16 cDNA sequence BC107364 protein-coding 10.443 6.967 4.822 6.953 8.163 3.407 10.281 7.462 4.975 6.038 7.734 5.577 6.957 12.104 9.702 9.327 10.640 7.193 5.418 5.152 3.755 5.930 5.994 5.019 9.546 1889 chr2 38862733 38868907 + 0 NA intron (NM_010264, intron 3 of 10) intron (NM_010264, intron 3 of 10) 11990 NR_029904 723903 NR_029904 ENSMUSG00000065578 Mir181b-2 Mirn181b-2|mir-181b-2 microRNA 181b-2 ncRNA 5.152 13.245 5.434 4.146 2.568 1.680 4.757 6.186 3.100 nan 3.012 2.050 4.267 4.138 5.126 6.249 4.647 5.108 4.924 2.621 1.981 3.896 3.480 3.130 6.802 2692 chr5 102498556 102500135 + 0 NA intron (NM_146161, intron 1 of 8) intron (NM_146161, intron 1 of 8) 17954 NM_029270 231532 Mm.440191 NM_029270 ENSMUSG00000057315 Arhgap24 0610025G21Rik Rho GTPase activating protein 24 protein-coding 8.956 2.519 0.083 10.489 4.652 4.727 7.640 7.169 5.439 15.454 6.164 2.555 6.089 7.554 7.960 9.866 6.457 8.439 5.417 2.119 4.406 6.641 3.762 8.328 13.182 2646 chr5 32182286 32186592 + 0 NA Intergenic Intergenic 47967 NM_008037 14284 Mm.24684 NM_008037 ENSMUSG00000029135 Fosl2 Fra-2 fos-like antigen 2 protein-coding 3.684 2.611 1.660 nan 2.148 1.526 3.616 2.669 2.750 3.072 4.529 6.083 2.256 3.174 2.835 2.300 2.581 2.619 1.609 1.627 0.877 1.654 3.061 2.034 1.427 10 chr1 10243671 10248636 + 0 NA Intergenic Lx2|LINE|L1 -13483 NM_001102430 211673 Mm.229141 NM_001102430 ENSMUSG00000067851 Arfgef1 ARFGEP1|BIG1|D130059B05Rik|D730028O18Rik|P200 ADP-ribosylation factor guanine nucleotide-exchange factor 1(brefeldin A-inhibited) protein-coding 7.158 1.255 0.599 2.066 3.438 2.359 5.874 7.189 3.356 3.421 4.770 3.556 7.598 8.049 4.222 5.990 4.653 4.050 0.914 0.960 0.653 0.612 1.408 1.143 2.678 980 chr14 21436314 21438228 + 0 NA intron (NM_001243041, intron 10 of 10) B3|SINE|B2 -62499 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 2.635 0.768 0.786 3.527 2.200 1.615 1.371 1.285 nan 2.075 4.888 0.947 0.840 3.002 1.193 1.613 1.168 2.710 0.661 0.668 0.967 nan 0.478 0.688 1.344 1596 chr18 11015226 11016858 + 0 NA Intergenic Intergenic -36468 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding nan 0.711 0.623 1.302 1.347 1.202 2.708 2.185 1.629 1.268 0.722 0.666 2.653 4.458 2.410 1.067 1.446 1.409 0.558 0.336 0.735 0.433 0.538 0.449 1.108 550 chr11 95200325 95201417 + 0 NA Intergenic Intergenic -55070 NM_007867 13394 Mm.439766 NM_007867 ENSMUSG00000020871 Dlx4 Dlx-4|Dlx7 distal-less homeobox 4 protein-coding 2.772 8.093 3.487 3.355 2.928 1.415 1.377 1.747 3.259 2.990 1.827 0.819 2.577 4.242 3.354 4.963 4.477 3.581 1.559 nan 0.769 0.766 nan nan 2.976 2083 chr2 166882838 166890698 + 0 NA intron (NM_001085495, intron 35 of 38) intron (NM_001085495, intron 35 of 38) -19328 NM_023565 110750 Mm.22417 NM_023565 ENSMUSG00000002718 Cse1l 2610100P18Rik|AA407533|Capts|Cas|Xpo2 chromosome segregation 1-like (S. cerevisiae) protein-coding 10.609 6.857 4.246 5.813 7.149 4.552 8.764 9.590 4.648 6.672 5.387 3.230 7.071 8.242 6.619 9.029 10.353 6.379 nan 3.937 3.232 2.801 4.816 3.905 9.933 2697 chr5 103820075 103822178 + 0 NA intron (NM_001080798, intron 7 of 19) intron (NM_001080798, intron 7 of 19) 66553 NM_001080798 17355 Mm.6949 NM_133919 ENSMUSG00000029313 Aff1 9630032B01Rik|AW319193|Af4|Mllt2h|Rob AF4/FMR2 family, member 1 protein-coding 1.803 0.799 1.311 2.200 2.937 2.633 nan 2.141 2.065 1.557 6.159 3.712 1.588 1.659 1.054 1.338 1.651 1.716 nan 1.209 1.623 0.409 1.007 1.697 0.842 2097 chr2 168561996 168569140 + 0 NA intron (NR_111898, intron 2 of 5) intron (NR_111898, intron 2 of 5) 24797 NM_001291178 18019 Mm.116802 NM_010899 ENSMUSG00000027544 Nfatc2 AI607462|NF-ATc2|NF-ATp|NFAT1|NFAT1-D|Nfatp nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 protein-coding 5.026 2.937 1.361 2.848 2.988 2.679 5.666 6.171 3.461 5.746 3.211 2.862 5.435 nan 4.328 8.023 6.741 nan nan 1.141 1.634 2.383 2.861 3.983 9.552 1081 chr15 37129771 37131764 + 0 NA Intergenic Intergenic -102269 NM_026496 252973 Mm.244612 NM_026496 ENSMUSG00000022286 Grhl2 0610015A08Rik|BOM|Tcfcp2l3|clft3 grainyhead-like 2 (Drosophila) protein-coding 2.762 1.213 0.522 1.345 1.678 1.158 3.287 6.608 2.315 2.693 7.352 3.292 4.864 4.794 3.458 2.902 3.349 3.424 0.941 1.804 1.447 2.732 0.858 0.624 2.274 1651 chr18 55705771 55709129 + 0 NA Intergenic RMER20B|LTR|ERVK -717270 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 9.409 nan 0.772 4.886 6.666 3.252 8.452 5.121 3.946 4.776 1.177 1.087 6.991 6.395 5.898 7.837 6.773 nan nan 2.482 2.155 3.950 1.947 1.308 7.313 958 chr13 98051624 98053770 + 0 NA intron (NM_012026, intron 5 of 35) intron (NM_012026, intron 5 of 35) 153468 NM_012026 110596 Mm.252718 NM_012026 ENSMUSG00000021662 Arhgef28 9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF Rho guanine nucleotide exchange factor (GEF) 28 protein-coding 4.790 0.432 0.366 2.011 2.274 1.457 6.878 3.647 3.488 3.547 1.324 1.324 3.561 6.116 5.419 5.207 2.835 nan 1.098 0.711 0.491 1.261 0.808 0.551 4.860 1569 chr17 71508290 71509535 + 0 NA intron (NM_023294, intron 10 of 16) intron (NM_023294, intron 10 of 16) 17945 NM_023294 67052 Mm.225956 NM_023294 ENSMUSG00000024056 Ndc80 2610020P18Rik|AV139730|HEC|HEC1|Kntc2 NDC80 kinetochore complex component protein-coding 2.895 1.062 0.581 2.562 1.893 0.675 4.543 2.939 2.913 3.003 5.867 1.355 4.287 4.066 6.068 7.104 3.255 3.517 0.937 0.096 0.178 0.828 0.400 0.139 4.688 1736 chr19 8783740 8788836 + 0 NA promoter-TSS (NM_146092) promoter-TSS (NM_146092) 28 NM_146092 225895 Mm.220886 NM_146092 ENSMUSG00000003680 Taf6l 2810417N14Rik|BB223262|C530024J06Rik|Paf65a TATA-box binding protein associated factor 6 like protein-coding 11.190 9.591 4.644 9.959 6.741 3.492 10.672 10.792 8.662 11.165 11.250 4.092 7.632 12.526 10.034 12.448 11.541 10.427 1.644 3.032 2.025 3.161 2.789 1.927 12.682 3299 chr8 84898006 84900102 + 0 NA Intergenic Intergenic -2874 NM_010635 16596 Mm.4847 NM_010635 ENSMUSG00000054191 Klf1 Eklf|Nan Kruppel-like factor 1 (erythroid) protein-coding 4.947 1.781 0.514 1.604 1.900 0.796 3.611 3.819 2.445 2.495 2.716 0.969 4.250 2.626 4.294 3.890 3.674 3.309 nan 0.784 0.234 0.509 0.282 3.634 592 chr11 98789030 98808001 + 0 NA non-coding (NR_033551, exon 3 of 3) non-coding (NR_033551, exon 3 of 3) 2746 NM_028722 74026 Mm.258352 NM_028722 ENSMUSG00000052915 Msl1 2810017F12Rik|4121402D02Rik|4930463F05Rik|AA682082|Msl-1 male-specific lethal 1 homolog (Drosophila) protein-coding 6.949 nan 2.042 7.821 4.772 2.875 5.462 7.072 3.579 5.432 4.481 2.894 4.302 6.820 5.793 6.072 nan 5.528 2.454 nan 2.408 3.279 nan nan 7.676 2542 chr4 141273441 141282382 + 0 NA Intergenic Intergenic -23310 NM_010139 13836 Mm.2581 NM_010139 ENSMUSG00000006445 Epha2 AW545284|Eck|Myk2|Sek-2|Sek2 Eph receptor A2 protein-coding nan 4.185 2.123 6.229 4.749 3.540 5.003 5.792 4.562 6.523 3.445 2.993 5.432 6.274 5.379 6.316 4.253 5.482 8.018 4.393 4.451 8.359 7.806 8.555 6.507 2123 chr2 179946839 179972596 + 0 NA intron (NM_001081092, intron 1 of 14) intron (NM_001081092, intron 1 of 14) 16929 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 7.551 1.361 0.430 7.099 5.651 3.968 8.962 11.397 4.921 6.802 5.099 3.635 8.071 9.804 8.102 nan 6.512 nan 1.701 1.558 1.577 3.280 1.277 1.259 nan 1978 chr2 130985109 130986730 + 0 NA intron (NM_009730, intron 18 of 28) L1_Rod|LINE|L1 54479 NR_105969 102465606 NR_105969 ENSMUSG00000098686 Mir6973b Gm27815|mmu-mir-6973b microRNA 6973b ncRNA 8.249 9.938 2.797 7.848 3.210 0.966 7.061 10.514 3.724 5.135 3.903 2.900 7.172 7.666 10.807 12.937 8.557 7.987 nan 2.187 2.500 7.672 2.756 2.598 13.903 2364 chr4 44993849 44996285 + 0 NA exon (NM_001163284, exon 2 of 2) exon (NM_001163284, exon 2 of 2) 13673 NM_001312880 76238 Mm.196574 NM_080289 ENSMUSG00000035637 Grhpr 1110059D05Rik|6430629L09Rik|Glxr glyoxylate reductase/hydroxypyruvate reductase protein-coding 6.041 8.422 2.231 6.435 3.742 2.085 5.895 7.368 4.401 7.182 4.361 3.297 6.173 8.384 6.615 8.419 2.956 6.813 4.549 1.910 2.435 5.696 1.950 2.441 11.896 1640 chr18 55005670 55009673 + 0 NA Intergenic (TTTG)n|Simple_repeat|Simple_repeat -17491 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 8.236 nan 2.049 nan 5.456 3.999 6.859 6.280 5.389 5.866 4.980 2.917 9.747 8.400 5.232 6.722 6.541 6.440 nan 1.807 1.642 nan 3.130 2.797 nan 173 chr1 166436504 166438041 + 0 NA Intergenic Intergenic -27444 NM_001142948 71592 Mm.192094 NM_175170 ENSMUSG00000040596 Pogk 9130401E23Rik|BASS2|mKIAA1513 pogo transposable element with KRAB domain protein-coding 2.797 0.708 0.418 nan 2.687 0.632 2.250 2.175 3.248 2.931 1.004 1.983 3.121 3.597 2.827 5.678 2.839 3.093 1.210 0.925 0.721 1.882 nan 0.403 1.556 530 chr11 87556594 87571980 + 0 NA Intergenic Intergenic -14102 NM_001284398 18952 Mm.2214 NM_011129 ENSMUSG00000020486 Sept4 ARTS|Bh5|OTTMUSG00000001265|Pnutl2 septin 4 protein-coding nan 22.943 9.554 nan 1.415 0.936 1.378 1.057 1.765 2.110 2.046 0.656 1.066 1.816 2.055 2.123 1.407 2.039 0.792 1.770 1.705 nan 0.451 0.470 nan 66 chr1 69513082 69517146 + 0 NA Intergenic Intergenic 170846 NM_011770 22779 Mm.106343 NM_011770 ENSMUSG00000025997 Ikzf2 A730095J18Rik|Helios|Zfpn1a2|Znfn1a2 IKAROS family zinc finger 2 protein-coding 1.435 0.617 0.498 0.356 0.118 0.031 0.968 3.661 0.802 0.613 6.463 3.128 1.446 nan 2.207 nan nan nan 0.514 0.400 0.311 1.170 0.380 0.246 0.351 2709 chr5 106158483 106162119 + 0 NA Intergenic ORR1C1|LTR|ERVL-MaLR -161039 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 6.670 4.602 1.677 5.846 3.198 2.104 8.434 7.609 3.883 5.899 1.972 1.880 6.363 8.709 8.794 9.117 5.441 7.013 nan 0.692 0.884 1.296 1.289 1.308 6.917 3067 chr7 19594970 19598208 + 0 NA intron (NM_016680, intron 2 of 20) B4A|SINE|B4 7772 NR_125835 53609 Mm.20913 NM_016680 ENSMUSG00000061028 Clasrp Clasp|Sfrs16|Srsf16|Swap2 CLK4-associating serine/arginine rich protein protein-coding 3.526 1.905 0.897 2.757 3.696 1.990 6.491 8.455 2.138 4.261 1.659 1.602 5.605 6.215 5.126 4.406 3.906 4.576 1.850 1.723 2.430 2.896 4.903 4.366 5.872 2675 chr5 72574398 72575725 + 0 NA Intergenic B2_Mm2|SINE|B2 6023 NM_174877 317755 Mm.11934 NM_174877 ENSMUSG00000063935 Zar1 - zygote arrest 1 protein-coding 5.078 4.831 4.939 3.703 2.140 0.998 0.831 1.518 2.189 2.373 1.376 1.891 0.695 2.575 1.359 1.676 2.474 2.387 1.061 3.766 2.497 nan 1.322 0.554 1.482 470 chr11 70395530 70402706 + 0 NA intron (NM_029231, intron 5 of 16) Charlie4|DNA|hAT-Charlie 10913 NM_029231 75273 Mm.340601 NM_029231 ENSMUSG00000018921 Pelp1 4930563C04Rik|MNAR proline, glutamic acid and leucine rich protein 1 protein-coding 5.557 8.514 3.205 4.970 3.613 2.314 2.941 5.318 4.392 4.746 6.932 4.307 4.264 5.660 4.300 5.038 3.377 5.307 1.664 1.031 0.825 1.057 nan 0.802 4.889 2026 chr2 156119686 156121942 + 0 NA Intergenic Lx3A|LINE|L1 -8849 NM_170588 266692 Mm.27660 NM_170588 ENSMUSG00000074643 Cpne1 1810028N16Rik|mKIAA4108 copine I protein-coding 6.667 6.511 2.905 3.212 2.092 1.052 3.988 5.598 2.948 2.596 1.238 0.924 4.158 4.678 3.545 4.438 3.352 4.046 7.809 4.591 1.697 7.414 7.077 3.904 4.039 1524 chr17 47196558 47198005 + 0 NA intron (NM_001097623, intron 3 of 19) intron (NM_001097623, intron 3 of 19) -32949 NM_172622 224829 Mm.260989 NM_172622 Trerf1 9430096I18Rik|AI429294|B830015H24|RAPA|Trep-132|Trep132 transcriptional regulating factor 1 protein-coding 3.551 2.258 1.871 3.518 3.488 2.986 5.893 6.540 1.313 1.796 1.134 1.063 2.758 4.866 4.015 5.343 4.686 2.925 1.450 3.577 4.154 2.860 2.107 2.046 5.249 3130 chr7 73481548 73488901 + 0 NA intron (NM_001081345, intron 16 of 38) MER20|DNA|hAT-Charlie 56522 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 6.248 2.252 1.430 nan 6.264 4.172 7.688 7.421 4.476 5.735 2.344 3.084 8.455 7.619 3.674 nan 4.193 4.737 2.004 2.634 1.828 1.203 3.262 2.242 nan 2360 chr4 43685235 43688620 + 0 NA intron (NM_001085508, intron 10 of 12) LTR89|LTR|ERVL? 13880 NM_019485 56014 Mm.331571 NM_019485 ENSMUSG00000050215 Olfr70 MOR262-10|mOR6 olfactory receptor 70 protein-coding 1.030 nan 0.561 1.442 1.136 0.869 1.648 1.960 1.368 1.852 0.388 0.382 2.263 4.411 1.329 3.749 1.519 1.349 0.721 0.517 0.398 nan 0.409 0.111 2.759 793 chr12 81030029 81031471 + 0 NA intron (NM_022316, intron 1 of 12) intron (NM_022316, intron 1 of 12) 3942 NM_022316 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 5.009 2.763 1.247 2.873 2.070 1.250 5.353 3.615 1.968 3.245 3.440 2.000 3.777 3.224 3.679 3.675 5.080 3.430 1.455 1.833 0.914 1.652 1.664 1.165 4.178 1205 chr15 98821575 98824463 + 0 NA intron (NM_016781, intron 2 of 11) B4A|SINE|B4 8489 NM_016781 19082 Mm.6670 NM_016781 ENSMUSG00000067713 Prkag1 AA571379|BB036179|Prkaac protein kinase, AMP-activated, gamma 1 non-catalytic subunit protein-coding 7.719 7.583 2.453 8.470 2.581 0.844 7.236 10.182 4.802 5.882 3.919 2.967 10.563 8.036 8.567 8.116 7.805 8.161 7.542 3.668 1.712 8.802 4.316 3.002 7.920 1287 chr16 17242794 17245956 + 0 NA intron (NM_178922, intron 1 of 2) URR1A|DNA|hAT-Charlie 10788 NM_178922 58180 Mm.261602 NM_178922 ENSMUSG00000050240 Hic2 AA409108|HRG22|mKIAA1020 hypermethylated in cancer 2 protein-coding 6.647 0.816 0.495 0.676 0.760 0.857 2.266 3.528 0.896 nan 0.364 0.464 1.647 2.097 1.435 nan 2.230 2.679 0.572 0.475 0.516 0.586 0.583 0.771 4.073 1696 chr18 82677678 82690911 + 0 NA intron (NM_177832, intron 1 of 29) intron (NM_177832, intron 1 of 29) 8440 NM_177832 329002 Mm.34438 NM_177832 ENSMUSG00000041258 Zfp236 AI447957|Gm335 zinc finger protein 236 protein-coding 3.626 nan 0.995 3.325 3.073 1.642 4.450 6.244 3.398 3.279 2.898 3.092 5.399 5.517 4.099 4.876 3.575 5.465 2.072 nan 1.093 2.877 1.727 1.284 5.233 3168 chr7 116878306 116885780 + 0 NA Intergenic RLTR17B_Mm|LTR|ERVK 377674 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 6.597 1.915 0.981 2.498 1.412 0.778 6.665 6.498 3.693 4.129 4.462 4.277 10.734 4.372 5.452 5.992 7.888 4.504 1.561 0.978 0.490 1.212 0.940 0.446 4.967 2403 chr4 95149319 95155691 + 0 NA Intergenic Intergenic -100283 NM_010591 16476 Mm.275071 NM_010591 ENSMUSG00000052684 Jun AP-1|Junc|c-jun jun proto-oncogene protein-coding 3.441 nan 0.709 2.752 1.456 0.615 4.042 4.671 nan nan 2.216 0.961 4.311 3.267 nan 6.226 3.530 2.991 1.443 1.009 0.951 nan 1.857 1.376 4.036 654 chr11 116077262 116081992 + 0 NA intron (NM_001347642, intron 6 of 6) intron (NM_001347642, intron 6 of 6) -1666 NM_001009573 70450 Mm.259460 NM_001009573 ENSMUSG00000057948 Unc13d 2610108D09Rik|Jinx|Munc13-4|mFLJ00067 unc-13 homolog D (C. elegans) protein-coding 6.064 1.914 0.468 8.386 4.673 2.612 6.373 nan 6.239 8.087 5.307 4.285 7.610 8.495 9.616 10.298 4.866 8.666 7.720 nan 3.619 8.920 6.650 4.475 9.054 2261 chr3 95392125 95394499 + 0 NA intron (NR_015490, intron 1 of 1) intron (NR_015490, intron 1 of 1) 9529 NR_015490 67654 Mm.75066 NR_015490 ENSMUSG00000105734 4930558C23Rik - RIKEN cDNA 4930558C23 gene ncRNA 5.672 3.716 1.901 3.997 2.897 2.117 6.077 5.603 5.028 4.426 nan 3.568 7.638 5.384 4.433 5.344 5.133 6.201 4.170 2.397 1.263 2.771 3.001 2.093 3.834 3469 chr9 32711320 32713465 + 0 NA intron (NM_011808, intron 1 of 7) intron (NM_011808, intron 1 of 7) 16350 NM_001038642 23871 Mm.292415 NM_011808 ENSMUSG00000032035 Ets1 AI196000|AI448617|D230050P06|Ets-1|Tpl1|vs E26 avian leukemia oncogene 1, 5' domain protein-coding 2.120 1.549 0.704 3.810 0.809 0.186 0.769 0.573 1.833 1.667 0.846 1.259 0.541 0.836 1.285 nan 1.403 2.338 1.347 0.498 0.246 0.942 0.595 0.569 1.323 283 chr10 76989404 76993749 + 0 NA Intergenic GA-rich|Low_complexity|Low_complexity -20419 NR_045882 100038479 Mm.387034 NR_045882 ENSMUSG00000074919 Gm10787 ENSMUSG00000074919 predicted gene 10787 ncRNA 2.799 11.767 8.229 nan 1.571 0.967 1.055 0.764 0.876 1.486 1.772 0.974 0.497 1.226 nan 1.364 1.416 1.324 nan 1.569 1.261 0.572 0.680 0.588 1.852 156 chr1 137177423 137180975 + 0 NA Intergenic Intergenic -218751 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 9.567 8.866 3.385 10.348 4.204 2.999 4.917 5.963 5.468 9.400 5.467 3.242 7.338 6.989 7.539 9.983 5.334 8.297 3.485 2.526 2.492 5.078 2.259 2.256 11.339 3414 chr9 9170835 9172983 + 0 NA intron (NM_027823, intron 2 of 22) intron (NM_027823, intron 2 of 22) -64379 NR_045754 100579151 Mm.412450 NR_045754 ENSMUSG00000085253 Gm16833 - predicted gene, 16833 ncRNA 1.562 nan 0.521 0.877 0.356 0.152 1.043 1.407 1.246 0.955 6.569 1.671 0.986 0.877 1.015 1.049 nan nan nan 0.584 0.193 0.355 0.330 0.044 nan 59 chr1 64240915 64242403 + 0 NA Intergenic MLTR14|LTR|ERV1 -120270 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 3.080 0.978 0.364 2.063 2.240 1.576 1.746 1.332 1.801 1.569 1.386 0.693 2.176 3.326 2.755 3.525 2.547 2.732 1.410 0.990 0.798 1.975 0.596 0.425 1.849 3388 chr8 122977589 122985356 + 0 NA intron (NM_001081379, intron 1 of 12) intron (NM_001081379, intron 1 of 12) 60812 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 4.396 0.858 0.544 3.053 2.858 1.640 5.779 6.910 2.928 4.495 1.196 1.082 6.598 6.962 6.358 nan 5.593 4.662 1.280 2.347 2.575 4.645 1.665 1.256 8.991 3329 chr8 90911126 90919469 + 0 NA intron (NM_177224, intron 2 of 39) intron (NM_177224, intron 2 of 39) -16952 NM_001310530 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 4.290 0.537 0.423 3.896 3.570 2.042 1.906 1.992 nan 7.433 0.538 0.395 7.408 8.062 4.458 5.518 4.215 4.599 nan 1.167 0.973 1.150 0.325 0.344 5.818 2091 chr2 167657096 167666019 + 0 NA promoter-TSS (NM_145538) promoter-TSS (NM_145538) -13 NM_145538 407243 Mm.4863 NM_145538 ENSMUSG00000090213 Tmem189 AI840826|Kua transmembrane protein 189 protein-coding 7.120 1.831 0.950 6.379 4.295 2.788 5.776 7.280 3.338 5.547 5.732 2.443 5.904 6.259 5.694 8.156 6.080 6.891 nan 2.724 2.159 5.291 2.280 1.732 9.665 1971 chr2 126699965 126702868 + 0 NA Intergenic L1_Mur3|LINE|L1 -5912 NM_001252580 84092 Mm.272629 NM_019729 ENSMUSG00000027363 Usp8 AI574262|AW557536|Ubpy|mKIAA0055 ubiquitin specific peptidase 8 protein-coding 10.771 7.292 3.928 10.191 7.848 6.140 8.218 10.816 7.539 10.055 6.953 5.315 9.089 11.617 8.705 11.223 12.604 9.029 nan 6.220 5.026 6.795 7.497 7.752 12.232 2358 chr4 43532722 43537341 + 0 NA intron (NM_011602, intron 48 of 56) Lx5c|LINE|L1 -11477 NM_001277875 22004 Mm.646 NM_009416 ENSMUSG00000028464 Tpm2 Tpm-2|Trop-2 tropomyosin 2, beta protein-coding 1.803 nan 0.744 2.946 2.511 1.195 3.051 3.150 2.698 3.381 4.020 2.714 2.164 5.011 3.574 2.728 1.149 3.087 1.953 1.471 1.234 nan 1.313 1.374 3.246 1226 chr15 101096553 101098613 + 0 NA Intergenic PB1D10|SINE|Alu -18172 NM_144790 208258 Mm.152952 NM_144790 ENSMUSG00000047034 Ankrd33 A930021G21Rik|Panky|Panky-a ankyrin repeat domain 33 protein-coding 8.056 4.114 1.777 8.708 5.356 2.829 10.409 12.856 4.218 6.612 3.019 3.063 5.954 7.992 8.726 12.220 8.568 7.873 1.572 2.388 1.696 4.115 2.652 1.898 10.041 2498 chr4 129592231 129593893 + 0 NA exon (NM_018799, exon 9 of 11) exon (NM_018799, exon 9 of 11) 7586 NM_018799 54709 Mm.250874 NM_018799 ENSMUSG00000028798 Eif3i 36kDa|D4Ertd632e|Eif3s2|Trip1 eukaryotic translation initiation factor 3, subunit I protein-coding 1.656 0.981 0.595 2.711 0.879 1.585 1.997 0.562 0.821 0.953 0.349 0.447 0.193 0.751 nan 1.214 0.288 1.462 5.845 3.024 2.870 2.818 4.672 5.113 1.251 1256 chr16 4600572 4607880 + 0 NA intron (NM_031184, intron 1 of 6) intron (NM_031184, intron 1 of 6) 9513 NM_031184 83396 Mm.134072 NM_031184 ENSMUSG00000014303 Glis2 Gli5|Klf16|Nkl GLIS family zinc finger 2 protein-coding nan 1.137 0.437 2.805 1.281 0.715 4.840 6.942 1.697 1.656 0.902 0.980 4.066 3.528 3.380 7.069 3.309 4.228 1.142 0.673 0.659 1.269 0.828 0.705 5.629 1949 chr2 119397732 119398963 + 0 NA intron (NM_026574, intron 28 of 35) intron (NM_026574, intron 28 of 35) 47105 NM_026929 69065 Mm.35083 NM_026929 ENSMUSG00000027313 Chac1 1810008K03Rik ChaC, cation transport regulator 1 protein-coding 5.363 0.555 0.716 2.584 4.595 5.747 3.752 6.913 4.294 5.428 0.821 1.783 nan 4.902 3.343 4.106 5.614 4.080 1.153 1.033 1.282 0.630 1.083 1.235 3.141 2247 chr3 94827628 94834575 + 0 NA Intergenic IMPB_01|Satellite|Satellite -6466 NM_001165948 229584 Mm.274787 NM_172683 ENSMUSG00000038902 Pogz 9530006B08Rik pogo transposable element with ZNF domain protein-coding 4.373 2.835 1.996 3.517 8.333 6.081 9.752 5.213 4.343 5.088 nan 2.869 7.322 8.868 6.215 6.083 6.193 5.630 1.052 1.199 1.300 1.062 1.388 1.245 6.351 1744 chr19 10236634 10238401 + 0 NA intron (NM_001033481, intron 1 of 25) intron (NM_001033481, intron 1 of 25) 3231 NM_001033481 225908 Mm.329716 NM_001033481 ENSMUSG00000036098 Myrf 6030439E18|Gm1804|Gm98|Mrf myelin regulatory factor protein-coding 0.786 0.426 0.319 0.585 0.395 0.283 0.724 1.480 nan 0.906 4.876 1.633 0.696 0.669 0.529 nan 0.710 1.062 0.286 0.763 0.295 0.870 0.498 0.293 0.413 1853 chr2 32699575 32703401 + 0 NA Intergenic MIR|SINE|MIR -7313 NM_010236 14287 Mm.3830 NM_010236 ENSMUSG00000009566 Fpgs AA408187 folylpolyglutamyl synthetase protein-coding 4.873 3.906 1.999 5.405 3.534 2.215 3.445 3.732 nan 4.467 1.816 1.899 2.705 4.308 3.327 4.722 3.458 3.608 5.629 4.516 3.738 5.631 6.001 4.830 6.662 864 chr13 31400762 31403129 + 0 NA Intergenic Intergenic -156225 NM_008239 15220 Mm.44235 NM_008239 ENSMUSG00000038415 Foxq1 HFH-1|Hfh1|Hfh1l|sa forkhead box Q1 protein-coding 1.976 1.020 0.414 0.838 0.574 0.151 2.084 2.820 2.488 2.034 5.665 1.821 1.465 1.378 2.144 2.385 1.235 2.927 0.692 0.276 0.155 0.538 0.211 0.321 2.513 2913 chr6 86472240 86478751 + 0 NA intron (NR_131125, intron 2 of 4) intron (NR_131125, intron 2 of 4) 5335 NR_131125 320486 Mm.391625 NR_131125 ENSMUSG00000085589 A430078I02Rik T25621 RIKEN cDNA A430078I02 gene ncRNA 11.513 14.518 4.487 13.149 5.158 3.171 15.209 11.820 7.872 13.391 8.696 5.210 13.660 13.598 14.659 16.713 11.413 12.995 nan 3.554 3.736 9.231 4.241 5.379 17.155 219 chr1 195132291 195146845 + 0 NA 3' UTR (NM_007758, exon 19 of 19) 3' UTR (NM_007758, exon 19 of 19) -7998 NM_013499 12946 Mm.301652 NM_013499 ENSMUSG00000016481 Cr1l Crry|Mcp|mCRY complement component (3b/4b) receptor 1-like protein-coding 4.678 1.161 0.528 2.149 2.000 0.975 4.176 3.009 3.025 3.496 1.355 0.890 5.324 5.484 4.513 nan 5.592 3.478 1.032 0.976 0.677 1.921 nan 0.653 5.882 1016 chr14 55706624 55711798 + 0 NA intron (NM_019984, intron 7 of 14) intron (NM_019984, intron 7 of 14) 3877 NM_019984 21816 Mm.41964 NM_019984 ENSMUSG00000022218 Tgm1 2310004J08Rik|Tgase1 transglutaminase 1, K polypeptide protein-coding 2.324 nan 1.871 2.250 2.150 1.070 2.215 2.987 1.456 1.903 1.078 1.406 1.133 2.396 2.062 2.265 2.112 1.931 5.324 7.775 4.682 6.727 5.774 5.298 2.951 2480 chr4 128645302 128648991 + 0 NA Intergenic B1_Mus1|SINE|Alu -7556 NM_001195130 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 4.196 2.179 0.329 4.889 2.888 1.156 3.123 1.414 3.568 5.762 1.656 1.155 6.164 8.298 6.028 8.219 3.142 4.947 2.866 0.911 0.615 4.877 2.023 0.997 6.136 2300 chr3 126298564 126303466 + 0 NA Intergenic Intergenic -62837 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 8.792 11.412 3.557 9.416 5.003 2.293 13.132 8.274 6.055 10.374 6.050 3.348 9.697 10.416 9.424 9.258 6.312 10.755 4.973 2.532 2.353 4.604 3.847 3.339 12.300 799 chr12 81147139 81150995 + 0 NA intron (NM_022316, intron 5 of 12) intron (NM_022316, intron 5 of 12) -17084 NR_037227 100526532 NR_037227 ENSMUSG00000092673 Mir3067 mir-3067|mmu-mir-3067 microRNA 3067 ncRNA 14.274 1.577 1.028 5.815 6.575 3.861 11.349 6.676 6.180 7.910 4.067 3.336 11.768 14.317 9.691 12.421 13.241 8.559 0.928 1.591 1.018 0.871 1.228 0.914 12.070 1170 chr15 79186828 79192576 + 0 NA intron (NR_029470, intron 2 of 4) B3|SINE|B2 23636 NR_029470 100041655 Mm.483310 NR_029470 ENSMUSG00000075555 Gm10863 ENSMUSG00000075555 predicted gene 10863 ncRNA 5.102 nan 0.995 6.458 3.200 2.076 5.334 7.629 3.348 4.941 nan 1.489 4.957 5.437 5.129 6.983 4.211 7.134 3.633 1.787 1.464 nan 3.081 2.629 7.860 925 chr13 54604752 54606937 + 0 NA intron (NM_001347512, intron 2 of 5) intron (NM_001347512, intron 2 of 5) 5529 NM_028870 74325 Mm.290026 NM_028870 ENSMUSG00000047547 Cltb 2310046E19Rik|lcb clathrin, light polypeptide (Lcb) protein-coding nan 7.043 2.030 5.656 1.331 1.162 1.860 2.293 2.550 5.680 1.683 1.498 2.258 2.933 4.444 4.218 1.668 4.314 4.341 1.706 2.944 5.608 3.282 4.518 6.872 3382 chr8 122558406 122560533 + 0 NA Intergenic Intergenic -8140 NM_001037298 234839 Mm.37324 NM_001037298 ENSMUSG00000014444 Piezo1 9630020g22|Fam38a|mKIAA0233 piezo-type mechanosensitive ion channel component 1 protein-coding 4.146 0.743 0.527 2.861 2.562 2.174 2.166 3.891 2.129 2.582 1.350 1.228 1.391 4.675 1.619 1.466 2.419 2.339 1.080 1.280 1.345 2.061 0.813 0.627 1.963 1896 chr2 60799127 60802203 + 0 NA intron (NM_020296, intron 2 of 13) intron (NM_020296, intron 2 of 13) -78062 NM_001159564 16420 Mm.98193 NM_021359 ENSMUSG00000026971 Itgb6 2210409C20Rik|4831415H04Rik integrin beta 6 protein-coding 9.691 2.158 0.722 8.226 4.707 2.886 8.564 9.668 4.714 10.562 7.379 3.499 6.237 7.630 8.155 10.277 8.688 7.427 6.807 4.215 4.583 5.930 6.220 6.504 15.842 390 chr11 11586299 11592244 + 0 NA TTS (NM_001305143) TTS (NM_001305143) 38567 NM_001305143 102631730 Mm.159430 NM_001305143 ENSMUSG00000062511 4930512M02Rik - RIKEN cDNA 4930512M02 gene protein-coding 4.358 20.091 9.121 3.926 1.466 0.658 1.201 0.916 2.313 2.629 1.309 1.087 1.237 1.288 2.158 2.190 1.910 2.610 0.908 nan 0.597 0.499 0.260 0.142 1.805 2895 chr6 72728649 72730026 + 0 NA intron (NM_001079822, intron 3 of 12) B4A|SINE|B4 59708 NM_001079822 21415 Mm.440067 NM_009332 ENSMUSG00000055799 Tcf7l1 Tcf-3|Tcf3|bHLHb21 transcription factor 7 like 1 (T cell specific, HMG box) protein-coding 2.083 0.624 0.552 1.852 1.222 0.740 5.217 4.045 1.902 3.051 0.472 1.337 5.795 4.024 5.115 6.736 3.785 3.640 1.101 0.357 0.712 0.560 0.935 0.424 3.395 3357 chr8 112129714 112140337 + 0 NA Intergenic Intergenic 123666 NM_020584 57321 Mm.213064 NM_020584 ENSMUSG00000033430 Terf2ip Rap1 telomeric repeat binding factor 2, interacting protein protein-coding 2.329 3.079 1.308 2.158 1.875 1.309 1.627 2.045 1.733 1.610 1.227 1.160 1.810 2.025 2.130 2.792 2.517 2.225 3.876 4.241 3.393 nan 2.164 2.106 2.698 2368 chr4 54960975 54962953 + 0 NA intron (NM_172867, intron 1 of 12) intron (NM_172867, intron 1 of 12) 14019 NM_172867 242466 Mm.102904 NM_172867 ENSMUSG00000060206 Zfp462 6030417H05|9430078C22Rik|Gt4-2|Zfpip zinc finger protein 462 protein-coding 8.982 1.715 0.593 4.912 4.107 2.633 9.159 7.491 3.322 6.024 4.378 0.755 5.812 9.926 5.224 7.594 3.769 5.549 5.519 5.125 2.886 2.160 8.804 8.494 10.880 1042 chr14 100085235 100087995 + 0 NA intron (NM_010636, intron 2 of 6) intron (NM_010636, intron 2 of 6) 63181 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 0.782 nan 0.514 0.504 0.582 0.089 1.046 2.327 2.481 0.917 2.749 3.905 1.400 1.711 1.354 1.333 0.738 1.548 1.212 0.511 0.355 1.303 0.692 0.441 nan 1515 chr17 46219756 46221701 + 0 NA intron (NM_028198, intron 11 of 31) intron (NM_028198, intron 11 of 31) -10803 NR_030466 751553 NR_030466 ENSMUSG00000076141 Mir693 Mirn693|mir-693|mmu-mir-693 microRNA 693 ncRNA 5.838 1.385 0.485 3.777 3.177 0.762 9.179 6.035 2.254 4.013 0.966 0.517 3.492 6.176 4.414 6.624 3.869 2.694 1.555 2.064 1.554 1.504 1.782 0.887 5.588 1686 chr18 79230083 79232919 + 0 NA Intergenic C-rich|Low_complexity|Low_complexity -122110 NM_053099 240427 Mm.312871 NM_053099 ENSMUSG00000024548 Setbp1 C130092E12|Seb|mKIAA0437 SET binding protein 1 protein-coding 4.965 4.230 1.848 3.200 3.902 1.451 2.695 7.510 3.351 3.880 3.466 3.117 4.305 5.129 4.250 5.335 4.602 5.615 3.243 nan 0.755 2.366 1.757 1.048 4.421 38 chr1 39294231 39295488 + 0 NA intron (NM_008719, intron 4 of 20) (TAAA)n|Simple_repeat|Simple_repeat -72992 NM_053257 114641 Mm.379302 NM_053257 ENSMUSG00000073702 Rpl31 Dts ribosomal protein L31 protein-coding 6.404 0.549 0.581 2.371 0.547 0.326 7.745 5.669 3.356 3.599 4.472 3.998 8.598 4.689 5.554 15.012 8.354 6.523 0.588 0.774 0.283 1.099 0.594 0.449 6.432 1955 chr2 119818945 119828991 + 0 NA Intergenic B4|SINE|B4 24454 NM_019392 22174 Mm.2901 NM_019392 ENSMUSG00000027298 Tyro3 AI323366|Brt|Dtk|Etk-2|Rse|Sky|TK19-2|Tif|etk2/tyro3|tk19-1 TYRO3 protein tyrosine kinase 3 protein-coding 5.408 1.881 1.127 3.837 2.657 1.449 3.372 4.488 4.049 6.054 1.579 0.861 nan 6.073 4.475 nan 5.518 6.028 0.779 0.861 0.464 0.780 0.434 0.482 7.344 196 chr1 176837366 176839038 + 0 NA intron (NM_029756, intron 5 of 17) intron (NM_029756, intron 5 of 17) -2069 NR_037996 15365 Mm.441435 NR_037996 Hmga2-ps1 EG666235|Gm7996|Hmgic-ps1|[y]i-c high mobility group AT-hook 2, pseudogene 1 pseudo 4.328 0.369 0.076 2.537 2.679 1.440 0.940 5.113 2.241 4.873 1.258 0.795 3.903 3.951 3.783 3.064 3.655 5.412 1.047 0.745 0.146 1.077 0.922 0.715 2.358 945 chr13 67181554 67182907 + 0 NA exon (NM_001013769, exon 4 of 4) exon (NM_001013769, exon 4 of 4) 9048 NM_001013769 380855 Mm.284988 NM_001013769 ENSMUSG00000058900 Rsl1 rslcan-9 regulator of sex limited protein 1 protein-coding 6.711 5.185 1.832 7.389 3.600 1.244 4.881 6.116 5.007 6.564 3.187 3.051 5.790 7.906 8.309 7.946 3.792 6.851 2.722 1.557 1.372 2.106 2.816 1.537 8.653 1169 chr15 79175110 79185522 + 0 NA intron (NR_029470, intron 2 of 4) B4A|SINE|B4 14250 NR_029470 100041655 Mm.483310 NR_029470 ENSMUSG00000075555 Gm10863 ENSMUSG00000075555 predicted gene 10863 ncRNA 5.042 nan 1.398 nan 3.925 2.114 nan 9.600 3.644 5.047 nan 2.232 4.816 5.243 4.871 5.743 3.493 5.135 3.436 1.847 2.020 nan 3.241 3.000 5.497 2784 chr5 138145175 138149813 + 0 NA intron (NM_019747, intron 4 of 4) B2_Mm1t|SINE|B2 8250 NM_019747 56314 Mm.19274 NM_019747 ENSMUSG00000037007 Zfp113 4732456B05Rik|mKIAA4229 zinc finger protein 113 protein-coding 4.450 3.057 0.816 3.760 3.773 3.506 3.481 4.807 3.505 4.595 3.066 3.249 3.826 5.823 4.856 3.850 3.668 4.316 2.760 2.569 3.227 4.722 nan 2.522 4.788 206 chr1 182448064 182450170 + 0 NA exon (NM_173378, exon 13 of 18) exon (NM_173378, exon 13 of 18) 39950 NM_173378 209456 Mm.287450 NM_173378 ENSMUSG00000026510 Trp53bp2 53BP2|AI746547|ASPP2|PPP1R13A|Tp53bp2|X98550 transformation related protein 53 binding protein 2 protein-coding 1.547 13.874 9.301 1.197 0.197 0.174 0.396 0.359 0.447 0.361 0.239 0.244 0.340 nan 0.451 1.038 0.584 1.265 1.205 1.268 1.164 1.429 1.070 0.670 1.182 118 chr1 127376412 127380615 + 0 NA intron (NM_145128, intron 6 of 17) intron (NM_145128, intron 6 of 17) 173527 NM_145128 107895 Mm.214682 NM_145128 ENSMUSG00000036155 Mgat5 4930471A21Rik|5330407H02Rik|AI480971|GlcNAc-TV mannoside acetylglucosaminyltransferase 5 protein-coding 4.362 nan 0.684 0.800 0.451 0.179 5.448 5.010 1.519 1.030 2.465 1.227 3.770 2.004 5.276 9.781 4.418 nan nan 0.771 0.803 1.298 2.104 1.250 2.426 959 chr13 98132649 98134266 + 0 NA intron (NM_012026, intron 2 of 35) intron (NM_012026, intron 2 of 35) 72708 NM_012026 110596 Mm.252718 NM_012026 ENSMUSG00000021662 Arhgef28 9230110L08Rik|AI323540|D13Bwg1089e|RIP2|Rgnef|RhoGEF|Rhoip2|p190RhoGEF Rho guanine nucleotide exchange factor (GEF) 28 protein-coding 2.633 0.589 0.361 1.069 1.099 0.305 3.841 4.065 2.654 2.178 5.281 1.620 3.425 2.332 4.712 5.018 2.183 3.854 1.178 0.624 0.189 1.368 0.687 0.686 3.265 1674 chr18 70728160 70731945 + 0 NA Intergenic Intergenic 161760 NM_010773 17191 Mm.322 NM_010773 ENSMUSG00000024513 Mbd2 MBD2a methyl-CpG binding domain protein 2 protein-coding 6.206 15.703 8.338 5.533 5.414 3.678 5.020 5.743 3.927 7.713 4.837 3.020 3.654 4.953 3.989 5.318 4.784 4.634 5.409 3.973 4.443 4.127 5.209 5.442 6.757 3194 chr7 135666448 135669867 + 0 NA intron (NM_001316681, intron 8 of 17) intron (NM_001316681, intron 8 of 17) -15843 NR_015548 67765 Mm.445272 NR_015548 ENSMUSG00000097471 5830432E09Rik - RIKEN cDNA 5830432E09 gene ncRNA 7.496 nan 2.650 11.514 6.700 5.613 5.919 10.459 nan 11.157 7.434 5.145 7.662 9.835 8.296 8.211 6.566 9.541 4.614 1.684 2.857 5.290 2.057 2.761 12.032 358 chr10 127173025 127178301 + 0 NA intron (NM_177615, intron 8 of 16) B1_Mus1|SINE|Alu 4982 NM_177615 216441 Mm.248373 NM_177615 ENSMUSG00000040441 Slc26a10 C78409|D630010I07 solute carrier family 26, member 10 protein-coding 11.263 3.481 1.116 6.308 3.890 2.039 7.487 7.009 4.209 7.674 5.693 2.458 9.380 7.416 7.335 7.359 6.953 6.437 2.787 2.183 1.797 2.655 nan 2.211 12.020 331 chr10 102796660 102797932 + 0 NA Intergenic Intergenic 231481 NM_172553 216285 Mm.19287 NM_172553 ENSMUSG00000036602 Alx1 AI314867|C130005I02|Cart1 ALX homeobox 1 protein-coding 6.797 0.257 0.306 3.935 1.551 1.120 0.935 5.194 3.222 2.942 nan 0.322 4.869 3.356 2.519 4.080 4.732 8.309 nan 0.601 0.136 nan 0.497 0.451 4.506 1065 chr15 10699742 10701640 + 0 NA intron (NM_001166408, intron 1 of 17) intron (NM_001166408, intron 1 of 17) 12849 NM_030690 75646 Mm.212395 NM_030690 ENSMUSG00000022246 Rai14 1700008J19Rik|1700020L11Rik|Ankycorbin|Norpeg|mKIAA1334 retinoic acid induced 14 protein-coding 8.341 2.289 0.890 5.634 7.857 3.490 6.032 4.500 3.868 4.676 3.722 2.805 6.098 4.076 4.350 3.260 1.978 6.358 0.788 1.388 1.162 0.753 0.777 0.459 3.854 1659 chr18 61364360 61372818 + 0 NA intron (NM_133249, intron 1 of 11) intron (NM_133249, intron 1 of 11) 31842 NM_133249 170826 Mm.415302 NM_133249 ENSMUSG00000033871 Ppargc1b 4631412G21Rik|Perc peroxisome proliferative activated receptor, gamma, coactivator 1 beta protein-coding 4.390 4.011 1.716 nan 2.360 1.350 5.280 5.714 3.921 4.835 3.283 2.121 6.957 6.071 4.888 5.138 3.761 5.443 nan 0.771 0.742 nan 0.737 0.658 nan 2746 chr5 123349451 123350776 + 0 NA intron (NM_029850, intron 1 of 5) B2_Mm1t|SINE|B2 5665 NM_029850 77045 Mm.151960 NM_029850 ENSMUSG00000029438 Bcl7a 4432415N06Rik|AI448316 B cell CLL/lymphoma 7A protein-coding 4.081 9.645 1.323 7.512 1.201 0.947 4.071 4.454 2.281 11.875 3.423 3.053 3.188 3.640 8.362 7.880 2.828 7.895 nan 0.339 2.158 6.612 nan 3.746 12.527 737 chr12 52988248 52990296 + 0 NA intron (NM_198111, intron 7 of 13) intron (NM_198111, intron 7 of 13) -259405 NM_013780 27386 Mm.247044 NM_013780 ENSMUSG00000021010 Npas3 4930423H22Rik|bHLHe12 neuronal PAS domain protein 3 protein-coding 5.332 9.810 3.187 4.560 3.111 1.198 4.520 7.288 3.620 4.057 4.719 1.987 5.319 7.118 7.529 7.253 4.375 5.371 0.887 0.376 0.415 1.038 0.210 0.110 7.977 767 chr12 72982394 72984297 + 0 NA Intergenic Intergenic 43463 NM_011384 20476 Mm.57138 NM_011384 ENSMUSG00000021099 Six6 Optx2|Six9 sine oculis-related homeobox 6 protein-coding 2.386 2.014 1.154 2.259 1.679 0.423 0.866 1.107 3.214 3.981 1.461 1.060 1.707 2.671 1.847 3.408 1.850 3.285 0.724 0.857 0.498 1.250 0.886 0.254 3.830 3037 chr6 136775682 136777214 + 0 NA intron (NM_145067, intron 1 of 25) intron (NM_145067, intron 1 of 25) 5294 NM_145067 14917 Mm.222729 NM_145067 ENSMUSG00000042638 Gucy2c AI893437|GC-C|Gcc guanylate cyclase 2c protein-coding 6.654 12.090 3.456 8.648 2.375 1.251 5.664 7.485 4.093 7.074 4.393 3.278 7.645 5.979 nan 11.408 5.863 8.383 4.803 1.707 1.467 7.367 1.754 2.142 10.550 2228 chr3 89664504 89667806 + 0 NA intron (NM_080466, intron 7 of 7) intron (NM_080466, intron 7 of 7) -48867 NM_001038587 56417 Mm.316628 NM_019655 ENSMUSG00000027951 Adar AV242451|Adar1|Adar1p110|Adar1p150|mZaADAR adenosine deaminase, RNA-specific protein-coding 4.318 3.146 1.192 3.465 4.598 4.602 3.503 5.109 3.681 2.782 5.179 4.233 3.337 5.896 3.608 nan 3.141 3.359 nan 1.537 1.801 2.614 1.703 1.575 3.058 2070 chr2 164346981 164349473 + 0 NA Intergenic L1_Mus1|LINE|L1 6156 NR_106143 102465780 NR_106143 ENSMUSG00000098489 Mir7678 Gm27388|mmu-mir-7678 microRNA 7678 ncRNA 4.990 3.480 1.169 6.035 2.888 1.756 10.306 6.453 3.131 4.459 5.746 3.081 7.030 8.122 6.707 5.637 3.944 5.250 nan 2.154 1.616 2.082 4.404 3.020 10.318 2173 chr3 30988200 30989626 + 0 NA Intergenic (TC)n|Simple_repeat|Simple_repeat -6858 NM_008857 18759 Mm.291554 NM_008857 ENSMUSG00000037643 Prkci 2310021H13Rik|AI427505|PKClambda|Pkci|Pkcl|Prkcl|aPKClambda|mKIAA4165 protein kinase C, iota protein-coding 2.396 5.163 4.599 1.627 1.512 1.072 5.930 3.368 2.561 1.795 1.384 2.303 5.043 3.628 nan 2.881 2.422 nan 0.772 1.316 1.365 0.681 1.019 0.769 1.668 1020 chr14 61351111 61365854 + 0 NA intron (NM_026598, intron 1 of 3) intron (NM_026598, intron 1 of 3) 1963 NM_026598 68177 Mm.22758 NM_026598 ENSMUSG00000021928 Ebpl 5730442K12Rik|EBRP emopamil binding protein-like protein-coding 6.601 nan 2.330 4.990 2.803 1.697 5.882 8.086 4.947 6.160 5.800 4.204 5.169 7.061 6.164 7.729 4.074 6.316 0.901 1.580 0.875 1.013 0.680 0.541 7.630 805 chr12 85533816 85535533 + 0 NA Intergenic Intergenic 60773 NM_010234 14281 Mm.246513 NM_010234 ENSMUSG00000021250 Fos D12Rfj1|c-fos|cFos FBJ osteosarcoma oncogene protein-coding 11.166 17.477 5.439 11.697 5.983 3.874 9.452 8.766 4.865 17.648 6.525 3.750 7.890 10.679 9.150 10.950 8.843 9.788 6.791 2.833 7.031 6.986 3.915 6.922 22.704 84 chr1 77993814 77996667 + 0 NA Intergenic Intergenic 201896 NM_008781 18505 Mm.1371 NM_008781 ENSMUSG00000004872 Pax3 Pax-3|Sp|Splchl2|splotch paired box 3 protein-coding 7.750 0.476 0.547 3.735 2.656 2.089 3.371 5.521 3.879 4.396 0.641 0.440 6.491 4.693 5.185 8.032 7.256 6.932 nan nan 0.467 0.305 nan 0.313 4.956 437 chr11 60120661 60126365 + 0 NA intron (NM_009021, intron 1 of 5) intron (NM_009021, intron 1 of 5) -16569 NM_001037764 19377 Mm.296366 NM_009021 ENSMUSG00000062115 Rai1 Gt1 retinoic acid induced 1 protein-coding 4.855 0.823 0.406 3.004 2.016 1.487 5.576 4.486 4.342 3.884 2.065 1.741 7.089 4.938 8.046 7.846 5.117 5.896 nan 1.737 1.608 3.612 2.357 1.596 nan 194 chr1 174012206 174014252 + 0 NA intron (NM_172648, intron 6 of 6) intron (NM_172648, intron 6 of 6) 18526 NM_172648 226695 Mm.425061 NM_172648 ENSMUSG00000054203 Ifi205 D3|D3cDNA|Ifi205a interferon activated gene 205 protein-coding 15.375 10.366 3.531 8.330 5.501 2.859 9.415 9.325 6.290 7.623 7.557 5.053 9.649 10.848 9.510 13.360 10.091 8.803 5.746 5.261 1.897 4.551 5.132 3.265 12.983 3503 chr9 63836656 63841990 + 0 NA Intergenic Intergenic -81329 NM_016769 17127 Mm.7320 NM_016769 ENSMUSG00000032402 Smad3 AU022421|Madh3 SMAD family member 3 protein-coding 3.976 1.028 0.642 2.740 2.407 1.251 4.315 4.308 3.120 3.066 5.070 2.586 3.663 6.469 5.387 5.111 3.056 4.481 nan 1.195 0.926 1.029 0.581 0.443 7.183 2749 chr5 123437981 123442143 + 0 NA exon (NM_177582, exon 2 of 9) exon (NM_177582, exon 2 of 9) 42039 NM_029594 76399 Mm.75049 NM_029594 ENSMUSG00000029437 Il31 1700013B14Rik interleukin 31 protein-coding 6.332 9.157 3.038 5.823 3.959 2.467 6.045 4.025 4.027 6.528 3.504 2.703 4.857 7.420 5.812 6.475 4.939 6.832 6.337 4.518 3.451 7.476 4.879 4.346 8.083 1768 chr19 29979739 29984148 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR -21847 NM_025741 66745 Mm.158128 NM_025741 ENSMUSG00000024815 Trpd52l3 4931412G03Rik tumor protein D52-like 3 protein-coding 3.291 0.501 0.474 nan 2.393 1.592 3.827 2.405 4.827 4.141 nan 1.100 4.222 5.356 4.376 4.631 5.924 5.068 nan 0.338 0.239 0.400 nan 0.195 2.807 220 chr1 195170353 195173565 + 0 NA intron (NM_007758, intron 1 of 18) L1MA4A|LINE|L1 4756 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 0.846 1.754 0.933 0.447 0.843 0.191 0.551 0.843 0.686 0.803 0.636 0.592 0.576 0.774 0.608 nan 0.832 0.696 1.572 1.479 1.086 3.039 nan 1.642 nan 1312 chr16 23102022 23105279 + 0 NA Intergenic RSINE1|SINE|B4 -3747 NM_001347179 13682 Mm.260084 NM_013506 ENSMUSG00000022884 Eif4a2 4833432N07Rik|BM-010|Ddx2b|Eif4|eIF-4A-II|eIF4A-II eukaryotic translation initiation factor 4A2 protein-coding 4.287 2.403 2.532 2.481 4.606 5.627 3.489 4.471 3.356 3.234 1.305 2.214 3.896 3.703 2.721 4.170 4.125 4.061 1.627 2.093 3.317 1.593 nan 3.293 2.938 2395 chr4 70182167 70183434 + 0 NA Intergenic RLTR10|LTR|ERVK 227635 NM_001313762 214444 Mm.370777 NM_145990 ENSMUSG00000039298 Cdk5rap2 2900018K03Rik|an|mKIAA1633 CDK5 regulatory subunit associated protein 2 protein-coding 4.186 0.620 0.104 2.029 1.854 0.788 2.923 1.769 2.484 2.395 1.266 0.623 3.371 3.732 2.605 3.190 2.604 3.430 3.355 3.984 2.400 3.982 1.712 1.023 1.889 2365 chr4 45023708 45026897 + 0 NA intron (NM_001285800, intron 6 of 13) MIR3|SINE|MIR 6693 NM_001285800 64424 Mm.282932 NM_022811 ENSMUSG00000028318 Polr1e 53kDa|AU042259|D030019D19Rik|Paf53|Praf1 polymerase (RNA) I polypeptide E protein-coding 6.865 12.369 5.288 7.808 3.149 1.511 5.806 5.554 5.319 6.820 5.035 3.761 5.182 6.378 8.105 9.310 4.778 nan 5.910 2.836 1.733 nan 2.552 2.051 11.073 1021 chr14 63793576 63797594 + 0 NA intron (NM_173393, intron 1 of 2) intron (NM_173393, intron 1 of 2) -64727 NM_028228 72400 Mm.379214 NM_028228 ENSMUSG00000021958 Pinx1 2210403I16Rik|2610028A01Rik|67-11-3|AU024023|LPTS|LPTS1 PIN2/TERF1 interacting, telomerase inhibitor 1 protein-coding 3.848 3.701 1.224 4.494 1.968 1.711 3.098 5.756 3.491 4.056 4.130 2.902 3.768 4.915 5.404 5.466 2.435 5.353 5.052 2.768 3.134 4.492 3.821 3.107 5.985 1263 chr16 10496386 10502061 + 0 NA intron (NM_001302619, intron 2 of 19) ID4|SINE|ID 9442 NM_001243761 12265 Mm.249560 NM_007575 ENSMUSG00000022504 Ciita C2ta|EG669998|Gm9475|Mhc2ta class II transactivator protein-coding 5.531 5.136 3.661 2.586 1.647 1.130 nan 3.710 2.620 3.395 0.714 0.848 2.632 2.891 2.539 3.939 2.126 4.691 0.727 1.167 0.998 0.849 0.783 0.600 6.958 934 chr13 56037920 56042599 + 0 NA Intergenic B4A|SINE|B4 95291 NM_012015 26914 Mm.283802 NM_012015 ENSMUSG00000015937 H2afy H2AF12M|mH2a1|macroH2A1 H2A histone family, member Y protein-coding nan 0.482 0.541 0.677 0.973 0.482 0.457 0.933 0.553 0.624 6.721 0.853 0.322 nan 0.780 nan 0.613 nan 0.511 0.527 0.310 0.667 0.440 0.397 nan 1989 chr2 147531473 147536519 + 0 NA Intergenic Intergenic 169002 NM_008780 18503 Mm.315502 NM_008780 ENSMUSG00000037034 Pax1 Pax-1|hbs|hunchback|un|undulated|wt paired box 1 protein-coding 0.287 0.601 0.719 0.259 0.312 0.263 0.351 0.363 0.358 0.850 0.218 0.132 0.267 0.223 0.526 0.522 0.430 nan 1.060 0.559 3.702 1.221 0.550 0.397 3537 chr9 99581320 99591111 + 0 NA Intergenic B3|SINE|B2 10416 NM_031403 83703 Mm.31324 NM_031403 ENSMUSG00000032469 Dbr1 AW018415 debranching RNA lariats 1 protein-coding 6.504 0.351 0.375 3.176 3.817 2.578 4.235 1.704 5.329 7.368 0.624 0.838 5.957 8.298 4.589 6.081 5.357 6.493 0.495 0.818 0.571 0.284 0.681 0.751 8.870 948 chr13 72090950 72102922 + 0 NA Intergenic Intergenic -133213 NM_010573 16371 Mm.316056 NM_010573 ENSMUSG00000060969 Irx1 - Iroquois related homeobox 1 (Drosophila) protein-coding 5.716 0.420 0.163 7.941 4.809 3.326 3.045 1.254 6.627 11.981 2.007 1.280 5.203 6.046 3.438 9.071 3.822 9.675 0.500 2.049 1.997 0.613 0.597 0.584 11.693 2160 chr3 22011783 22016618 + 0 NA Intergenic B1_Mus1|SINE|Alu -62452 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 1.502 7.080 3.981 1.821 1.336 0.744 1.424 1.666 1.790 1.429 1.218 1.606 0.962 0.967 1.311 1.458 1.600 1.974 2.586 1.731 1.240 2.159 2.830 1.870 1.001 572 chr11 97002704 97004830 + 0 NA Intergenic Intergenic -9802 NM_031183 83395 Mm.156282 NM_031183 ENSMUSG00000038560 Sp6 1110025J03Rik|AA591031|AI592962|Epfn|Klf14 trans-acting transcription factor 6 protein-coding 7.606 10.986 4.346 7.336 3.959 2.365 4.363 8.541 4.905 5.629 5.827 2.594 5.126 5.924 6.069 7.607 5.890 6.635 1.220 nan 1.838 0.832 nan nan 7.838 2450 chr4 120062895 120066726 + 0 NA intron (NM_010657, intron 2 of 8) intron (NM_010657, intron 2 of 8) -96396 NM_007902 13615 Mm.284855 NM_007902 ENSMUSG00000028635 Edn2 ET-2|PPET2|VIC endothelin 2 protein-coding 4.130 0.512 0.470 2.855 1.809 0.827 4.663 2.197 4.533 4.453 0.726 0.390 5.943 5.409 5.068 nan 4.189 4.901 0.918 0.873 0.454 0.883 0.369 0.273 6.941 1398 chr17 5045282 5047089 + 0 NA intron (NM_001085355, intron 2 of 19) intron (NM_001085355, intron 2 of 19) 51111 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 2.530 1.701 1.081 2.112 1.544 0.764 2.050 1.350 2.283 1.998 1.055 0.926 2.751 3.278 2.548 4.108 2.962 3.208 nan 0.959 0.193 0.894 0.870 0.473 2.412 226 chr1 195941048 195945090 + 0 NA Intergenic Intergenic -766354 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 3.438 0.420 0.163 1.398 1.126 0.453 3.084 1.605 3.165 2.613 0.246 0.399 3.198 2.527 3.526 6.757 6.368 3.063 0.463 0.485 0.295 0.745 nan 0.363 3.194 527 chr11 87391281 87394064 + 0 NA intron (NM_053269, intron 5 of 8) B1_Mus1|SINE|Alu 11823 NM_053269 114714 Mm.37376 NM_053269 ENSMUSG00000007646 Rad51c R51H3|Rad51l2 RAD51 paralog C protein-coding 3.941 2.321 0.819 5.948 1.028 0.624 3.890 2.131 2.621 3.419 1.170 0.683 2.568 3.766 4.396 4.643 1.685 4.319 1.686 0.893 0.702 nan 1.294 1.516 5.442 1430 chr17 25890735 25897619 + 0 NA intron (NM_139154, intron 2 of 6) intron (NM_139154, intron 2 of 6) 8050 NR_028042 100043160 Mm.482893 NR_028042 Gm10012 ENSMUSG00000056875 cytochrome c oxidase, subunit VIIc pseudogene pseudo 0.574 0.522 0.193 1.538 1.015 0.516 0.871 2.017 1.835 1.320 1.545 1.981 0.638 1.955 0.931 nan 0.429 1.034 2.118 1.934 1.761 4.670 1.249 1.024 1.205 1145 chr15 75987814 75990975 + 0 NA Intergenic Intergenic -4375 NM_177922 332110 Mm.40843 NM_177922 ENSMUSG00000063704 Mapk15 BC048082 mitogen-activated protein kinase 15 protein-coding 2.305 nan 0.565 nan 1.275 1.169 2.076 4.496 2.329 nan 7.436 3.926 2.606 2.602 2.111 2.024 2.333 2.993 1.769 1.403 1.965 nan 1.834 2.582 2.518 1870 chr2 36068551 36074529 + 0 NA intron (NM_029309, intron 4 of 4) ORSL-2b|DNA|hAT-Tip100 22067 NM_029309 75495 Mm.276332 NM_029309 ENSMUSG00000026894 Morn5 1700010A17Rik MORN repeat containing 5 protein-coding 7.964 1.191 0.675 3.410 3.013 1.486 7.841 7.960 3.491 4.859 1.667 1.048 7.111 6.512 5.665 8.978 8.778 5.480 0.617 0.906 0.623 0.561 0.620 0.334 10.449 2549 chr4 141752239 141753772 + 0 NA intron (NM_001081408, intron 2 of 6) (TC)n|Simple_repeat|Simple_repeat 6330 NM_001081408 75986 Mm.30032 NM_001081408 ENSMUSG00000040706 Agmat 5033405N08Rik agmatine ureohydrolase (agmatinase) protein-coding 3.193 0.918 0.478 3.079 1.154 0.922 3.070 5.065 3.043 1.726 0.875 2.249 4.021 3.554 4.457 4.506 1.738 4.616 0.971 0.428 0.364 1.653 nan 0.513 4.811 1448 chr17 26851967 26854182 + 0 NA Intergenic (TC)n|Simple_repeat|Simple_repeat -11509 NM_008700 18091 Mm.41974 NM_008700 ENSMUSG00000015579 Nkx2-5 Csx|Nkx-2.5|Nkx2.5|tinman NK2 homeobox 5 protein-coding 7.611 9.167 3.487 7.446 5.406 3.992 7.849 6.736 3.935 9.137 4.547 3.109 5.317 8.607 7.270 10.228 6.557 6.207 4.486 1.630 2.897 3.702 3.019 4.619 11.378 3229 chr8 18710295 18714939 + 0 NA intron (NM_007426, intron 2 of 8) intron (NM_007426, intron 2 of 8) 28945 NM_007426 11601 Mm.439874 NM_007426 ENSMUSG00000031465 Angpt2 Agpt2|Ang-2|Ang2 angiopoietin 2 protein-coding 1.949 1.244 0.621 1.464 0.812 0.381 0.893 1.449 1.425 0.938 0.729 0.540 1.345 0.729 1.402 1.564 1.366 1.942 2.555 2.190 1.627 8.644 1.500 0.777 1.345 2466 chr4 126457095 126460416 + 0 NA intron (NM_001317174, intron 8 of 18) (CCAA)n|Simple_repeat|Simple_repeat 9828 NM_001317174 236511 Mm.30800 NM_153403 ENSMUSG00000041530 Ago1 Eif2c1 argonaute RISC catalytic subunit 1 protein-coding 2.026 0.615 0.397 0.652 0.396 0.074 1.826 3.355 0.820 0.847 0.228 0.346 3.843 2.133 nan 4.226 1.779 2.080 1.166 0.707 0.503 0.991 0.397 0.239 0.932 62 chr1 64363509 64364625 + 0 NA Intergenic B1_Mur2|SINE|Alu -168737 NM_133828 12912 Mm.422634 NM_009952 ENSMUSG00000025958 Creb1 2310001E10Rik|3526402H21Rik|AV083133|Creb|Creb-1 cAMP responsive element binding protein 1 protein-coding 2.584 0.499 0.263 0.885 1.368 0.347 2.240 1.698 1.432 1.669 2.150 2.344 3.487 3.657 1.579 1.236 nan 2.452 0.985 0.407 0.566 0.533 0.341 0.767 833 chr12 113170290 113178070 + 0 NA Intergenic L1MD|LINE|L1 -11723 NM_153776 69195 Mm.313244 NM_153776 ENSMUSG00000049036 Tmem121 2410008J05Rik|Hole transmembrane protein 121 protein-coding 6.008 1.294 0.500 3.424 1.466 0.744 7.271 6.927 3.226 3.573 2.924 1.939 7.829 7.297 7.203 8.087 7.068 4.965 2.123 2.287 1.536 4.450 2.293 1.526 9.575 3146 chr7 104502768 104506905 + 0 NA intron (NM_199146, intron 1 of 7) Lx4A|LINE|L1 3013 NM_199146 209387 Mm.277377 NM_199146 ENSMUSG00000057596 Trim30d AI451617|TRIM30-3|Trim79 tripartite motif-containing 30D protein-coding 10.739 4.959 1.724 10.554 5.260 2.235 7.521 10.275 8.729 10.624 6.816 2.905 12.372 14.264 13.038 11.493 8.067 11.023 nan 0.942 0.984 1.595 0.654 0.368 13.838 2743 chr5 122996709 123001695 + 0 NA TTS (NR_045820) TTS (NR_045820) 9848 NR_045820 109202 Mm.30769 NM_175405 ENSMUSG00000056735 A930024E05Rik - RIKEN cDNA A930024E05 gene ncRNA 5.158 1.540 0.888 4.994 2.722 1.191 4.063 4.997 5.245 4.495 4.223 4.116 5.205 5.824 5.333 5.205 4.118 4.981 nan nan 0.765 2.062 nan 0.843 3.623 1472 chr17 30136583 30138190 + 0 NA intron (NM_148926, intron 3 of 4) L1M3|LINE|L1 119149 NR_105839 102465223 NR_105839 ENSMUSG00000098522 Mir6412 Gm27364|mmu-mir-6412 microRNA 6412 ncRNA 0.372 0.334 0.805 0.845 1.462 0.285 0.707 0.741 0.661 0.584 0.313 0.648 0.181 0.933 0.564 nan 1.039 0.519 2.903 3.568 5.056 2.826 5.402 7.245 0.501 1573 chr17 80456115 80462338 + 0 NA intron (NM_009231, intron 2 of 21) ID_B1|SINE|B4 21227 NM_009231 20662 Mm.60975 NM_009231 ENSMUSG00000024241 Sos1 4430401P03Rik|9630010N06|AI449023 son of sevenless homolog 1 (Drosophila) protein-coding 8.679 5.276 2.158 8.240 4.715 3.623 9.711 5.689 nan 11.319 3.707 3.043 6.957 8.360 8.887 9.768 7.953 8.700 4.142 2.245 3.001 4.366 2.466 3.754 12.353 3276 chr8 74188831 74190892 + 0 NA Intergenic L1Md_F2|LINE|L1 -683313 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 3.199 2.028 0.964 1.256 2.333 0.816 6.350 nan nan 3.106 1.917 2.316 4.335 5.896 3.927 nan 5.859 2.596 1.738 2.371 2.069 nan 2.469 2.504 4.475 548 chr11 95084808 95086436 + 0 NA Intergenic Intergenic -8811 NM_001306162 16400 Mm.57035 NM_013565 ENSMUSG00000001507 Itga3 AA407068|CD49C|GAPB3 integrin alpha 3 protein-coding 2.077 nan 0.113 0.664 0.411 0.105 2.850 0.982 0.283 0.702 0.802 0.127 1.737 1.480 3.417 4.622 3.337 1.802 0.542 nan 0.415 1.055 nan nan 3.725 2020 chr2 155416155 155419007 + 0 NA intron (NM_001242558, intron 7 of 12) intron (NM_001242558, intron 7 of 12) 23202 NM_001242558 56406 Mm.27592 NM_019825 ENSMUSG00000038369 Ncoa6 AIB3|ASC-2|ASC2|NRC|Ncoa7|PRIP|RAP250|mKIAA0181 nuclear receptor coactivator 6 protein-coding 7.150 4.759 2.283 5.106 3.813 2.472 5.702 11.903 4.492 6.051 5.533 2.969 9.473 12.180 7.059 10.446 8.916 6.756 nan 3.157 1.836 3.551 2.750 1.975 9.168 3524 chr9 75078936 75087508 + 0 NA intron (NM_010864, intron 1 of 40) intron (NM_010864, intron 1 of 40) 12016 NM_010864 17918 Mm.3645 NM_010864 ENSMUSG00000034593 Myo5a 9630007J19Rik|AI413174|AI661011|Dbv|MVa|Myo5|MyoVA|Sev-1|d|d-120J|flail|flr myosin VA protein-coding 8.591 0.553 0.350 6.084 4.694 2.424 6.216 7.754 6.703 9.537 4.224 3.427 7.362 10.154 9.104 10.296 6.194 9.753 0.654 nan 0.545 0.615 0.519 0.412 13.319 3450 chr9 22233946 22235666 + 0 NA intron (NM_172763, intron 1 of 5) intron (NM_172763, intron 1 of 5) 9094 NM_001164624 235047 Mm.290849 NM_172763 ENSMUSG00000057982 Zfp809 BB114266|C330026E23 zinc finger protein 809 protein-coding 3.135 1.951 0.520 1.374 0.902 0.644 3.345 2.744 2.393 2.764 0.635 0.694 3.513 3.682 3.470 3.615 3.602 2.558 3.664 4.073 4.346 5.096 1.986 1.992 3.256 2575 chr4 150416788 150419679 + 0 NA intron (NM_001085492, intron 2 of 22) intron (NM_001085492, intron 2 of 22) 136317 NM_001085492 68703 Mm.291274 NM_001085492 ENSMUSG00000039852 Rere 1110033A15Rik|AI414665|ARG|ARP|ATN1L|AW742570|Atr2|DNB1|eye|eyes3|mKIAA0458 arginine glutamic acid dipeptide (RE) repeats protein-coding 3.746 nan 0.907 7.100 2.149 1.235 5.094 4.682 4.405 7.290 3.248 2.080 6.267 9.052 6.276 8.379 3.737 5.099 4.640 0.652 0.806 5.490 1.584 1.459 8.969 1110 chr15 61910155 61912048 + 0 NA Intergenic Intergenic -74240 NM_001177354 17869 Mm.2444 NM_010849 ENSMUSG00000022346 Myc AU016757|Myc2|Niard|Nird|bHLHe39 myelocytomatosis oncogene protein-coding 5.540 2.957 1.596 3.676 4.336 2.504 5.088 9.480 3.728 3.403 4.190 2.856 4.378 6.104 4.840 4.194 4.566 4.634 1.205 1.256 0.956 1.016 0.728 0.572 4.631 3466 chr9 32523181 32539539 + 0 NA intron (NM_008026, intron 1 of 8) MER121|DNA|TcMar? 10092 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 3.027 10.479 4.242 3.349 1.469 0.703 1.646 1.486 2.624 2.508 1.376 2.319 1.527 1.601 2.169 nan 1.368 3.455 1.585 1.542 0.842 1.907 1.059 0.580 2.124 2622 chr5 20447763 20462394 + 0 NA intron (NM_001170746, intron 9 of 22) intron (NM_001170746, intron 9 of 22) 427046 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 5.117 8.041 5.334 4.775 4.386 3.624 3.956 3.973 3.619 4.880 4.150 4.351 4.103 4.455 3.981 3.838 3.737 4.154 2.852 2.658 2.957 2.309 3.164 3.247 3.895 2204 chr3 87861363 87865524 + 0 NA intron (NM_033573, intron 4 of 6) B3|SINE|B2 16688 NM_021309 27371 Mm.86361 NM_021309 ENSMUSG00000028071 Sh2d2a Lad|Ribp|Tsad SH2 domain containing 2A protein-coding 3.412 2.849 1.066 3.788 2.386 2.248 7.147 3.643 3.384 4.618 2.498 1.486 7.289 7.104 5.588 5.828 4.956 4.770 nan 1.174 1.733 1.814 1.758 2.018 6.948 1999 chr2 150491056 150496141 + 0 NA Intergenic B1_Mus2|SINE|Alu -8535 NM_001034900 545471 Mm.451002 NM_001034900 ENSMUSG00000074731 Zfp345 OTTMUSG00000015743 zinc finger protein 345 protein-coding 7.799 13.930 4.690 7.271 1.508 0.867 5.022 8.392 4.359 5.701 5.473 2.508 9.495 6.486 7.465 11.541 7.717 7.808 nan 1.401 0.980 1.018 0.913 0.711 12.312 2799 chr5 147048702 147049782 + 0 NA intron (NM_080795, intron 1 of 9) intron (NM_080795, intron 1 of 9) 27330 NM_080795 140887 Mm.272203 NM_080795 ENSMUSG00000016520 Lnx2 9630046H24|AW209022 ligand of numb-protein X 2 protein-coding 3.016 0.825 1.271 nan 4.074 2.600 0.867 2.947 3.611 3.233 1.971 1.430 2.051 3.507 2.138 1.762 2.446 3.165 2.420 2.692 1.307 3.403 3.297 2.448 1.721 1772 chr19 36866655 36872357 + 0 NA intron (NM_001163635, intron 13 of 26) intron (NM_001163635, intron 13 of 26) 35274 NM_001163635 74493 Mm.249310 NM_001163635 ENSMUSG00000024811 Tnks2 5430432P15Rik|AA517131|AI662480|ARTD6|TNKS-2|Tank2 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase 2 protein-coding 5.790 0.554 0.308 2.543 1.787 1.363 5.299 6.982 2.814 3.870 0.692 0.894 5.155 4.785 5.341 8.034 10.086 5.594 0.263 0.685 0.494 0.591 0.561 0.304 7.185 418 chr11 52260455 52264706 + 0 NA intron (NM_001313981, intron 3 of 10) intron (NM_001313981, intron 3 of 10) 20015 NM_009331 21414 Mm.31630 NM_009331 ENSMUSG00000000782 Tcf7 AI465550|TCF-1|Tcf1 transcription factor 7, T cell specific protein-coding 0.424 0.588 0.596 0.667 0.532 0.259 2.620 nan 1.488 0.776 3.413 5.832 0.866 1.028 1.338 nan 0.537 nan nan 0.373 0.433 nan nan 0.286 0.627 2324 chr3 144376876 144379286 + 0 NA Intergenic Intergenic -172826 NM_010723 16911 Mm.29187 NM_010723 ENSMUSG00000028266 Lmo4 A730077C12Rik|Crp3|Etohi4 LIM domain only 4 protein-coding 3.741 3.019 1.319 4.801 2.433 0.945 2.406 4.207 4.154 4.250 2.124 2.529 2.302 4.111 2.803 3.775 3.089 3.791 3.474 1.757 0.865 2.751 3.041 1.922 2.957 933 chr13 55925853 55939014 + 0 NA Intergenic Intergenic -101008 NM_011097 18740 Mm.135195 NM_011097 ENSMUSG00000021506 Pitx1 Bft|P-OTX|Potx|Ptx1 paired-like homeodomain transcription factor 1 protein-coding nan 0.457 0.268 0.421 0.214 0.160 0.238 0.252 0.205 0.462 14.327 0.657 0.155 nan 0.357 nan 0.267 nan 0.380 0.328 0.289 0.448 0.222 0.196 nan 783 chr12 80149532 80153562 + 0 NA Intergenic B1F|SINE|Alu -18703 NR_033514 69548 Mm.269712 NR_033514 ENSMUSG00000097729 2310015A10Rik 5330419I17Rik RIKEN cDNA 2310015A10 gene ncRNA 3.647 1.305 0.571 3.735 2.912 1.109 3.925 4.456 4.318 3.553 4.775 3.803 4.573 5.962 6.404 7.851 3.485 5.218 1.986 1.098 0.597 2.152 1.511 1.261 6.370 2217 chr3 88894183 88895322 + 0 NA intron (NM_001242372, intron 21 of 32) intron (NM_001242372, intron 21 of 32) 19198 NM_144898 229524 Mm.440405 NM_144898 ENSMUSG00000068922 Msto1 BC008103|mst misato 1, mitochondrial distribution and morphology regulator protein-coding 5.923 9.589 3.598 10.130 4.638 4.953 9.370 7.960 4.665 11.501 5.147 2.927 8.834 9.557 10.144 11.276 6.329 7.452 5.296 2.905 5.149 7.247 3.287 6.967 17.059 1357 chr16 84991910 84997225 + 0 NA intron (NM_007471, intron 11 of 15) intron (NM_007471, intron 11 of 15) 22356 NR_045889 100038614 Mm.441351 NR_045889 Gm10791 ENSMUSG00000074933 predicted gene 10791 ncRNA 6.714 nan 0.343 3.970 2.152 1.118 2.861 3.911 5.265 4.794 2.228 0.685 5.722 6.155 5.690 6.483 4.834 nan 0.876 0.765 0.603 nan 0.524 0.263 8.009 2333 chr4 8775820 8788269 + 0 NA intron (NM_001277149, intron 2 of 37) intron (NM_001277149, intron 2 of 37) 91638 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.721 2.301 0.803 0.661 0.265 0.219 0.247 nan 0.679 0.548 0.416 0.282 0.340 0.453 0.727 0.718 0.402 0.893 2.006 nan 1.276 6.878 0.817 0.522 0.775 348 chr10 126496184 126497760 + 0 NA Intergenic Intergenic 213419 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 3.703 5.147 2.056 4.008 3.844 3.779 4.534 4.055 1.836 8.777 1.979 2.144 2.840 3.765 4.838 5.255 4.128 4.033 4.632 2.937 5.803 4.452 5.141 7.686 9.716 1152 chr15 76443575 76450903 + 0 NA exon (NM_175457, exon 35 of 44) exon (NM_175457, exon 35 of 44) -10199 NM_198885 20289 Mm.322821 NM_198885 ENSMUSG00000034161 Scx BB114693|Bhlha41|Scl scleraxis protein-coding 7.388 5.665 2.041 4.716 3.563 2.350 11.222 14.052 3.609 nan 5.250 3.172 10.383 7.765 8.707 7.504 6.828 7.343 1.462 0.917 1.110 nan 0.763 0.842 9.818 789 chr12 80988050 80993924 + 0 NA Intergenic Intergenic -22908 NM_001177561 20493 Mm.486361 NM_011387 ENSMUSG00000021135 Slc10a1 Ntcp solute carrier family 10 (sodium/bile acid cotransporter family), member 1 protein-coding 3.089 1.301 0.671 2.900 1.614 0.656 1.153 1.768 1.795 2.183 1.321 2.176 1.742 2.104 1.896 2.883 2.925 2.563 2.298 3.365 1.752 5.447 2.709 1.803 3.165 49 chr1 59635305 59639050 + 0 NA Intergenic B1_Mm|SINE|Alu 33657 NM_009460 22218 Mm.362118 NM_009460 ENSMUSG00000026021 Sumo1 GMP1|PIC1|SENTRIN|SMT3|SMT3H3|SMTP3|SUMO-1|Smt3C|Ubl1 small ubiquitin-like modifier 1 protein-coding 5.276 0.813 0.450 2.716 2.629 1.439 4.911 2.944 3.480 3.713 1.495 1.088 6.296 5.800 5.249 8.379 6.652 5.224 0.881 0.799 0.388 0.792 0.411 0.352 6.396 2046 chr2 160515882 160517337 + 0 NA Intergenic Intergenic -129288 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 2.309 1.691 1.747 3.017 2.151 1.507 2.762 3.525 1.969 2.181 0.952 0.949 3.937 4.207 1.565 2.487 3.242 3.065 nan 0.824 0.613 0.787 0.502 0.637 nan 2052 chr2 160622938 160624490 + 0 NA Intergenic MER33|DNA|hAT-Charlie -22183 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 6.922 1.827 1.038 4.406 2.230 0.905 3.014 5.907 3.346 3.530 1.002 1.092 3.846 4.204 3.765 5.887 4.678 6.095 nan 0.666 0.272 0.711 0.509 0.275 4.503 2967 chr6 100130728 100131686 + 0 NA Intergenic Intergenic 156151 NM_019743 56353 Mm.321633 NM_019743 ENSMUSG00000072872 Rybp 2410018J24Rik|DEDAF|YEAF1 RING1 and YY1 binding protein protein-coding 2.872 1.103 0.347 2.573 1.664 0.744 3.304 5.307 2.754 2.407 0.989 0.948 2.158 4.083 2.311 4.350 1.837 3.352 1.068 nan 0.831 1.090 1.540 0.731 2.777 2868 chr6 52112688 52116394 + 0 NA TTS (NR_110440) TTS (NR_110440) 11592 NR_110440 102635415 Mm.333063 NR_110440 ENSMUSG00000085412 Halr1 Gm15055|Haunt|Linchoxa1|OTTMUSG00000018881|linc-Evx1|linc-Hoxa1|linc1547 Hoxa adjacent long noncoding RNA 1 ncRNA 4.456 2.838 1.330 8.027 3.052 1.668 1.537 1.147 2.483 4.113 1.503 0.835 1.205 2.831 2.261 3.416 1.534 3.339 nan 1.105 0.607 0.812 0.425 0.534 4.026 993 chr14 27326619 27327697 + 0 NA intron (NM_001289686, intron 4 of 12) Lx8|LINE|L1 -8879 NM_001289687 71704 Mm.248606 NM_027871 ENSMUSG00000021895 Arhgef3 1200004I24Rik|9830169H03Rik|C76747|Xpln Rho guanine nucleotide exchange factor (GEF) 3 protein-coding 3.017 0.715 0.451 1.591 1.613 1.259 3.116 5.208 3.484 3.012 4.686 3.802 3.509 3.876 4.142 3.490 3.197 3.768 2.529 1.163 0.520 nan 0.807 0.475 2.558 627 chr11 102177493 102182714 + 0 NA intron (NM_172947, intron 2 of 4) intron (NM_172947, intron 2 of 4) 5153 NM_172947 268490 Mm.259079 NM_172947 ENSMUSG00000020922 Lsm12 1110032E16Rik|1110059P07|2600001B17Rik LSM12 homolog protein-coding 11.603 20.814 7.188 16.308 7.726 6.612 11.846 10.943 9.402 23.876 10.584 7.361 9.795 13.962 11.719 14.521 9.891 13.648 8.787 4.696 7.853 10.461 5.973 10.432 20.567 1090 chr15 38397234 38404834 + 0 NA Intergenic Intergenic 89513 NR_105916 102465574 NR_105916 ENSMUSG00000099110 Mir6951 Gm27765|mmu-mir-6951 microRNA 6951 ncRNA 10.559 9.276 2.530 10.219 3.471 2.111 7.087 11.291 5.161 9.275 7.280 3.982 10.003 8.328 8.230 8.891 6.113 9.117 4.715 1.596 1.716 nan 1.881 2.117 11.326 1308 chr16 22517507 22518952 + 0 NA TTS (NR_130988) TTS (NR_130988) 6749 NR_130988 78082 Mm.243927 NR_130988 ENSMUSG00000089874 9230117E06Rik - RIKEN cDNA 9230117E06 gene ncRNA 2.985 2.147 1.183 3.352 1.135 0.177 4.826 7.560 2.260 3.126 1.012 1.198 5.455 4.764 4.448 7.074 2.956 4.315 3.503 2.659 2.250 7.431 1.897 1.648 5.996 2117 chr2 179813102 179816621 + 0 NA intron (NM_001316723, intron 4 of 5) intron (NM_001316723, intron 4 of 5) 161785 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 2.921 0.572 0.406 1.757 1.839 1.642 3.563 1.726 1.800 1.954 0.946 0.838 4.270 3.843 1.869 3.677 4.998 2.747 1.816 1.653 1.850 1.753 1.965 1.520 4.823 715 chr12 4479527 4480962 + 0 NA Intergenic B4A|SINE|B4 -3062 NM_010881 17977 Mm.301039 NM_010881 ENSMUSG00000020647 Ncoa1 KAT13A|NCoA-1|NRC-1|SRC-1|SRC-a|SRC1|bHLHe74|mNRC-1 nuclear receptor coactivator 1 protein-coding 4.656 1.168 0.468 2.367 2.069 1.060 2.818 1.728 1.908 1.629 0.890 0.702 4.205 4.063 2.175 4.342 4.353 3.190 0.708 1.905 0.974 0.843 0.821 0.976 4.458 1934 chr2 103262371 103277796 + 0 NA intron (NM_007914, intron 6 of 8) intron (NM_007914, intron 6 of 8) 33113 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 4.895 0.467 0.283 2.967 1.234 0.759 4.431 5.291 2.797 3.858 1.340 0.556 5.298 5.571 5.292 8.007 6.726 4.912 0.709 0.764 0.519 nan 0.579 0.477 8.923 2503 chr4 132438942 132441137 + 0 NA Intergenic Intergenic -17593 NM_175306 100169 Mm.158361 NM_175306 ENSMUSG00000066043 Phactr4 3110001B12Rik|AI527228|AW495572|C330013F19Rik|N28169|mKIAA4120 phosphatase and actin regulator 4 protein-coding 9.957 8.734 3.126 10.650 5.915 4.227 6.391 7.909 6.051 10.288 6.590 3.330 6.032 9.269 7.939 10.875 4.186 8.015 7.095 2.753 4.130 8.856 4.349 5.087 14.232 2201 chr3 84755657 84762069 + 0 NA Intergenic Intergenic -56714 NM_001177773 50754 Mm.196475 NM_080428 ENSMUSG00000028086 Fbxw7 1110001A17Rik|AGO|Cdc4|Fbw7|Fbwd6|Fbx30|Fbxo30|Fbxw6|SEL-10 F-box and WD-40 domain protein 7 protein-coding 1.159 0.610 0.645 0.637 0.432 0.154 0.621 1.477 0.796 0.545 0.902 0.545 0.639 0.563 0.529 nan 1.287 0.719 8.068 2.320 1.644 2.599 4.334 3.179 0.603 1916 chr2 91200419 91201515 + 0 NA Intergenic Intergenic -1945 NM_007387 11432 Mm.45570 NM_007387 ENSMUSG00000002103 Acp2 Acp-2|LAP acid phosphatase 2, lysosomal protein-coding 4.717 1.467 1.071 4.402 2.668 1.054 2.546 2.458 2.767 2.883 1.826 1.049 3.004 3.763 2.534 3.590 3.585 4.301 0.817 1.955 1.546 0.965 0.979 0.671 4.585 23 chr1 33702457 33705933 + 0 NA Intergenic L1MA4A|LINE|L1 -15701 NM_008999 19335 Mm.86744 NM_008999 ENSMUSG00000004768 Rab23 AW545388|opb|opb2 RAB23, member RAS oncogene family protein-coding 2.324 0.761 0.554 2.053 4.532 2.774 0.950 1.377 2.317 2.064 0.618 0.793 1.996 4.393 1.065 nan 1.082 1.888 0.595 0.707 1.003 0.416 0.753 0.701 1.028 1722 chr19 5647807 5649991 + 0 NA TTS (NM_009045) TTS (NM_009045) 11409 NM_009045 19697 Mm.249966 NM_009045 ENSMUSG00000024927 Rela p65 v-rel reticuloendotheliosis viral oncogene homolog A (avian) protein-coding 5.416 7.385 2.142 6.098 1.543 0.805 5.500 6.133 3.902 3.801 2.769 1.608 4.094 5.349 6.446 7.301 4.728 5.571 1.362 1.101 0.927 3.733 1.558 1.026 8.630 388 chr11 6503430 6505623 + 0 NA Intergenic PB1D11|SINE|Alu 16432 NM_178440 246177 Mm.239554 NM_178440 ENSMUSG00000020437 Myo1g E430002D17Rik myosin IG protein-coding 2.026 1.718 0.835 3.375 1.307 0.949 3.370 1.831 1.813 3.597 1.425 0.420 1.145 4.529 4.805 4.532 1.730 2.626 5.450 nan 2.960 5.642 2.727 2.380 3.942 364 chr10 127972664 127974090 + 0 NA Intergenic RLTR25B|LTR|ERVK 34131 NM_013786 27400 Mm.26719 NM_013786 ENSMUSG00000025396 Hsd17b6 17betaHSD9|Hsd17b9|Rdh8 hydroxysteroid (17-beta) dehydrogenase 6 protein-coding 5.340 8.899 5.583 4.999 4.099 4.516 4.026 3.697 3.940 3.691 3.267 2.600 3.679 4.281 4.246 3.800 4.856 4.305 2.625 5.551 5.959 3.777 6.704 7.596 3.505 3069 chr7 19812149 19818523 + 0 NA intron (NM_033601, intron 2 of 8) intron (NM_033601, intron 2 of 8) 7419 NM_033601 12051 Mm.439658 NM_033601 ENSMUSG00000053175 Bcl3 AI528691|Bcl-3 B cell leukemia/lymphoma 3 protein-coding 5.175 5.934 2.077 5.777 2.971 2.022 4.754 9.009 4.106 4.512 3.207 2.085 6.532 6.702 7.377 7.726 4.122 6.670 3.526 1.710 1.775 4.114 1.823 1.957 7.802 1425 chr17 24856050 24857923 + 0 NA intron (NM_001159626, intron 4 of 8) intron (NM_001159626, intron 4 of 8) 6319 NM_001159626 14651 Mm.43784 NM_024284 ENSMUSG00000024158 Hagh BC019817|Glo-2|Glo2|Rsp29 hydroxyacyl glutathione hydrolase protein-coding 7.708 9.790 3.832 6.425 7.773 6.297 8.930 4.543 3.301 5.258 4.465 2.564 6.271 7.956 6.404 7.245 3.761 4.879 4.171 3.051 6.526 4.355 2.754 3.596 8.542 950 chr13 73562635 73597904 + 0 NA Intergenic Intergenic -23733 NM_146047 218335 Mm.30099 NM_146047 ENSMUSG00000021610 Clptm1l C130052I12Rik|Crr9 CLPTM1-like protein-coding 6.358 1.251 0.652 4.837 4.585 2.830 6.538 5.015 6.762 8.288 1.129 1.088 8.199 9.937 7.981 nan 4.660 9.165 0.764 0.733 0.662 0.923 0.816 0.619 8.822 2680 chr5 77339075 77340610 + 0 NA intron (NM_153798, intron 17 of 24) B1F|SINE|Alu 29358 NM_153798 231329 Mm.273217 NM_153798 ENSMUSG00000029250 Polr2b Pol2rb|Rpb140|Rpb2 polymerase (RNA) II (DNA directed) polypeptide B protein-coding 3.711 0.476 0.490 1.211 1.093 0.644 3.313 2.533 1.697 1.591 1.421 0.880 2.676 3.766 4.114 3.918 3.166 3.454 0.550 0.621 0.555 0.755 1.001 0.415 3.754 2957 chr6 99116157 99127383 + 0 NA intron (NM_001347345, intron 5 of 19) L1MA6|LINE|L1 -93472 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 8.040 1.704 0.983 6.975 9.661 5.249 8.137 14.318 10.087 11.819 4.457 5.333 10.208 14.165 nan 11.015 8.114 9.976 nan nan 1.585 4.188 2.891 1.779 6.185 1445 chr17 26751198 26759965 + 0 NA intron (NM_029870, intron 4 of 8) intron (NM_029870, intron 4 of 8) -25498 NM_172149 224630 Mm.21795 NM_172149 ENSMUSG00000024191 Bnip1 2010005M06Rik|5930429G21Rik|Sec20 BCL2/adenovirus E1B interacting protein 1 protein-coding 8.018 2.026 0.769 7.834 6.436 3.928 7.269 7.882 6.222 6.486 5.891 3.374 6.322 9.943 6.274 nan 3.496 10.807 2.439 1.516 1.175 4.272 1.795 1.270 9.148 1678 chr18 75855977 75857743 + 0 NA intron (NM_145356, intron 1 of 4) L1MC3|LINE|L1 36682 NM_145356 207259 Mm.159332 NM_145356 ENSMUSG00000044646 Zbtb7c B230208J24Rik|Kr-pok|Zbtb36 zinc finger and BTB domain containing 7C protein-coding 5.027 nan 0.689 6.645 3.068 1.419 2.977 4.376 2.301 6.720 3.285 1.770 3.135 3.828 4.160 4.310 2.949 3.959 4.020 nan 3.206 6.316 4.826 5.884 10.027 1845 chr2 30106803 30109505 + 0 NA intron (NM_001290503, intron 6 of 15) intron (NM_001290503, intron 6 of 15) -14519 NM_001037762 66220 Mm.22538 NM_025428 ENSMUSG00000015335 Zdhhc12 1190004A01Rik zinc finger, DHHC domain containing 12 protein-coding 3.349 6.851 1.145 5.180 1.424 0.947 3.351 6.674 3.396 2.778 5.113 5.543 4.377 4.067 4.732 5.282 1.589 4.643 0.949 0.751 0.874 1.039 0.384 0.323 3.417 1025 chr14 70565605 70581011 + 0 NA 3' UTR (NM_021877, exon 20 of 20) 3' UTR (NM_021877, exon 20 of 20) -4539 NM_153136 213484 Mm.34191 NM_153136 ENSMUSG00000045211 Nudt18 BC036718 nudix (nucleoside diphosphate linked moiety X)-type motif 18 protein-coding 6.440 6.134 1.999 7.213 4.881 2.954 5.791 9.348 5.652 9.008 5.272 2.758 5.381 10.608 5.731 8.088 4.011 8.381 1.389 nan 1.393 2.145 0.957 0.943 8.877 3429 chr9 20938533 20941577 + 0 NA intron (NM_001314011, intron 5 of 38) B3|SINE|B2 12568 NM_001199433 13433 Mm.128580 NM_010066 ENSMUSG00000004099 Dnmt1 Cxxc9|Dnmt|Dnmt1o|MCMT|MTase|Met-1|Met1|MommeD2|m.MmuI DNA methyltransferase (cytosine-5) 1 protein-coding 4.048 6.337 2.572 5.389 3.425 2.760 3.415 2.285 3.757 3.383 1.804 1.722 3.391 4.256 3.654 3.908 1.692 4.789 1.422 1.165 1.452 1.199 0.668 0.446 5.220 3580 chrX 96343867 96346570 + 0 NA intron (NM_001310755, intron 2 of 10) intron (NM_001310755, intron 2 of 10) 22701 NM_001310754 245525 Mm.166749 NM_172931 ENSMUSG00000045802 Hsf3 B230358A15Rik|HSF 3|HSTF 3 heat shock transcription factor 3 protein-coding 4.342 1.301 0.528 4.029 2.941 1.452 4.252 5.790 2.722 3.630 2.624 2.491 4.219 5.521 4.592 5.567 2.602 4.390 0.720 0.853 0.517 1.493 1.170 1.017 6.181 3083 chr7 27955271 27959561 + 0 NA Intergenic RLTR14-int|LTR|ERV1 21741 NM_001081021 338354 Mm.389873 NM_001081021 ENSMUSG00000063047 Zfp780b B230208L21Rik zinc finger protein 780B protein-coding 0.718 12.024 6.270 0.777 0.797 0.465 0.877 1.651 0.756 0.674 0.621 0.288 0.486 0.808 0.712 0.869 0.790 0.997 0.592 0.540 0.537 0.520 0.514 0.455 0.908 3073 chr7 25233579 25236297 + 0 NA intron (NM_001031667, intron 2 of 10) intron (NM_001031667, intron 2 of 10) 2913 NM_001031667 606496 Mm.491101 NM_001031667 ENSMUSG00000057177 Gsk3a 2700086H06Rik glycogen synthase kinase 3 alpha protein-coding 4.759 2.836 1.310 2.970 3.497 2.661 2.643 4.548 2.101 2.573 3.046 1.453 3.302 5.801 3.386 1.807 1.650 3.174 1.742 1.950 1.284 1.513 1.325 0.762 5.393 1992 chr2 148099481 148100827 + 0 NA Intergenic Intergenic -53185 NM_010446 15376 Mm.938 NM_010446 ENSMUSG00000037025 Foxa2 HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b forkhead box A2 protein-coding 2.339 0.675 0.094 1.962 0.936 0.453 1.008 4.386 2.087 2.393 0.478 0.526 3.015 2.898 2.536 3.275 1.726 4.428 nan 0.413 0.206 1.571 0.143 0.149 1.165 2478 chr4 128634532 128635257 + 0 NA Intergenic L2|LINE|L2 -16275 NM_205823 384059 Mm.331901 NM_205823 ENSMUSG00000062545 Tlr12 Gm1365|Tlr11 toll-like receptor 12 protein-coding 2.495 1.690 0.748 3.489 4.297 1.408 2.225 1.402 1.560 3.082 1.730 0.804 2.143 3.887 3.244 4.101 1.200 2.684 0.791 0.720 0.169 1.697 0.901 0.098 3.849 1842 chr2 29017459 29020195 + 0 NA intron (NM_001166705, intron 1 of 5) intron (NM_001166705, intron 1 of 5) 36239 NM_001166705 329375 Mm.425079 NM_001085514 ENSMUSG00000079502 Cfap77 1700101E01Rik|Gm823 cilia and flagella associated protein 77 protein-coding 3.734 0.610 0.528 1.225 1.524 0.338 3.518 1.979 nan 2.297 0.330 0.358 5.284 5.499 3.293 5.632 5.094 3.228 0.739 0.672 0.381 1.016 0.618 0.422 3.972 1466 chr17 28390544 28393513 + 0 NA Intergenic Intergenic -26885 NM_021478 22157 Mm.42102 NM_021478 ENSMUSG00000037446 Tulp1 Tulp1l tubby like protein 1 protein-coding 3.274 2.409 1.760 2.118 4.914 4.431 3.435 3.054 2.268 2.865 4.211 3.353 1.523 3.440 1.610 nan 2.512 1.604 3.465 4.656 4.705 3.093 4.787 5.593 2.493 485 chr11 74946117 74956762 + 0 NA intron (NM_001002764, intron 8 of 18) L1_Mus2|LINE|L1 25567 NM_001002764 103677 Mm.288460 NM_001002764 ENSMUSG00000038290 Smg6 AI317223|AU041178 Smg-6 homolog, nonsense mediated mRNA decay factor (C. elegans) protein-coding nan 2.285 0.931 4.168 1.793 0.713 nan 5.046 2.701 3.265 1.941 1.948 3.213 2.916 nan 4.732 2.649 nan 1.618 1.574 nan 2.807 0.943 0.491 3.404 2340 chr4 8909062 8917394 + 0 NA Intergenic Intergenic 222822 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.599 1.082 0.580 0.781 0.286 0.104 0.241 nan 0.495 0.518 0.362 0.521 0.219 0.245 0.307 0.604 0.361 0.649 2.798 nan 2.040 4.993 2.485 1.707 0.495 2143 chr3 8639487 8643632 + 0 NA Intergenic B4A|SINE|B4 25479 NM_010423 15213 Mm.29581 NM_010423 ENSMUSG00000040289 Hey1 AI316788|AI414254|CHF2|HRT1|Herp2|Hesr1|bHLHb31|hesr-1 hairy/enhancer-of-split related with YRPW motif 1 protein-coding 1.632 0.705 0.409 2.846 0.735 0.711 0.630 0.792 1.768 1.305 0.548 0.464 0.416 0.995 1.044 1.293 0.652 2.356 2.189 1.725 1.004 4.888 1.492 1.769 1.553 778 chr12 76953170 76956229 + 0 NA intron (NM_001146176, intron 1 of 3) intron (NM_001146176, intron 1 of 3) 7549 NM_008558 17187 Mm.268548 NM_008558 ENSMUSG00000059436 Max AA960152|AI875693|bHLHd4|bHLHd5|bHLHd6|bHLHd7|bHLHd8 Max protein protein-coding 5.684 1.718 0.858 4.075 3.849 1.464 3.294 3.249 4.314 3.595 1.790 2.007 6.020 5.763 4.654 nan 5.314 5.180 2.307 1.962 1.223 3.099 1.695 0.948 5.171 3555 chr9 110581926 110594774 + 0 NA intron (NM_001081340, intron 12 of 20) intron (NM_001081340, intron 12 of 20) 36043 NM_026012 67169 Mm.46680 NM_026012 ENSMUSG00000032491 Nradd 2610311B09Rik|BB104149|NRDD|NRH2|PLAIDD neurotrophin receptor associated death domain protein-coding 6.088 2.455 0.998 4.474 4.722 2.702 5.861 7.000 nan nan 8.286 4.060 4.779 7.427 4.829 nan 3.124 nan 1.677 1.379 1.413 1.418 1.639 1.375 nan 3316 chr8 89289351 89294959 + 0 NA Intergenic Intergenic -247993 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 5.622 0.836 0.732 4.095 7.898 3.881 3.206 8.633 nan 5.667 4.883 1.942 6.161 9.037 7.981 8.620 6.344 6.827 nan 1.349 0.995 2.902 0.963 0.649 5.895 720 chr12 29382681 29385909 + 0 NA Intergenic L1Md_T|LINE|L1 -144089 NM_001093775 17933 Mm.253067 NM_008666 ENSMUSG00000061911 Myt1l 2900046C06Rik|2900093J19Rik|C630034G21Rik|Nztf1|Pmng1|Png-1|mKIAA1106 myelin transcription factor 1-like protein-coding 4.421 1.679 0.440 2.810 1.281 0.416 4.699 4.344 2.677 3.663 0.626 1.057 5.816 5.312 5.750 5.765 2.746 5.577 3.408 1.193 0.909 4.056 0.898 0.531 8.559 1270 chr16 10989434 10993216 + 0 NA intron (NM_019980, intron 1 of 3) intron (NM_019980, intron 1 of 3) 1796 NM_019980 56722 Mm.294753 NM_019980 ENSMUSG00000022500 Litaf 3222402J11Rik|C85531|N4WBP3|TBX1 LPS-induced TN factor protein-coding 11.858 6.301 1.829 8.127 4.667 2.268 7.659 10.193 5.836 7.748 6.158 3.881 9.895 10.057 7.988 11.112 5.305 9.384 4.434 2.960 3.172 5.570 3.578 2.972 13.500 2449 chr4 120040396 120045739 + 0 NA intron (NM_010657, intron 2 of 8) intron (NM_010657, intron 2 of 8) -118139 NM_007902 13615 Mm.284855 NM_007902 ENSMUSG00000028635 Edn2 ET-2|PPET2|VIC endothelin 2 protein-coding 2.830 6.214 2.832 2.689 2.642 1.161 3.447 2.819 4.950 6.814 1.328 0.710 4.117 7.740 5.038 5.927 2.944 3.563 1.183 0.856 0.536 1.160 0.805 0.651 7.895 460 chr11 69713721 69716288 + 0 NA Intergenic Intergenic -18906 NM_001159503 619441 Mm.8983 NM_001034097 ENSMUSG00000018752 Tnfsfm13 Tnfsf12-Tnfsf13|Tnfsf12Tnfsf13|Tnfsf12tnfsf13|Twe-pril tumor necrosis factor (ligand) superfamily, membrane-bound member 13 protein-coding 9.513 9.996 4.618 9.073 3.927 2.961 8.260 8.227 4.751 12.244 7.792 5.182 7.708 11.205 9.920 10.742 7.614 9.262 5.183 3.940 3.934 5.440 nan 3.865 13.413 1645 chr18 55075687 55077780 + 0 NA Intergenic B2_Mm2|SINE|B2 -86553 NM_175751 269023 Mm.192984 NM_175751 ENSMUSG00000052713 Zfp608 4932417D18Rik|D430007A19Rik|Znf608 zinc finger protein 608 protein-coding 5.480 nan 0.663 4.315 5.120 1.957 4.093 2.575 3.296 4.495 1.837 1.686 5.594 5.203 5.078 8.299 7.348 5.781 nan 2.015 1.463 nan 2.997 1.947 5.720 3508 chr9 65590453 65593489 + 0 NA intron (NM_172453, intron 7 of 11) intron (NM_172453, intron 7 of 11) 4766 NM_172453 208084 Mm.211032 NM_172453 ENSMUSG00000041064 Pif1 4631410M14|AI449441 PIF1 5'-to-3' DNA helicase protein-coding 3.734 0.761 0.548 3.719 2.044 1.351 2.046 3.029 4.054 4.024 2.137 1.756 3.822 4.779 3.461 4.198 2.701 3.615 nan 1.230 0.841 2.896 1.146 0.819 3.772 324 chr10 87841480 87849686 + 0 NA Intergenic Intergenic -12682 NM_001314010 16000 Mm.268521 NM_010512 ENSMUSG00000020053 Igf1 C730016P09Rik|Igf-1|Igf-I insulin-like growth factor 1 protein-coding 8.719 13.101 7.432 6.255 5.306 3.482 7.623 5.825 6.284 7.792 2.063 1.435 8.524 nan 6.869 8.899 7.762 7.572 1.337 1.321 1.416 nan nan 1.032 8.498 1389 chr16 97813946 97818340 + 0 NA exon (NM_144789, exon 11 of 24) exon (NM_144789, exon 11 of 24) 35084 NM_144789 114604 Mm.328741 NM_144789 ENSMUSG00000014039 Prdm15 C21orf83|E130018M06Rik|ORF62|Zfp298 PR domain containing 15 protein-coding 4.584 0.574 0.351 2.566 3.099 1.476 3.880 5.694 nan 2.829 2.584 2.466 4.964 5.018 4.139 5.225 3.743 nan nan 0.724 0.391 0.961 0.869 0.520 4.838 244 chr10 40217619 40222930 + 0 NA Intergenic B4|SINE|B4 26705 NM_001042556 67239 Mm.11480 NM_023323 ENSMUSG00000038510 Rpf2 2810470K21Rik|AU040229|AU043242|Bxdc1 ribosome production factor 2 homolog protein-coding 4.405 1.304 0.817 2.141 0.619 0.765 2.433 3.829 3.709 3.065 2.601 7.220 2.009 2.991 3.515 3.685 3.283 4.334 1.872 1.380 1.362 2.030 1.170 0.891 3.336 637 chr11 106752181 106759986 + 0 NA intron (NM_001271375, intron 3 of 6) RSINE1|SINE|B4 4857 NM_001033435 380732 Mm.343952 NM_001033435 ENSMUSG00000040528 Milr1 Allergin-1|Gm885|Mca32 mast cell immunoglobulin like receptor 1 protein-coding 2.694 0.845 0.877 nan 3.720 2.814 3.133 2.840 nan nan 2.449 1.784 4.589 4.943 3.900 3.612 5.065 3.656 0.990 1.199 0.802 nan 0.848 1.027 1.530 2066 chr2 163425278 163426721 + 0 NA Intergenic Lx9|LINE|L1 -6529 NM_025699 66680 Mm.25119 NM_025699 ENSMUSG00000035399 Oser1 3230401D17Rik|AI256769|Perit1 oxidative stress responsive serine rich 1 protein-coding 3.742 7.168 5.290 3.395 2.714 1.783 2.072 2.630 2.817 2.712 1.337 0.937 4.023 4.736 2.719 2.329 2.111 3.150 nan 1.011 0.951 1.777 0.683 0.856 1.367 3220 chr8 11774023 11776075 + 0 NA intron (NM_001113517, intron 2 of 18) L1MDa|LINE|L1 16719 NM_001113518 54126 Mm.244068 NM_017402 ENSMUSG00000031511 Arhgef7 Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR Rho guanine nucleotide exchange factor (GEF7) protein-coding 5.887 1.363 0.228 3.891 1.980 0.771 4.707 7.035 2.938 3.452 5.142 2.220 5.469 5.385 5.761 6.797 5.571 5.864 3.421 1.929 0.972 6.427 1.123 0.354 9.491 2811 chr5 151894474 151898012 + 0 NA Intergenic Intergenic -245035 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 3.612 0.613 0.654 nan 4.065 2.665 3.069 1.433 nan 2.341 1.197 0.906 1.709 4.231 2.042 nan 1.943 3.921 1.052 0.746 0.909 0.658 0.972 0.882 nan 2679 chr5 76952690 76954751 + 0 NA intron (NM_025939, intron 1 of 8) B2_Mm2|SINE|B2 -2142 NM_172146 231327 Mm.202337 NM_172146 ENSMUSG00000029246 Ppat 5730454C12Rik|AA408689|AA675351|AI507113|C79945 phosphoribosyl pyrophosphate amidotransferase protein-coding 5.801 1.763 1.207 1.812 1.425 0.408 2.755 4.148 2.350 2.322 5.572 2.109 2.652 3.516 3.266 2.265 1.849 2.593 0.971 1.619 0.297 0.637 0.838 0.253 3.101 752 chr12 57414252 57426430 + 0 NA intron (NM_001164370, intron 9 of 9) intron (NM_001164370, intron 9 of 9) 125780 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 2.215 nan 0.505 1.011 1.696 0.773 1.749 1.840 1.858 1.857 1.262 0.770 1.672 2.480 nan nan 2.170 nan 6.551 2.289 1.481 4.727 1.061 0.760 2.643 1232 chr15 101240032 101248344 + 0 NA Intergenic Intergenic -19002 NR_045328 380977 Mm.399924 NR_045326 ENSMUSG00000097915 A330009N23Rik - RIKEN cDNA A330009N23 gene ncRNA 8.085 1.065 0.486 4.874 5.220 2.432 11.558 14.003 5.013 7.227 8.355 3.657 10.173 10.325 7.604 nan 6.808 7.680 7.336 3.827 3.515 7.154 7.158 5.747 9.395 2899 chr6 82602200 82603622 + 0 NA Intergenic L1ME4c|LINE|L1 49954 NM_025882 66979 Mm.195753 NM_025882 ENSMUSG00000030042 Pole4 2400007P05Rik|5830430F06Rik polymerase (DNA-directed), epsilon 4 (p12 subunit) protein-coding 6.669 10.458 3.954 7.380 4.510 2.655 9.491 8.311 4.398 8.231 4.602 4.435 7.587 8.140 9.489 11.449 8.004 7.605 4.155 2.531 2.619 5.833 3.374 3.849 10.543 3045 chr6 145829516 145835884 + 0 NA Intergenic Intergenic 24317 NM_027760 71323 Mm.158669 NM_027760 ENSMUSG00000030259 Rassf8 5133400D11Rik|AA815821|AW123240|Hoj1|mHoj-1 Ras association (RalGDS/AF-6) domain family (N-terminal) member 8 protein-coding nan 1.613 0.800 nan 1.670 1.242 3.065 nan 2.012 nan 3.672 1.904 nan 6.711 4.288 nan 4.379 3.133 2.490 nan 0.819 nan 1.906 1.101 nan 2941 chr6 97152572 97162635 + 0 NA intron (NM_001081111, intron 15 of 16) intron (NM_001081111, intron 15 of 16) -8720 NM_175313 101351 Mm.116802 NM_175313 ENSMUSG00000035245 Eogt A130022J15Rik|AI447490|AW214473|AW259391|Aer61 EGF domain-specific O-linked N-acetylglucosamine (GlcNAc) transferase protein-coding 6.165 8.243 3.967 5.810 3.364 1.922 5.177 6.110 4.642 5.091 3.700 3.887 6.353 5.989 nan nan 6.000 6.349 nan nan 1.311 3.113 1.577 1.382 5.952 379 chr11 4207839 4209474 + 0 NA intron (NM_134023, intron 2 of 8) intron (NM_134023, intron 2 of 8) -9595 NM_028022 71962 Mm.7852 NM_028022 ENSMUSG00000020424 Gatsl3 2410008K03Rik GATS protein-like 3 protein-coding 6.760 5.208 2.217 5.355 3.336 1.078 6.881 6.767 4.544 6.834 7.652 4.757 6.726 8.362 6.476 7.180 4.079 6.049 3.107 nan 0.622 2.883 1.465 0.923 5.638 1607 chr18 24029493 24037028 + 0 NA Intergenic IAPLTR2_Mm|LTR|ERVK -12489 NM_021559 59057 Mm.417427 NM_021559 ENSMUSG00000051469 Zfp24 3526401F17Rik|5033419P20Rik|AI480505|AI642085|AL024422|KOX17|ZF-12|Zfp191|Znf191|Znf24|Znp191 zinc finger protein 24 protein-coding 4.368 1.605 0.857 3.386 2.364 1.408 3.219 7.941 2.152 2.738 0.595 0.791 4.689 3.997 2.939 4.685 3.885 4.289 nan 1.432 0.943 nan 1.969 1.429 3.070 1386 chr16 95677413 95680646 + 0 NA Intergenic Intergenic -23378 NM_011809 23872 Mm.290207 NM_011809 ENSMUSG00000022895 Ets2 AU022856|Ets-2 E26 avian leukemia oncogene 2, 3' domain protein-coding 5.937 1.311 0.525 6.975 3.109 1.796 2.404 2.029 4.001 4.344 2.329 1.156 1.959 3.093 2.614 4.547 2.146 6.030 nan 1.933 1.086 1.260 1.148 0.685 3.950 3404 chr8 125046301 125053032 + 0 NA Intergenic Intergenic -4529 NM_174853 244667 Mm.233504 NM_170596 ENSMUSG00000043051 Disc1 - disrupted in schizophrenia 1 protein-coding 9.504 2.027 0.681 9.069 4.821 3.295 5.188 10.841 5.218 6.318 5.924 2.954 8.526 9.196 7.749 11.134 6.733 10.199 nan 1.256 1.290 3.108 0.803 nan 14.303 1536 chr17 47903219 47907539 + 0 NA intron (NM_001110824, intron 1 of 16) intron (NM_001110824, intron 1 of 16) 19253 NM_028767 74123 Mm.240062 NM_028767 ENSMUSG00000023991 Foxp4 1200010K03Rik|2310007G05Rik|mFKHLA forkhead box P4 protein-coding 5.974 17.689 7.136 3.773 2.429 1.255 2.037 2.477 2.257 3.029 2.440 0.904 1.727 3.529 2.039 2.950 nan 2.886 0.898 1.699 1.570 0.839 0.557 0.199 4.848 1639 chr18 53503865 53507787 + 0 NA intron (NM_001033281, intron 2 of 6) CT-rich|Low_complexity|Low_complexity 41280 NM_001033281 225518 Mm.297645 NM_001033281 ENSMUSG00000069378 Prdm6 Gm92|PRISM PR domain containing 6 protein-coding nan nan 0.497 nan 1.101 0.483 1.607 nan 0.705 0.762 5.902 1.820 nan 0.900 1.031 0.659 0.881 nan nan 0.641 0.521 nan 0.367 0.359 nan 1035 chr14 99573285 99576795 + 0 NA Intergenic L2|LINE|L2 276349 NM_009769 12224 Mm.30262 NM_009769 ENSMUSG00000005148 Klf5 4930520J07Rik|Bteb2|CKLF|IKLF Kruppel-like factor 5 protein-coding 5.831 nan 0.519 3.713 3.295 2.049 4.869 7.053 5.900 7.780 4.073 2.397 6.000 8.954 5.781 6.400 3.821 8.534 1.504 1.001 0.541 0.992 1.798 1.375 7.062 3367 chr8 120942773 120948626 + 0 NA Intergenic (TCCA)n|Simple_repeat|Simple_repeat 137411 NR_045471 68790 Mm.246916 NR_045471 ENSMUSG00000097336 Fendrr 1110050K14Rik|LL66|linc-Foxf1a|lincFoxf1 Foxf1 adjacent non-coding developmental regulatory RNA ncRNA 0.442 0.441 0.269 0.338 0.289 0.021 0.322 0.297 0.296 0.312 0.421 0.378 0.160 0.312 0.295 nan 0.247 0.304 1.568 1.015 0.528 6.668 1.059 0.628 0.502 2617 chr4 155264937 155269121 + 0 NA intron (NM_001039079, intron 13 of 14) RSINE1|SINE|B4 17063 NR_033802 67513 Mm.10374 NM_001190445 ENSMUSG00000073684 Faap20 2610002J02Rik Fanconi anemia core complex associated protein 20 protein-coding 5.475 8.088 2.433 8.042 2.061 1.451 3.541 5.645 3.414 7.559 4.272 1.962 3.265 5.683 5.415 7.244 2.871 6.241 5.120 1.508 1.813 5.321 2.530 3.054 11.134 452 chr11 69445633 69448436 + 0 NA intron (NM_001081330, intron 61 of 85) (TGGGGG)n|Simple_repeat|Simple_repeat -33359 NM_001017426 216850 Mm.261201 NM_001017426 ENSMUSG00000018476 Kdm6b 1700064E03Rik|BC038313|Jmjd3|mKIAA0346 KDM1 lysine (K)-specific demethylase 6B protein-coding 5.243 7.493 2.607 5.807 4.442 4.358 4.152 4.005 3.818 7.844 4.335 2.990 3.848 6.386 4.918 5.897 4.334 4.846 3.691 2.893 3.444 3.486 nan 4.386 6.716 579 chr11 97686320 97688526 + 0 NA intron (NM_001085500, intron 2 of 2) intron (NM_001085500, intron 2 of 2) 1471 NM_001085500 217149 Mm.29659 NM_001085500 ENSMUSG00000078695 Cisd3 Mel-13|Mel13 CDGSH iron sulfur domain 3 protein-coding 2.588 4.132 0.502 3.422 1.865 0.684 1.941 2.989 2.139 2.067 3.702 2.168 1.984 4.167 2.436 1.907 nan 2.521 0.943 nan 0.868 0.892 nan nan 2.101 295 chr10 79805972 79808809 + 0 NA intron (NM_023128, intron 3 of 8) intron (NM_023128, intron 3 of 8) -13631 NM_030218 78906 Mm.33087 NM_030218 ENSMUSG00000035852 Misp 9130017N09Rik mitotic spindle positioning protein-coding 6.437 1.003 0.770 5.822 3.843 2.803 6.300 10.254 4.049 5.936 7.924 4.526 6.710 10.833 4.360 7.215 3.898 6.215 nan 1.367 1.081 0.988 1.038 0.858 5.789 1894 chr2 57033892 57034820 + 0 NA Intergenic L1_Mus1|LINE|L1 80682 NM_013613 18227 Mm.3507 NM_013613 ENSMUSG00000026826 Nr4a2 HZF-3|NOT|Nurr1|RNR-1|TINOR|TINUR nuclear receptor subfamily 4, group A, member 2 protein-coding 4.561 8.289 3.231 5.972 1.187 0.909 5.375 6.089 4.454 5.352 4.836 2.788 5.739 5.186 8.760 11.019 7.349 4.503 4.992 2.078 1.565 5.401 2.380 1.433 5.497 535 chr11 93997337 94001757 + 0 NA intron (NM_001199203, intron 1 of 29) intron (NM_001199203, intron 1 of 29) 3456 NM_027569 70834 Mm.260737 NM_027569 ENSMUSG00000020859 Spag9 3110018C07Rik|4733401I23Rik|4831406C20Rik|AW552012|JLP|JSAP2|JSAP2a|Jip4|Mapk8ip4|syd1 sperm associated antigen 9 protein-coding 1.410 nan 0.409 2.376 0.954 0.511 0.805 2.264 1.461 1.394 1.675 1.302 0.995 1.433 1.637 2.484 nan 1.679 3.541 4.816 4.061 8.891 nan nan 1.872 1618 chr18 37981680 37987787 + 0 NA intron (NM_001205336, intron 17 of 32) intron (NM_001205336, intron 17 of 32) 6212 NR_105946 102466913 NR_105946 ENSMUSG00000098297 Mir6980 Gm27969|mmu-mir-6980 microRNA 6980 ncRNA 10.112 2.022 1.061 5.572 3.511 1.856 8.390 9.444 3.682 5.012 2.993 2.525 7.764 8.837 6.524 nan 6.591 6.946 2.823 3.093 1.846 3.822 3.792 2.431 9.577 3301 chr8 85000543 85001966 + 0 NA intron (NM_001167991, intron 18 of 21) intron (NM_001167991, intron 18 of 21) 10659 NM_001167991 170833 Mm.247775 NM_133255 ENSMUSG00000052566 Hook2 A630054I03Rik hook microtubule tethering protein 2 protein-coding 3.067 0.668 1.261 0.890 2.867 1.695 3.118 3.258 nan 1.721 2.368 0.610 6.090 3.973 3.477 2.701 3.062 1.890 nan 0.600 0.608 0.624 0.669 0.403 1.721 3138 chr7 80903525 80907860 + 0 NA promoter-TSS (NM_001291280) promoter-TSS (NM_001291280) -630 NM_001291280 68039 Mm.22246 NM_026523 ENSMUSG00000025723 Nmb 3110023K12Rik neuromedin B protein-coding 3.460 0.590 0.303 3.269 3.464 1.562 1.931 2.341 3.633 6.653 0.621 0.845 3.576 4.555 2.540 3.144 1.933 5.205 0.903 0.671 0.749 0.671 1.443 0.764 3.544 3136 chr7 80884903 80888553 + 0 NA Intergenic Intergenic 14541 NM_028026 71968 Mm.274226 NM_028026 ENSMUSG00000025722 Wdr73 1200011I23Rik|2410008B13Rik|AI848574|C85352 WD repeat domain 73 protein-coding 6.866 1.185 0.212 7.179 2.076 1.666 6.741 10.683 5.250 12.243 0.642 1.717 8.221 7.412 7.572 7.708 4.842 9.717 3.641 1.043 1.041 2.664 3.805 3.063 10.276 77 chr1 74480198 74485391 + 0 NA intron (NM_176972, intron 8 of 25) MLT1A|LTR|ERVL-MaLR 23027 NM_001310662 319651 Mm.66568 NM_176972 ENSMUSG00000033364 Usp37 4932415L06Rik|C330008N13Rik ubiquitin specific peptidase 37 protein-coding 4.464 1.861 0.885 2.217 1.529 1.004 3.981 4.527 3.344 2.321 2.575 2.867 3.190 4.068 4.256 5.992 3.192 4.185 6.229 nan 1.648 3.568 nan 2.872 nan 683 chr11 119557400 119558610 + 0 NA intron (NR_045099, intron 1 of 3) intron (NR_045099, intron 1 of 3) 9375 NR_045099 100503830 Mm.428077 NR_045099 ENSMUSG00000087675 Gm11762 OTTMUSG00000004029 predicted gene 11762 ncRNA 1.348 0.690 0.176 1.676 3.097 2.340 nan 2.650 2.584 nan 2.797 2.801 1.531 3.884 2.212 2.831 1.580 4.066 1.162 nan 0.203 0.757 0.852 0.310 1.672 2260 chr3 95329973 95333829 + 0 NA intron (NM_001163641, intron 14 of 21) intron (NM_001163641, intron 14 of 21) 13071 NM_001320492 76893 Mm.181009 NM_029789 ENSMUSG00000015714 Cers2 0610013I17Rik|AI225939|Lass2|TRH3 ceramide synthase 2 protein-coding 6.105 8.559 6.923 2.996 2.546 2.127 1.407 1.592 3.042 3.052 nan 1.499 1.820 2.801 2.721 2.702 2.622 2.516 1.276 1.907 2.131 0.602 0.969 0.744 2.492 541 chr11 94353171 94364156 + 0 NA intron (NM_029600, intron 23 of 30) intron (NM_029600, intron 23 of 30) 30662 NM_146024 71452 Mm.141054 NM_027799 ENSMUSG00000020864 Ankrd40 1110011C06Rik|5530600A18Rik|Gcap15 ankyrin repeat domain 40 protein-coding 6.064 nan 0.249 5.992 4.303 2.300 6.472 7.053 5.342 9.002 3.327 1.719 7.360 10.487 8.048 9.577 nan 8.456 2.670 nan 1.570 5.100 nan nan 9.548 1215 chr15 100266024 100267895 + 0 NA Intergenic Intergenic -13878 NM_183109 75002 Mm.261400 NM_183109 ENSMUSG00000045631 Tmprss12 4930478A21Rik transmembrane (C-terminal) protease, serine 12 protein-coding 2.046 0.800 0.654 1.726 2.954 1.575 5.371 8.828 1.628 2.242 0.544 0.954 4.243 6.876 4.321 2.886 4.338 2.383 0.803 0.515 0.353 0.732 0.617 0.474 2.696 2995 chr6 122289329 122290945 + 0 NA Intergenic Intergenic -7304 NM_016970 50928 Mm.20434 NM_016970 ENSMUSG00000030114 Klrg1 2F1-Ag|MAFA|MAFA-L killer cell lectin-like receptor subfamily G, member 1 protein-coding 8.232 8.267 2.922 7.259 4.007 2.683 11.776 10.184 4.652 11.669 6.388 5.085 7.545 11.137 8.916 13.320 9.314 7.984 7.133 7.650 4.975 8.390 nan 9.318 11.306 1712 chr19 4256648 4258343 + 0 NA Intergenic Intergenic 6383 NR_105951 102465595 NR_105951 ENSMUSG00000099290 Mir6985 Gm27719|mmu-mir-6985 microRNA 6985 ncRNA 3.432 4.924 1.437 3.630 1.091 0.853 4.470 4.706 2.928 3.729 2.186 1.416 3.805 5.133 5.897 6.232 4.414 4.462 1.413 1.194 1.491 2.875 1.932 1.135 6.293 2344 chr4 15916212 15917778 + 0 NA TTS (NM_026172) TTS (NM_026172) 25996 NR_105826 102466644 NR_105826 ENSMUSG00000098929 Mir6400 Gm27425|mmu-mir-6400 microRNA 6400 ncRNA 3.075 2.425 1.389 1.694 2.111 1.676 4.703 5.065 2.099 2.801 1.983 0.639 3.397 4.315 3.664 4.195 2.887 3.297 0.840 0.629 0.550 0.371 0.380 0.609 5.439 765 chr12 72936684 72939324 + 0 NA Intergenic Intergenic -1878 NM_011384 20476 Mm.57138 NM_011384 ENSMUSG00000021099 Six6 Optx2|Six9 sine oculis-related homeobox 6 protein-coding 3.900 3.329 2.080 5.431 1.720 1.010 1.595 1.809 3.521 3.262 1.650 1.225 2.809 2.462 3.073 5.156 1.847 4.882 1.540 1.011 0.645 2.943 0.999 0.438 4.059 2552 chr4 141783819 141787597 + 0 NA intron (NM_172338, intron 2 of 14) PB1D10|SINE|Alu 4936 NM_172338 214063 Mm.39102 NM_172338 ENSMUSG00000040697 Dnajc16 2900037O03Rik|4732437J24Rik|D030060M24|mKIAA0962 DnaJ heat shock protein family (Hsp40) member C16 protein-coding nan 0.693 0.308 2.555 0.998 0.690 3.991 3.543 nan 1.695 3.521 1.552 3.228 3.049 4.258 4.359 2.465 nan 0.793 0.637 0.682 1.154 nan 0.252 6.501 2521 chr4 135562329 135563969 + 0 NA intron (NM_001013756, intron 1 of 15) intron (NM_001013756, intron 1 of 15) 10471 NM_001013756 230824 Mm.331972 NM_001013756 ENSMUSG00000037188 Grhl3 AI561912|Get1|Som|Tfcp2l4|ct grainyhead-like 3 (Drosophila) protein-coding 2.993 2.302 1.265 3.105 5.268 4.618 6.955 5.127 4.555 3.984 3.161 1.894 5.979 5.991 5.111 5.084 2.798 4.749 1.320 0.732 0.671 1.157 nan 1.607 4.075 897 chr13 45779586 45782530 + 0 NA intron (NM_001199304, intron 4 of 6) intron (NM_001199304, intron 4 of 6) 183933 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding nan 2.612 1.016 3.288 3.138 1.860 3.547 2.395 3.053 3.165 1.677 1.613 3.465 5.625 5.252 5.856 1.850 5.818 3.575 nan 0.659 2.837 1.136 0.644 7.134 312 chr10 80764965 80766914 + 0 NA intron (NM_199322, intron 2 of 27) PB1D10|SINE|Alu 10733 NM_199322 208266 Mm.152371 NM_199322 ENSMUSG00000061589 Dot1l A630076O07|AW907654|Dot1|KMT4|mDot1 DOT1-like, histone H3 methyltransferase (S. cerevisiae) protein-coding 6.007 10.535 4.148 7.058 2.651 1.093 1.553 1.909 2.709 3.477 2.038 0.968 1.141 3.454 3.711 4.111 1.564 4.492 nan 1.256 1.747 2.266 0.602 0.737 6.907 1628 chr18 39400010 39402132 + 0 NA Intergenic Lx9|LINE|L1 86174 NM_008173 14815 Mm.129481 NM_008173 ENSMUSG00000024431 Nr3c1 GR|Grl-1|Grl1 nuclear receptor subfamily 3, group C, member 1 protein-coding 6.256 1.048 0.508 2.784 1.793 0.833 3.792 6.357 2.262 2.252 1.127 0.728 4.352 3.659 3.770 3.978 2.994 3.724 1.520 0.554 0.862 1.480 0.883 0.450 4.577 3219 chr8 11687903 11692744 + 0 NA Intergenic Intergenic 4191 NR_028307 624710 Mm.482623 NR_028307 ENSMUSG00000110177 Gm6524 EG624710 katanin p60 (ATPase-containing) subunit A1 pseudogene pseudo 1.187 0.443 0.552 0.718 1.495 0.907 1.005 0.711 1.020 1.104 0.451 0.333 0.563 1.018 0.893 1.087 1.230 1.214 1.206 2.191 1.566 4.597 0.765 0.798 1.299 2435 chr4 117769777 117772770 + 0 NA Intergenic Intergenic -5607 NM_029416 75753 Mm.3848 NM_029416 ENSMUSG00000048626 Klf17 7420700M05Rik|AA420409|AU043468|C85123|D4Ertd561e|Gzf|Zfp393 Kruppel-like factor 17 protein-coding 4.184 0.683 0.416 2.473 2.345 1.170 4.543 3.885 3.387 4.393 0.690 0.594 5.780 6.391 4.939 6.521 2.881 5.603 0.564 0.724 0.637 0.727 0.407 0.191 7.197 1002 chr14 47322623 47325517 + 0 NA TTS (NM_178684) TTS (NM_178684) 25756 NM_178684 218975 Mm.212297 NM_178684 ENSMUSG00000021840 Mapk1ip1l 9130202B12|C130032J12Rik mitogen-activated protein kinase 1 interacting protein 1-like protein-coding 7.100 0.663 0.277 3.865 2.489 1.547 8.241 9.426 3.319 3.972 2.548 1.549 7.222 9.473 7.608 6.963 5.351 4.583 1.322 1.215 0.889 1.989 0.516 0.447 9.178 237 chr10 20319689 20322071 + 0 NA intron (NM_001025392, intron 2 of 12) intron (NM_001025392, intron 2 of 12) 8411 NM_001025393 72567 Mm.294783 NM_153787 ENSMUSG00000037608 Bclaf1 2610102K23Rik|2700025J07Rik|2810454G14Rik|5730534O06Rik|AI450190|AW556225|Btf|mKIAA0164 BCL2-associated transcription factor 1 protein-coding 2.551 0.471 0.821 1.396 2.327 0.931 1.115 1.571 2.253 2.098 0.251 0.429 1.896 nan 2.801 3.357 4.058 1.877 0.561 1.637 0.566 0.596 1.094 0.470 nan 2584 chr4 151381427 151385534 + 0 NA intron (NM_001081557, intron 5 of 23) intron (NM_001081557, intron 5 of 23) 293910 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 6.893 5.351 1.164 11.194 2.478 1.731 5.639 8.806 5.236 11.723 5.813 2.913 8.669 10.868 9.155 9.587 3.610 10.158 3.303 0.683 1.151 8.269 0.908 1.515 13.375 370 chr10 128179986 128186074 + 0 NA Intergenic ID_B1|SINE|B4 -2733 NM_001039080 56516 Mm.42247 NM_019711 ENSMUSG00000040043 Rbms2 2610315E04Rik|Scr3 RNA binding motif, single stranded interacting protein 2 protein-coding 11.010 13.605 6.129 10.741 7.403 4.583 6.236 8.728 7.341 9.494 10.526 5.588 7.884 11.584 8.097 9.441 9.794 8.733 4.529 4.416 3.941 3.829 nan 4.892 11.522 2722 chr5 114274548 114279117 + 0 NA Intergenic Intergenic -3071 NM_148935 116810 Mm.17709 NM_148935 ENSMUSG00000042002 Foxn4 - forkhead box N4 protein-coding 2.748 7.757 1.730 3.178 1.302 0.789 0.906 0.569 1.509 1.531 2.167 0.910 0.656 1.270 1.532 1.952 0.887 1.719 nan nan 1.991 0.507 nan 0.620 2.360 2371 chr4 55026220 55027650 + 0 NA intron (NM_172867, intron 7 of 12) intron (NM_172867, intron 7 of 12) 78990 NM_172867 242466 Mm.102904 NM_172867 ENSMUSG00000060206 Zfp462 6030417H05|9430078C22Rik|Gt4-2|Zfpip zinc finger protein 462 protein-coding 2.718 nan 0.111 0.905 0.624 0.766 nan 1.883 1.110 0.776 0.658 0.160 3.330 3.639 1.617 3.922 1.488 1.841 nan 0.866 0.233 0.988 0.502 0.340 2.780 2519 chr4 135125579 135130027 + 0 NA intron (NM_019732, intron 1 of 5) ID_B1|SINE|B4 7158 NM_019732 12399 Mm.378894 NM_019732 ENSMUSG00000070691 Runx3 AML2|Cbfa3|Pebp2a3 runt related transcription factor 3 protein-coding nan 2.067 0.844 1.780 1.196 0.493 2.319 2.403 nan 2.176 7.111 2.885 2.090 3.779 2.807 3.066 0.864 nan 3.542 1.557 1.444 3.479 nan 1.275 2.710 3398 chr8 124846818 124850282 + 0 NA intron (NM_025615, intron 2 of 6) MERVL-int|LTR|ERVL 14479 NM_025615 66523 Mm.436864 NM_025615 ENSMUSG00000031984 2810004N23Rik 3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55 RIKEN cDNA 2810004N23 gene protein-coding 3.370 1.787 0.685 2.420 1.441 0.640 3.907 5.029 2.085 2.712 0.690 0.920 4.287 4.521 4.322 4.926 3.913 3.972 nan 0.688 0.952 nan 1.297 nan 6.939 2923 chr6 87481243 87484798 + 0 NA intron (NM_001037727, intron 4 of 10) intron (NM_001037727, intron 4 of 10) 13307 NR_104483 232201 Mm.119564 NM_175476 ENSMUSG00000030047 Arhgap25 A130039I20Rik Rho GTPase activating protein 25 protein-coding 5.808 17.602 9.822 3.701 2.014 0.492 2.248 1.671 3.118 3.808 1.879 1.058 1.452 2.806 2.359 2.847 2.284 nan nan 2.656 0.965 0.637 0.635 0.407 3.115 2610 chr4 154577329 154584314 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 55546 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 5.126 2.152 1.217 4.417 4.244 2.167 4.117 5.120 3.415 3.970 1.713 1.794 3.830 4.544 4.360 4.931 2.584 4.541 1.879 1.381 1.060 2.693 0.992 0.646 4.903 567 chr11 96398136 96400829 + 0 NA Intergenic Intergenic 33724 NM_008266 15407 Mm.890 NM_008266 ENSMUSG00000018973 Hoxb1 Hox-2.9 homeobox B1 protein-coding 0.359 nan 0.147 0.418 0.248 0.047 0.243 0.345 0.347 0.475 0.182 0.109 0.248 0.303 0.151 0.498 nan 0.468 2.018 3.321 1.129 6.617 nan nan 0.379 416 chr11 51890321 51892260 + 0 NA Intergenic Intergenic -33809 NM_199299 76901 Mm.259996 NM_199299 ENSMUSG00000020387 Jade2 1200017K05Rik|AI480685|Phf15|mKIAA0239 jade family PHD finger 2 protein-coding 6.230 2.365 1.537 4.840 7.831 7.503 4.937 7.572 3.233 3.098 6.478 3.640 4.237 6.017 5.586 5.589 5.296 5.595 nan 1.470 0.695 nan nan 1.206 4.106 2950 chr6 98936702 98946778 + 0 NA intron (NM_001347345, intron 16 of 19) intron (NM_001347345, intron 16 of 19) 86558 NM_001197322 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 3.000 3.064 1.924 2.906 1.987 0.933 1.702 1.676 1.618 1.645 1.544 0.587 1.338 1.851 nan nan 1.959 2.961 nan nan 1.220 4.357 2.404 1.694 2.106 3212 chr7 142926581 142928120 + 0 NA Intergenic Intergenic -27384 NM_009377 21823 Mm.1292 NM_009377 ENSMUSG00000000214 Th - tyrosine hydroxylase protein-coding 4.075 4.092 1.911 2.173 2.223 0.317 7.936 7.372 nan 1.282 2.973 1.355 6.839 6.744 4.582 4.465 7.093 4.652 1.919 2.623 1.640 1.952 2.980 2.646 7.071 3115 chr7 36138693 36141851 + 0 NA Intergenic L1Md_A|LINE|L1 -337283 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 1.708 0.653 0.332 1.044 0.361 0.466 4.028 5.895 2.381 1.184 1.913 4.164 3.363 2.014 2.932 2.199 1.686 2.182 1.118 0.418 0.428 0.966 0.806 0.602 1.200 914 chr13 48520525 48534809 + 0 NA Intergenic L1ME1|LINE|L1 8447 NR_029656 387247 NR_029656 ENSMUSG00000065453 Mirlet7d Mirnlet7d|let-7d|mmu-let-7d microRNA let7d ncRNA nan 0.529 0.444 nan 0.185 0.087 0.256 0.350 0.231 0.229 0.334 0.231 0.058 0.171 0.234 0.453 0.246 nan 6.975 nan 3.382 7.657 5.796 4.194 nan 380 chr11 5847314 5850591 + 0 NA Intergenic Intergenic -10936 NM_017401 54125 Mm.260194 NM_017401 ENSMUSG00000020474 Polm AI462166|B230309I03Rik|Tdt-N polymerase (DNA directed), mu protein-coding 1.357 0.932 0.338 0.830 0.734 0.220 0.484 0.722 0.648 0.634 1.089 0.824 0.439 0.834 0.898 0.856 0.766 0.739 8.113 3.495 2.910 10.594 5.531 3.648 1.228 100 chr1 92122736 92124709 + 0 NA intron (NM_207225, intron 2 of 26) intron (NM_207225, intron 2 of 26) 56619 NM_207225 208727 Mm.318567 NM_207225 ENSMUSG00000026313 Hdac4 4932408F19Rik|HD4 histone deacetylase 4 protein-coding 4.437 0.501 0.375 1.242 3.304 2.951 4.015 4.678 2.546 2.636 6.042 3.097 3.463 3.350 2.288 3.206 1.366 2.750 0.668 0.760 0.636 nan 0.628 0.579 2.418 3206 chr7 139536581 139540002 + 0 NA intron (NM_183144, intron 9 of 15) intron (NM_183144, intron 9 of 15) 44506 NM_183248 14912 Mm.28308 NM_183248 ENSMUSG00000041309 Nkx6-2 Gtx|Nkx6.2 NK6 homeobox 2 protein-coding 5.485 1.915 0.683 3.859 3.625 2.116 5.483 2.696 3.784 4.179 1.125 0.754 5.517 6.225 5.214 2.770 1.150 6.452 0.525 0.693 0.322 0.612 0.335 0.363 6.102 965 chr13 114016509 114018879 + 0 NA intron (NM_172595, intron 4 of 4) intron (NM_172595, intron 4 of 4) 133898 NR_045836 319803 Mm.386896 NM_177004 A430090L17Rik - RIKEN cDNA A430090L17 gene ncRNA 3.725 1.227 0.713 2.731 2.391 1.254 2.677 2.940 3.274 5.016 4.384 0.837 3.967 6.475 5.279 8.294 3.444 4.374 0.413 0.447 0.285 1.284 0.199 0.109 5.686 300 chr10 80065052 80067047 + 0 NA intron (NM_183426, intron 14 of 31) B3|SINE|B2 12030 NM_001037741 625249 Mm.332810 NM_008162 ENSMUSG00000075706 Gpx4 GPx-4|GSHPx-4|PHGPx|mtPHGPx|snGPx glutathione peroxidase 4 protein-coding 9.125 14.657 4.172 7.744 3.590 1.077 6.086 7.387 4.331 6.058 4.019 3.599 5.226 7.360 8.144 8.968 3.865 8.196 5.304 2.257 1.464 6.510 3.172 1.720 9.815 1279 chr16 14799687 14801401 + 0 NA Intergenic Intergenic 94685 NM_011415 20583 Mm.4272 NM_011415 ENSMUSG00000022676 Snai2 Slug|Slugh|Snail2 snail family zinc finger 2 protein-coding 0.472 0.521 0.531 0.297 0.152 0.297 1.038 0.457 nan 6.364 2.894 0.182 0.398 0.297 nan 0.444 0.685 0.826 0.520 0.286 0.453 0.512 0.365 0.586 1439 chr17 26638797 26652915 + 0 NA intron (NM_026170, intron 9 of 9) MIR|SINE|MIR -30540 NM_025272 11974 Mm.22602 NM_025272 ENSMUSG00000015575 Atp6v0e Atp6k|Atp6v0e1|M9.2 ATPase, H+ transporting, lysosomal V0 subunit E protein-coding 8.511 6.478 2.088 11.150 4.706 2.217 5.844 6.468 5.392 7.753 5.560 2.419 6.144 9.925 7.582 8.824 3.862 8.626 3.206 1.915 1.546 5.409 1.824 1.522 9.916 2974 chr6 113022120 113032721 + 0 NA Intergenic Intergenic -18907 NM_008188 14911 Mm.781 NM_008188 ENSMUSG00000030264 Thumpd3 AW556087|Gt(ROSA)26asSor|Gtrosa26as THUMP domain containing 3 protein-coding 8.426 7.204 3.104 6.169 6.904 3.930 8.959 9.732 5.042 7.872 6.341 4.101 7.726 10.528 7.920 9.457 7.997 7.610 4.932 3.323 2.380 3.946 nan 3.247 7.957 2079 chr2 165967487 165969685 + 0 NA Intergenic (TG)n|Simple_repeat|Simple_repeat -24051 NM_008679 17979 Mm.469663 NM_008679 ENSMUSG00000027678 Ncoa3 2010305B15Rik|AW321064|Actr|Aib1|KAT13B|Rac3|Src3|Tram-1|Tram1|bHLHe42|p/Cip|pCip nuclear receptor coactivator 3 protein-coding 1.967 1.164 0.563 2.052 0.961 0.662 0.733 2.475 2.633 2.400 5.706 1.999 0.823 nan 1.255 1.205 0.577 nan nan 0.793 0.781 2.139 0.722 1.081 nan 286 chr10 79534122 79541480 + 0 NA Intergenic Intergenic -4014 NM_001302389 50784 Mm.28873 NM_015817 ENSMUSG00000052151 Plpp2 Lpp2|PAP2-G|PAP2-gamma|PAP2c|Ppap2c phospholipid phosphatase 2 protein-coding 12.241 9.965 2.563 13.475 7.543 4.393 7.764 8.778 7.627 10.599 8.229 4.194 8.167 10.389 9.339 10.366 5.501 11.147 nan 1.742 1.557 4.532 1.172 1.183 14.236 1395 chr17 4791126 4792797 + 0 NA Intergenic Intergenic 156981 NR_130984 75117 Mm.429393 NR_130984 4930517M08Rik - RIKEN cDNA 4930517M08 gene ncRNA 3.288 0.747 0.233 2.171 1.544 0.604 3.820 2.566 2.302 1.851 0.948 0.805 4.075 3.828 4.813 5.732 4.750 3.141 nan 0.455 0.465 0.261 0.334 0.217 5.550 2405 chr4 97376021 97385666 + 0 NA Intergenic B4A|SINE|B4 -201100 NM_001122952 18027 Mm.31274 NM_010905 ENSMUSG00000028565 Nfia 1110047K16Rik|9430022M17Rik|CTF|NF1-A|NF1A nuclear factor I/A protein-coding 0.839 nan 0.297 0.921 0.808 0.461 0.460 0.639 nan nan 0.378 0.279 0.727 1.256 nan 1.511 0.717 1.511 3.315 1.678 0.926 nan 1.936 1.225 0.958 1075 chr15 25317207 25327635 + 0 NA Intergenic Intergenic 91343 NM_027395 70350 Mm.29586 NM_027395 ENSMUSG00000045763 Basp1 2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22 brain abundant, membrane attached signal protein 1 protein-coding 2.648 8.503 4.610 0.649 0.605 0.365 2.338 3.153 1.556 1.515 0.504 1.595 3.466 1.165 1.338 0.797 1.598 1.266 1.138 0.619 0.576 1.189 0.738 0.560 1.077 2426 chr4 109956662 109963069 + 0 NA intron (NM_007983, intron 18 of 18) PB1D9|SINE|Alu -18160 NM_172296 242620 Mm.32825 NM_172296 ENSMUSG00000047143 Dmrta2 Dmrt5 doublesex and mab-3 related transcription factor like family A2 protein-coding 0.407 0.555 0.528 0.270 0.193 0.135 0.303 nan 0.378 0.287 0.312 0.236 0.257 0.231 0.257 0.400 0.375 nan 8.629 9.537 5.411 8.263 9.493 6.498 0.421 800 chr12 81563696 81565101 + 0 NA intron (NM_020330, intron 1 of 1) intron (NM_020330, intron 1 of 1) 4076 NM_020330 56622 Mm.117130 NM_020330 ENSMUSG00000008438 Adam21 Adam31 a disintegrin and metallopeptidase domain 21 protein-coding 7.134 6.600 5.262 5.155 2.688 2.940 6.601 4.833 2.915 5.443 2.524 2.358 4.217 7.610 5.808 6.934 7.686 4.483 6.151 5.077 3.940 5.219 7.281 5.395 10.605 2232 chr3 89765566 89768355 + 0 NA TTS (NR_130957) TTS (NR_130957) -2328 NM_009602 11444 Mm.35088 NM_009602 ENSMUSG00000027950 Chrnb2 Acrb-2|Acrb2|C030030P04Rik|[b]2-nAchR cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal) protein-coding 6.460 15.076 6.143 7.313 4.001 2.818 7.566 7.148 3.141 5.619 4.057 1.625 3.552 5.628 6.784 8.264 6.474 4.531 6.301 4.233 4.986 5.559 7.557 5.977 8.980 3125 chr7 71300123 71302125 + 0 NA Intergenic Intergenic -608571 NR_130995 78156 Mm.243818 NR_130995 ENSMUSG00000108669 4930441H08Rik - RIKEN cDNA 4930441H08 gene ncRNA 9.422 2.591 0.825 6.478 3.566 2.060 5.316 9.174 4.622 4.901 2.916 2.893 5.656 6.351 4.120 4.211 3.557 6.308 1.003 1.510 1.285 1.252 1.134 0.420 6.462 1365 chr16 91526831 91528137 + 0 NA Intergenic PB1D10|SINE|Alu -19610 NM_008338 15980 Mm.249364 NM_008338 ENSMUSG00000022965 Ifngr2 Ifgr2|Ifgt interferon gamma receptor 2 protein-coding 4.152 1.687 1.104 2.514 3.579 2.250 4.355 4.107 2.156 2.312 1.996 1.076 3.145 4.090 4.062 3.824 3.117 3.156 0.847 1.009 1.141 nan 0.338 0.529 3.561 2432 chr4 114187622 114189699 + 0 NA intron (NM_001166027, intron 1 of 6) Lx3A|LINE|L1 25276 NM_001166027 230623 Mm.124482 NM_177669 ENSMUSG00000057977 Skint11 A630098G03Rik|Gm569 selection and upkeep of intraepithelial T cells 11 protein-coding 3.702 1.382 0.525 1.660 0.951 0.678 5.505 1.706 1.157 1.484 1.144 0.966 2.336 3.950 4.441 3.749 2.352 2.307 0.900 0.740 0.354 0.631 0.706 0.368 3.513 1407 chr17 12975064 12976963 + 0 NA intron (NM_001113532, intron 5 of 5) intron (NM_001113532, intron 5 of 5) -15288 NM_009338 110460 Mm.439711 NM_009338 ENSMUSG00000023832 Acat2 AW742799|Tcp-1x|Tcp1-rs1 acetyl-Coenzyme A acetyltransferase 2 protein-coding 4.079 5.661 2.227 3.411 2.192 1.459 2.644 3.690 2.687 2.640 8.306 2.365 1.708 2.128 2.729 4.439 1.873 3.522 1.652 1.200 0.828 1.357 0.952 0.690 3.528 496 chr11 75373046 75387272 + 0 NA intron (NM_001102611, intron 2 of 10) B2_Mm2|SINE|B2 31726 NM_001102611 319822 Mm.340377 NM_177009 ENSMUSG00000018809 Smyd4 G430029E23Rik SET and MYND domain containing 4 protein-coding nan 6.795 2.938 5.964 4.403 2.994 6.429 5.409 4.772 5.951 5.284 2.723 4.989 7.811 6.783 7.881 4.998 6.313 2.068 1.810 nan 3.466 1.407 1.475 7.016 2829 chr6 15685745 15690592 + 0 NA Intergenic L1Md_T|LINE|L1 -32493 NM_175088 16543 Mm.1314 NM_175088 ENSMUSG00000041390 Mdfic Kdt1|Mdfid MyoD family inhibitor domain containing protein-coding 5.627 nan 1.224 2.964 4.068 1.621 5.491 4.506 nan 4.073 2.205 1.084 6.206 7.767 6.251 9.673 6.444 5.885 0.785 1.046 0.430 0.914 0.816 0.554 3.607 605 chr11 100827596 100832629 + 0 NA intron (NM_001113563, intron 1 of 18) intron (NM_001113563, intron 1 of 18) -7542 NM_011489 20851 Mm.34064 NM_011489 ENSMUSG00000020919 Stat5b - signal transducer and activator of transcription 5B protein-coding 6.018 nan 0.536 11.509 3.784 2.399 4.730 5.374 5.093 7.808 5.451 3.306 5.166 7.392 6.774 8.590 3.958 8.111 1.363 nan 1.331 2.130 nan nan 9.385 2987 chr6 116593273 116604883 + 0 NA Intergenic L1_Rod|LINE|L1 -16134 NM_146446 258438 Mm.357743 NM_146446 ENSMUSG00000050654 Olfr215 MOR119-2 olfactory receptor 215 protein-coding 3.746 1.833 0.713 5.521 3.678 1.661 4.467 12.142 3.621 4.185 1.392 2.024 4.718 10.811 5.748 8.013 4.041 7.541 1.068 0.656 0.419 1.243 nan 0.545 4.628 1779 chr19 41064315 41072193 + 0 NA intron (NM_153520, intron 3 of 5) intron (NM_153520, intron 3 of 5) 8859 NM_153520 226115 Mm.54119 NM_153520 ENSMUSG00000050121 Opalin Tmem10|Tmp10 oligodendrocytic myelin paranodal and inner loop protein protein-coding nan 11.664 5.740 1.575 0.690 0.327 0.709 nan 1.273 1.567 2.735 1.893 1.434 0.815 1.266 1.873 nan 1.511 1.259 1.407 0.949 1.270 0.837 0.377 1.300 2581 chr4 151175541 151182464 + 0 NA intron (NM_001081557, intron 6 of 23) RLTR20A4|LTR|ERVK 89432 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 3.164 nan 1.534 2.058 1.386 0.716 4.370 2.513 2.919 2.770 0.450 0.538 4.018 5.156 4.763 5.327 3.375 4.822 1.452 0.902 0.514 1.396 1.118 0.887 3.159 1568 chr17 71467035 71474330 + 0 NA intron (NM_028887, intron 1 of 47) RSINE1|SINE|B4 4661 NM_028887 74355 Mm.194450 NM_028887 ENSMUSG00000024054 Smchd1 4931400A14Rik|AW554188|MommeD1|mKIAA0650 SMC hinge domain containing 1 protein-coding 5.888 1.050 0.880 4.946 7.344 5.234 5.341 3.497 4.553 5.847 1.173 1.335 4.791 6.845 5.325 5.572 4.528 6.636 2.261 1.516 1.175 2.960 2.131 1.758 4.576 607 chr11 100843629 100845987 + 0 NA intron (NM_001113563, intron 1 of 18) intron (NM_001113563, intron 1 of 18) 5777 NM_001113563 20851 Mm.34064 NM_011489 ENSMUSG00000020919 Stat5b - signal transducer and activator of transcription 5B protein-coding 3.606 nan 0.391 3.537 1.900 1.174 4.974 4.303 4.017 4.112 1.587 1.861 4.708 5.084 5.770 6.114 3.704 4.199 1.578 nan 0.750 1.473 nan nan 4.528 1807 chr19 55873686 55875319 + 0 NA intron (NR_138565, intron 4 of 15) intron (NR_138565, intron 4 of 15) -20819 NM_001142924 21416 Mm.139815 NM_009333 ENSMUSG00000024985 Tcf7l2 TCF4B|TCF4E|Tcf-4|Tcf4 transcription factor 7 like 2, T cell specific, HMG box protein-coding 4.682 nan 0.372 1.096 2.476 1.989 4.201 4.678 2.576 2.488 0.797 1.030 3.050 4.463 2.662 3.533 3.157 3.345 0.413 0.718 0.438 0.342 0.696 0.274 3.032 2902 chr6 83080364 83087695 + 0 NA Intergenic Intergenic -2336 NM_010692 16815 Mm.20359 NM_010692 ENSMUSG00000034968 Lbx2 Lbx2h ladybird homeobox homolog 2 (Drosophila) protein-coding 7.501 1.101 0.583 5.809 3.875 2.903 13.094 8.954 5.519 8.104 4.706 2.113 12.215 12.705 10.273 13.684 11.060 7.609 nan 1.718 1.846 2.838 2.096 2.053 12.298 1699 chr18 82714590 82716860 + 0 NA Intergenic Intergenic -4556 NR_039572 100628586 NR_039572 ENSMUSG00000092638 Mir5112 mmu-mir-5112|mu-mir-5112 microRNA 5112 ncRNA 5.293 1.707 0.460 1.842 0.745 0.325 2.198 2.924 1.385 nan 6.651 3.547 1.447 1.082 1.588 3.736 2.331 3.836 0.955 nan 0.612 1.380 0.501 0.576 6.151 42 chr1 51970240 51973284 + 0 NA Intergenic RMER13A1|LTR|ERVK -15386 NM_001308266 20849 Mm.1550 NM_011487 ENSMUSG00000062939 Stat4 - signal transducer and activator of transcription 4 protein-coding 7.180 1.801 0.469 5.753 2.802 2.112 5.215 4.446 3.244 6.617 5.544 2.605 5.635 4.908 6.194 9.157 5.542 6.907 3.574 1.621 1.490 3.051 2.477 3.281 10.153 759 chr12 70984483 70987275 + 0 NA intron (NM_001310596, intron 5 of 10) intron (NM_001310596, intron 5 of 10) 11256 NM_011184 19167 Mm.296338 NM_011184 ENSMUSG00000060073 Psma3 Lmpc8 proteasome (prosome, macropain) subunit, alpha type 3 protein-coding 7.139 0.957 1.422 1.975 3.984 2.665 4.508 4.681 2.907 3.224 4.477 3.163 5.289 4.626 4.479 5.382 6.459 3.859 0.636 0.866 0.871 0.578 0.912 0.739 4.284 3093 chr7 29954415 29956024 + 0 NA Intergenic Intergenic -3326 NM_178384 72723 Mm.371648 NM_178384 ENSMUSG00000059975 Zfp74 2810054M15Rik|KRAB8|Zfp66|Znf569|mszf21|mszf77 zinc finger protein 74 protein-coding 3.482 3.354 1.755 3.123 3.840 1.887 4.188 3.532 1.588 3.559 1.403 1.918 2.340 4.061 4.255 3.577 2.473 3.470 2.313 2.441 1.746 2.979 2.590 2.601 6.727 2508 chr4 133521526 133526894 + 0 NA intron (NM_001083916, intron 1 of 3) B4|SINE|B4 5247 NM_133707 69073 Mm.299081 NM_133707 ENSMUSG00000037600 Kdf1 1810019J16Rik keratinocyte differentiation factor 1 protein-coding nan 4.386 1.135 3.945 1.027 0.802 1.509 2.280 nan 4.581 2.521 1.130 1.656 2.121 3.078 3.535 1.606 nan 9.180 2.762 2.817 10.809 nan 5.172 5.010 1228 chr15 101146440 101153592 + 0 NA Intergenic ID4|SINE|ID 21494 NM_001277257 11482 Mm.279542 NM_009612 ENSMUSG00000000530 Acvrl1 AI115505|AI427544|Acvrlk1|Alk1 activin A receptor, type II-like 1 protein-coding 5.281 4.736 2.204 4.375 3.975 2.707 11.750 8.950 4.341 3.856 10.788 6.782 7.629 6.239 6.447 5.783 5.219 5.583 1.305 1.256 1.283 1.453 1.075 0.880 4.410 235 chr10 20279881 20281628 + 0 NA 3' UTR (NM_008635, exon 18 of 18) 3' UTR (NM_008635, exon 18 of 18) 16934 NR_105840 102466647 NR_105840 ENSMUSG00000098887 Mir6413 Gm27432|mmu-mir-6413 microRNA 6413 ncRNA 2.167 0.895 0.411 2.618 0.808 0.313 1.821 2.007 2.783 2.883 0.425 0.843 2.075 3.373 3.733 5.652 2.775 3.680 0.430 0.559 0.240 1.267 0.262 0.154 5.064 1073 chr15 25069894 25071694 + 0 NA Intergenic Intergenic 342970 NM_027395 70350 Mm.29586 NM_027395 ENSMUSG00000045763 Basp1 2610024P12Rik|CAP-23|CAP23|Ckap3|NAP-22|NAP22 brain abundant, membrane attached signal protein 1 protein-coding 5.099 0.767 0.578 0.879 0.889 0.715 7.844 4.880 3.214 2.906 0.855 0.753 8.683 4.570 5.226 2.078 7.275 3.172 0.875 0.922 0.456 0.454 0.678 0.752 2.541 2291 chr3 108524220 108525660 + 0 NA intron (NM_001346518, intron 1 of 21) L1_Mus1|LINE|L1 11582 NM_001033304 229722 Mm.316890 NM_001033304 ENSMUSG00000040412 5330417C22Rik BB183350 RIKEN cDNA 5330417C22 gene protein-coding 4.474 10.677 3.704 5.826 2.159 1.663 6.503 4.400 3.644 6.164 5.835 3.098 4.987 5.034 7.867 7.300 3.882 6.874 3.813 2.656 1.264 5.180 3.500 3.572 8.255 2591 chr4 151541486 151542928 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 319561 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 4.503 nan 1.331 2.705 2.498 1.144 1.947 2.843 3.258 4.613 1.073 0.984 3.325 3.410 1.882 2.742 3.095 2.911 4.521 3.058 4.238 4.246 5.233 5.729 3.081 2187 chr3 52420052 52423493 + 0 NA Intergenic MTC|LTR|ERVL-MaLR 153435 NM_019739 56458 Mm.29891 NM_019739 ENSMUSG00000044167 Foxo1 AI876417|Afxh|FKHR|Fkhr1|Foxo1a forkhead box O1 protein-coding 5.473 2.631 2.053 3.820 4.976 2.732 2.593 4.991 5.005 5.956 1.069 1.735 5.125 6.296 2.252 2.967 2.427 3.927 1.288 1.137 0.650 1.162 1.512 1.514 3.584 1931 chr2 103219725 103221068 + 0 NA Intergenic (TCTCCC)n|Simple_repeat|Simple_repeat 82800 NM_007914 13661 Mm.10724 NM_007914 ENSMUSG00000012350 Ehf 9030625L19Rik|AU019492 ets homologous factor protein-coding 3.001 0.849 0.493 2.361 1.492 0.883 1.675 3.464 2.018 3.430 1.429 0.758 2.950 5.093 3.160 3.591 3.419 2.413 0.499 0.747 0.487 nan 0.309 0.341 3.552 3399 chr8 124859435 124860905 + 0 NA intron (NM_025615, intron 2 of 6) intron (NM_025615, intron 2 of 6) 2859 NM_025615 66523 Mm.436864 NM_025615 ENSMUSG00000031984 2810004N23Rik 3110004G14Rik|Ayu21-55|Gt(pU21)55Imeg|GtAyu21-55 RIKEN cDNA 2810004N23 gene protein-coding 2.985 nan 0.175 4.472 0.343 1.154 2.466 3.723 2.163 6.947 1.036 0.878 3.939 4.184 6.715 9.055 4.006 5.844 nan 0.381 1.815 3.674 0.677 nan 8.988 694 chr11 119819424 119821604 + 0 NA TTS (NR_045313) TTS (NR_045313) 13851 NR_045313 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 3.193 nan 0.416 4.973 2.435 1.157 1.693 2.193 2.534 3.324 0.935 0.858 1.915 3.829 3.234 3.970 1.656 4.821 1.640 nan 0.752 1.188 0.756 0.398 4.400 2844 chr6 29996684 29999019 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR 12522 NR_040263 76419 Mm.84522 NR_040263 ENSMUSG00000045709 Smkr-ps 1700023L04Rik smal lysine rich protein 1, pseudogene ncRNA 10.872 19.512 6.256 15.171 6.854 6.065 12.786 11.737 7.457 20.855 9.354 6.178 12.106 13.348 14.221 16.002 9.842 14.557 7.556 3.306 5.611 8.188 4.962 6.919 20.082 3575 chrX 93188006 93190379 + 0 NA Intergenic L1Md_A|LINE|L1 5898 NR_103799 100042663 Mm.291732 NR_103799 ENSMUSG00000095110 1700003E24Rik ENSMUSG00000067646|Gm14779|OTTMUSG00000017966 Gm5941 pseudogene pseudo 2.772 0.669 0.270 1.259 2.218 0.715 3.495 4.663 3.672 4.460 0.898 1.433 4.431 5.149 5.660 5.439 3.490 3.246 0.591 0.434 0.375 0.260 0.281 0.079 3.718 816 chr12 86687793 86692836 + 0 NA intron (NM_177354, intron 5 of 6) intron (NM_177354, intron 5 of 6) 11614 NM_177354 238328 Mm.216101 NM_177354 ENSMUSG00000021256 Vash1 AI834978|D930046M13Rik|G630009D10Rik vasohibin 1 protein-coding 4.665 1.816 0.931 3.829 1.992 1.443 1.773 2.904 3.901 2.627 2.609 2.245 2.410 2.962 3.247 4.638 3.058 4.688 1.114 0.822 0.578 0.833 0.498 0.342 nan 1103 chr15 58369462 58371384 + 0 NA intron (NM_027211, intron 1 of 8) intron (NM_027211, intron 1 of 8) 18851 NM_027211 69787 Mm.237985 NM_027211 Anxa13 1810034H17Rik|AV055219 annexin A13 protein-coding 4.049 0.598 0.368 nan 1.031 0.632 4.221 3.215 nan 2.086 0.700 0.549 4.207 4.249 4.472 4.245 2.764 5.424 0.732 0.806 0.264 0.638 0.609 0.262 4.204 3031 chr6 136466599 136469227 + 0 NA Intergenic Intergenic -50938 NM_019426 54343 Mm.173271 NM_019426 ENSMUSG00000030213 Atf7ip 2610204M12Rik|AM|Mcaf1 activating transcription factor 7 interacting protein protein-coding 6.270 7.161 3.833 5.668 2.902 1.411 5.009 5.041 5.556 5.448 4.320 3.194 6.355 7.813 6.156 6.964 7.322 6.656 3.495 2.017 1.475 2.987 1.615 1.665 6.136 3148 chr7 105719825 105721976 + 0 NA Intergenic Intergenic 15684 NM_025897 101867 Mm.231400 NM_025897 ENSMUSG00000030888 Rrp8 1500003O22Rik|2900001K19Rik|AW538116 ribosomal RNA processing 8, methyltransferase, homolog (yeast) protein-coding 2.091 1.593 0.602 6.454 1.855 1.298 0.680 1.040 1.519 1.452 0.604 0.234 0.556 nan 1.515 1.373 0.807 2.005 nan 0.948 0.911 1.087 0.697 0.467 2.035 2244 chr3 94381755 94383846 + 0 NA intron (NR_121656, intron 1 of 9) intron (NR_121656, intron 1 of 9) 5368 NR_121656 19885 Mm.4372 NM_011281 ENSMUSG00000028150 Rorc Nr1f3|RORgamma|TOR|Thor RAR-related orphan receptor gamma protein-coding 4.316 0.663 0.470 2.322 1.529 0.650 3.561 3.938 2.487 1.979 nan 0.682 7.310 6.641 5.819 5.746 5.339 3.971 1.378 0.642 0.195 1.438 0.764 0.390 3.454 3159 chr7 116702711 116708291 + 0 NA Intergenic RMER1B|Other|Other 201132 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 6.150 2.846 1.772 4.961 2.964 1.559 4.609 5.593 3.215 3.517 5.475 3.140 6.185 5.571 3.954 4.284 4.284 5.763 4.827 3.250 1.207 5.118 4.270 2.651 5.438 296 chr10 79859707 79867242 + 0 NA TTS (NR_105875) TTS (NR_105875) 887 NR_105875 102465549 NR_105875 ENSMUSG00000098562 Mir6910 Gm27763|mmu-mir-6910 microRNA 6910 ncRNA 6.196 9.898 3.531 4.881 3.031 2.356 7.044 4.527 3.240 5.679 3.369 1.951 4.160 6.007 6.427 6.943 5.643 5.388 nan 2.026 2.690 3.204 2.250 3.220 9.953 265 chr10 61784589 61788125 + 0 NA Intergenic Tigger5|DNA|TcMar-Tigger -2493 NM_207000 404634 Mm.272870 NM_207000 ENSMUSG00000020086 H2afy2 macroH2A2 H2A histone family, member Y2 protein-coding 1.515 0.829 0.855 1.540 5.185 4.051 0.528 1.337 1.682 1.526 0.914 1.798 0.853 1.590 0.912 1.072 1.268 1.491 nan 1.672 1.696 1.360 1.480 1.910 nan 1062 chr15 10667967 10670704 + 0 NA intron (NM_001166408, intron 2 of 17) intron (NM_001166408, intron 2 of 17) 44205 NM_030690 75646 Mm.212395 NM_030690 ENSMUSG00000022246 Rai14 1700008J19Rik|1700020L11Rik|Ankycorbin|Norpeg|mKIAA1334 retinoic acid induced 14 protein-coding 8.353 0.643 0.343 4.948 4.430 1.837 11.415 6.816 5.342 7.174 2.724 2.042 11.184 10.693 9.096 8.459 7.813 9.072 0.694 0.604 0.441 0.434 0.447 0.365 9.045 3112 chr7 35891969 35893820 + 0 NA Intergenic Intergenic -89905 NM_177739 668501 Mm.286296 NM_177739 ENSMUSG00000044452 Zfp507 1810022O10Rik|A230056M16Rik|AL024009|AU021817|BB105092|Gm480|Znf507|mKIAA1084 zinc finger protein 507 protein-coding 7.071 0.623 0.671 4.284 3.719 2.534 6.587 12.321 5.672 5.472 4.489 2.828 10.734 8.159 6.691 8.075 6.676 6.490 2.644 1.513 1.125 1.056 1.819 1.264 6.822 3169 chr7 118076749 118079652 + 0 NA Intergenic ORR1E|LTR|ERVL-MaLR 37947 NM_170669 267019 Mm.288212 NM_170669 ENSMUSG00000008683 Rps15a A630031B11Rik ribosomal protein S15A protein-coding 6.472 1.090 0.535 4.986 4.624 2.414 5.486 4.201 5.389 7.992 1.384 0.799 9.304 8.809 4.021 4.620 5.473 8.380 0.645 0.779 0.412 0.716 0.718 0.480 6.371 171 chr1 166380775 166393714 + 0 NA intron (NM_030245, intron 4 of 7) B2_Mm2|SINE|B2 8077 NM_030245 27878 Mm.100665 NM_030245 ENSMUSG00000026563 Tada1 2900026B15Rik|D1Ertd251e|Staf42|Tada1l transcriptional adaptor 1 protein-coding 8.772 0.689 0.472 5.537 4.700 3.002 7.133 8.406 nan 9.993 2.988 2.405 9.762 10.827 nan 13.300 8.010 9.581 4.736 1.821 1.562 nan nan 2.769 nan 1700 chr18 82906622 82908695 + 0 NA Intergenic Intergenic -3221 NM_183033 329003 Mm.326526 NM_183033 ENSMUSG00000058881 Zfp516 C330029B10Rik|D230016L03|Zfp26l|Znf516|mKIAA0222 zinc finger protein 516 protein-coding 2.258 nan 0.254 2.694 3.040 1.655 3.151 4.747 4.036 5.776 5.091 1.502 4.472 5.438 4.185 2.549 1.142 3.384 0.766 nan 0.547 1.059 1.003 0.424 2.516 2609 chr4 154573865 154575378 + 0 NA intron (NM_001177995, intron 1 of 15) intron (NM_001177995, intron 1 of 15) 61746 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 5.993 3.935 1.411 4.495 5.693 3.055 3.156 4.343 3.182 3.348 3.356 2.399 2.317 4.023 3.211 4.122 3.265 4.411 2.941 4.611 1.470 5.017 2.034 1.488 3.275 3261 chr8 35036705 35044204 + 0 NA Intergenic (TC)n|Simple_repeat|Simple_repeat -74764 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 8.856 2.439 1.055 6.460 5.866 4.322 7.897 10.835 5.183 8.564 4.640 3.659 8.847 9.395 8.383 9.377 7.837 7.754 1.963 1.142 1.170 0.978 2.506 2.660 nan 445 chr11 62460756 62463436 + 0 NA intron (NM_001039536, intron 1 of 6) B1_Mm|SINE|Alu 3636 NM_001039536 327942 Mm.390358 NM_199026 ENSMUSG00000014245 Pigl Gm737 phosphatidylinositol glycan anchor biosynthesis, class L protein-coding 6.059 6.417 2.599 5.755 3.053 2.204 5.596 7.228 5.095 7.469 3.027 3.527 5.077 7.163 7.443 8.229 5.369 6.607 nan 3.758 3.101 6.520 3.822 5.266 nan 2131 chr2 180958706 180963634 + 0 NA Intergenic Intergenic -6055 NM_145760 228998 Mm.33765 NM_145760 ENSMUSG00000027575 Arfgap1 AI115377|Arf1gap ADP-ribosylation factor GTPase activating protein 1 protein-coding 2.116 1.036 0.422 2.624 1.825 1.381 2.099 2.250 1.754 1.849 0.558 0.432 3.373 3.829 1.525 4.887 2.677 3.262 0.638 0.723 0.535 0.767 0.510 0.592 2.742 2687 chr5 100465806 100474138 + 0 NA intron (NM_001346583, intron 4 of 12) intron (NM_001346583, intron 4 of 12) 28601 NM_001115010 231506 Mm.212568 NM_172714 ENSMUSG00000035310 Lin54 AI461788 lin-54 homolog (C. elegans) protein-coding 6.548 6.077 2.026 5.491 4.901 3.924 7.608 6.475 4.868 8.017 4.488 2.431 6.414 8.372 7.060 7.876 6.245 6.109 3.798 2.089 2.264 3.200 2.995 3.648 8.318 1339 chr16 38704858 38709585 + 0 NA intron (NM_020260, intron 1 of 11) intron (NM_020260, intron 1 of 11) 5814 NM_020260 12549 Mm.370848 NM_020260 ENSMUSG00000022799 Arhgap31 5830477L08Rik|AU041750|Cdgap|D330026I07Rik Rho GTPase activating protein 31 protein-coding 4.651 1.191 0.526 5.874 3.588 1.092 1.311 1.138 4.309 4.443 1.898 0.701 3.958 6.598 4.356 nan 3.689 6.064 0.776 0.705 0.259 0.713 0.690 0.337 7.644 2338 chr4 8873660 8886990 + 0 NA Intergenic Intergenic 189919 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.703 1.362 0.813 0.693 0.379 0.157 0.378 nan 0.547 0.677 0.465 0.490 0.413 0.490 0.675 0.718 0.367 0.831 4.654 nan 2.425 8.409 4.318 3.000 0.613 2012 chr2 153316476 153324558 + 0 NA intron (NM_008444, intron 3 of 8) intron (NM_008444, intron 3 of 8) 25293 NR_040318 72326 Mm.400102 NR_040318 ENSMUSG00000073236 2500004C02Rik - RIKEN cDNA 2500004C02 gene ncRNA nan 2.994 1.079 1.919 0.762 0.446 2.902 4.074 nan nan 0.552 1.004 nan nan 1.901 2.338 1.109 nan nan 2.595 2.580 6.239 3.190 2.465 nan 3201 chr7 136897491 136905754 + 0 NA intron (NM_008598, intron 1 of 4) Lx2B2|LINE|L1 7011 NM_008598 17314 Mm.440219 NM_008598 ENSMUSG00000054612 Mgmt AGT|AI267024|Agat O-6-methylguanine-DNA methyltransferase protein-coding 6.280 nan 0.622 4.432 4.601 2.016 6.351 7.787 nan 7.123 3.018 1.521 9.224 9.842 8.444 8.729 7.345 8.458 1.193 1.171 0.689 1.188 0.879 0.592 7.631 582 chr11 98014101 98016333 + 0 NA intron (NM_001282977, intron 3 of 13) intron (NM_001282977, intron 3 of 13) 3155 NM_001159320 12295 Mm.41252 NM_031173 ENSMUSG00000020882 Cacnb1 CAB1|Cchb1|Cchlb1 calcium channel, voltage-dependent, beta 1 subunit protein-coding 3.609 nan 0.458 1.827 2.138 1.170 2.162 2.461 1.668 2.339 1.112 0.418 1.649 3.863 2.406 1.707 2.050 2.380 1.371 nan 0.387 0.908 nan nan 2.759 3257 chr8 34976851 34982517 + 0 NA Intergenic Intergenic -13994 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 5.041 0.754 0.455 3.161 3.297 2.118 4.385 5.967 3.099 4.107 2.298 1.699 5.494 6.726 6.001 5.952 3.853 5.874 1.577 0.793 0.436 0.701 2.754 1.962 4.377 1884 chr2 38678067 38681326 + 0 NA Intergenic RSINE1|SINE|B4 32538 NM_001316687 26423 Mm.31387 NM_139051 ENSMUSG00000026751 Nr5a1 Ad4BP|ELP|ELP-3|Ftz-F1|Ftzf1|SF-1|SF1|STF-1 nuclear receptor subfamily 5, group A, member 1 protein-coding 8.735 1.721 1.018 4.642 2.867 1.743 7.563 7.650 5.951 5.574 4.816 4.170 8.105 7.629 7.116 9.344 9.496 6.672 3.301 2.378 0.965 2.223 1.878 1.045 7.867 2120 chr2 179860188 179861746 + 0 NA intron (NM_009867, intron 7 of 15) intron (NM_009867, intron 7 of 15) 115679 NM_001081092 228980 Mm.235542 NM_001081092 ENSMUSG00000039117 Taf4 135kDa|AI450312|TAFII130|TAFII135|Taf2c1|Taf4a TATA-box binding protein associated factor 4 protein-coding 4.097 1.576 0.622 1.855 1.081 0.696 4.216 6.412 1.942 2.022 1.818 1.134 4.012 3.568 3.032 3.921 3.185 3.475 3.486 2.371 1.184 5.916 2.000 0.987 4.381 1858 chr2 33219403 33227417 + 0 NA intron (NM_011923, intron 1 of 4) intron (NM_011923, intron 1 of 4) 7449 NM_011923 26360 Mm.208919 NM_011923 ENSMUSG00000004105 Angptl2 AI593246|AW260363|Arp2 angiopoietin-like 2 protein-coding 1.850 1.788 0.953 1.769 1.449 0.773 1.503 nan 1.197 nan 0.989 0.910 1.134 1.788 1.331 1.963 1.639 1.712 4.211 3.457 2.918 5.170 4.359 4.027 2.209 557 chr11 95633822 95635624 + 0 NA Intergenic Intergenic -32234 NM_008831 18673 Mm.263862 NM_008831 ENSMUSG00000038845 Phb Bap32 prohibitin protein-coding 4.900 1.437 0.333 5.691 3.288 2.213 1.405 3.641 2.691 2.987 1.760 1.088 1.186 2.142 2.309 2.859 nan 4.091 1.105 nan 1.786 2.878 nan nan 3.383 718 chr12 13222975 13226451 + 0 NA intron (NM_134040, intron 20 of 25) intron (NM_134040, intron 20 of 25) 24461 NM_134040 104721 Mm.251255 NM_134040 ENSMUSG00000037149 Ddx1 AA409185|DBP-RB DEAD (Asp-Glu-Ala-Asp) box polypeptide 1 protein-coding 7.438 0.419 0.801 1.601 1.454 0.700 7.677 6.136 4.426 4.398 0.604 2.096 9.024 8.147 6.865 7.658 6.238 5.741 0.646 0.437 0.173 0.591 0.783 0.409 6.299 2147 chr3 9703901 9705547 + 0 NA exon (NM_053182, exon 4 of 8) exon (NM_053182, exon 4 of 8) -94639 NM_133218 170753 Mm.212908 NM_133218 ENSMUSG00000040209 Zfp704 C030026M03|C030034L19Rik|Gig1|Znf704 zinc finger protein 704 protein-coding 2.266 2.662 0.763 2.709 0.689 0.455 5.773 4.397 2.805 2.101 0.976 1.199 5.116 3.904 6.298 5.001 2.403 4.592 1.700 0.264 0.074 1.336 0.799 0.384 5.222 1581 chr17 84702171 84707670 + 0 NA TTS (NM_028233) TTS (NM_028233) 21799 NM_026180 67470 Mm.26581 NM_026180 ENSMUSG00000024254 Abcg8 1300003C16Rik|AI114946|sterolin-2 ATP-binding cassette, sub-family G (WHITE), member 8 protein-coding 4.222 3.323 0.909 2.522 1.468 0.828 2.483 2.262 nan 3.302 1.472 0.761 2.846 3.704 3.908 4.808 4.726 4.109 0.729 0.579 0.406 0.670 0.459 0.386 6.910 1507 chr17 43045522 43047616 + 0 NA intron (NM_178589, intron 3 of 5) intron (NM_178589, intron 3 of 5) 30014 NM_178589 94185 Mm.200792 NM_178589 ENSMUSG00000023915 Tnfrsf21 AA959878|DR6|R74815|TR7 tumor necrosis factor receptor superfamily, member 21 protein-coding 5.314 1.664 0.638 1.565 1.930 0.884 8.881 6.637 2.484 2.214 2.868 3.040 6.498 6.973 7.993 8.034 6.236 4.932 1.249 0.429 0.430 1.250 1.487 0.868 7.531 1604 chr18 23939226 23942386 + 0 NA Intergenic Intergenic -13882 NM_027007 69256 Mm.218343 NM_027007 ENSMUSG00000024276 Zfp397 2810411K16Rik|6720480F11Rik|AI461664 zinc finger protein 397 protein-coding 2.297 1.417 0.995 3.660 1.479 0.710 1.693 4.818 2.350 2.602 0.711 0.475 3.712 5.414 1.881 nan 1.148 4.303 nan 0.744 0.272 nan 0.377 0.374 3.935 2726 chr5 115017461 115021688 + 0 NA intron (NM_029012, intron 1 of 10) B2_Mm2|SINE|B2 8050 NM_029012 74585 Mm.355894 NM_029012 ENSMUSG00000029550 Sppl3 4833416I09Rik|Psl4|Usmg3 signal peptide peptidase 3 protein-coding 3.157 1.659 0.255 4.298 1.352 0.993 2.624 3.692 1.820 4.542 0.578 0.576 3.172 5.380 3.735 4.179 2.890 4.476 nan nan 1.785 4.151 nan 2.748 7.376 441 chr11 62363360 62365642 + 0 NA intron (NM_011308, intron 21 of 44) intron (NM_011308, intron 21 of 44) 74014 NM_001252313 20185 Mm.271814 NM_011308 ENSMUSG00000018501 Ncor1 5730405M06Rik|A230020K14Rik|N-CoR|RIP13|Rxrip13|mKIAA1047 nuclear receptor co-repressor 1 protein-coding 16.147 17.468 6.057 15.656 10.732 4.958 11.762 12.132 9.981 13.645 12.941 5.291 13.496 16.476 13.529 13.076 12.067 12.649 10.785 6.487 4.018 10.907 7.646 5.943 14.831 868 chr13 31637654 31640810 + 0 NA Intergenic (CA)n|Simple_repeat|Simple_repeat 13416 NM_010225 14238 Mm.125548 NM_010225 ENSMUSG00000038402 Foxf2 FREAC2|Fkh20|LUN forkhead box F2 protein-coding 4.721 0.685 0.340 1.879 2.732 1.172 3.964 5.515 3.870 4.520 4.563 2.405 5.060 6.712 4.489 5.320 3.595 4.727 0.776 0.655 0.388 0.734 0.957 0.522 3.817 3325 chr8 90722750 90724785 + 0 NA Intergenic 5S|rRNA|rRNA -105068 NM_177224 109151 Mm.100615 NM_177224 ENSMUSG00000056608 Chd9 1810014J18Rik|9030205D12Rik|A330063D19Rik|AD013|PRIC320|mKIAA0308 chromodomain helicase DNA binding protein 9 protein-coding 8.249 10.158 2.926 8.919 4.630 3.445 6.696 9.053 4.304 16.412 4.667 3.218 7.089 9.197 9.165 13.855 6.155 8.065 4.132 2.901 3.996 7.021 3.010 5.997 18.531 672 chr11 118749701 118755465 + 0 NA intron (NM_001039168, intron 2 of 14) intron (NM_001039168, intron 2 of 14) 8458 NM_001285438 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 0.190 nan 0.334 0.185 0.215 0.022 nan nan 0.152 nan 0.175 0.101 0.116 0.117 0.098 0.429 0.176 nan 1.969 nan 1.283 5.862 0.650 0.403 0.372 1140 chr15 75864749 75868037 + 0 NA exon (NM_026960, exon 8 of 11) exon (NM_026960, exon 8 of 11) 4054 NM_026960 69146 Mm.27385 NM_026960 ENSMUSG00000022575 Gsdmd 1810036L03Rik|AW558049|DF5L|Dfna5l|Gsdmdc1|M2-4 gasdermin D protein-coding 3.470 nan 0.487 nan 1.486 0.540 3.048 9.255 1.967 nan nan 2.557 4.191 4.321 3.004 3.055 2.648 3.537 0.933 0.804 0.508 nan 0.778 0.907 5.138 3417 chr9 13268694 13270530 + 0 NA intron (NM_025534, intron 6 of 8) L1_Mus2|LINE|L1 22656 NM_025534 66396 Mm.290620 NM_025534 ENSMUSG00000079084 Ccdc82 2310043N13Rik coiled-coil domain containing 82 protein-coding 5.573 12.488 4.230 5.266 2.897 1.445 4.142 4.425 4.952 4.447 4.296 1.989 3.910 4.470 4.128 4.589 2.395 5.297 1.122 1.921 0.824 1.145 0.524 0.310 4.316 983 chr14 21477410 21481214 + 0 NA Intergenic L1M4|LINE|L1 -20458 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 2.915 2.590 1.007 3.426 2.717 1.459 3.378 4.459 nan 3.026 2.667 1.139 4.206 8.588 4.082 3.708 1.981 3.033 1.802 1.549 1.344 nan 1.939 1.606 4.713 275 chr10 67520090 67521807 + 0 NA Intergenic PB1D11|SINE|Alu -16921 NM_010118 13654 Mm.290421 NM_010118 ENSMUSG00000037868 Egr2 Egr-2|Krox-20|Krox20|NGF1-B|Zfp-25|Zfp-6 early growth response 2 protein-coding 8.954 0.785 0.397 4.865 5.549 4.874 5.575 6.707 6.320 8.460 1.918 2.653 9.026 10.116 5.170 7.477 9.970 6.746 0.792 1.390 1.700 0.946 0.499 0.795 4.163 2035 chr2 157205810 157207886 + 0 NA Intergenic Intergenic -2314 NM_001139516 19650 Mm.244671 NM_011249 ENSMUSG00000027641 Rbl1 AW547426|PRB1|p107 retinoblastoma-like 1 (p107) protein-coding 2.905 0.980 0.660 1.700 1.820 0.903 4.629 2.392 2.808 3.241 0.423 1.104 4.012 5.151 3.417 5.943 4.357 4.408 nan 0.407 0.715 0.328 0.435 0.382 nan 197 chr1 179187411 179189784 + 0 NA intron (NM_027188, intron 5 of 11) intron (NM_027188, intron 5 of 11) 329406 NM_027188 69726 Mm.222338 NM_027188 ENSMUSG00000055067 Smyd3 2410008A19Rik|Zmynd1 SET and MYND domain containing 3 protein-coding 3.208 8.310 3.116 7.100 3.002 1.736 6.910 2.342 1.842 8.053 4.390 1.248 3.719 4.949 4.746 3.084 1.227 3.071 6.614 3.069 6.623 8.531 4.962 10.388 4.551 3314 chr8 89268312 89272941 + 0 NA Intergenic Intergenic -226464 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 6.006 5.684 1.861 8.003 5.159 3.986 4.085 5.965 nan 9.679 3.826 1.595 6.617 7.886 8.205 9.553 6.022 8.334 nan 1.879 2.560 6.160 2.399 2.934 10.396 2208 chr3 88091576 88093974 + 0 NA intron (NM_001033484, intron 11 of 37) intron (NM_001033484, intron 11 of 37) 10724 NM_001033484 404710 Mm.331133 NM_001033484 ENSMUSG00000028068 Iqgap3 AI593484|D030034H08 IQ motif containing GTPase activating protein 3 protein-coding 2.885 0.586 0.756 2.481 3.945 3.830 5.336 1.578 1.238 1.150 1.532 0.253 5.201 6.737 4.064 nan 1.225 3.859 nan 0.928 0.869 0.566 0.511 0.713 1.143 1731 chr19 6914436 6916422 + 0 NA intron (NM_007953, intron 2 of 6) intron (NM_007953, intron 2 of 6) -1143 NR_105956 102466213 NR_105956 ENSMUSG00000098413 Mir6990 Gm27726|mmu-mir-6990 microRNA 6990 ncRNA 7.633 9.772 2.625 8.510 3.507 2.310 11.396 10.211 5.563 9.598 7.767 5.864 6.929 10.674 9.181 10.975 8.919 8.886 1.974 1.991 2.215 5.210 3.038 2.972 17.031 3496 chr9 59464248 59466967 + 0 NA intron (NM_019927, intron 1 of 13) intron (NM_019927, intron 1 of 13) 16134 NR_045640 100504377 Mm.446631 NR_045640 Gm20199 - predicted gene, 20199 ncRNA 7.610 5.023 2.963 6.725 4.198 3.644 5.378 6.102 4.762 7.062 4.277 3.238 5.695 7.049 6.497 7.346 5.051 7.228 4.291 3.302 3.345 4.411 4.438 4.549 10.019 853 chr13 23622059 23626999 + 0 NA Intergenic Intergenic -1971 NM_015787 50709 Mm.170587 NM_015787 ENSMUSG00000051627 Hist1h1e H1-4|H1.4|H1e|H1f4|H1s-4|H1var2 histone cluster 1, H1e protein-coding 5.708 9.339 4.596 4.740 3.021 1.719 3.183 4.251 4.986 4.560 4.573 3.727 4.495 6.774 6.872 6.778 4.527 6.490 5.336 2.650 1.778 5.138 2.645 2.176 5.551 751 chr12 57406216 57413728 + 0 NA intron (NM_001164370, intron 8 of 9) intron (NM_001164370, intron 8 of 9) 136149 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 1.010 nan 0.363 0.903 0.838 0.409 1.229 0.880 1.319 1.239 0.527 0.516 1.076 1.601 nan nan 1.921 nan 8.237 2.636 1.743 5.466 1.283 1.483 1.350 1500 chr17 35203941 35209285 + 0 NA Intergenic Intergenic -1262 NM_010735 16992 Mm.87787 NM_010735 ENSMUSG00000024402 Lta LT|LT-[a]|LT-alpha|LT[a]|LTalpha|Ltx|TNF-beta|TNFSF1|Tnfb|Tnfsf1b|Tnlg1e|hlb382 lymphotoxin A protein-coding 2.446 0.920 0.601 2.543 4.796 2.494 5.444 5.529 2.755 3.005 2.523 1.762 3.398 6.520 5.824 5.141 4.197 3.839 3.313 1.953 1.545 3.072 2.905 2.245 4.093 1746 chr19 10278063 10279211 + 0 NA intron (NM_198114, intron 1 of 19) intron (NM_198114, intron 1 of 19) 26240 NM_198114 269060 Mm.329718 NM_198114 ENSMUSG00000035735 Dagla Nsddr diacylglycerol lipase, alpha protein-coding 13.050 18.613 6.399 12.040 8.683 1.995 11.504 12.238 7.084 8.615 8.160 5.062 9.572 12.388 11.496 12.044 9.067 10.242 4.631 5.097 3.304 8.129 6.491 4.644 17.467 3356 chr8 112107948 112113773 + 0 NA Intergenic B4A|SINE|B4 99501 NM_020584 57321 Mm.213064 NM_020584 ENSMUSG00000033430 Terf2ip Rap1 telomeric repeat binding factor 2, interacting protein protein-coding 5.975 0.931 0.413 3.803 3.938 3.127 5.832 6.510 4.103 5.108 2.548 1.415 8.500 8.212 5.823 9.163 6.102 6.005 0.888 0.924 1.291 nan 0.916 0.937 7.940 2167 chr3 30366704 30369659 + 0 NA intron (NM_021442, intron 1 of 2) intron (NM_021442, intron 1 of 2) 141306 NM_021442 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 6.007 0.740 0.353 3.964 4.792 3.517 nan 1.284 5.756 6.554 1.309 1.167 8.150 8.377 nan 6.874 5.949 nan 0.462 0.610 0.527 0.814 0.868 0.357 6.437 2136 chr2 181326168 181328900 + 0 NA intron (NR_030710, intron 5 of 32) intron (NR_030710, intron 5 of 32) 6728 NR_030710 269400 Mm.11333 NM_001001882 ENSMUSG00000038685 Rtel1 AI451565|AW540478|Rtel regulator of telomere elongation helicase 1 protein-coding 6.820 8.869 2.669 8.035 4.319 3.861 6.769 8.659 4.616 10.282 5.487 2.818 6.973 7.133 7.278 10.023 6.089 8.283 5.672 2.758 4.010 6.488 3.899 6.590 13.679 1980 chr2 131011292 131018531 + 0 NA intron (NM_009730, intron 25 of 28) ORR1D1|LTR|ERVL-MaLR 25487 NR_105969 102465606 NR_105969 ENSMUSG00000098686 Mir6973b Gm27815|mmu-mir-6973b microRNA 6973b ncRNA 3.659 7.488 3.878 4.279 3.258 1.848 3.787 6.084 3.774 4.018 2.427 1.056 6.489 6.410 5.124 nan 5.946 5.121 nan 3.646 3.362 7.141 4.394 3.552 7.737 2275 chr3 97602918 97608298 + 0 NA intron (NM_026539, intron 1 of 22) ORR1E|LTR|ERVL-MaLR 4582 NM_026539 68058 Mm.31761 NM_026539 ENSMUSG00000028089 Chd1l 4432404A22Rik|Alc1|Snf2p chromodomain helicase DNA binding protein 1-like protein-coding 3.867 1.348 0.939 0.853 0.337 0.187 4.538 4.855 0.896 0.629 nan 0.396 3.956 3.716 6.111 2.886 2.565 2.491 0.701 0.375 0.342 0.404 0.243 0.141 4.128 2685 chr5 91205656 91209332 + 0 NA Intergenic Intergenic 67895 NM_009704 11839 Mm.8039 NM_009704 ENSMUSG00000029378 Areg AR|Mcub|Sdgf amphiregulin protein-coding 1.447 0.605 0.480 0.713 0.804 0.668 2.030 3.151 1.307 0.883 6.275 3.976 1.234 2.283 1.128 1.316 0.902 1.419 0.580 0.351 0.133 0.374 0.377 0.272 0.800 3517 chr9 70526101 70529819 + 0 NA Intergenic Intergenic -14818 NM_026337 66660 Mm.22379 NM_025690 ENSMUSG00000032212 Sltm 5730455C01Rik|5730555F13Rik|9130215G10Rik|Met SAFB-like, transcription modulator protein-coding 6.453 5.972 2.049 5.995 3.965 2.865 5.619 5.754 4.700 10.892 4.926 4.523 5.327 6.227 6.311 6.334 4.476 6.710 5.034 2.932 3.183 4.369 5.216 5.658 9.832 3410 chr8 126723018 126728389 + 0 NA Intergenic Intergenic -132267 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 7.093 nan 0.584 3.791 3.349 1.768 7.160 6.918 4.785 5.891 1.802 2.803 8.292 9.904 7.935 9.438 7.348 5.488 nan 1.013 0.890 nan 0.711 nan 10.689 3028 chr6 134775369 134782423 + 0 NA intron (NM_001048054, intron 1 of 6) intron (NM_001048054, intron 1 of 6) 13732 NM_130447 70686 Mm.491182 NM_130447 ENSMUSG00000030203 Dusp16 3830417M17Rik|AW558566|D6Ertd213e|MKP-7|MKP7|Mkpm dual specificity phosphatase 16 protein-coding 6.946 3.337 1.773 5.417 5.504 4.236 6.425 9.949 4.974 6.248 4.649 3.130 7.275 10.264 nan 8.846 7.210 7.252 nan 2.495 1.945 3.301 3.192 2.872 nan 1295 chr16 18424089 18430341 + 0 NA promoter-TSS (NM_001111062) promoter-TSS (NM_001111062) -499 NM_001111062 12846 Mm.100940 NM_007744 ENSMUSG00000000326 Comt Comt1|D16Wsu103e|D330014B15Rik catechol-O-methyltransferase protein-coding 8.076 4.849 2.465 6.397 4.325 2.364 6.530 8.021 5.051 6.700 3.083 1.799 6.439 8.191 5.483 9.580 7.395 6.767 3.019 3.315 3.159 4.455 4.075 3.193 11.305 2832 chr6 22282108 22285803 + 0 NA Intergenic Intergenic -4272 NM_053116 93735 Mm.137403 NM_053116 ENSMUSG00000029671 Wnt16 E130309I19Rik wingless-type MMTV integration site family, member 16 protein-coding 1.998 nan 1.255 0.879 1.265 0.768 4.290 4.627 nan 1.213 0.855 1.170 3.053 2.289 2.949 3.029 3.029 2.512 2.353 1.344 0.772 1.218 1.875 1.575 1.060 677 chr11 118943349 118949431 + 0 NA Intergenic Intergenic -34793 NM_001285437 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 7.133 8.508 3.969 6.591 4.803 3.189 7.671 7.121 3.683 7.952 4.242 2.830 5.622 8.807 6.536 7.947 6.043 nan 4.158 nan 4.039 4.345 2.963 3.924 9.940 1111 chr15 61949900 61953604 + 0 NA Intergenic RMER15|LTR|ERVL -33589 NM_001177354 17869 Mm.2444 NM_010849 ENSMUSG00000022346 Myc AU016757|Myc2|Niard|Nird|bHLHe39 myelocytomatosis oncogene protein-coding 3.817 2.407 1.125 nan 1.809 0.506 7.525 5.753 nan nan 1.463 2.288 2.792 4.174 4.541 nan 2.588 2.227 1.280 0.734 0.364 1.455 0.820 0.256 2.280 3281 chr8 74667825 74672260 + 0 NA Intergenic Intergenic -203132 NM_027837 71597 Mm.158735 NM_027837 ENSMUSG00000031621 Isx 9130012O13Rik|Pix-1 intestine specific homeobox protein-coding 7.981 nan 0.831 3.769 7.819 6.126 6.540 9.619 nan 4.852 2.954 1.428 5.558 9.630 6.981 7.734 7.552 5.620 1.288 1.329 1.181 nan 0.998 0.677 7.867 907 chr13 47061800 47063704 + 0 NA intron (NM_172262, intron 8 of 20) RSINE1|SINE|B4 19253 NM_172262 218214 Mm.31259 NM_172262 ENSMUSG00000038080 Kdm1b 4632428N09Rik|AI482520|Aof1 lysine (K)-specific demethylase 1B protein-coding 3.082 0.595 0.268 nan 1.298 0.713 1.313 1.242 2.276 1.673 2.706 0.956 1.667 1.447 1.935 3.326 2.176 3.061 0.439 nan 0.257 0.537 0.318 0.249 4.313 3249 chr8 27130728 27131647 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR -2555 NM_025686 66653 Mm.334467 NM_025686 ENSMUSG00000031487 Brf2 2700059M06Rik|5730512K07Rik|AU018504|AU022602|BRFU|TFIIIB50 BRF2, RNA polymerase III transcription initiation factor 50kDa subunit protein-coding 0.389 nan 0.318 1.068 0.604 0.416 1.218 1.351 0.423 0.460 0.362 0.226 0.424 4.431 2.853 1.189 0.947 1.530 0.311 0.326 0.471 nan 0.573 0.107 0.905 3271 chr8 70798045 70804332 + 0 NA Intergenic Intergenic 3053 NR_106099 102466823 NR_106099 ENSMUSG00000099031 Mir7240 Gm27487|mmu-mir-7240 microRNA 7240 ncRNA 6.645 1.233 0.498 4.573 2.446 0.925 4.943 8.170 5.000 6.143 4.317 2.450 8.422 6.902 7.293 9.635 6.818 8.109 nan 1.162 0.812 2.358 1.787 1.019 10.221 2238 chr3 90378158 90380278 + 0 NA Intergenic MTE2a|LTR|ERVL-MaLR 10720 NM_001316688 26568 Mm.45519 NM_011988 ENSMUSG00000027932 Slc27a3 Acsvl3|FATP-3|FATP3|Vlcs-3 solute carrier family 27 (fatty acid transporter), member 3 protein-coding 3.165 0.888 0.495 1.693 2.104 0.966 5.486 4.749 2.725 2.186 5.189 2.689 4.861 5.296 3.908 2.719 2.891 3.554 nan 0.822 0.573 0.854 0.474 0.339 3.197 1868 chr2 34924938 34929435 + 0 NA Intergenic B1_Mur4|SINE|Alu -13210 NM_028716 74016 Mm.65691 NM_028716 ENSMUSG00000026873 Phf19 3110009G19Rik|3321402G02Rik PHD finger protein 19 protein-coding 7.654 0.658 0.495 4.728 2.353 1.523 2.784 3.345 5.643 7.366 0.905 2.725 5.404 6.080 5.418 10.602 6.077 8.842 0.747 0.671 0.455 0.668 0.418 0.371 5.973 3480 chr9 44380479 44384556 + 0 NA exon (NM_021395, exon 8 of 26) exon (NM_021395, exon 8 of 26) 3027 NM_021395 12282 Mm.116721 NM_021395 ENSMUSG00000032115 Hyou1 AI415631|CBP-140|Cab140|Grp170|Orp150 hypoxia up-regulated 1 protein-coding 1.034 8.633 7.317 0.946 0.957 0.945 0.559 0.837 1.420 0.857 0.673 0.399 0.566 0.518 nan nan 0.830 1.194 1.134 1.220 1.939 nan 1.095 1.212 nan 3154 chr7 112853304 112856586 + 0 NA intron (NM_001166585, intron 3 of 10) (TG)n|Simple_repeat|Simple_repeat 95561 NM_001166585 21676 Mm.24685 NM_009346 ENSMUSG00000055320 Tead1 2610024B07Rik|B230114H05Rik|Gtrgeo5|TEAD-1|TEF-1|Tcf13|mTEF-1 TEA domain family member 1 protein-coding 1.740 0.563 0.468 1.815 0.852 0.543 1.773 1.012 1.424 2.076 0.459 0.211 3.848 4.527 2.445 2.949 2.551 2.776 nan 1.252 0.549 0.589 0.718 0.449 1.932 590 chr11 98752099 98754415 + 0 NA intron (NM_178060, intron 1 of 8) intron (NM_178060, intron 1 of 8) 11472 NM_001313983 21833 Mm.265917 NM_178060 ENSMUSG00000058756 Thra 6430529J03Rik|AW259572|Erba|Nr1a1|Rvr|T3R[a]|T3Ralpha|Thra1|Thra2|c-erbA-1|c-erbA-alpha|c-erbAalpha thyroid hormone receptor alpha protein-coding 3.954 nan 0.162 1.493 0.795 0.657 2.388 3.116 1.357 1.882 3.363 1.082 1.638 3.661 2.801 3.788 1.663 3.126 0.610 nan 0.465 0.671 nan nan 3.953 1210 chr15 99800745 99805625 + 0 NA intron (NM_023063, intron 3 of 7) ID_B1|SINE|B4 16964 NM_023063 65970 Mm.33207 NM_023063 ENSMUSG00000023022 Lima1 Eplin LIM domain and actin binding 1 protein-coding 7.342 5.287 2.642 6.370 4.546 3.873 8.002 11.834 4.756 6.782 4.005 2.936 7.415 7.569 6.135 6.490 8.208 5.562 2.963 2.247 2.879 2.924 2.541 3.125 7.316 664 chr11 116942089 116945860 + 0 NA intron (NM_172948, intron 3 of 16) (CA)n|Simple_repeat|Simple_repeat 25111 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 5.366 2.492 0.977 6.413 3.574 2.078 3.493 4.355 3.871 4.038 2.790 2.077 3.865 4.374 4.846 6.542 3.067 6.217 1.822 nan 0.660 2.587 1.608 1.090 5.506 1790 chr19 46391587 46393159 + 0 NA intron (NM_016860, intron 1 of 10) B3A|SINE|B2 3362 NM_016860 54130 Mm.3118 NM_016860 ENSMUSG00000025228 Actr1a Arp1|alpha-Arp1 ARP1 actin-related protein 1A, centractin alpha protein-coding 0.795 1.272 0.523 nan 0.728 0.522 0.626 1.073 0.543 1.787 0.668 0.292 0.169 0.755 0.610 0.798 0.682 nan 1.743 1.623 1.916 2.568 3.714 4.253 1.278 1878 chr2 37613308 37614450 + 0 NA intron (NM_009261, intron 9 of 16) L1_Mus2|LINE|L1 33406 NM_009261 20744 Mm.237095 NM_009261 ENSMUSG00000026915 Strbp 6430510M02Rik|AI852513|C230082I21Rik|C86322|Spnr spermatid perinuclear RNA binding protein protein-coding 3.088 2.373 1.302 2.395 1.064 0.545 1.897 2.014 1.438 nan 0.423 0.661 2.815 3.652 3.254 3.296 2.234 2.495 2.048 0.952 0.788 2.582 0.416 0.305 4.538 2388 chr4 63019468 63021025 + 0 NA intron (NM_028326, intron 1 of 14) intron (NM_028326, intron 1 of 14) 54672 NM_028326 72701 Mm.26479 NM_028326 ENSMUSG00000028358 Zfp618 2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1 zinc finger protein 618 protein-coding 1.178 1.426 0.497 1.304 3.104 2.273 0.920 2.435 2.005 1.738 1.012 1.670 1.583 3.760 2.106 2.153 1.333 1.836 2.139 0.755 0.819 nan nan 0.393 2.281 2938 chr6 91531321 91542559 + 0 NA Intergenic (TA)n|Simple_repeat|Simple_repeat 20905 NM_026309 67678 Mm.246693 NM_026309 ENSMUSG00000034192 Lsm3 1010001J12Rik|2610005D18Rik|6030401D18Rik|SMX4|USS2 LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated protein-coding 4.903 0.812 0.403 nan 3.202 2.147 1.843 3.423 3.667 4.295 1.605 1.615 3.901 7.644 4.467 9.049 2.669 nan nan 1.095 1.066 2.233 1.712 1.560 5.844 2264 chr3 95452858 95481555 + 0 NA intron (NM_001037737, intron 5 of 21) intron (NM_001037737, intron 5 of 21) -32004 NM_007802 13038 Mm.272085 NM_007802 ENSMUSG00000028111 Ctsk AI323530|MMS10-Q|Ms10q|catK cathepsin K protein-coding 12.471 12.280 6.336 11.907 12.908 10.139 10.546 9.385 10.071 11.783 nan 5.089 11.671 13.828 10.067 nan 8.863 11.794 3.054 3.194 3.577 2.729 2.528 2.640 12.058 2964 chr6 99223091 99228589 + 0 NA intron (NM_001347345, intron 4 of 19) intron (NM_001347345, intron 4 of 19) 40675 NM_001197321 108655 Mm.234965 NM_053202 ENSMUSG00000030067 Foxp1 3110052D19Rik|4932443N09Rik|AI461938|AW494214 forkhead box P1 protein-coding 6.395 1.563 0.987 4.694 3.815 2.322 8.291 8.034 6.174 7.332 2.345 1.909 9.904 11.039 8.331 10.835 9.347 7.891 nan nan 0.446 0.941 1.175 0.691 6.533 1690 chr18 80750367 80752632 + 0 NA intron (NM_001201569, intron 25 of 29) intron (NM_001201569, intron 25 of 29) -38428 NM_001164109 18018 Mm.329560 NM_016791 ENSMUSG00000033016 Nfatc1 2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 protein-coding 8.435 3.325 1.475 6.488 5.629 2.358 7.084 8.710 7.792 12.766 3.346 1.270 12.082 13.359 9.139 10.942 6.663 7.701 5.132 nan 2.312 8.785 2.254 1.226 16.439 617 chr11 101130016 101132644 + 0 NA Intergenic PB1D10|SINE|Alu 11199 NM_134024 103733 Mm.479145 NM_134024 ENSMUSG00000035198 Tubg1 1500010O08Rik|AI451582|AI503389|Tubg tubulin, gamma 1 protein-coding 6.844 nan 0.556 1.702 2.322 1.117 6.511 4.966 1.870 2.785 0.911 0.943 4.751 4.772 4.365 4.736 6.035 3.414 3.084 nan 1.216 2.216 4.736 3.750 6.479 79 chr1 74772476 74774730 + 0 NA intron (NM_009526, intron 1 of 3) intron (NM_009526, intron 1 of 3) 1711 NM_009526 22420 Mm.268282 NM_009526 ENSMUSG00000033227 Wnt6 AA409270|Wnt-6 wingless-type MMTV integration site family, member 6 protein-coding 0.723 1.873 1.570 0.688 0.793 0.435 0.869 1.210 1.034 0.628 6.874 3.871 0.812 0.745 0.632 nan 1.168 nan nan nan 0.217 0.772 nan 0.897 nan 1420 chr17 24685301 24688633 + 0 NA intron (NM_011522, intron 2 of 3) (TTTC)n|Simple_repeat|Simple_repeat 2982 NM_011522 20974 Mm.26032 NM_011522 ENSMUSG00000007021 Syngr3 - synaptogyrin 3 protein-coding 6.721 8.430 3.271 7.011 4.368 4.275 8.383 4.223 3.578 6.636 2.937 2.164 6.258 9.831 5.039 nan 3.854 4.805 7.265 4.642 5.908 6.107 6.779 7.735 8.320 3295 chr8 79422749 79426691 + 0 NA Intergenic L1_Rod|LINE|L1 -25252 NM_008539 17125 Mm.223717 NM_008539 ENSMUSG00000031681 Smad1 AI528653|Madh1|Madr1|Mlp1|MusMLP SMAD family member 1 protein-coding 4.127 6.804 1.898 9.119 3.733 2.588 nan nan nan 7.050 3.220 2.858 5.034 7.830 6.405 7.995 5.138 6.490 3.271 2.390 3.106 nan 3.138 3.312 10.302 3437 chr9 21540369 21543171 + 0 NA intron (NM_001198794, intron 6 of 6) intron (NM_001198794, intron 6 of 6) -5124 NM_021531 59035 Mm.178115 NM_021531 ENSMUSG00000032185 Carm1 Prmt4 coactivator-associated arginine methyltransferase 1 protein-coding 3.540 1.111 0.771 3.090 1.311 0.748 3.555 5.145 3.939 4.394 1.504 1.394 5.395 5.452 4.613 6.403 3.041 5.092 2.396 1.695 1.789 1.182 3.118 2.785 8.559 352 chr10 126577826 126588920 + 0 NA Intergenic L1_Mur2|LINE|L1 127018 NR_105841 102465224 NR_105841 ENSMUSG00000098756 Mir378d Gm27650|mmu-mir-378d microRNA 378d ncRNA 4.381 nan 1.936 3.531 3.849 2.213 3.633 3.369 2.342 2.571 3.826 1.543 5.207 4.528 4.038 4.725 4.318 3.933 0.779 1.229 1.054 0.571 nan 0.843 3.631 2502 chr4 132417770 132420535 + 0 NA intron (NM_001161797, intron 1 of 12) intron (NM_001161797, intron 1 of 12) 3294 NM_001161797 100169 Mm.158361 NM_175306 ENSMUSG00000066043 Phactr4 3110001B12Rik|AI527228|AW495572|C330013F19Rik|N28169|mKIAA4120 phosphatase and actin regulator 4 protein-coding 4.270 0.463 0.860 2.664 1.890 2.834 2.471 2.102 3.972 3.451 1.211 1.454 4.027 4.226 2.641 4.265 4.175 3.378 1.545 1.710 2.084 0.947 1.488 1.717 3.341 2918 chr6 86554948 86562748 + 0 NA intron (NR_037960, intron 3 of 4) B1F|SINE|Alu 31447 NR_037961 72012 Mm.349174 NR_037960 ENSMUSG00000097048 1600020E01Rik - RIKEN cDNA 1600020E01 gene ncRNA 4.021 2.754 0.991 nan 4.446 2.262 6.746 7.373 3.803 4.969 8.676 3.745 5.828 8.344 5.839 7.095 3.792 nan nan 1.173 0.927 1.104 1.138 0.950 5.248 126 chr1 134161926 134164622 + 0 NA Intergenic (CA)n|Simple_repeat|Simple_repeat -19130 NM_007695 12654 Mm.38274 NM_007695 ENSMUSG00000064246 Chil1 AW208766|Brp39|Chi3l1|Gp39 chitinase-like 1 protein-coding 10.126 2.376 1.101 nan 3.815 1.854 3.835 5.313 4.572 4.524 5.179 1.027 4.796 6.195 3.998 nan 3.438 5.753 1.027 0.495 0.682 1.036 0.976 0.612 nan 251 chr10 41987977 41991569 + 0 NA intron (NM_001034858, intron 5 of 17) intron (NM_001034858, intron 5 of 17) 28609 NM_001034858 213402 Mm.211320 NM_001034858 ENSMUSG00000071324 Armc2 2610018I05Rik armadillo repeat containing 2 protein-coding 6.035 6.715 2.399 5.840 4.050 2.126 3.056 5.260 3.247 3.473 2.785 1.195 3.072 5.180 4.721 4.726 4.305 5.462 1.916 1.630 0.897 1.460 0.773 0.656 5.444 1034 chr14 99444268 99446554 + 0 NA Intergenic Intergenic 146720 NM_009769 12224 Mm.30262 NM_009769 ENSMUSG00000005148 Klf5 4930520J07Rik|Bteb2|CKLF|IKLF Kruppel-like factor 5 protein-coding 4.450 9.430 2.374 6.072 1.933 1.259 3.247 5.174 3.685 6.837 4.195 3.454 3.083 4.521 7.131 7.441 2.494 6.129 3.992 1.576 1.469 5.018 4.347 4.722 9.819 1594 chr18 6134877 6137923 + 0 NA promoter-TSS (NM_001039692) promoter-TSS (NM_001039692) -302 NM_001039692 75415 Mm.239675 NM_029277 ENSMUSG00000041225 Arhgap12 2810011M08Rik Rho GTPase activating protein 12 protein-coding 9.544 8.377 2.681 8.070 3.819 1.723 6.517 10.615 5.111 8.010 6.264 3.826 7.644 8.830 7.724 9.056 5.627 7.622 3.274 2.064 1.660 4.224 3.385 3.747 11.753 2803 chr5 147118086 147120596 + 0 NA Intergenic Intergenic 41995 NM_009087 20018 Mm.317557 NM_009087 ENSMUSG00000029642 Polr1d 1110003G10Rik|AC19|RPA16|Rpo1-3 polymerase (RNA) I polypeptide D protein-coding 6.247 0.930 0.460 5.939 3.091 1.080 5.416 5.713 4.480 6.092 1.505 1.239 7.281 7.721 7.978 8.231 5.055 7.824 3.275 1.359 0.975 3.847 2.651 1.986 7.825 2875 chr6 66983787 66988266 + 0 NA intron (NM_001177560, intron 3 of 4) intron (NM_001177560, intron 3 of 4) -50573 NR_040278 320172 Mm.449039 NR_040278 ENSMUSG00000087231 E230016M11Rik - RIKEN cDNA E230016M11 gene ncRNA 6.085 5.937 2.405 5.211 3.820 2.553 7.324 6.930 3.586 6.077 5.408 1.864 6.565 9.672 8.301 10.232 7.037 6.573 2.757 2.220 2.011 3.634 2.003 1.996 8.999 369 chr10 128141063 128142808 + 0 NA intron (NM_001039080, intron 6 of 13) RMER17C|LTR|ERVK 34633 NM_019711 56516 Mm.42247 NM_019711 ENSMUSG00000040043 Rbms2 2610315E04Rik|Scr3 RNA binding motif, single stranded interacting protein 2 protein-coding 10.056 12.187 5.435 10.786 4.670 2.795 7.323 7.970 6.520 9.148 6.889 4.538 8.480 10.989 10.177 10.611 6.947 8.508 6.714 3.950 2.564 6.838 5.973 4.364 14.596 1533 chr17 47874057 47875245 + 0 NA exon (NM_028767, exon 13 of 17) exon (NM_028767, exon 13 of 17) -39960 NM_001109973 17240 Mm.329100 NM_010783 ENSMUSG00000032717 Mdfi I-mf|I-mfa MyoD family inhibitor protein-coding 12.924 19.720 9.051 10.658 4.402 4.905 16.332 10.707 4.581 16.358 6.065 3.705 8.767 14.753 9.977 13.908 11.509 8.108 5.182 4.292 5.657 4.269 4.590 7.880 20.944 1548 chr17 56855618 56857931 + 0 NA intron (NM_001039114, intron 7 of 14) intron (NM_001039114, intron 7 of 14) 17673 NM_001039114 328845 Mm.179421 NM_001039114 ENSMUSG00000024207 Acsbg2 Bgr acyl-CoA synthetase bubblegum family member 2 protein-coding nan 9.406 3.224 7.886 4.387 3.142 7.956 6.371 4.107 7.823 5.183 3.199 4.786 8.512 7.467 10.714 7.136 5.547 4.859 3.475 4.203 5.351 5.285 4.810 13.391 651 chr11 116038888 116041090 + 0 NA intron (NM_172569, intron 1 of 15) B2_Mm1a|SINE|B2 9673 NM_172569 217331 Mm.297706 NM_172569 ENSMUSG00000020770 Unk B230379M23Rik|Zc3h5|Zc3hdc5|mKIAA1753 unkempt family zinc finger protein-coding 3.310 nan 0.267 4.267 2.403 1.626 3.974 4.485 4.067 5.025 0.985 1.206 4.293 6.766 5.831 7.596 3.006 5.233 0.969 nan 0.303 0.766 0.355 0.518 6.111 176 chr1 167559326 167565675 + 0 NA Intergenic (GA)n|Simple_repeat|Simple_repeat -35862 NM_009107 20183 Mm.3475 NM_009107 ENSMUSG00000015843 Rxrg Nr2b3 retinoid X receptor gamma protein-coding 5.553 1.442 0.551 nan 1.068 0.758 2.870 4.796 nan 3.148 1.936 1.667 nan 3.139 nan 6.107 3.945 3.369 6.300 3.410 2.720 nan nan 4.478 nan 3145 chr7 104479488 104481972 + 0 NA intron (NM_199146, intron 4 of 7) MLTR14|LTR|ERV1 -15537 NM_009099 20128 Mm.295578 NM_009099 ENSMUSG00000030921 Trim30a Rpt-1|Rpt1|Trim30 tripartite motif-containing 30A protein-coding 5.314 6.024 1.623 7.248 4.319 2.974 4.309 5.110 3.350 5.614 4.700 2.129 4.175 nan 5.762 6.407 3.396 5.671 nan 2.428 2.305 5.736 2.191 1.911 11.031 947 chr13 72086307 72089157 + 0 NA Intergenic Lx8|LINE|L1 -124009 NM_010573 16371 Mm.316056 NM_010573 ENSMUSG00000060969 Irx1 - Iroquois related homeobox 1 (Drosophila) protein-coding 3.087 0.253 0.316 1.833 1.197 0.893 4.186 2.339 2.444 3.138 0.302 0.385 4.440 3.047 2.388 5.341 2.648 3.812 0.460 0.704 0.518 0.534 0.211 0.136 5.021 256 chr10 42580212 42582893 + 0 NA intron (NM_152229, intron 1 of 8) intron (NM_152229, intron 1 of 8) 2036 NM_152229 21907 Mm.287100 NM_152229 ENSMUSG00000019803 Nr2e1 Mtl1|Mtll|TLL|Tlx|XTLL|fierce|frc|tailless nuclear receptor subfamily 2, group E, member 1 protein-coding 3.182 5.488 2.353 3.283 1.646 0.869 0.546 3.321 3.048 3.292 1.453 0.974 1.871 1.941 2.939 4.028 3.905 3.874 8.921 5.286 2.046 8.682 7.586 3.962 2.309 1823 chr2 20886672 20891628 + 0 NA intron (NM_001128084, intron 5 of 24) intron (NM_001128084, intron 5 of 24) 78571 NM_001081364 71435 Mm.28507 NM_001081364 ENSMUSG00000036591 Arhgap21 5530401C11Rik|AA416458|ARHGAP10 Rho GTPase activating protein 21 protein-coding 5.522 5.555 1.803 8.389 3.540 2.368 4.728 7.772 5.056 10.331 4.685 3.573 6.110 6.145 6.746 9.983 6.046 8.374 6.782 3.358 3.097 6.892 6.163 5.980 13.457 2537 chr4 140689855 140697014 + 0 NA Intergenic Intergenic -8039 NM_173867 108911 Mm.253 NM_173867 ENSMUSG00000040945 Rcc2 2610510H01Rik|2610529N02Rik|AA536646|AA675016|Td60|mKIAA1470 regulator of chromosome condensation 2 protein-coding nan 8.530 3.786 4.920 3.583 3.262 6.754 5.436 nan 4.300 2.887 3.275 4.948 7.686 6.349 6.477 4.034 5.297 2.088 1.766 1.977 3.023 nan 2.010 6.728 2267 chr3 96071478 96074232 + 0 NA Intergenic (CGGT)n|Simple_repeat|Simple_repeat -7741 NR_035496 100316714 NR_035496 ENSMUSG00000088478 Mir1946b mmu-mir-1946b microRNA 1946b ncRNA 6.691 10.295 3.245 8.200 3.797 2.242 4.627 5.298 6.175 4.995 nan 2.678 8.163 8.124 8.667 nan 5.752 9.500 5.650 3.056 4.036 7.294 3.171 3.883 8.809 2810 chr5 151890416 151892120 + 0 NA Intergenic Intergenic -240060 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 2.090 0.981 0.593 3.917 1.175 0.396 1.166 0.915 2.257 1.679 0.947 0.679 0.769 1.262 1.809 2.060 1.073 3.094 1.136 0.524 0.297 0.954 0.397 0.212 2.434 920 chr13 53744005 53748001 + 0 NA Intergenic MTC|LTR|ERVL-MaLR 97418 NR_131010 75252 Mm.401989 NR_131010 4930555G21Rik - RIKEN cDNA 4930555G21 gene ncRNA nan 0.537 0.159 0.268 0.083 0.062 0.169 0.207 0.164 0.113 0.125 0.052 0.057 nan 0.201 nan 0.177 nan 0.782 1.381 0.677 4.805 0.355 0.399 nan 428 chr11 59000670 59005065 + 0 NA intron (NM_001171512, intron 89 of 103) intron (NM_001171512, intron 89 of 103) 24774 NM_053168 94091 Mm.248049 NM_053168 ENSMUSG00000020455 Trim11 - tripartite motif-containing 11 protein-coding 1.784 1.579 0.951 1.612 0.863 0.688 1.382 1.828 1.052 1.328 0.793 0.789 1.102 nan 1.480 1.872 1.435 1.648 6.431 4.239 2.445 6.155 4.636 3.659 nan 2305 chr3 126360631 126368161 + 0 NA 5' UTR (NM_173451, exon 1 of 2) 5' UTR (NM_173451, exon 1 of 2) 544 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 6.083 8.178 4.303 4.135 4.904 2.746 8.134 6.221 4.881 4.367 4.831 3.351 7.969 8.899 6.080 5.269 4.747 7.257 2.166 1.655 0.787 1.119 2.234 1.439 5.104 887 chr13 44594113 44595275 + 0 NA Intergenic Intergenic -136080 NM_021878 16468 Mm.25059 NM_021878 ENSMUSG00000038518 Jarid2 Jmj|jumonji jumonji, AT rich interactive domain 2 protein-coding 2.179 0.519 0.453 nan 2.499 0.966 1.999 1.184 2.469 3.255 2.145 1.218 2.100 4.024 1.856 1.914 2.168 1.598 1.107 nan 0.138 0.410 0.593 0.166 1.154 3545 chr9 106723654 106725562 + 0 NA intron (NM_030730, intron 2 of 21) RLTR12C|LTR|ERVK -38656 NM_001286498 21767 Mm.22266 NM_011573 ENSMUSG00000040813 Tex264 TEG-264 testis expressed gene 264 protein-coding 6.755 6.683 2.128 6.381 3.348 2.005 6.246 6.748 nan nan 3.336 2.814 4.274 6.275 4.723 6.447 4.901 4.549 4.432 2.675 3.080 4.003 4.538 3.657 8.050 72 chr1 73008526 73010486 + 0 NA Intergenic L1Md_F2|LINE|L1 6393 NM_009407 21958 Mm.425024 NM_009407 ENSMUSG00000026182 Tnp1 Stp-1|TP1|Tp-1 transition protein 1 protein-coding 6.487 0.915 0.987 1.693 2.102 0.877 4.040 4.283 1.969 2.940 0.645 0.783 4.403 3.078 4.833 7.969 6.717 nan 6.527 4.026 2.845 4.386 6.481 4.980 5.094 3371 chr8 122078085 122083999 + 0 NA Intergenic Intergenic 103018 NR_106096 102466915 NR_106096 ENSMUSG00000099140 Mir7237 Gm27482|mmu-mir-7237 microRNA 7237 ncRNA 3.559 3.493 1.213 3.458 1.950 1.021 2.449 3.051 2.569 3.820 3.499 1.957 3.181 3.431 3.858 4.847 2.815 3.670 2.628 2.424 1.832 6.346 1.103 1.189 4.897 500 chr11 77498168 77501558 + 0 NA intron (NM_001004144, intron 4 of 19) intron (NM_001004144, intron 4 of 19) 6451 NM_001004144 216963 Mm.290182 NM_001004144 ENSMUSG00000011877 Git1 Cat-1|p95Cat G protein-coupled receptor kinase-interactor 1 protein-coding 12.836 14.236 6.993 12.953 9.836 5.717 9.870 9.011 7.001 15.896 8.826 5.909 8.849 13.026 nan 9.998 9.388 8.796 7.961 5.575 nan 7.333 6.675 6.494 13.481 1221 chr15 100582366 100588654 + 0 NA intron (NM_001304965, intron 6 of 10) intron (NM_001304965, intron 6 of 10) 855 NM_010127 19009 Mm.28825 NM_010127 ENSMUSG00000009739 Pou6f1 2310038G18Rik|C79593|Emb|cns-1 POU domain, class 6, transcription factor 1 protein-coding 7.226 2.862 1.960 1.562 3.008 2.087 9.913 9.999 4.107 6.516 1.403 1.271 9.846 5.542 5.086 4.993 7.420 3.900 1.439 2.346 2.384 1.520 1.800 1.419 4.252 1496 chr17 35080473 35083282 + 0 NA intron (NM_001163192, intron 3 of 5) B1_Mur1|SINE|Alu 3718 NM_001163192 433099 Mm.328993 NM_001163192 ENSMUSG00000034923 Ly6g6f CJ068215 lymphocyte antigen 6 complex, locus G6F protein-coding 4.256 1.098 0.788 0.976 2.687 2.764 6.338 4.268 1.653 1.338 1.017 3.189 5.678 4.676 2.649 3.747 2.823 3.206 0.987 0.934 1.325 1.452 0.868 1.053 2.042 1200 chr15 98572436 98575388 + 0 NA intron (NM_001201322, intron 1 of 3) B1_Mm|SINE|Alu 2908 NM_001201322 73863 Mm.66894 NM_001201322 ENSMUSG00000022993 4930415O20Rik - RIKEN cDNA 4930415O20 gene protein-coding 2.914 1.259 0.373 3.076 1.784 0.485 6.561 1.889 1.736 2.600 1.210 0.710 7.706 5.299 3.096 4.246 2.114 5.271 2.827 1.334 2.070 5.103 1.490 1.096 4.539 1757 chr19 23125090 23126747 + 0 NA Intergenic MIR|SINE|MIR -15308 NM_010638 16601 Mm.291595 NM_010638 ENSMUSG00000033863 Klf9 2310051E17Rik|AA589643|BTEB-1|Bteb1|ENSMUSG00000055440|Gm9971 Kruppel-like factor 9 protein-coding nan 0.545 0.409 nan 1.303 0.523 1.614 3.090 1.502 1.272 nan 0.425 1.261 3.424 1.758 1.792 1.797 1.278 nan 0.745 0.074 0.497 nan 0.400 1.820 918 chr13 53023869 53025629 + 0 NA Intergenic Intergenic -43710 NM_017373 18030 Mm.136604 NM_017373 ENSMUSG00000056749 Nfil3 AV225605|E4BP4 nuclear factor, interleukin 3, regulated protein-coding 5.025 6.505 2.708 5.757 3.686 2.209 3.710 4.585 3.200 6.871 3.182 1.784 3.860 4.597 4.830 5.886 2.946 6.147 3.843 1.968 2.170 4.994 3.034 3.719 7.060 1682 chr18 76275237 76278129 + 0 NA intron (NM_001311070, intron 1 of 8) intron (NM_001311070, intron 1 of 8) 14238 NM_001311070 17126 Mm.152699 NM_010754 ENSMUSG00000024563 Smad2 7120426M23Rik|Madh2|Madr2|Smad-2|mMad2 SMAD family member 2 protein-coding 1.451 nan 0.378 1.313 1.450 0.840 1.679 5.375 1.984 3.002 1.493 1.658 2.080 5.901 4.302 4.683 1.970 1.831 0.713 nan 0.445 1.064 0.647 0.732 4.774 2781 chr5 138052248 138054823 + 0 NA 5' UTR (NM_001310703, exon 1 of 3) 5' UTR (NM_001310703, exon 1 of 3) 340 NM_001310703 622486 NM_001310703 ENSMUSG00000075598 Smok3c EG622486 sperm motility kinase 3C protein-coding 3.663 1.353 0.698 3.932 2.837 1.560 4.857 3.161 3.552 4.586 7.142 5.341 4.089 6.557 4.198 3.847 1.818 4.358 0.940 1.230 0.523 0.624 nan 1.488 3.306 1413 chr17 21081263 21083905 + 0 NA Intergenic Intergenic -8624 NR_137274 328766 Mm.50947 NR_137274 ENSMUSG00000102080 Gm5092 4933430A09 predicted gene 5092 ncRNA 8.905 9.648 4.412 6.725 4.707 1.461 7.559 nan 5.294 7.213 5.831 2.388 5.762 9.629 8.013 10.542 5.850 6.815 4.499 3.273 2.085 5.971 3.209 2.840 12.091 2107 chr2 173095392 173103543 + 0 NA intron (NM_001081387, intron 9 of 10) (TCTG)n|Simple_repeat|Simple_repeat 20058 NM_001081387 664799 Mm.389396 NM_001081387 ENSMUSG00000070495 Ctcfl Boris|OTTMUSG00000016680 CCCTC-binding factor (zinc finger protein)-like protein-coding 4.571 4.810 1.294 4.693 2.835 1.545 4.655 7.815 5.322 8.990 5.548 4.013 6.496 5.450 5.419 6.994 5.442 5.564 2.261 1.002 1.367 2.380 1.292 1.547 8.903 1108 chr15 59308087 59314033 + 0 NA non-coding (NR_045613, exon 2 of 2) non-coding (NR_045613, exon 2 of 2) -4032 NM_009270 20775 Mm.296169 NM_009270 ENSMUSG00000022351 Sqle AI323792 squalene epoxidase protein-coding 6.258 1.404 1.053 nan 3.351 1.698 nan 8.465 4.399 nan 3.200 2.207 9.195 7.678 7.452 6.384 7.183 7.118 1.923 1.109 0.513 1.764 1.891 1.058 5.308 1275 chr16 11225011 11226366 + 0 NA non-coding (NR_038156, exon 3 of 3) non-coding (NR_038156, exon 3 of 3) 22305 NR_038156 69918 Mm.440400 NR_038154 2610020C07Rik - RIKEN cDNA 2610020C07 gene ncRNA 3.096 1.175 0.525 0.744 2.930 2.339 3.616 4.102 1.659 1.197 1.484 1.199 2.670 3.639 2.625 1.876 2.547 2.622 0.969 0.960 0.783 0.610 0.750 0.615 1.556 2211 chr3 88302913 88309008 + 0 NA intron (NM_009836, intron 6 of 13) intron (NM_009836, intron 6 of 13) 8825 NM_009836 12462 Mm.256034 NM_009836 ENSMUSG00000001416 Cct3 AL024092|Cctg|Tcp1-rs3|TriC-P5 chaperonin containing Tcp1, subunit 3 (gamma) protein-coding 6.945 2.194 0.873 7.578 5.310 4.070 7.892 6.721 4.382 6.282 5.433 3.259 6.297 8.967 7.224 7.998 4.629 7.054 nan 2.732 2.691 5.401 4.812 4.116 8.997 1598 chr18 11022688 11026238 + 0 NA Intergenic PB1D11|SINE|Alu -28047 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding 2.293 0.625 0.392 1.237 1.549 0.741 3.013 2.837 2.026 2.171 0.464 0.440 4.141 4.269 4.055 4.805 3.815 3.465 0.654 0.609 0.423 0.377 0.476 0.338 3.943 3453 chr9 25602398 25604163 + 0 NA intron (NM_026189, intron 7 of 7) intron (NM_026189, intron 7 of 7) 121683 NM_026189 67484 Mm.112977 NM_026189 ENSMUSG00000036611 Eepd1 2310005P05Rik|AI481005 endonuclease/exonuclease/phosphatase family domain containing 1 protein-coding 0.351 0.756 0.221 0.507 0.331 0.068 0.358 0.452 0.390 0.162 0.143 0.112 0.209 0.148 0.505 nan 0.070 0.501 4.745 5.763 2.126 6.296 5.144 4.273 0.679 2282 chr3 105694607 105698267 + 0 NA Intergenic Intergenic -8162 NM_175398 109050 Mm.212591 NM_175398 ENSMUSG00000048458 Fam212b 6530418L21Rik|inka2 family with sequence similarity 212, member B protein-coding 7.367 18.258 7.318 7.277 3.915 1.319 3.946 4.391 4.276 4.809 2.850 2.159 4.548 5.232 5.682 5.338 3.820 5.892 2.886 2.986 2.249 3.793 1.582 1.149 8.310 1014 chr14 55620801 55625112 + 0 NA intron (NM_020002, intron 11 of 19) intron (NM_020002, intron 11 of 19) 4790 NM_020002 56739 Mm.23149 NM_020002 ENSMUSG00000002324 Rec8 Rec8L1|mrec REC8 meiotic recombination protein protein-coding 3.470 nan 0.548 2.882 4.187 2.288 2.379 3.669 2.699 3.783 0.559 0.522 3.919 10.679 5.110 7.132 4.507 4.498 1.431 1.341 1.168 1.124 1.689 1.552 9.506 2760 chr5 124924161 124930201 + 0 NA Intergenic Intergenic 64476 NM_001081750 269704 Mm.138617 NM_001081750 ENSMUSG00000079215 Zfp664 AW060232|D930038J03Rik|ZFOC1|Znf664 zinc finger protein 664 protein-coding 5.889 8.044 5.700 4.444 5.991 3.760 5.745 4.828 3.315 nan 2.648 2.705 4.056 5.700 nan 4.232 4.064 nan nan 3.459 3.834 2.755 nan 3.300 nan 843 chr13 5858949 5871391 + 0 NA exon (NM_011803, exon 2 of 4) exon (NM_011803, exon 2 of 4) 3681 NM_011803 23849 Mm.275036 NM_011803 ENSMUSG00000000078 Klf6 AI448727|BCD1|C86813|CPBP|Copeb|FM2|FM6|Ierepo1|Ierepo3|R75280|Zf9 Kruppel-like factor 6 protein-coding 9.677 6.530 2.920 10.220 8.101 4.020 5.787 6.993 7.210 7.855 8.011 4.831 6.621 10.717 8.380 8.928 5.713 9.484 4.127 2.972 1.445 4.564 3.306 2.180 9.240 1856 chr2 32919718 32923433 + 0 NA intron (NM_146119, intron 9 of 13) B1_Mus1|SINE|Alu 39680 NM_199302 227738 Mm.248037 NM_199302 ENSMUSG00000026792 Lrsam1 - leucine rich repeat and sterile alpha motif containing 1 protein-coding 0.537 0.590 0.414 1.878 0.535 0.296 0.446 0.385 nan 0.632 0.454 0.326 0.223 0.493 0.527 0.911 0.457 1.083 0.937 1.626 0.727 3.846 0.622 0.607 0.746 2529 chr4 138172804 138175695 + 0 NA intron (NM_172703, intron 21 of 34) L1_Mus4|LINE|L1 11040 NR_105825 102466907 NR_105825 ENSMUSG00000098513 Mir6399 Gm27667|mir-6399|mmu-mir-6399 microRNA 6399 ncRNA nan 0.443 0.395 0.298 0.296 0.017 0.392 0.174 nan 0.213 0.063 0.023 0.134 0.236 0.134 0.455 0.237 nan 5.737 5.218 3.061 6.306 9.337 4.827 0.393 1491 chr17 34819357 34822720 + 0 NA intron (NM_011413, intron 7 of 40) B4|SINE|B4 2416 NM_011413 625018 Mm.439678 NM_011413 C4a Slp|SlpA complement component 4A (Rodgers blood group) protein-coding nan 1.803 0.799 5.015 5.979 2.738 7.548 6.409 2.517 3.719 1.167 1.158 4.902 11.794 8.398 10.433 5.362 5.930 0.739 0.563 0.630 1.039 0.426 0.142 8.842 1362 chr16 87699185 87701787 + 0 NA intron (NM_007520, intron 1 of 4) intron (NM_007520, intron 1 of 4) 1532 NM_007520 12013 Mm.26147 NM_007520 ENSMUSG00000025612 Bach1 6230421P05Rik|AI323795 BTB and CNC homology 1, basic leucine zipper transcription factor 1 protein-coding 10.995 nan 1.093 9.963 5.542 3.425 5.584 11.904 6.389 13.810 7.006 3.838 9.794 12.054 9.546 11.722 7.736 11.323 4.593 2.980 1.692 nan 3.030 2.156 12.955 1804 chr19 53272535 53274471 + 0 NA Intergenic L1ME4b|LINE|L1 -18298 NR_036590 69319 Mm.57452 NR_036590 1700001K23Rik - RIKEN cDNA 1700001K23 gene ncRNA 2.766 5.581 1.534 4.482 2.280 1.023 1.074 0.847 1.965 2.356 1.434 0.942 0.644 1.361 1.532 2.051 1.926 3.274 0.600 1.735 1.101 1.018 1.934 2.049 1.778 2315 chr3 131156102 131156938 + 0 NA intron (NM_001276403, intron 3 of 11) intron (NM_001276403, intron 3 of 11) 43729 NM_001276403 16842 Mm.255219 NM_010703 ENSMUSG00000027985 Lef1 3000002B05|AI451430|Lef-1 lymphoid enhancer binding factor 1 protein-coding 1.982 0.582 0.679 1.137 1.836 0.712 4.927 6.259 1.494 1.793 3.074 3.184 3.647 3.547 2.075 nan nan 1.295 3.714 3.220 1.861 1.781 8.500 5.058 0.638 632 chr11 102355620 102358581 + 0 NA exon (NM_011403, exon 10 of 20) exon (NM_011403, exon 10 of 20) 8181 NM_011403 20533 Mm.7248 NM_011403 ENSMUSG00000006574 Slc4a1 Ae1|CD233|Empb3|l11Jus51 solute carrier family 4 (anion exchanger), member 1 protein-coding 6.144 3.149 2.006 3.569 4.313 2.643 4.397 4.356 3.577 4.465 1.594 1.123 6.041 6.152 3.701 5.575 4.671 4.701 0.903 nan 0.704 0.782 nan nan 3.053 2357 chr4 41687044 41688550 + 0 NA intron (NM_016673, intron 1 of 9) intron (NM_016673, intron 1 of 9) 7656 NM_001136056 12804 Mm.425178 NM_016673 ENSMUSG00000028444 Cntfr Cntfralpha ciliary neurotrophic factor receptor protein-coding 6.607 8.635 1.353 7.774 2.011 1.017 5.524 6.843 4.323 6.751 3.948 3.228 4.467 5.940 8.109 9.384 3.727 7.388 6.040 2.970 2.919 6.334 2.838 1.489 12.100 394 chr11 11657804 11661271 + 0 NA Intergenic Intergenic -26388 NM_009578 22778 Mm.103545 NM_009578 ENSMUSG00000018654 Ikzf1 5832432G11Rik|Ikaros|LyF-1|Zfpn1a1|Znfn1a1|hlk-1|mKIAA4227 IKAROS family zinc finger 1 protein-coding nan 7.933 4.218 0.791 0.272 0.258 0.351 0.388 0.600 0.659 0.399 0.237 0.244 0.262 0.400 0.625 0.465 0.703 0.503 nan 0.283 0.387 0.325 0.356 0.318 1371 chr16 92644231 92647447 + 0 NA intron (NM_001111023, intron 3 of 5) intron (NM_001111023, intron 3 of 5) 51490 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 8.662 nan 0.880 4.941 5.116 2.382 9.381 11.313 4.996 6.485 6.019 3.035 11.989 11.586 8.486 12.156 5.930 9.475 2.265 1.154 0.950 nan 0.946 0.906 13.893 2484 chr4 128697589 128703058 + 0 NA intron (NM_018774, intron 1 of 14) L1MB4|LINE|L1 11585 NM_018774 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 3.143 4.001 1.739 3.874 4.013 2.129 3.412 2.256 2.466 3.277 1.541 0.903 3.820 5.122 nan 4.734 2.669 3.659 2.276 1.438 1.173 4.063 1.217 0.966 5.945 2257 chr3 95129220 95130406 + 0 NA TTS (NM_001163573) TTS (NM_001163573) 4199 NM_027013 69269 Mm.182944 NM_027013 ENSMUSG00000092607 Scnm1 3110001I17Rik|Scnm1-ps sodium channel modifier 1 protein-coding 1.916 0.923 0.422 1.683 2.424 1.346 2.260 2.934 1.880 1.763 nan 1.200 3.240 3.540 2.194 2.528 2.139 1.974 0.617 0.545 0.395 0.264 0.592 0.241 2.075 610 chr11 100906329 100908050 + 0 NA intron (NM_213660, intron 4 of 23) intron (NM_213660, intron 4 of 23) 32351 NM_213660 20848 Mm.249934 NM_011486 ENSMUSG00000004040 Stat3 1110034C02Rik|AW109958|Aprf signal transducer and activator of transcription 3 protein-coding 2.103 nan 1.129 0.846 1.382 0.637 2.457 3.477 1.707 1.197 1.041 0.673 1.128 2.521 2.505 1.662 nan 2.111 5.877 5.592 2.520 5.596 6.565 3.940 1.502 514 chr11 83892595 83894447 + 0 NA exon (NM_001291268, exon 7 of 9) exon (NM_001291268, exon 7 of 9) 40561 NM_001291269 21410 Mm.7226 NM_009330 ENSMUSG00000020679 Hnf1b HNF-1-beta|HNF-1B|HNF-1Beta|Hnf1beta|LFB3|Tcf-2|Tcf2|vHNF1 HNF1 homeobox B protein-coding 4.423 0.695 0.521 2.969 1.371 0.675 2.769 3.090 2.778 2.341 3.935 0.683 2.938 5.291 3.966 3.798 2.135 5.766 0.822 0.531 0.202 nan 0.490 0.423 4.463 2659 chr5 42234193 42237188 + 0 NA Intergenic Intergenic 167730 NR_131130 433882 Mm.319353 NR_131130 ENSMUSG00000067285 Gm16223 EG433882|OTTMUSG00000031875 predicted gene 16223 ncRNA 7.432 8.220 4.705 7.596 6.374 5.653 7.894 5.701 5.768 7.797 3.909 4.336 5.224 7.801 nan 6.877 6.595 6.537 4.390 4.443 5.234 4.309 5.284 6.738 6.975 2444 chr4 119573873 119579884 + 0 NA intron (NM_172699, intron 3 of 12) MIRb|SINE|MIR 37217 NM_172699 230700 Mm.259227 NM_172699 ENSMUSG00000032998 Foxj3 C330039G02Rik|Fhd6 forkhead box J3 protein-coding 0.447 0.682 0.304 0.710 0.341 0.068 0.283 0.295 0.493 0.480 0.355 0.276 0.229 0.340 0.533 nan 0.340 0.472 5.200 2.263 0.956 5.245 2.662 1.473 0.634 725 chr12 33866407 33869184 + 0 NA Intergenic BGLII_Mur|LTR|ERVK -60630 NM_033522 114712 Mm.204643 NM_033522 ENSMUSG00000046518 Ferd3l Mnato3|N-twist|Nato|Nato3|Ntwist|Ptfb|bHLHa31|fer3 Fer3-like (Drosophila) protein-coding 6.095 8.154 2.337 4.337 3.626 1.929 3.579 3.319 nan 5.064 1.234 1.392 4.934 6.400 5.999 7.983 3.691 6.650 nan 0.433 0.266 1.163 0.550 0.334 9.709 513 chr11 82891823 82896363 + 0 NA intron (NM_030224, intron 1 of 3) B1_Mus1|SINE|Alu 1948 NM_030224 78919 Mm.286733 NM_030224 ENSMUSG00000018844 Fndc8 4930466G16Rik fibronectin type III domain containing 8 protein-coding 5.108 7.798 2.318 5.712 1.716 1.266 2.366 2.629 3.076 2.516 5.574 2.186 1.791 2.319 nan 2.993 1.994 4.297 1.061 1.206 nan 0.937 0.477 0.232 3.262 50 chr1 60056671 60058119 + 0 NA Intergenic L1_Mus3|LINE|L1 -14273 NM_001316695 70375 Mm.17834 NM_027407 ENSMUSG00000026018 Ica1l 1700030B17Rik|Als2cr15 islet cell autoantigen 1-like protein-coding 3.654 1.245 1.029 2.116 4.577 2.169 3.101 3.164 1.575 2.398 3.334 2.932 3.871 4.482 3.121 4.881 1.713 3.645 0.764 0.556 0.487 0.636 0.524 0.576 3.291 2645 chr5 32177033 32180434 + 0 NA Intergenic RLTR10|LTR|ERVK 42261 NM_008037 14284 Mm.24684 NM_008037 ENSMUSG00000029135 Fosl2 Fra-2 fos-like antigen 2 protein-coding 2.307 1.538 1.041 2.070 2.060 0.863 1.451 1.598 2.028 2.936 3.708 2.917 1.389 1.880 1.890 2.095 1.555 1.766 2.059 2.260 1.339 3.696 1.080 1.046 1.649 1519 chr17 46403032 46405428 + 0 NA intron (NM_207671, intron 5 of 9) L1MC4|LINE|L1 20464 NM_021346 57908 Mm.439916 NM_021346 ENSMUSG00000015597 Zfp318 2610034E08Rik|D530032D06Rik|TZF|Znf318 zinc finger protein 318 protein-coding 2.450 0.864 0.384 2.340 1.468 1.224 3.520 3.276 1.926 2.339 2.229 1.053 2.086 4.746 2.506 4.431 nan 3.937 0.850 0.287 0.595 1.734 0.530 0.333 5.393 1994 chr2 148168931 148171083 + 0 NA Intergenic L1_Mus1|LINE|L1 -123038 NM_010446 15376 Mm.938 NM_010446 ENSMUSG00000037025 Foxa2 HNF3-beta|HNF3beta|Hnf-3b|Hnf3b|Tcf-3b|Tcf3b forkhead box A2 protein-coding 2.770 0.568 0.291 3.780 0.912 0.386 0.437 0.832 1.759 2.155 0.737 0.880 0.559 1.558 1.061 1.879 1.461 3.254 nan 0.426 0.399 0.714 0.321 0.288 1.139 3252 chr8 34894654 34898173 + 0 NA intron (NM_175091, intron 3 of 26) L1ME1|LINE|L1 69277 NM_175091 21951 Mm.88364 NM_175091 ENSMUSG00000031529 Tnks 4930554K12Rik|AI662855|ARTD5|C86528|D130072O21Rik|TANK1|mTNKS1 tankyrase, TRF1-interacting ankyrin-related ADP-ribose polymerase protein-coding 4.684 1.759 0.596 6.642 1.910 0.840 2.318 3.004 2.732 2.817 2.297 2.038 1.798 2.888 2.398 2.886 1.712 3.821 0.935 1.099 0.722 1.462 0.895 0.723 3.304 2633 chr5 24546816 24548986 + 0 NA intron (NR_033188, intron 11 of 17) intron (NR_033188, intron 11 of 17) -6923 NM_001310476 117590 Mm.207071 NM_080444 ENSMUSG00000038204 Asb10 Asb-10|BB137407 ankyrin repeat and SOCS box-containing 10 protein-coding 3.988 1.033 0.549 4.398 1.384 0.450 4.265 5.803 3.178 4.553 0.346 0.520 6.773 6.552 3.970 6.948 4.724 5.589 0.717 0.552 0.270 0.833 0.518 0.513 4.641 3173 chr7 118223886 118228451 + 0 NA intron (NM_001031814, intron 1 of 62) ORR1C2|LTR|ERVL-MaLR 17469 NM_001031814 233789 Mm.309053 NM_177180 ENSMUSG00000030655 Smg1 2610207I05Rik|5430435M13Rik|C130002K18Rik|mKIAA0421 SMG1 homolog, phosphatidylinositol 3-kinase-related kinase (C. elegans) protein-coding 8.540 11.618 4.581 10.306 5.969 4.599 7.728 9.684 6.414 11.312 7.219 4.115 9.400 9.750 9.013 8.574 6.884 9.512 6.888 3.365 4.212 6.663 4.073 5.787 12.243 797 chr12 81117100 81120503 + 0 NA intron (NM_022316, intron 3 of 12) intron (NM_022316, intron 3 of 12) -47350 NR_037227 100526532 NR_037227 ENSMUSG00000092673 Mir3067 mir-3067|mmu-mir-3067 microRNA 3067 ncRNA 6.434 1.626 1.130 3.963 2.564 1.058 7.652 3.475 3.824 4.367 1.119 1.041 9.076 9.068 6.710 10.101 8.056 6.210 0.838 0.455 0.360 0.767 0.562 0.182 11.004 2459 chr4 123270188 123272503 + 0 NA Intergenic B3|SINE|B2 -11566 NM_130881 230721 Mm.277091 NM_130881 ENSMUSG00000011257 Pabpc4 - poly(A) binding protein, cytoplasmic 4 protein-coding 3.261 1.924 1.014 4.239 2.540 1.107 1.227 1.352 2.401 2.278 2.081 1.092 1.246 2.707 1.802 2.454 0.923 4.111 0.932 1.351 0.809 1.176 0.928 0.431 2.399 2197 chr3 69177833 69179638 + 0 NA Intergenic MLT2B2|LTR|ERVL -43684 NM_027843 71619 Mm.98122 NM_027843 ENSMUSG00000098207 Arl14 9130014L17Rik|Arf7 ADP-ribosylation factor-like 14 protein-coding 2.691 3.561 2.269 2.950 2.011 1.129 3.571 3.666 3.669 3.754 3.143 2.733 6.771 6.736 5.395 3.896 6.130 5.059 3.567 2.505 1.978 3.087 2.563 1.630 4.827 3543 chr9 106227656 106231813 + 0 NA Intergenic B2_Mm2|SINE|B2 7136 NM_031178 81897 Mm.44889 NM_031178 ENSMUSG00000045322 Tlr9 - toll-like receptor 9 protein-coding 5.491 0.966 0.341 5.323 2.989 1.181 4.538 3.305 nan nan 2.962 0.956 5.573 8.590 4.546 6.523 3.263 7.576 0.890 0.697 0.468 0.827 0.772 0.810 8.843 1136 chr15 75722208 75725868 + 0 NA Intergenic Intergenic 19750 NM_008164 14787 Mm.57052 NM_008164 ENSMUSG00000022580 Rhpn1 BB023497|Grbp|Rhophilin|mKIAA1929 rhophilin, Rho GTPase binding protein 1 protein-coding nan nan 0.545 nan 0.935 0.664 3.716 6.442 2.253 nan nan 1.248 4.082 nan 3.906 3.980 3.578 3.668 1.953 1.531 1.019 5.411 1.598 1.407 4.537 1175 chr15 79571105 79573667 + 0 NA intron (NM_010059, intron 12 of 13) intron (NM_010059, intron 12 of 13) -25645 NM_199080 67040 Mm.29644 NM_152806 ENSMUSG00000055065 Ddx17 2610007K22Rik|A430025E01Rik|AI047725|C80929|Gm926|p72 DEAD (Asp-Glu-Ala-Asp) box polypeptide 17 protein-coding 6.592 18.587 6.420 9.874 4.693 3.559 nan 6.531 3.609 8.835 nan 1.994 5.186 7.145 7.581 7.783 4.405 7.455 5.316 3.103 3.598 7.418 3.935 3.892 10.878 1236 chr15 102233177 102236019 + 0 NA TTS (NM_011244) TTS (NM_011244) -2663 NM_013566 16421 Mm.58 NM_013566 ENSMUSG00000001281 Itgb7 Ly69 integrin beta 7 protein-coding 9.303 10.421 5.382 8.955 6.614 6.083 10.285 10.754 6.574 8.476 6.898 3.439 11.452 10.350 8.492 7.521 7.234 8.434 4.886 3.182 4.633 5.626 5.752 5.083 8.111 1683 chr18 76284246 76289114 + 0 NA intron (NM_001311070, intron 1 of 8) intron (NM_001311070, intron 1 of 8) 24235 NM_001311070 17126 Mm.152699 NM_010754 ENSMUSG00000024563 Smad2 7120426M23Rik|Madh2|Madr2|Smad-2|mMad2 SMAD family member 2 protein-coding 0.737 nan 0.404 1.022 0.396 0.193 0.833 1.614 1.261 nan 2.899 1.927 1.099 1.293 1.797 1.649 0.798 1.171 4.455 nan 0.887 4.448 2.456 1.700 1.362 2413 chr4 97669134 97673117 + 0 NA intron (NM_001122952, intron 1 of 10) intron (NM_001122952, intron 1 of 10) -86534 NR_015513 319865 Mm.373807 NM_177023 E130114P18Rik - RIKEN cDNA E130114P18 gene ncRNA 5.996 nan 0.609 4.731 2.307 0.814 4.114 5.571 5.771 7.054 6.571 3.558 6.769 6.217 6.033 7.105 3.699 7.057 1.840 0.951 0.708 nan 0.670 0.321 7.510 645 chr11 115492590 115511810 + 0 NA intron (NM_008258, intron 2 of 4) B3|SINE|B2 -10386 NM_015807 50773 Mm.390379 NM_015807 ENSMUSG00000020736 Nt5c Dnt|Dnt1|Umph-2|Umph2 5',3'-nucleotidase, cytosolic protein-coding 2.036 15.315 7.984 2.122 1.988 1.622 nan nan 1.680 nan 1.042 0.845 0.997 1.506 1.692 1.528 1.180 nan 1.261 nan 1.601 0.875 1.130 1.126 1.583 1326 chr16 25943954 25949967 + 0 NA Intergenic Intergenic 145044 NM_001127264 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 3.440 0.563 0.231 1.649 1.237 0.688 4.029 5.634 2.470 2.143 4.618 1.708 3.632 4.474 4.146 5.686 3.329 3.652 1.120 0.839 0.674 1.797 nan 0.466 4.556 2566 chr4 148941145 148942628 + 0 NA intron (NM_027195, intron 13 of 15) intron (NM_027195, intron 13 of 15) 137494 NM_027195 69743 Mm.233879 NM_027195 ENSMUSG00000028977 Casz1 2410019P08Rik|AV096627|BC040081|Cst|D4Ertd432e castor zinc finger 1 protein-coding 3.285 nan 0.219 1.817 2.092 1.232 3.322 5.064 1.429 1.322 1.664 1.284 1.935 3.945 3.514 3.990 3.110 3.703 2.910 1.029 1.404 1.904 4.325 4.470 6.204 1382 chr16 95478173 95490109 + 0 NA intron (NM_001302152, intron 3 of 10) intron (NM_001302152, intron 3 of 10) -24793 NM_001302153 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding 8.986 1.008 0.601 5.049 5.540 3.156 3.373 2.856 nan 9.048 5.173 1.158 7.336 8.349 nan 6.125 6.410 nan nan 1.171 0.831 0.752 0.903 0.743 6.956 1176 chr15 79595798 79602027 + 0 NA intron (NM_010059, intron 4 of 13) intron (NM_010059, intron 4 of 13) 6197 NR_103477 13404 Mm.2524 NM_010059 ENSMUSG00000022429 Dmc1 Dmc1h|Lim15|Mei11|sgdp DNA meiotic recombinase 1 protein-coding 2.975 nan 0.375 nan 1.520 0.807 nan 2.146 1.363 nan nan 0.631 4.829 4.440 3.325 3.569 2.912 3.277 0.941 0.463 0.459 nan 0.313 0.251 5.635 1452 chr17 27770119 27772853 + 0 NA intron (NM_001033279, intron 3 of 4) intron (NM_001033279, intron 3 of 4) -42535 NM_013891 30051 Mm.26768 NM_013891 ENSMUSG00000024215 Spdef PDEF|Pse SAM pointed domain containing ets transcription factor protein-coding 5.851 9.355 3.715 6.690 3.882 3.631 7.545 5.275 4.610 7.203 5.458 3.350 4.535 5.606 7.325 8.656 5.643 5.752 3.550 2.305 3.424 3.837 2.397 3.782 11.864 2881 chr6 71677610 71678902 + 0 NA Intergenic Intergenic -29425 NM_178608 52250 Mm.146332 NM_178608 ENSMUSG00000052852 Reep1 D6Ertd253e receptor accessory protein 1 protein-coding 1.681 0.369 0.315 1.029 0.791 0.535 2.067 2.294 1.024 1.502 0.384 0.448 1.514 3.188 2.741 2.831 2.081 1.976 1.242 0.480 0.217 1.817 0.204 0.197 1.208 2384 chr4 62846622 62848166 + 0 NA Intergenic Intergenic -118180 NM_028326 72701 Mm.26479 NM_028326 ENSMUSG00000028358 Zfp618 2810031P15Rik|2810040O04Rik|AI415580|AI505139|D430033D05Rik|Nedd10|Znf618|bM257P7.1 zinc finger protein 618 protein-coding 2.689 0.890 0.407 1.967 0.770 0.292 3.733 2.385 2.001 2.324 0.406 1.120 4.034 4.197 5.908 6.652 3.391 2.766 nan 0.837 0.770 1.581 1.214 0.736 5.122 1039 chr14 99946584 99949618 + 0 NA intron (NM_010636, intron 4 of 6) intron (NM_010636, intron 4 of 6) 201695 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 6.185 nan 0.294 3.703 5.227 3.275 6.941 12.173 8.278 7.382 6.307 5.536 8.212 8.864 9.285 9.249 6.177 7.495 1.906 0.855 0.540 1.193 2.314 1.732 5.704 1815 chr2 9842868 9843976 + 0 NA Intergenic Intergenic 35178 NM_008091 14462 Mm.313866 NM_008091 ENSMUSG00000015619 Gata3 Gata-3|jal GATA binding protein 3 protein-coding 2.062 0.478 0.275 0.413 1.363 0.491 3.786 7.180 1.267 1.149 0.333 0.307 1.911 3.818 3.678 3.612 4.192 1.755 0.351 0.148 0.081 0.176 0.410 0.213 3.376 2637 chr5 30949836 30956104 + 0 NA non-coding (NR_003522, exon 2 of 9) non-coding (NR_003522, exon 2 of 9) 2864 NM_021304 57742 Mm.389615 NM_021304 ENSMUSG00000006638 Abhd1 LABH-1|LABH1 abhydrolase domain containing 1 protein-coding 6.317 4.316 1.359 4.218 1.669 0.616 4.221 6.108 3.298 3.022 8.271 3.401 4.728 5.589 6.505 5.979 2.906 4.992 1.920 1.059 0.895 1.928 1.070 0.700 6.873 1005 chr14 54739861 54741901 + 0 NA intron (NM_016972, intron 3 of 10) intron (NM_016972, intron 3 of 10) -28707 NM_207131 110794 Mm.236223 NM_207131 ENSMUSG00000052435 Cebpe C/EBPe|CRP1|Gm294 CCAAT/enhancer binding protein (C/EBP), epsilon protein-coding 3.083 nan 0.649 1.183 0.561 0.121 2.434 2.973 1.551 1.467 3.279 1.057 2.552 3.753 5.040 2.951 0.994 2.800 1.044 0.398 0.180 1.021 0.168 0.310 3.022 28 chr1 36320760 36322426 + 0 NA non-coding (NR_033310, exon 6 of 6) non-coding (NR_033310, exon 6 of 6) 13860 NM_001172205 214855 Mm.34316 NM_145996 ENSMUSG00000037447 Arid5a D430024K22Rik|Mrf1 AT rich interactive domain 5A (MRF1-like) protein-coding 6.035 11.558 4.623 5.221 5.095 3.632 8.318 5.852 4.637 4.778 6.014 3.154 8.602 8.957 5.768 7.476 3.747 4.801 2.446 1.458 2.232 1.635 1.359 2.077 5.056 2089 chr2 167625299 167628171 + 0 NA intron (NM_001311146, intron 1 of 2) B1_Mur3|SINE|Alu 5270 NM_001311146 66589 Mm.278783 NM_023230 ENSMUSG00000078923 Ube2v1 0610011J09Rik|AI256840|CROC-1|CROC1|D7Bwg1382e|UEV-1 ubiquitin-conjugating enzyme E2 variant 1 protein-coding 7.121 2.215 1.261 3.376 6.069 3.899 4.789 3.743 2.568 3.381 3.203 1.733 2.531 4.715 3.039 4.404 2.842 nan nan 1.343 1.234 1.105 0.835 0.731 6.125 589 chr11 98731112 98739242 + 0 NA Intergenic Intergenic -5742 NM_011869 23989 Mm.246493 NM_011869 ENSMUSG00000017210 Med24 911GSE|AU040102|AW547152|D11Ertd307e|DRIP100|Gse2|Pparb2|Pparbp2|R75526|Thrap4|Trap100 mediator complex subunit 24 protein-coding 3.827 nan 0.775 3.345 5.644 4.332 4.833 5.061 3.654 3.914 2.243 2.537 5.757 7.653 4.140 6.264 nan 3.922 0.731 nan 1.024 0.947 nan nan 3.853 2087 chr2 167577628 167581650 + 0 NA Intergenic PB1D7|SINE|Alu 41444 NM_011427 20613 Mm.2093 NM_011427 ENSMUSG00000042821 Snai1 Sna|Sna1|Snail|Snail1 snail family zinc finger 1 protein-coding 6.012 4.403 1.828 5.179 3.281 1.881 1.484 2.548 2.425 3.666 3.162 1.111 1.453 nan 2.519 3.240 1.502 nan nan 2.348 2.226 3.831 1.192 1.134 4.678 1337 chr16 38647033 38655326 + 0 NA intron (NM_020260, intron 1 of 11) intron (NM_020260, intron 1 of 11) 61856 NM_020260 12549 Mm.370848 NM_020260 ENSMUSG00000022799 Arhgap31 5830477L08Rik|AU041750|Cdgap|D330026I07Rik Rho GTPase activating protein 31 protein-coding 6.213 1.192 0.505 4.114 4.081 2.622 1.562 3.041 4.134 5.301 0.993 0.882 4.082 7.208 5.716 7.424 4.398 7.853 0.855 1.009 0.681 0.749 0.458 0.447 6.417 3474 chr9 37185107 37187484 + 0 NA Intergenic (CAGAGA)n|Simple_repeat|Simple_repeat -21928 NM_025464 66279 Mm.41451 NM_025464 ENSMUSG00000032121 Tmem218 1810021J13Rik|AV004931 transmembrane protein 218 protein-coding 2.362 0.694 0.656 2.389 1.211 1.493 1.410 0.818 3.412 4.654 0.346 0.286 3.940 2.202 2.089 3.949 4.098 4.070 nan 0.805 0.928 0.350 1.107 1.083 2.259 215 chr1 193100843 193105958 + 0 NA Intergenic Intergenic 26851 NM_145415 215193 Mm.173758 NM_145415 ENSMUSG00000016181 Diexf AA408296|AW045375|Def digestive organ expansion factor homolog (zebrafish) protein-coding 6.253 2.511 0.869 4.403 3.548 2.562 3.619 3.531 3.136 4.121 2.172 1.792 4.551 4.795 4.439 8.719 4.255 5.740 3.221 1.757 1.882 3.311 nan 2.149 6.222 3320 chr8 89411620 89413533 + 0 NA Intergenic Intergenic -368414 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 5.609 3.420 1.201 5.757 2.440 2.843 2.942 7.740 nan 3.422 6.622 4.297 4.376 4.038 3.927 4.939 2.523 5.169 nan 1.089 1.452 1.198 1.163 0.760 3.705 687 chr11 119683045 119685461 + 0 NA intron (NM_028898, intron 3 of 33) intron (NM_028898, intron 3 of 33) 81348 NM_028898 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 1.075 nan 0.611 0.878 0.716 0.510 nan nan 1.281 nan 1.554 2.857 0.498 0.931 0.526 0.558 0.588 nan 2.112 nan 1.291 1.468 5.354 2.311 0.676 3101 chr7 30199776 30213216 + 0 NA Intergenic MMERVK9E_I-int|LTR|ERVK -11448 NM_009795 12336 Mm.439782 NM_009795 ENSMUSG00000001794 Capns1 Capa-4|Capa4|Capn4|D7Ertd146e calpain, small subunit 1 protein-coding 5.135 0.728 0.532 5.392 2.845 1.637 6.335 7.376 5.692 7.926 2.753 1.717 6.288 6.911 7.319 8.356 5.053 8.094 3.569 2.858 2.071 5.683 3.067 2.464 8.084 2098 chr2 169413993 169416695 + 0 NA Intergenic Intergenic -218302 NM_080455 228911 Mm.315789 NM_080455 ENSMUSG00000047907 Tshz2 2900073F20Rik|B830045G17|Mtsh2|Sdccag33l|Tsh2|Zfp218|mKIAA4248|teashirt2 teashirt zinc finger family member 2 protein-coding 0.987 0.667 0.123 0.553 0.211 0.183 3.479 4.602 2.009 1.390 8.010 4.921 2.461 nan 2.198 2.273 1.571 nan nan 0.442 0.227 0.525 0.572 0.520 nan 2184 chr3 52198587 52204141 + 0 NA Intergenic Intergenic -66973 NM_019739 56458 Mm.29891 NM_019739 ENSMUSG00000044167 Foxo1 AI876417|Afxh|FKHR|Fkhr1|Foxo1a forkhead box O1 protein-coding 0.787 12.805 4.571 1.268 0.678 0.406 0.678 0.611 1.147 1.031 0.373 0.685 0.586 0.618 0.724 0.937 0.526 1.078 0.722 0.842 0.536 0.906 0.612 0.369 0.967 150 chr1 136912431 136919233 + 0 NA intron (NM_030676, intron 6 of 8) intron (NM_030676, intron 6 of 8) 37798 NM_001159769 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 2.061 0.699 0.303 nan 2.338 1.202 2.677 1.835 2.251 2.662 3.207 1.248 4.556 4.604 2.949 7.597 2.469 1.801 0.456 0.369 0.215 0.567 0.366 0.240 nan 3161 chr7 116742689 116747791 + 0 NA Intergenic L1_Mur2|LINE|L1 240871 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 8.031 0.865 0.488 4.684 5.641 2.762 7.506 11.596 5.369 5.876 2.370 3.037 8.643 8.901 7.504 7.394 7.505 8.033 5.949 3.812 1.841 6.296 6.556 3.737 6.126 3018 chr6 134040373 134043407 + 0 NA intron (NM_007961, intron 1 of 7) intron (NM_007961, intron 1 of 7) 6190 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 2.138 1.230 0.620 1.317 0.873 0.500 1.661 2.874 1.049 1.249 5.928 1.413 1.153 1.238 nan 2.206 2.095 1.491 nan 0.904 0.812 0.869 0.657 0.366 nan 2298 chr3 122223662 122224967 + 0 NA Intergenic Intergenic -21243 NM_008129 14630 Mm.292676 NM_008129 ENSMUSG00000028124 Gclm AI649393|Gcmc|Glclr glutamate-cysteine ligase, modifier subunit protein-coding 3.908 1.157 0.453 2.073 2.002 0.688 3.901 6.116 3.231 1.599 8.832 4.000 3.191 4.101 2.596 1.904 1.839 3.629 0.796 1.991 1.072 0.803 1.432 0.778 2.437 2336 chr4 8849576 8857026 + 0 NA intron (NM_001277149, intron 27 of 37) intron (NM_001277149, intron 27 of 37) 162895 NM_001277149 320790 Mm.138792 NM_001033395 ENSMUSG00000041235 Chd7 A730019I05Rik|Cycn|Cyn|Dz|Edy|Flo|GENA 47|GENA 60|Gena 52|Lda|Mt|Obt|Todo|WBE1|Whi|metis chromodomain helicase DNA binding protein 7 protein-coding 0.787 10.989 5.465 1.244 0.592 0.318 0.307 nan 0.792 0.794 0.792 0.538 0.334 0.411 0.916 0.762 0.683 0.831 6.100 nan 3.675 11.511 5.487 4.232 0.731 245 chr10 40229441 40232685 + 0 NA intron (NM_001042556, intron 7 of 9) B1_Mur1|SINE|Alu 15916 NM_001042556 67239 Mm.11480 NM_023323 ENSMUSG00000038510 Rpf2 2810470K21Rik|AU040229|AU043242|Bxdc1 ribosome production factor 2 homolog protein-coding 5.825 0.721 0.481 2.688 2.951 1.619 5.386 5.959 5.463 4.684 9.107 7.581 5.262 5.246 5.794 5.931 3.699 5.451 1.763 1.089 0.645 2.281 0.971 0.737 5.248 2604 chr4 154499050 154501284 + 0 NA intron (NM_001177995, intron 2 of 15) intron (NM_001177995, intron 2 of 15) 136200 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 1.809 1.390 0.394 2.261 1.534 0.431 3.784 2.137 1.711 1.756 1.954 1.168 2.180 3.462 2.905 3.824 1.095 2.453 0.798 0.385 0.110 1.532 0.314 0.126 3.611 2511 chr4 133806546 133809985 + 0 NA Intergenic B1_Mus2|SINE|Alu -54654 NM_001080819 93760 Mm.22478 NM_001080819 ENSMUSG00000007880 Arid1a 1110030E03Rik|BAF250a|Osa1|Smarcf1 AT rich interactive domain 1A (SWI-like) protein-coding 3.229 1.454 0.374 5.156 1.368 0.426 1.677 1.257 2.073 3.131 1.162 0.435 0.913 1.949 2.063 3.005 1.068 3.264 1.272 0.996 0.366 1.873 nan 0.832 4.846 2190 chr3 59017131 59018399 + 0 NA intron (NM_177855, intron 1 of 43) C-rich|Low_complexity|Low_complexity 10787 NM_177855 329650 Mm.240059 NM_177855 ENSMUSG00000056476 Med12l A130035F20|A630079M02|AU044581|TRALPUSH mediator complex subunit 12-like protein-coding 3.042 1.258 1.575 nan 1.448 0.852 3.511 0.817 2.616 3.077 0.800 0.607 4.308 3.761 nan 1.714 0.746 4.190 0.241 0.967 0.309 0.493 0.542 0.172 1.295 2546 chr4 141549109 141550705 + 0 NA Intergenic B1_Mur2|SINE|Alu 3745 NR_030695 320456 Mm.32859 NM_177163 B330016D10Rik - RIKEN cDNA B330016D10 gene ncRNA 3.456 2.355 1.808 0.703 1.767 1.220 3.220 4.638 nan 1.274 2.690 1.742 2.272 3.861 1.417 1.338 0.974 nan 0.726 1.035 0.885 0.996 nan 1.632 1.717 826 chr12 111770805 111773338 + 0 NA intron (NM_001025362, intron 1 of 14) B3|SINE|B2 13203 NM_001025361 16593 Mm.278357 NM_008450 ENSMUSG00000021288 Klc1 AI874768|Kns2 kinesin light chain 1 protein-coding 3.288 1.620 0.800 1.771 2.451 1.115 3.659 nan nan nan 1.747 1.110 3.543 5.321 3.481 3.453 2.293 3.460 0.574 0.471 0.330 0.701 0.276 0.375 3.911 2494 chr4 129469857 129475160 + 0 NA intron (NM_133889, intron 7 of 10) intron (NM_133889, intron 7 of 10) 10829 NM_133889 100383 Mm.17918 NM_133889 ENSMUSG00000040859 Bsdc1 1110063F24Rik|AW011758 BSD domain containing 1 protein-coding 7.063 3.841 2.157 6.829 9.902 7.098 8.143 5.526 4.805 5.658 4.125 2.671 5.549 8.462 nan 6.808 4.226 6.479 1.422 2.231 1.872 1.821 1.334 1.091 8.181 1344 chr16 43491038 43493298 + 0 NA intron (NM_181058, intron 3 of 6) intron (NM_181058, intron 3 of 6) -71972 NR_046026 626693 Mm.447083 NR_046026 ENSMUSG00000085499 Gm15713 OTTMUSG00000025617 predicted gene 15713 ncRNA 0.550 6.373 4.842 0.503 0.337 0.150 0.500 nan 0.487 0.549 1.527 0.452 0.241 0.450 0.383 0.791 0.798 0.915 0.751 0.512 0.488 0.609 0.465 0.424 0.335 3012 chr6 125383077 125386282 + 0 NA Intergenic Intergenic -4175 NM_198604 213522 Mm.333396 NM_198604 ENSMUSG00000038167 Plekhg6 BC026778|Gm155 pleckstrin homology domain containing, family G (with RhoGef domain) member 6 protein-coding 5.970 nan 1.145 4.096 5.620 3.386 5.079 5.450 4.027 4.245 4.787 4.034 4.378 7.292 5.541 7.675 4.901 5.934 1.138 1.178 1.355 0.935 1.174 0.866 5.098 2666 chr5 53625741 53628335 + 0 NA intron (NM_001277116, intron 3 of 12) intron (NM_001277116, intron 3 of 12) 36552 NM_001080927 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 3.182 0.570 0.508 1.541 1.405 0.824 4.599 2.673 2.118 2.417 2.666 1.343 3.368 4.246 4.068 nan 3.846 2.186 4.678 5.180 4.059 4.294 6.145 4.232 2.100 332 chr10 107504880 107509292 + 0 NA Intergenic B3|SINE|B2 -12357 NM_008657 17878 Mm.11 NM_008657 ENSMUSG00000035923 Myf6 MRF4|bHLHc4|herculin myogenic factor 6 protein-coding 5.464 0.621 0.803 2.751 3.004 2.145 4.218 6.158 4.367 3.837 1.766 2.960 5.657 6.206 5.321 4.862 6.437 4.470 1.027 1.190 0.705 1.321 0.827 0.847 2.819 3338 chr8 106863337 106865274 + 0 NA Intergenic Intergenic -5937 NM_008217 15118 Mm.56986 NM_008217 ENSMUSG00000031910 Has3 - hyaluronan synthase 3 protein-coding 8.385 7.779 5.895 6.636 5.966 2.635 4.162 4.794 2.575 5.457 3.644 1.374 2.096 4.675 5.245 5.153 3.181 2.919 2.238 6.388 5.136 nan 5.216 4.272 6.897 2329 chr4 6902880 6909133 + 0 NA intron (NM_145711, intron 1 of 8) intron (NM_145711, intron 1 of 8) 84717 NM_145711 252838 Mm.435828 NM_145711 ENSMUSG00000041272 Tox 1700007F02Rik thymocyte selection-associated high mobility group box protein-coding 1.020 3.662 2.081 1.213 0.793 0.421 0.564 nan 1.698 1.408 0.395 0.556 1.170 1.050 1.198 1.448 0.946 2.367 5.263 nan 1.556 6.166 3.011 1.633 0.879 1099 chr15 57806544 57812389 + 0 NA intron (NM_199449, intron 2 of 3) intron (NM_199449, intron 2 of 3) 82952 NM_024207 67819 Mm.289387 NM_024207 ENSMUSG00000022365 Derl1 1110021N07Rik|AI195141|AW551338|Derlin-1 Der1-like domain family, member 1 protein-coding 7.165 6.443 2.351 4.887 2.860 1.276 6.150 8.712 nan nan 3.611 1.989 6.361 6.607 8.602 7.360 6.632 6.254 1.843 0.913 0.706 2.347 1.284 0.852 9.218 1965 chr2 121178420 121181026 + 0 NA intron (NR_077245, intron 6 of 18) L1_Mur3|LINE|L1 8555 NM_001290824 51885 Mm.383499 NM_153387 ENSMUSG00000027263 Tubgcp4 4932441P04Rik|76p|D2Ertd435e|GCP-4 tubulin, gamma complex associated protein 4 protein-coding 9.002 3.066 2.550 3.322 4.402 2.316 7.061 9.566 2.917 5.002 4.444 2.038 5.252 8.530 3.561 6.093 9.585 4.197 3.110 4.505 3.089 1.827 6.033 4.396 nan 2980 chr6 113393812 113394856 + 0 NA intron (NM_001142732, intron 2 of 5) ID4_|SINE|ID 1837 NM_133923 101100 Mm.388573 NM_133923 ENSMUSG00000030276 Ttll3 4833441J24Rik|AI450050 tubulin tyrosine ligase-like family, member 3 protein-coding 2.224 0.849 0.485 0.808 1.187 1.041 6.252 6.527 1.330 1.600 1.069 1.756 4.377 nan 4.550 5.992 5.183 1.857 0.953 0.598 0.470 0.503 nan 0.628 1.537 745 chr12 56546947 56549327 + 0 NA Intergenic L1MEg|LINE|L1 -11229 NM_009385 21869 Mm.89972 NM_009385 ENSMUSG00000001496 Nkx2-1 AV026640|Nkx2.1|T/EBP|Titf1|Ttf-1 NK2 homeobox 1 protein-coding 8.504 10.750 3.271 10.964 4.668 3.063 4.774 6.169 4.416 5.836 3.745 2.260 4.648 7.706 5.845 6.193 2.626 7.402 6.156 4.416 3.148 8.437 4.818 4.460 9.470 34 chr1 38082238 38087662 + 0 NA intron (NM_019570, intron 7 of 22) intron (NM_019570, intron 7 of 22) 44712 NM_019570 56210 Mm.389103 NM_019570 ENSMUSG00000026082 Rev1 1110027I23Rik|AU022044|Rev1l REV1, DNA directed polymerase protein-coding 3.287 1.176 1.115 1.744 2.396 1.281 1.088 0.868 2.778 2.960 1.668 1.143 2.728 2.779 1.372 3.319 1.727 4.163 1.114 0.610 0.548 0.685 0.411 0.320 1.768 2653 chr5 34176988 34178315 + 0 NA exon (NM_010753, exon 5 of 6) exon (NM_010753, exon 5 of 6) -8125 NM_001289803 272158 Mm.319286 NM_181857 ENSMUSG00000045102 Poln POL4P DNA polymerase N protein-coding 2.015 2.113 1.355 1.873 2.963 2.735 1.671 1.847 2.368 2.680 0.742 0.754 1.780 3.087 nan 2.411 1.821 nan 0.753 0.983 0.647 0.803 1.039 1.409 1.354 2656 chr5 35362342 35364094 + 0 NA intron (NR_046060, intron 1 of 3) B1_Mur3|SINE|Alu 1665 NR_046060 74429 Mm.399502 NR_046060 ENSMUSG00000106762 4930478P22Rik 4933405A14Rik RIKEN cDNA 4930478P22 gene ncRNA 4.008 1.063 0.731 5.035 2.586 1.420 3.372 5.470 5.541 5.866 5.345 2.550 4.744 5.617 5.799 5.422 nan 5.637 1.761 0.710 0.419 1.287 0.685 0.848 5.656 2548 chr4 141749253 141750816 + 0 NA intron (NM_001081408, intron 2 of 6) intron (NM_001081408, intron 2 of 6) 3359 NM_001081408 75986 Mm.30032 NM_001081408 ENSMUSG00000040706 Agmat 5033405N08Rik agmatine ureohydrolase (agmatinase) protein-coding 3.800 0.721 0.249 3.447 1.100 0.820 3.470 4.785 3.027 2.501 2.318 1.508 3.368 5.042 4.023 5.419 2.433 5.487 2.785 1.533 1.291 3.575 nan 1.297 9.226 2082 chr2 166816961 166822642 + 0 NA intron (NM_001085495, intron 1 of 38) intron (NM_001085495, intron 1 of 38) 14220 NM_001085495 99371 Mm.297192 NM_001085495 ENSMUSG00000074582 Arfgef2 AI463430|AW493672|BIG2|E230011G24Rik ADP-ribosylation factor guanine nucleotide-exchange factor 2 (brefeldin A-inhibited) protein-coding 9.038 7.272 2.561 6.786 5.521 3.988 7.278 10.687 5.243 8.270 3.625 2.986 8.733 9.737 7.738 9.116 8.411 7.388 nan 2.307 2.242 3.154 2.770 3.047 10.583 3056 chr7 4946612 4949331 + 0 NA Intergenic Intergenic 16377 NM_001146329 381836 Mm.297829 NM_001146329 ENSMUSG00000030433 Sbk2 Gm1079|Sgk069 SH3-binding domain kinase family, member 2 protein-coding 5.438 2.390 1.425 4.617 4.103 2.239 6.609 5.354 3.421 4.820 3.120 1.877 5.311 7.819 4.151 5.594 5.365 4.993 3.111 2.977 2.527 3.286 3.395 2.813 7.946 2613 chr4 154933402 154943089 + 0 NA Intergenic B4A|SINE|B4 -10168 NM_178931 230979 Mm.215147 NM_178931 ENSMUSG00000042333 Tnfrsf14 Atar|HveA|Hvem|Tnfrs14 tumor necrosis factor receptor superfamily, member 14 (herpesvirus entry mediator) protein-coding 6.185 5.163 2.363 5.745 4.075 3.035 5.935 5.513 5.018 5.542 3.944 3.795 4.364 6.354 5.174 6.727 4.235 5.857 2.172 1.494 1.835 1.874 1.584 1.631 7.562 620 chr11 101503295 101508546 + 0 NA intron (NM_009764, intron 15 of 22) intron (NM_009764, intron 15 of 22) 37582 NM_009708 11858 Mm.378883 NM_009708 ENSMUSG00000001313 Rnd2 Arhn|Rohn Rho family GTPase 2 protein-coding 3.625 nan 1.544 3.045 4.813 4.473 1.917 3.962 3.060 3.276 3.050 2.085 3.253 5.651 2.485 2.594 nan 2.730 2.042 nan 3.062 1.737 nan nan 2.470 1410 chr17 15462066 15464436 + 0 NA Intergenic Intergenic 35025 NM_011185 19170 Mm.32912 NM_011185 ENSMUSG00000014769 Psmb1 AA409053|C81484|Lmpc5 proteasome (prosome, macropain) subunit, beta type 1 protein-coding 3.366 1.005 0.305 2.380 1.221 0.241 5.026 4.012 1.930 2.848 4.372 2.025 3.468 5.091 4.219 3.503 2.104 4.568 1.483 0.294 0.415 1.581 0.653 0.328 7.738 2693 chr5 102910121 102911934 + 0 NA 3' UTR (NM_001081567, exon 14 of 14) 3' UTR (NM_001081567, exon 14 of 14) 66020 NM_001346585 231532 Mm.440191 NM_029270 ENSMUSG00000057315 Arhgap24 0610025G21Rik Rho GTPase activating protein 24 protein-coding 7.277 1.781 0.473 3.588 1.773 0.746 5.898 5.226 3.272 3.709 1.750 0.855 4.577 5.141 6.670 6.363 4.037 5.071 3.266 3.098 4.302 5.877 2.589 2.910 8.899 1434 chr17 26517107 26525408 + 0 NA Intergenic (A)n|Simple_repeat|Simple_repeat -12785 NM_013642 19252 Mm.239041 NM_013642 ENSMUSG00000024190 Dusp1 3CH134|MKP1|Ptpn16|U19515|erp|mkp-1 dual specificity phosphatase 1 protein-coding 6.097 0.720 0.300 3.037 1.725 0.778 9.286 4.590 2.575 3.278 1.337 0.843 8.247 6.646 7.779 nan 7.129 4.503 2.055 1.385 0.876 1.888 1.739 1.144 14.003 2713 chr5 106226746 106231494 + 0 NA Intergenic Intergenic -92220 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 4.570 2.012 0.910 3.551 3.506 1.912 5.462 4.497 2.658 3.637 1.896 1.428 4.280 5.828 4.936 5.059 3.693 4.620 nan 0.973 0.620 0.773 1.457 0.990 3.706 2625 chr5 20654198 20655342 + 0 NA intron (NM_001170746, intron 21 of 22) intron (NM_001170746, intron 21 of 22) 227354 NM_172992 68770 Mm.86410 NM_172992 ENSMUSG00000039987 Phtf2 1110054G21Rik|9530062N20Rik|AI447096|C77923 putative homeodomain transcription factor 2 protein-coding 1.003 1.031 0.568 1.775 1.792 0.134 1.866 1.199 1.557 1.767 0.460 0.468 3.631 4.216 1.891 2.790 1.282 1.501 0.890 0.771 0.214 0.865 0.744 0.428 1.189 3400 chr8 124892251 124894135 + 0 NA 3' UTR (NM_198103, exon 1 of 1) 3' UTR (NM_198103, exon 1 of 1) 4512 NM_198103 102058 Mm.347360 NM_198103 ENSMUSG00000074030 Exoc8 AI414418|EXO84|Exo84p|R74783|SEC84 exocyst complex component 8 protein-coding 3.721 nan 0.518 3.890 2.575 0.711 5.425 3.553 2.877 3.414 1.515 1.057 6.153 8.891 8.322 9.984 5.134 6.005 nan 0.406 0.243 1.616 0.519 nan 7.882 3457 chr9 31059788 31061665 + 0 NA intron (NM_172765, intron 2 of 5) intron (NM_172765, intron 2 of 5) 30082 NM_172765 235132 Mm.239355 NM_172765 ENSMUSG00000047412 Zbtb44 6030404E16Rik|Btbd15|E230011F09 zinc finger and BTB domain containing 44 protein-coding 5.036 1.577 1.116 5.807 2.695 2.573 2.856 6.756 4.599 3.468 3.571 4.019 1.839 2.817 2.844 3.708 3.768 3.794 2.888 3.981 3.311 4.434 4.841 3.939 3.787 2471 chr4 128470019 128472255 + 0 NA intron (NM_001281955, intron 32 of 70) intron (NM_001281955, intron 32 of 70) 138961 NM_177758 269585 Mm.153291 NM_177758 ENSMUSG00000061894 Zscan20 C130001F22|Zfp31|Zkscan20 zinc finger and SCAN domains 20 protein-coding 3.943 4.559 1.796 3.365 2.922 1.156 5.593 4.553 3.805 5.673 2.009 2.297 4.890 6.384 3.775 4.597 2.625 4.732 1.888 1.134 0.548 1.633 0.760 0.510 11.345 1547 chr17 56811445 56814768 + 0 NA intron (NM_027787, intron 1 of 17) ID_B1|SINE|B4 17902 NM_009056 19725 Mm.102 NM_009056 ENSMUSG00000024206 Rfx2 5430432H19Rik regulatory factor X, 2 (influences HLA class II expression) protein-coding nan 8.170 3.873 6.532 6.240 5.871 7.281 5.687 4.330 6.749 5.102 2.992 4.761 6.020 5.947 7.300 6.152 5.776 5.139 3.374 5.493 5.319 5.036 7.308 9.263 937 chr13 56084308 56087659 + 0 NA intron (NM_001159513, intron 6 of 8) intron (NM_001159513, intron 6 of 8) 49567 NM_012015 26914 Mm.283802 NM_012015 ENSMUSG00000015937 H2afy H2AF12M|mH2a1|macroH2A1 H2A histone family, member Y protein-coding 3.664 0.494 0.157 3.042 2.680 1.022 3.550 5.471 5.820 5.665 3.218 1.312 5.169 8.091 5.088 nan 2.868 7.012 0.447 0.568 0.262 0.628 0.409 0.316 5.762 1045 chr14 103379633 103382608 + 0 NA Intergenic Intergenic -34320 NM_207215 105689 Mm.6478 NM_207215 ENSMUSG00000033004 Mycbp2 AU023734|AW107953|AW546647|C130061D10Rik|Pam|Phr1|R75243 MYC binding protein 2 protein-coding 5.570 10.517 2.770 8.699 1.491 1.124 1.557 1.560 3.092 6.334 2.113 0.935 1.697 2.850 3.887 4.594 1.923 4.531 5.138 2.353 2.223 2.849 4.991 5.650 5.949 1619 chr18 38036296 38052600 + 0 NA Intergenic Intergenic -45479 NM_001205336 106952 Mm.247642 NM_139206 ENSMUSG00000024451 Arap3 Centd3|Drag1|E030006K04Rik|cnt-d3 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 3 protein-coding 7.509 1.997 0.896 5.444 4.624 2.280 4.587 5.954 6.351 6.906 3.099 2.643 8.996 7.733 5.539 6.595 6.671 8.002 2.610 1.526 0.879 2.354 1.956 1.263 6.583 3266 chr8 46712126 46716037 + 0 NA Intergenic Intergenic 25434 NR_045750 100503498 Mm.187358 NR_045750 ENSMUSG00000097534 Gm16675 - predicted gene, 16675 ncRNA 3.493 2.786 1.927 1.535 0.936 0.314 2.077 3.953 1.930 1.324 2.018 1.630 2.653 2.166 2.209 2.302 3.184 1.707 8.160 7.097 3.140 13.126 3.112 1.725 3.354 730 chr12 36878967 36880029 + 0 NA Intergenic B4|SINE|B4 63293 NR_039558 100628578 NR_039558 ENSMUSG00000092998 Mir5099 mmu-mir-5099|mu-mir-5099 microRNA 5099 ncRNA 7.037 nan 0.942 0.974 0.965 1.666 4.958 3.564 1.664 1.847 2.270 1.822 3.260 3.409 3.672 2.749 4.286 2.218 nan 1.874 1.815 1.947 2.248 2.377 5.000 16 chr1 19198829 19201972 + 0 NA Intergenic ORR1B2|LTR|ERVL-MaLR -8514 NM_009334 21419 Mm.137021 NM_009334 ENSMUSG00000025927 Tfap2b AI606113|AP-2(beta)|E130018K07Rik|Tcfap2b transcription factor AP-2 beta protein-coding 2.249 0.299 0.689 0.199 5.783 3.531 18.809 0.378 0.141 0.216 0.205 0.096 0.330 1.326 1.693 0.501 2.001 0.411 0.462 0.391 0.312 0.338 0.500 0.454 0.494 921 chr13 54195709 54198405 + 0 NA intron (NM_001010973, intron 1 of 2) intron (NM_001010973, intron 1 of 2) 4928 NM_008286 15466 Mm.57243 NM_008286 ENSMUSG00000034987 Hrh2 - histamine receptor H2 protein-coding 4.360 1.599 0.387 2.506 2.467 0.894 4.910 4.154 3.782 4.758 3.075 1.315 4.633 6.014 4.616 3.787 2.054 5.114 1.310 0.605 0.275 0.922 0.454 0.214 3.722 2880 chr6 71605700 71609456 + 0 NA exon (NM_173001, exon 11 of 26) exon (NM_173001, exon 11 of 26) 25108 NM_173001 104263 Mm.260479 NM_173001 ENSMUSG00000053470 Kdm3a 1700105C21Rik|C230043E16Rik|JHDM2a|Jmjd1|Jmjd1a|KDM2A|TGSA|Tsga lysine (K)-specific demethylase 3A protein-coding 5.570 0.416 0.324 1.171 3.666 2.398 8.483 10.942 3.168 3.817 0.368 1.048 7.282 8.195 6.141 6.313 6.275 4.278 0.702 0.536 0.620 0.452 0.370 0.485 2.398 1069 chr15 12047342 12048813 + 0 NA Intergenic B1_Mur1|SINE|Alu -52070 NM_011294 20024 Mm.41746 NM_011294 ENSMUSG00000022205 Sub1 AI842364|P15|P9|Pc4|Rpo2tc1 SUB1 homolog (S. cerevisiae) protein-coding 14.815 21.763 5.388 14.265 7.033 3.768 17.150 17.775 6.132 24.115 10.110 4.093 13.365 15.717 13.589 14.453 11.194 13.093 7.967 2.924 6.833 8.898 5.663 8.592 27.323 2311 chr3 129033337 129036902 + 0 NA Intergenic ORR1F|LTR|ERVL-MaLR -164759 NM_001286942 18741 Mm.246804 NM_011098 ENSMUSG00000028023 Pitx2 9430085M16Rik|Brx1|Brx1b|Munc30|Otlx2|Ptx2|Rieg paired-like homeodomain transcription factor 2 protein-coding 4.101 0.506 0.621 3.450 3.013 1.105 5.898 nan 2.016 2.102 0.416 0.528 3.810 3.532 4.380 5.444 6.103 4.229 2.549 2.488 1.339 1.405 7.176 4.862 5.629 1224 chr15 101062470 101067934 + 0 NA Intergenic Intergenic -10803 NM_001214911 668225 Mm.385011 NM_001214911 ENSMUSG00000095440 Fignl2 EG668225 fidgetin-like 2 protein-coding 8.392 1.053 0.427 5.995 6.823 4.863 11.939 13.928 7.206 8.592 4.618 3.002 13.663 14.045 10.800 11.136 10.429 10.138 6.508 3.238 2.696 4.563 5.990 4.723 12.034 368 chr10 128062477 128064230 + 0 NA intron (NM_019766, intron 1 of 7) MER119|DNA|hAT-Charlie 4371 NM_019766 56351 Mm.305816 NM_019766 ENSMUSG00000071072 Ptges3 5730442A20Rik|Ptges|Tebp|cPGES|p23|sid3177 prostaglandin E synthase 3 (cytosolic) protein-coding 10.175 12.356 4.428 8.379 4.640 2.685 6.291 6.241 7.168 6.786 7.236 3.912 7.147 8.345 8.430 8.972 7.519 9.503 6.462 3.459 2.225 6.111 nan 3.350 10.588 3078 chr7 25687117 25693602 + 0 NA intron (NM_011577, intron 1 of 6) Lx5|LINE|L1 3357 NM_011577 21803 Mm.248380 NM_011577 ENSMUSG00000002603 Tgfb1 TGF-beta1|TGFbeta1|Tgfb|Tgfb-1 transforming growth factor, beta 1 protein-coding 7.979 11.494 5.283 7.006 6.133 4.057 7.626 8.049 4.689 6.897 5.500 3.622 6.127 8.077 6.749 6.653 6.131 6.974 2.520 4.227 3.788 3.153 3.057 2.618 8.865 2556 chr4 148116991 148118971 + 0 NA intron (NM_027426, intron 1 of 6) intron (NM_027426, intron 1 of 6) 12717 NM_027426 70433 Mm.275288 NM_027426 ENSMUSG00000029005 Draxin 2610109H07Rik|neucrin dorsal inhibitory axon guidance protein protein-coding 0.498 nan 0.699 1.146 0.698 0.854 0.814 1.116 0.483 1.083 1.131 0.422 0.329 0.658 0.832 0.982 0.557 0.790 4.531 2.738 3.518 4.400 8.515 9.107 1.314 994 chr14 28148631 28151306 + 0 NA intron (NM_177814, intron 13 of 15) intron (NM_177814, intron 13 of 15) -355505 NM_009524 22418 Mm.287544 NM_009524 ENSMUSG00000021994 Wnt5a 8030457G12Rik|Wnt-5a wingless-type MMTV integration site family, member 5A protein-coding 5.806 7.429 2.394 5.521 2.455 1.353 2.988 8.182 3.477 3.439 4.763 2.792 2.421 2.995 2.905 2.881 nan nan 6.766 5.149 2.881 6.581 5.929 3.495 4.359 611 chr11 100912199 100929563 + 0 NA intron (NM_213660, intron 1 of 23) B1F1|SINE|Alu 18659 NM_213660 20848 Mm.249934 NM_011486 ENSMUSG00000004040 Stat3 1110034C02Rik|AW109958|Aprf signal transducer and activator of transcription 3 protein-coding 6.159 nan 0.863 5.970 6.069 4.706 6.888 7.529 5.001 5.944 3.356 2.950 5.796 8.948 7.284 7.632 nan 8.341 1.436 nan 1.473 2.331 nan nan 8.042 1786 chr19 46077322 46078565 + 0 NA intron (NM_053086, intron 1 of 12) B1_Mur2|SINE|Alu 2096 NM_001039351 70769 Mm.402190 NM_053086 ENSMUSG00000015176 Nolc1 NOPP130|NOPP140|P130 nucleolar and coiled-body phosphoprotein 1 protein-coding 6.656 11.788 3.733 8.374 2.560 1.721 5.340 6.436 3.794 7.751 4.976 2.477 3.337 5.430 5.980 7.489 4.339 7.566 1.844 1.472 2.161 3.928 2.051 2.864 12.149 1849 chr2 32347252 32351685 + 0 NA intron (NM_001301737, intron 1 of 21) intron (NM_001301737, intron 1 of 21) 3861 NM_001301737 13429 Mm.44736 NM_010065 ENSMUSG00000026825 Dnm1 AI838169|Dnm|Ftfl|mKIAA4093 dynamin 1 protein-coding 3.159 6.523 2.352 2.493 1.998 1.280 3.421 5.375 nan 2.577 7.464 5.542 3.245 2.434 1.835 2.323 1.466 2.788 0.965 1.790 1.736 0.575 0.908 0.806 2.388 849 chr13 15186045 15187586 + 0 NA Intergenic Lx9|LINE|L1 -276908 NM_008130 14634 Mm.5098 NM_008130 ENSMUSG00000021318 Gli3 AI854843|AU023367|Bph|GLI3-190|GLI3FL|Pdn|Xt|add GLI-Kruppel family member GLI3 protein-coding 4.604 0.499 1.191 2.720 1.083 4.589 0.863 2.876 3.038 0.348 0.760 4.816 3.096 2.810 4.244 2.516 3.197 0.502 1.224 0.630 0.508 0.707 0.374 3.433 2320 chr3 137887587 137889716 + 0 NA intron (NM_001033155, intron 2 of 7) ID_B1|SINE|B4 20976 NM_001033155 70604 Mm.256488 NM_001033155 ENSMUSG00000074212 Dnajb14 5730496F10Rik DnaJ heat shock protein family (Hsp40) member B14 protein-coding 0.378 nan 0.234 0.987 0.110 0.105 nan 1.135 0.401 0.386 1.056 2.771 0.505 0.529 1.117 0.571 0.472 0.650 2.429 3.339 2.462 4.962 2.376 2.437 0.603 492 chr11 75321709 75327428 + 0 NA intron (NM_001164223, intron 6 of 17) (CA)n|Simple_repeat|Simple_repeat 23815 NM_001164223 68275 Mm.102574 NM_026653 ENSMUSG00000000751 Rpa1 5031405K23Rik|70kDa|AA589576|AW557552|RF-A|RP-A|Rpa replication protein A1 protein-coding 5.238 2.803 0.684 7.458 2.820 0.968 nan 6.129 4.553 8.305 2.500 1.636 5.214 7.928 nan 7.484 3.368 7.585 1.250 0.940 nan 2.593 0.720 0.748 9.215 2740 chr5 122871285 122873111 + 0 NA intron (NM_001003953, intron 22 of 22) intron (NM_001003953, intron 22 of 22) 22010 NM_030564 80751 Mm.388529 NM_030564 ENSMUSG00000029474 Rnf34 AW061037|AW536122|BC004042|C88279|RIFF ring finger protein 34 protein-coding 5.381 11.870 4.073 8.935 4.228 3.494 5.911 5.257 4.933 7.737 5.173 4.104 4.951 6.956 8.737 7.456 4.499 6.715 4.688 2.231 3.323 5.741 3.653 4.080 9.863 208 chr1 186975364 186977212 + 0 NA Intergenic B1_Mur4|SINE|Alu 8872 NM_033077 110957 Mm.108054 NM_033077 ENSMUSG00000039224 D1Pas1 Pl10 DNA segment, Chr 1, Pasteur Institute 1 protein-coding 0.505 0.422 0.356 0.361 0.103 0.086 0.219 0.605 0.352 0.454 6.772 1.423 0.106 0.228 0.284 nan 0.433 0.519 0.571 0.441 0.544 0.969 0.491 0.399 0.635 2788 chr5 139604883 139606011 + 0 NA Intergenic B3|SINE|B2 61549 NM_013702 22255 Mm.42190 NM_013702 ENSMUSG00000029546 Uncx Chx4|Uncx4.1 UNC homeobox protein-coding 1.349 0.748 0.340 3.091 1.721 1.314 6.909 2.726 0.547 3.797 0.286 0.532 1.462 4.229 2.544 2.647 1.727 1.457 2.817 1.573 2.941 2.224 7.214 7.474 3.980 2440 chr4 119133155 119137203 + 0 NA intron (NM_011400, intron 8 of 9) intron (NM_011400, intron 8 of 9) 26434 NM_011400 20525 Mm.21002 NM_011400 ENSMUSG00000028645 Slc2a1 Glut-1|Glut1 solute carrier family 2 (facilitated glucose transporter), member 1 protein-coding 2.962 7.032 3.277 3.992 5.157 2.642 0.934 1.540 3.547 4.549 1.476 1.822 1.926 4.577 2.270 nan 1.471 2.836 6.828 3.372 2.617 7.589 3.586 2.985 2.916 2140 chr2 181409980 181412896 + 0 NA 3' UTR (NM_028125, exon 3 of 3) 3' UTR (NM_028125, exon 3 of 3) 12950 NM_027656 72147 Mm.486504 NM_027656 ENSMUSG00000027583 Zbtb46 2610019F01Rik|4933406L05Rik|BZEL|Btbd4 zinc finger and BTB domain containing 46 protein-coding 5.370 2.331 1.344 5.625 3.792 2.347 2.798 2.392 3.068 3.659 1.802 1.763 1.911 2.884 2.675 4.174 3.392 4.195 2.050 3.150 2.836 2.967 2.916 2.304 4.477 2271 chr3 96377210 96384696 + 0 NA Intergenic B1_Mur2|SINE|Alu 33880 NR_001579 21748 NR_001579 ENSMUSG00000064796 Terc mTER|mTR telomerase RNA component ncRNA 7.297 8.851 3.780 8.999 7.633 5.514 5.956 5.890 5.695 6.197 nan 2.734 5.967 8.386 6.740 6.308 5.220 7.213 3.098 2.656 2.530 2.590 3.005 2.229 9.095 1523 chr17 46815897 46818594 + 0 NA intron (NM_001100452, intron 4 of 10) B2_Mm1a|SINE|B2 14168 NM_001100452 210982 Mm.37642 NM_001100452 ENSMUSG00000036568 Gltscr1l mKIAA0240 GLTSCR1-like protein-coding 10.478 7.371 3.422 7.439 6.818 4.916 12.328 9.949 4.593 6.801 6.189 3.648 6.787 12.804 9.237 10.292 7.992 6.790 4.179 5.505 5.068 3.850 4.930 3.942 12.984 3225 chr8 13286203 13290621 + 0 NA promoter-TSS (NM_001042649) promoter-TSS (NM_001042649) -286 NM_001042650 102323 Mm.368890 NM_001024504 ENSMUSG00000038506 Dcun1d2 AW495713|mFLJ10704 DCN1, defective in cullin neddylation 1, domain containing 2 (S. cerevisiae) protein-coding 6.098 5.393 1.616 7.021 3.896 3.187 4.466 7.572 4.394 7.490 3.862 2.299 6.947 9.380 7.041 nan 7.190 6.110 4.756 3.664 3.298 6.892 3.914 3.895 10.360 3578 chrX 93324022 93331599 + 0 NA intron (NM_008892, intron 36 of 36) intron (NM_008892, intron 36 of 36) 41303 NM_001305940 11878 Mm.275547 NM_007492 ENSMUSG00000035277 Arx - aristaless related homeobox protein-coding 4.929 3.353 1.264 4.081 2.844 1.159 2.610 3.195 3.400 3.482 3.734 1.788 3.392 4.384 3.245 4.301 2.547 4.061 0.754 0.897 0.430 0.710 0.360 0.200 3.395 93 chr1 91013062 91022920 + 0 NA intron (NM_001111312, intron 1 of 12) B1F|SINE|Alu 19264 NM_001111312 16978 Mm.45039 NM_008515 ENSMUSG00000026305 Lrrfip1 AU024550|Fliiap1 leucine rich repeat (in FLII) interacting protein 1 protein-coding 3.572 0.663 0.346 3.216 1.737 0.887 3.966 3.530 2.459 2.456 5.174 2.517 3.888 3.876 3.601 6.119 2.514 5.211 1.634 1.061 0.609 nan 0.911 0.537 4.662 3055 chr7 4931277 4932677 + 0 NA intron (NM_173008, intron 8 of 13) MYSERV16_I-int|LTR|ERVK 6133 NM_173008 269855 Mm.44190 NM_173008 ENSMUSG00000035279 Ssc5d A430110N23Rik|S5D-SRCRB scavenger receptor cysteine rich family, 5 domains protein-coding 1.238 0.529 0.484 1.210 1.200 0.348 1.092 1.293 1.285 1.360 0.231 0.207 2.182 4.029 1.275 2.189 1.989 1.735 0.524 0.383 0.564 0.297 0.396 0.242 1.698 2773 chr5 136408342 136411529 + 0 NA intron (NM_001291239, intron 2 of 22) (TCTCTG)n|Simple_repeat|Simple_repeat -34132 NR_030500 723975 NR_030500 ENSMUSG00000106479 Mir721 Mirn721|miRY|mir-721|mmu-mir-721 microRNA 721 ncRNA 8.007 8.465 4.418 7.549 4.372 2.665 7.737 7.496 4.845 7.364 6.212 3.648 5.348 7.707 7.616 7.697 6.806 5.953 6.739 4.435 2.942 5.807 5.023 4.431 8.092 292 chr10 79725862 79735499 + 0 NA intron (NM_008226, intron 4 of 7) ID_B1|SINE|B4 14046 NM_008226 15166 Mm.12956 NM_008226 ENSMUSG00000020331 Hcn2 BCNG2|HAC1|trls hyperpolarization-activated, cyclic nucleotide-gated K+ 2 protein-coding 4.736 4.334 2.079 nan 4.517 3.477 3.646 3.450 3.861 5.074 2.380 1.939 3.685 5.360 nan 5.047 3.690 4.993 nan 1.999 1.984 2.755 2.165 2.391 6.275 2445 chr4 119741894 119747220 + 0 NA Intergenic L2|LINE|L2 -70121 NM_010657 16656 Mm.302758 NM_010657 ENSMUSG00000028634 Hivep3 2900056N03Rik|A130075N07|AI848000|E030045D18Rik|KBP-1|KBP1|Krc|Rc|Schnurri-3|Shn3|Zas3 human immunodeficiency virus type I enhancer binding protein 3 protein-coding 1.010 1.069 0.803 1.586 0.519 0.347 0.365 1.022 1.482 0.960 0.803 2.090 0.294 0.644 0.807 nan 0.632 1.119 3.582 3.955 2.804 4.616 3.483 1.867 1.675 291 chr10 79723519 79725126 + 0 NA intron (NM_008226, intron 1 of 7) intron (NM_008226, intron 1 of 7) 7688 NM_008226 15166 Mm.12956 NM_008226 ENSMUSG00000020331 Hcn2 BCNG2|HAC1|trls hyperpolarization-activated, cyclic nucleotide-gated K+ 2 protein-coding 11.857 9.126 4.093 9.217 6.749 3.619 10.037 8.248 4.869 8.529 6.754 3.627 7.845 12.223 8.551 9.460 10.340 6.703 4.615 3.786 5.421 4.707 4.908 5.065 13.881 3071 chr7 19853078 19858968 + 0 NA intron (NM_001270489, intron 2 of 3) intron (NM_001270489, intron 2 of 3) 4020 NM_001270489 100502736 Mm.445354 NM_001270489 ENSMUSG00000092216 Gm19345 - predicted gene, 19345 protein-coding 12.429 14.135 5.125 10.408 7.227 4.330 11.987 13.229 7.066 11.229 7.597 4.998 10.585 12.431 11.728 12.744 9.895 10.837 4.291 3.642 3.253 5.536 3.089 3.047 18.867 3040 chr6 140568406 140573570 + 0 NA intron (NM_144920, intron 20 of 30) intron (NM_144920, intron 20 of 30) -51675 NM_178803 11569 Mm.86453 NM_009637 ENSMUSG00000030232 Aebp2 AU023766|B230313N05Rik AE binding protein 2 protein-coding 7.287 9.744 4.045 6.083 5.300 4.014 8.118 8.661 3.530 9.108 8.858 5.423 5.469 7.124 nan 8.000 6.694 5.636 5.216 4.002 4.981 6.432 3.726 5.375 9.759 2429 chr4 114101644 114103140 + 0 NA Intergenic L1VL4|LINE|L1 -60992 NM_177669 230623 Mm.124482 NM_177669 ENSMUSG00000057977 Skint11 A630098G03Rik|Gm569 selection and upkeep of intraepithelial T cells 11 protein-coding 0.567 0.426 0.303 0.221 0.169 0.084 0.908 0.833 0.767 0.734 0.161 0.105 1.336 2.768 1.371 1.652 1.111 0.538 0.759 0.278 0.359 0.529 0.234 0.578 1.128 374 chr10 128365041 128376661 + 0 NA promoter-TSS (NM_001081040) promoter-TSS (NM_001081040) -814 NM_001081040 210582 Mm.296876 NM_001081040 ENSMUSG00000039914 Coq10a Gm1 coenzyme Q10A protein-coding 5.901 nan 0.420 2.985 3.413 2.205 4.682 5.279 2.949 4.145 0.962 1.010 5.357 6.917 4.871 5.729 6.375 3.612 0.787 0.967 0.870 0.798 nan 0.500 6.335 3272 chr8 70914788 70917216 + 0 NA intron (NM_173013, intron 5 of 6) intron (NM_173013, intron 5 of 6) -9523 NR_035495 100316777 NR_035495 ENSMUSG00000088248 Mir1969 mir-1969|mmu-mir-1969 microRNA 1969 ncRNA 5.120 0.596 0.253 4.143 2.043 0.767 1.166 3.156 2.114 1.774 1.626 0.662 1.217 1.832 3.252 4.174 2.617 4.064 nan 1.878 0.743 2.827 0.779 0.310 3.432 2790 chr5 139761010 139763156 + 0 NA exon (NM_026748, exon 25 of 47) exon (NM_026748, exon 25 of 47) 5860 NR_106004 102465628 NR_106004 ENSMUSG00000098574 Mir7037 Gm27447|mmu-mir-7037 microRNA 7037 ncRNA 3.378 6.524 1.685 4.232 0.756 0.275 2.154 4.167 2.170 2.897 2.365 1.841 2.555 3.235 4.594 3.909 1.378 3.546 0.876 0.630 0.685 0.992 nan 0.262 3.370 114 chr1 122252929 122254785 + 0 NA Intergenic B4A|SINE|B4 -685877 NM_025860 66942 Mm.44219 NM_025860 ENSMUSG00000001674 Ddx18 2310005B10Rik DEAD (Asp-Glu-Ala-Asp) box polypeptide 18 protein-coding 2.378 1.167 0.726 1.965 0.669 0.066 0.393 0.597 1.844 1.841 0.936 0.124 1.780 2.026 3.072 2.312 4.022 2.620 0.424 0.157 0.264 0.966 0.329 0.256 6.038 429 chr11 59216070 59218448 + 0 NA intron (NM_007476, intron 1 of 4) intron (NM_007476, intron 1 of 4) 8898 NM_024210 67862 Mm.358708 NM_024210 ENSMUSG00000020441 2310033P09Rik Mmtag2 RIKEN cDNA 2310033P09 gene protein-coding 0.319 0.929 0.527 0.434 0.205 0.221 0.333 0.440 0.402 0.303 6.160 1.209 0.256 nan 0.326 0.691 0.298 0.561 nan 0.320 0.542 0.543 0.262 0.502 nan 1306 chr16 22427881 22445133 + 0 NA 5' UTR (NM_023794, exon 2 of 13) 5' UTR (NM_023794, exon 2 of 13) 3063 NM_023794 104156 Mm.155708 NM_023794 ENSMUSG00000013089 Etv5 1110005E01Rik|8430401F14Rik|ERM ets variant 5 protein-coding 5.193 1.690 0.783 3.784 3.938 2.392 4.817 5.388 4.153 5.514 1.644 1.594 6.335 6.575 5.707 nan 5.917 5.701 0.871 0.917 0.706 1.972 0.697 0.507 8.193 1939 chr2 115872685 115877479 + 0 NA intron (NM_001346047, intron 10 of 13) intron (NM_001346047, intron 10 of 13) 189537 NM_001346044 17536 Mm.247566 NM_010825 ENSMUSG00000027210 Meis2 A430109D20Rik|Mrg1|Stra10 Meis homeobox 2 protein-coding 1.232 1.658 0.827 1.187 0.430 0.201 0.725 0.628 1.065 0.799 0.420 0.282 nan 0.588 0.646 nan 0.858 1.057 7.143 3.088 1.469 3.379 5.662 3.603 nan 3097 chr7 30061220 30069371 + 0 NA intron (NM_177889, intron 5 of 6) RLTR20B4_MM|LTR|ERVK 7528 NM_177889 330502 Mm.295906 NM_177889 ENSMUSG00000098022 Zfp82 A030010D05|Krab16|Mszf3|Zfp-82 zinc finger protein 82 protein-coding 5.618 3.104 1.456 4.863 5.821 3.939 6.682 8.965 3.811 5.489 4.121 3.108 5.967 8.106 6.269 6.285 4.941 5.760 3.308 2.520 2.425 3.079 3.204 2.896 8.030 1328 chr16 30044768 30049291 + 0 NA Intergenic Intergenic -7550 NR_045878 71528 Mm.297640 NR_045878 9030404E10Rik - RIKEN cDNA 9030404E10 gene ncRNA 7.479 0.857 0.525 3.117 4.021 2.382 7.827 8.762 3.842 5.414 3.838 2.727 8.481 10.361 7.546 9.424 6.029 6.668 1.595 1.007 1.004 1.696 nan 1.994 8.219 73 chr1 74190198 74198786 + 0 NA intron (NM_178241, intron 1 of 1) intron (NM_178241, intron 1 of 1) 139 NM_178241 227288 Mm.337035 NM_178241 ENSMUSG00000048480 Cxcr1 Il8ra chemokine (C-X-C motif) receptor 1 protein-coding 10.826 0.739 0.620 1.283 1.929 1.288 4.898 5.865 2.373 2.409 2.409 2.073 2.778 3.364 3.686 6.140 5.804 nan nan nan 0.775 0.648 nan 0.812 nan 409 chr11 44738758 44740388 + 0 NA intron (NM_007897, intron 6 of 15) intron (NM_007897, intron 6 of 15) 121473 NM_001290710 13591 Mm.439662 NM_007897 ENSMUSG00000057098 Ebf1 Ebf|O/E-1|OE-1|Olf-1|Olf1 early B cell factor 1 protein-coding 0.893 6.116 5.105 1.326 0.426 0.227 0.346 nan 0.998 0.506 0.388 0.186 0.375 0.791 0.476 nan 1.036 nan nan 1.715 1.028 nan nan 0.593 0.358 1091 chr15 50720149 50721525 + 0 NA intron (NM_001310481, intron 4 of 5) intron (NM_001310481, intron 4 of 5) 168212 NM_001310481 83925 Mm.30466 NM_032000 ENSMUSG00000038679 Trps1 AI115454|AI447310|D15Ertd586e trichorhinophalangeal syndrome I (human) protein-coding 6.456 10.307 4.169 8.979 3.799 2.203 3.815 6.061 3.747 5.992 2.831 1.907 2.241 4.080 5.112 3.667 5.125 3.762 4.538 5.574 5.197 4.448 6.332 6.395 6.129 3335 chr8 94877336 94890710 + 0 NA Intergenic Intergenic -7711 NM_053246 114255 Mm.203949 NM_053246 ENSMUSG00000040631 Dok4 - docking protein 4 protein-coding 4.759 1.839 0.717 7.182 3.341 1.914 2.467 0.850 6.461 11.439 8.133 4.059 5.016 4.918 4.607 12.504 7.322 9.172 3.589 2.599 2.089 2.064 3.916 3.707 16.076 67 chr1 69701110 69705150 + 0 NA Intergenic IAPLTR1_Mm|LTR|ERVK -17170 NM_011770 22779 Mm.106343 NM_011770 ENSMUSG00000025997 Ikzf2 A730095J18Rik|Helios|Zfpn1a2|Znfn1a2 IKAROS family zinc finger 2 protein-coding 1.431 1.773 0.803 0.839 0.712 0.347 0.756 1.524 1.308 0.920 7.310 5.875 1.094 nan 1.138 nan nan nan 0.482 1.345 0.825 0.463 0.358 0.418 0.580 812 chr12 86454059 86457629 + 0 NA intron (NM_011934, intron 1 of 6) B2_Mm2|SINE|B2 34200 NM_011934 26380 Mm.235550 NM_011934 ENSMUSG00000021255 Esrrb Err2|Errb|Estrrb|Nr3b2 estrogen related receptor, beta protein-coding 4.922 0.842 0.698 1.730 1.815 1.132 2.593 1.691 2.076 1.930 1.383 0.594 4.109 5.104 3.861 4.012 5.216 3.935 0.965 0.617 0.658 0.785 0.925 0.394 3.880 241 chr10 36854790 36860889 + 0 NA Intergenic Lx6|LINE|L1 -116705 NM_008229 15182 Mm.19806 NM_008229 ENSMUSG00000019777 Hdac2 D10Wsu179e|YAF1|Yy1bp|mRPD3 histone deacetylase 2 protein-coding 10.935 6.679 2.686 10.186 3.025 2.142 6.363 5.920 3.944 6.197 9.980 4.871 4.872 5.793 7.849 5.639 5.434 7.477 7.591 5.534 4.532 8.712 7.401 8.092 12.477 1958 chr2 119924005 119926975 + 0 NA intron (NM_001164274, intron 8 of 22) intron (NM_001164274, intron 8 of 22) 28262 NM_013720 29808 Mm.87532 NM_013720 ENSMUSG00000033943 Mga AV312082|C130042M01Rik|C80739|D030062C11Rik|Mad5 MAX gene associated protein-coding 5.554 1.637 1.052 5.193 4.288 3.656 4.282 4.812 4.147 4.857 2.436 1.846 3.928 5.858 5.148 6.927 4.418 5.447 1.233 1.494 1.568 1.041 0.728 0.981 5.626 1962 chr2 119950804 119956448 + 0 NA intron (NM_001164274, intron 18 of 22) B1_Mus2|SINE|Alu -19073 NM_011941 26390 Mm.330501 NM_011941 ENSMUSG00000033902 Mapkbp1 2810483F24Rik|AW123212|JNKBP-1|Jnkbp1|mKIAA0596 mitogen-activated protein kinase binding protein 1 protein-coding 5.841 2.270 1.038 5.939 3.168 1.680 3.771 3.065 3.638 3.819 3.594 1.159 3.566 5.232 4.719 5.989 3.238 7.413 0.873 0.841 0.622 1.035 0.798 0.350 6.561 3133 chr7 73528034 73531771 + 0 NA intron (NM_001081345, intron 2 of 38) intron (NM_001081345, intron 2 of 38) 11844 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 5.022 10.637 7.260 4.689 8.865 4.363 5.986 6.023 4.901 5.856 2.661 3.142 6.237 8.657 5.926 nan 4.447 5.776 1.423 1.280 0.901 0.613 1.359 1.084 5.320 2561 chr4 148423064 148424375 + 0 NA Intergenic Intergenic 21032 NM_027873 71707 Mm.292503 NM_027873 ENSMUSG00000047719 Ubiad1 1200002M06Rik|AI426463|AW320947|Tere1 UbiA prenyltransferase domain containing 1 protein-coding 4.740 1.443 0.685 7.494 1.996 0.200 3.436 5.056 4.376 5.350 6.465 2.692 3.410 3.937 4.153 7.308 2.472 6.381 2.363 1.139 0.368 3.828 1.162 0.551 7.813 489 chr11 75092573 75096768 + 0 NA intron (NM_001002764, intron 13 of 18) PB1D10|SINE|Alu -28679 NR_030454 735274 NR_030454 ENSMUSG00000106252 Mir684-1 Mirn684-1 microRNA 684-1 ncRNA nan 4.911 1.483 2.485 0.978 0.394 nan 1.113 1.639 1.932 0.652 0.816 1.574 1.996 nan nan 1.486 nan 2.446 1.661 nan 4.366 1.690 1.363 2.462 585 chr11 98272941 98283289 + 0 NA Intergenic Intergenic 15509 NR_039579 100628613 NR_039579 ENSMUSG00000093176 Mir5119 mmu-mir-5119|mu-mir-5119 microRNA 5119 ncRNA 4.791 nan 0.376 5.196 4.322 2.617 5.718 7.082 4.103 5.623 5.230 3.093 5.410 7.184 6.145 6.074 nan 5.774 1.251 nan 0.752 0.696 nan nan 6.889 327 chr10 87881120 87885242 + 0 NA intron (NM_001314010, intron 3 of 4) intron (NM_001314010, intron 3 of 4) 22070 NM_001111276 16000 Mm.268521 NM_010512 ENSMUSG00000020053 Igf1 C730016P09Rik|Igf-1|Igf-I insulin-like growth factor 1 protein-coding 2.722 15.051 8.390 1.567 1.020 0.813 0.920 1.324 1.245 1.330 0.822 0.490 0.770 nan 1.202 1.465 1.434 1.559 0.819 1.237 0.710 nan nan 0.303 1.699 1392 chr16 97876116 97881704 + 0 NA intron (NM_174847, intron 8 of 13) intron (NM_174847, intron 8 of 13) -1619 NR_105929 102465581 NR_105929 ENSMUSG00000105138 Mir6964 mmu-mir-6964 microRNA 6964 ncRNA 5.324 0.615 0.643 3.025 3.648 1.950 5.691 7.499 nan 4.912 1.887 2.616 7.201 8.298 6.057 8.418 6.691 6.411 4.357 2.379 1.947 2.858 4.476 3.387 6.813 1970 chr2 122201686 122203544 + 0 NA intron (NM_028914, intron 6 of 6) intron (NM_028914, intron 6 of 6) 16343 NM_028914 74401 Mm.374834 NM_028914 ENSMUSG00000027229 Terb2 4933406J08Rik telomere repeat binding bouquet formation protein 2 protein-coding 5.742 8.389 4.048 6.610 2.940 1.769 5.007 5.318 3.998 4.938 5.185 2.954 nan 6.754 5.341 nan 6.976 5.488 5.031 4.768 2.521 5.290 3.998 3.303 nan 2391 chr4 63376644 63380508 + 0 NA exon (NM_001045514, exon 13 of 22) exon (NM_001045514, exon 13 of 22) 16127 NM_011016 18406 Mm.14173 NM_011016 ENSMUSG00000061540 Orm2 Agp1|Orm-2 orosomucoid 2 protein-coding 3.362 0.779 0.288 2.043 1.760 0.642 1.822 1.854 2.990 3.621 1.740 0.593 3.832 5.567 3.187 nan 2.131 3.591 1.167 0.533 0.349 nan nan 0.655 nan 1080 chr15 37121732 37123914 + 0 NA Intergenic Intergenic -110213 NM_026496 252973 Mm.244612 NM_026496 ENSMUSG00000022286 Grhl2 0610015A08Rik|BOM|Tcfcp2l3|clft3 grainyhead-like 2 (Drosophila) protein-coding 1.925 0.811 0.626 1.140 1.874 2.117 1.427 6.121 1.715 1.479 8.838 4.306 2.082 2.269 1.580 1.498 1.987 2.683 1.246 1.358 1.097 2.095 1.340 1.246 nan 1281 chr16 15954590 15961529 + 0 NA intron (NM_146068, intron 10 of 19) intron (NM_146068, intron 10 of 19) 70773 NM_007679 12609 Mm.347407 NM_007679 ENSMUSG00000071637 Cebpd c/EBPdelta CCAAT/enhancer binding protein (C/EBP), delta protein-coding 6.463 1.070 0.479 6.618 6.486 4.393 2.695 6.969 6.363 6.998 4.700 3.540 5.090 5.088 3.874 4.791 3.601 6.272 3.070 1.547 1.140 3.194 2.020 1.488 2.817 2819 chr5 151996504 151997502 + 0 NA Intergenic Intergenic -345795 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 1.905 0.502 0.540 3.253 1.422 1.179 0.884 0.809 2.749 2.207 0.437 1.171 1.602 3.677 1.811 2.567 1.297 3.714 0.799 0.804 0.822 1.679 0.361 0.785 2.690 732 chr12 37106562 37107641 + 0 NA Intergenic Intergenic -1445 NM_008584 17286 Mm.341398 NM_008584 ENSMUSG00000036144 Meox2 AI528662|Gax|Mox-2|Mox2 mesenchyme homeobox 2 protein-coding 5.500 nan 0.675 1.109 1.428 0.357 2.603 3.043 nan 1.704 7.132 3.629 4.272 3.819 2.185 2.609 3.313 2.640 nan 1.005 0.830 1.739 1.261 1.243 2.603 1864 chr2 34226002 34229555 + 0 NA intron (NM_016768, intron 2 of 8) intron (NM_016768, intron 2 of 8) -120043 NR_130173 329387 Mm.125817 NR_130173 ENSMUSG00000087461 C230014O12Rik - RIKEN cDNA C230014O12 gene ncRNA 4.507 7.524 2.500 8.673 3.418 3.148 4.443 4.880 3.865 nan 3.524 2.928 5.814 5.088 7.666 7.073 4.894 8.010 5.261 1.358 2.529 5.244 2.724 6.144 12.633 3214 chr8 3423820 3426324 + 0 NA intron (NM_133962, intron 1 of 19) B3A|SINE|B2 32064 NM_133962 102098 Mm.170461 NM_133962 ENSMUSG00000004568 Arhgef18 AI467246|D030053O22Rik rho/rac guanine nucleotide exchange factor (GEF) 18 protein-coding 3.544 0.867 0.365 2.156 2.236 1.566 1.906 3.934 2.804 1.956 6.118 4.027 2.375 2.175 2.030 2.156 1.403 4.203 0.561 0.780 0.523 0.743 0.464 0.372 1.999 3491 chr9 57098076 57099989 + 0 NA intron (NM_001110350, intron 8 of 20) intron (NM_001110350, intron 8 of 20) 22656 NM_011378 20466 Mm.15755 NM_011378 ENSMUSG00000042557 Sin3a AW553200|Sin3|mKIAA4126|mSin3A transcriptional regulator, SIN3A (yeast) protein-coding 1.956 1.347 0.135 1.477 0.822 0.512 2.890 2.631 2.120 3.129 1.484 0.532 3.473 4.340 2.586 4.153 1.346 4.360 2.108 0.777 0.353 2.179 0.614 0.889 6.007 2233 chr3 90233699 90239199 + 0 NA TTS (NM_206924) TTS (NM_206924) 4852 NM_206924 23922 Mm.13912 NM_206924 ENSMUSG00000027937 Jtb Gm622 jumping translocation breakpoint protein-coding 7.326 5.498 2.811 6.228 3.585 2.609 6.713 6.708 4.894 5.278 3.189 2.287 6.666 7.149 6.294 6.360 5.610 7.526 4.893 3.521 4.093 5.271 7.384 8.554 7.276 1603 chr18 14815010 14817274 + 0 NA intron (NM_001100449, intron 7 of 14) (TTTA)n|Simple_repeat|Simple_repeat 32897 NM_001100449 72504 Mm.312233 NM_001100449 ENSMUSG00000054321 Taf4b 105kDa|2610524B04Rik|4932409F03Rik|AW987595|TAFII-105|TAFII105|Taf2c2 TATA-box binding protein associated factor 4b protein-coding 8.248 8.654 4.038 4.995 6.919 4.279 1.349 3.344 4.386 4.389 3.361 2.450 4.062 3.721 3.902 5.087 3.727 3.703 1.888 3.131 1.635 1.701 2.263 1.500 5.956 622 chr11 101524292 101536764 + 0 NA intron (NM_009764, intron 7 of 22) PB1D7|SINE|Alu 21427 NM_009764 12189 Mm.244975 NM_009764 ENSMUSG00000017146 Brca1 - breast cancer 1, early onset protein-coding 5.942 nan 0.893 5.669 2.614 2.116 4.461 7.457 3.605 4.130 1.637 1.354 4.603 6.199 5.593 5.933 5.889 6.190 1.082 nan 1.565 1.582 nan nan 6.462 1881 chr2 38366798 38373013 + 0 NA TTS (NM_010710) TTS (NM_010710) 18597 NM_010710 16870 Mm.142856 NM_010710 ENSMUSG00000000247 Lhx2 LH2A|Lh-2|Lim2|ap|apterous LIM homeobox protein 2 protein-coding 12.169 4.676 1.555 8.632 5.263 2.335 10.505 10.348 7.437 10.780 4.269 4.407 12.533 11.097 10.702 15.520 9.668 12.035 2.511 1.367 1.424 1.796 1.255 1.293 17.863 970 chr14 12384716 12388329 + 0 NA intron (NM_012061, intron 27 of 28) intron (NM_012061, intron 27 of 28) -40657 NM_080433 54713 Mm.34644 NM_080433 ENSMUSG00000021743 Fezf2 AI451466|AI852056|Fez|Fezl|Zfp312 Fez family zinc finger 2 protein-coding 7.317 1.809 0.435 9.524 2.281 1.160 5.818 6.704 4.518 9.181 4.987 3.867 4.932 6.811 8.911 8.015 4.471 9.544 3.769 2.174 1.847 4.565 1.388 1.241 15.965 2381 chr4 62176079 62181839 + 0 NA Intergenic Lx5|LINE|L1 -28118 NM_001009550 381531 Mm.472122 NM_001009550 ENSMUSG00000066153 Mup21 Gm11208|Mup|Mup26|OTTMUSG00000000231|bM64F17.1|bM64F17.4 major urinary protein 21 protein-coding 16.578 14.445 5.441 10.866 3.974 2.011 9.653 14.380 12.284 15.955 10.571 4.907 10.921 12.405 10.056 16.543 12.699 25.019 nan 4.107 2.483 6.926 5.530 4.314 22.466 2771 chr5 136353327 136354531 + 0 NA intron (NM_001291239, intron 8 of 22) intron (NM_001291239, intron 8 of 22) 21874 NR_030500 723975 NR_030500 ENSMUSG00000106479 Mir721 Mirn721|miRY|mir-721|mmu-mir-721 microRNA 721 ncRNA 4.588 1.118 0.752 3.859 2.439 2.491 3.048 2.555 2.609 2.931 2.918 1.846 2.607 3.511 2.902 3.287 1.572 3.406 3.397 1.988 1.857 3.813 3.472 3.571 3.141 2375 chr4 55663355 55665049 + 0 NA Intergenic Intergenic -131727 NM_010637 16600 Mm.4325 NM_010637 ENSMUSG00000003032 Klf4 EZF|Gklf|Zie Kruppel-like factor 4 (gut) protein-coding 5.437 2.499 0.919 7.963 3.575 1.619 2.921 3.422 3.202 5.657 3.167 2.602 2.499 5.320 3.974 3.593 2.219 4.302 nan 1.541 1.648 5.503 1.406 1.311 5.685 24 chr1 33713351 33716367 + 0 NA Intergenic ORR1D1|LTR|ERVL-MaLR -5037 NM_008999 19335 Mm.86744 NM_008999 ENSMUSG00000004768 Rab23 AW545388|opb|opb2 RAB23, member RAS oncogene family protein-coding 5.578 0.642 0.516 3.187 5.038 3.266 3.022 3.808 4.109 4.351 2.071 1.508 6.509 8.561 4.935 nan 4.304 5.677 0.757 1.002 0.366 0.615 0.590 0.699 4.615 1416 chr17 23809948 23818094 + 0 NA intron (NM_175229, intron 9 of 13) RSINE1|SINE|B4 10834 NM_175229 75956 Mm.5222 NM_175229 ENSMUSG00000039218 Srrm2 5033413A03Rik|AA410130|SRm300|mKIAA0324 serine/arginine repetitive matrix 2 protein-coding 6.796 3.657 1.378 5.093 4.902 2.309 9.373 7.733 3.458 5.297 5.848 3.903 5.711 9.979 8.916 nan 6.731 5.834 3.780 2.221 2.089 4.793 3.223 2.528 10.945 2759 chr5 124913306 124915587 + 0 NA Intergenic Intergenic 51741 NM_001081750 269704 Mm.138617 NM_001081750 ENSMUSG00000079215 Zfp664 AW060232|D930038J03Rik|ZFOC1|Znf664 zinc finger protein 664 protein-coding 2.629 1.040 0.461 1.679 2.433 2.558 7.017 2.759 2.341 2.060 0.838 1.270 3.879 4.003 2.991 3.399 nan 3.614 nan 0.898 1.227 0.809 nan 0.954 4.037 2256 chr3 95126932 95128416 + 0 NA exon (NM_016712, exon 6 of 10) exon (NM_016712, exon 6 of 10) 3160 NM_016712 50874 Mm.71935 NM_016712 ENSMUSG00000005628 Tmod4 MTMOD|Sk-Tmod tropomodulin 4 protein-coding 2.147 0.989 0.266 1.661 0.810 0.378 3.378 4.090 2.528 1.839 nan 0.531 3.382 3.022 3.044 4.400 2.760 3.452 1.188 0.523 0.083 0.543 0.509 0.185 2.454 3321 chr8 89593351 89596687 + 0 NA Intergenic MLT1F2|LTR|ERVL-MaLR -550857 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 2.426 0.710 0.546 0.308 0.209 0.146 5.124 5.516 nan 2.420 4.098 2.112 4.852 4.100 3.897 1.280 0.998 2.914 nan 0.573 0.551 1.011 0.651 0.397 0.994 2049 chr2 160548572 160553753 + 0 NA Intergenic ORR1E|LTR|ERVL-MaLR -94735 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 5.473 0.998 0.449 4.221 3.776 3.590 5.491 5.483 nan 4.337 2.226 1.707 6.093 6.350 6.703 8.473 6.181 5.679 nan 0.674 0.639 1.162 0.620 0.436 7.391 1658 chr18 61350887 61356146 + 0 NA intron (NM_133249, intron 1 of 11) (CAAA)n|Simple_repeat|Simple_repeat 46915 NM_133249 170826 Mm.415302 NM_133249 ENSMUSG00000033871 Ppargc1b 4631412G21Rik|Perc peroxisome proliferative activated receptor, gamma, coactivator 1 beta protein-coding nan nan 0.473 nan 2.429 2.338 7.586 4.610 4.157 4.405 1.704 1.066 9.661 6.494 6.074 6.605 5.278 nan nan 0.458 0.536 nan 0.419 0.448 nan 3197 chr7 135754056 135756722 + 0 NA Intergenic MTD|LTR|ERVL-MaLR -39010 NM_001081117 17345 Mm.4078 NM_001081117 ENSMUSG00000031004 Mki67 D630048A14Rik|Ki-67|Ki67 antigen identified by monoclonal antibody Ki 67 protein-coding 4.793 7.447 2.029 7.068 2.040 1.517 4.549 6.948 nan 5.477 4.337 2.757 6.516 6.233 5.771 6.756 3.430 6.647 3.130 1.626 1.070 4.144 1.748 1.982 7.447 104 chr1 120567875 120570076 + 0 NA Intergenic Intergenic -33512 NM_010133 13798 Mm.2657 NM_010133 ENSMUSG00000058665 En1 En-1|Mo-en.1|engrailed-1 engrailed 1 protein-coding 2.359 0.689 0.237 1.699 1.774 0.840 4.710 1.740 2.259 3.041 0.667 0.428 5.467 6.104 4.526 8.823 3.877 4.427 0.737 0.473 0.487 0.510 0.346 0.428 3.216 2057 chr2 163101356 163106139 + 0 NA Intergenic Intergenic -14146 NM_026630 68236 Mm.33648 NM_026630 ENSMUSG00000070708 Gtsf1l 2410116G06Rik gametocyte specific factor 1-like protein-coding 0.479 9.571 4.328 0.444 0.298 0.180 0.284 0.303 0.274 0.274 0.245 0.212 0.116 nan 0.239 0.480 0.334 nan nan 0.375 0.359 0.564 0.363 0.219 nan 1558 chr17 66073842 66076193 + 0 NA intron (NM_001025572, intron 1 of 12) intron (NM_001025572, intron 1 of 12) 2029 NM_001025572 106585 Mm.34706 NM_001025572 ENSMUSG00000034647 Ankrd12 2900001A12Rik|AI447928|ANCO-2|AV347965|GAC-1|mKIAA0874 ankyrin repeat domain 12 protein-coding 4.684 1.649 1.539 4.412 3.541 3.351 2.430 2.836 nan 2.161 7.794 3.836 1.163 2.499 1.748 1.920 2.001 2.154 1.018 1.828 1.720 0.710 0.808 0.945 2.371 3370 chr8 121984684 121992875 + 0 NA intron (NM_001285983, intron 4 of 12) intron (NM_001285983, intron 4 of 12) 10755 NR_106096 102466915 NR_106096 ENSMUSG00000099140 Mir7237 Gm27482|mmu-mir-7237 microRNA 7237 ncRNA 0.343 0.832 0.242 0.544 0.239 0.257 0.246 0.447 0.252 0.261 0.287 0.198 0.206 0.325 0.382 nan 0.192 0.394 2.091 1.894 1.722 7.815 1.302 0.961 0.805 3493 chr9 57786486 57805415 + 0 NA intron (NM_019689, intron 6 of 7) intron (NM_019689, intron 6 of 7) -30090 NM_007713 102414 Mm.25720 NM_007713 ENSMUSG00000032316 Clk3 AI256811 CDC-like kinase 3 protein-coding 3.088 13.450 4.809 4.342 1.209 0.669 1.732 nan 2.156 2.827 1.354 1.427 1.324 2.137 2.159 2.270 0.820 3.211 0.845 1.062 0.896 0.966 0.637 0.518 3.411 1237 chr15 102240675 102242637 + 0 NA intron (NM_001042727, intron 2 of 7) B1_Mur3|SINE|Alu 4844 NM_001042727 19411 Mm.1273 NM_011244 ENSMUSG00000001288 Rarg Nr1b3|RAR-gamma|RARD|RARgamma2 retinoic acid receptor, gamma protein-coding 2.482 3.091 2.454 2.457 3.164 3.839 2.093 2.700 2.934 2.134 1.737 1.747 2.532 1.972 2.111 nan 2.366 2.669 1.802 1.660 2.634 1.048 2.259 2.369 1.777 1635 chr18 50209045 50215789 + 0 NA Intergenic Intergenic -65952 NM_001004061 225497 Mm.329435 NM_001004061 ENSMUSG00000035420 Fam170a Gm93|Znfd family with sequence similarity 170, member A protein-coding 3.654 10.667 4.493 2.651 1.183 0.657 1.955 2.376 1.834 2.271 3.550 1.588 1.963 2.080 2.012 1.591 1.167 nan 0.959 1.207 0.741 0.956 0.826 0.520 4.988 2361 chr4 43738640 43747040 + 0 NA Intergenic PB1D10|SINE|Alu -9019 NR_040667 319973 Mm.233955 NR_040667 A630077J23Rik - RIKEN cDNA A630077J23 gene ncRNA 12.267 nan 0.570 9.894 6.955 3.547 10.764 11.485 7.326 10.939 4.130 2.628 10.460 15.964 11.106 12.783 7.074 11.478 1.175 1.102 0.987 nan 0.951 0.749 18.370 2175 chr3 32499849 32501227 + 0 NA Intergenic ORR1C2|LTR|ERVL-MaLR -8569 NM_001195074 100502876 Mm.383358 NM_001195074 ENSMUSG00000091091 Kcnmb3 EG435726|Gm5707 potassium large conductance calcium-activated channel, subfamily M, beta member 3 protein-coding 1.465 1.611 0.334 2.013 0.988 0.392 3.912 1.181 1.728 1.805 4.024 0.603 2.845 3.428 2.255 1.679 1.084 2.188 0.496 0.188 0.236 0.412 0.252 0.115 2.198 1513 chr17 46162538 46170712 + 0 NA exon (NM_019581, exon 9 of 12) exon (NM_019581, exon 9 of 12) 5593 NM_001145979 56055 Mm.22147 NM_019581 ENSMUSG00000023952 Gtpbp2 nmf205 GTP binding protein 2 protein-coding 8.527 2.154 0.697 8.546 5.090 3.164 11.741 8.894 5.998 12.084 5.638 4.062 7.230 11.046 9.406 11.895 nan 10.103 4.282 2.751 2.568 6.656 3.223 3.195 17.661 1264 chr16 10739940 10742404 + 0 NA intron (NM_001204229, intron 22 of 22) (A)n|Simple_repeat|Simple_repeat 44364 NM_009896 12703 Mm.130 NM_009896 ENSMUSG00000038037 Socs1 Cish1|Cish7|JAB|SOCS-1|SSI-1 suppressor of cytokine signaling 1 protein-coding 4.371 6.595 2.647 4.016 2.371 0.843 3.668 2.283 1.904 2.876 1.877 1.649 2.088 2.593 3.221 5.241 2.726 4.398 2.896 1.850 1.488 2.546 3.124 1.637 6.859 2490 chr4 129310877 129312645 + 0 NA intron (NM_009030, intron 11 of 11) intron (NM_009030, intron 11 of 11) 23609 NM_009030 19646 Mm.12145 NM_009030 ENSMUSG00000057236 Rbbp4 RBAP48|mRbAp48 retinoblastoma binding protein 4 protein-coding 1.369 0.757 0.146 1.940 2.698 1.959 1.705 1.672 2.269 3.157 2.734 0.842 2.359 3.572 nan 3.210 1.591 2.716 3.261 2.297 2.925 2.206 3.707 3.188 4.651 747 chr12 56563269 56568043 + 0 NA Intergenic Intergenic -25403 NR_046003 97836 Mm.410567 NR_046002 ENSMUSG00000092515 C87198 - expressed sequence C87198 ncRNA 9.199 7.577 3.124 9.062 4.915 2.992 4.329 5.450 4.509 4.971 5.265 4.477 4.191 6.911 5.831 5.722 4.334 5.970 7.688 4.323 3.332 7.863 5.889 4.712 7.742 159 chr1 137410890 137414405 + 0 NA Intergenic L1_Mur1|LINE|L1 -452199 NM_030676 26424 Mm.16794 NM_030676 ENSMUSG00000026398 Nr5a2 AU020803|D1Ertd308e|Ftf|LRH-1|UF2-H3B nuclear receptor subfamily 5, group A, member 2 protein-coding 5.642 1.725 0.814 2.278 0.650 0.173 2.940 3.472 1.727 2.005 1.611 2.053 1.485 nan 1.894 2.674 1.685 2.210 2.573 1.794 0.770 2.283 3.396 1.239 4.826 2563 chr4 148537987 148548847 + 0 NA intron (NM_020009, intron 46 of 57) (CA)n|Simple_repeat|Simple_repeat -15010 NM_016699 50912 Mm.266635 NM_016699 ENSMUSG00000017264 Exosc10 PM-Scl|PM/Scl-100|Pmscl2|RRP6|p2|p3|p4 exosome component 10 protein-coding 7.038 nan 2.040 4.886 4.827 3.858 5.348 6.879 4.227 5.179 4.760 3.053 4.633 8.285 5.483 5.679 4.212 5.829 1.247 1.192 1.251 1.564 1.978 2.144 7.351 3086 chr7 28375715 28377479 + 0 NA TTS (NM_011756) TTS (NM_011756) 2631 NM_011756 22695 Mm.389856 NM_011756 ENSMUSG00000044786 Zfp36 Gos24|Nup475|TIS11D|TISII|Tis11|Ttp|Zfp-36 zinc finger protein 36 protein-coding 13.952 12.092 6.812 12.534 13.146 9.981 12.647 13.772 9.210 15.800 8.790 5.075 12.681 15.020 9.759 10.528 11.492 11.447 7.530 6.507 6.154 6.923 9.162 11.826 16.441 1633 chr18 49914792 49916625 + 0 NA intron (NM_001081371, intron 29 of 42) B3|SINE|B2 -63719 NM_001177760 106869 Mm.27740 NM_134131 ENSMUSG00000062210 Tnfaip8 AA987150|E130304C20Rik|ENSMUSG00000073567|Gg2-1|Gm10539|Nded|Ssc-2|Tipe tumor necrosis factor, alpha-induced protein 8 protein-coding 7.183 12.080 5.735 8.012 5.697 5.062 5.720 8.312 5.943 10.381 5.746 4.270 8.749 7.519 8.212 7.544 6.954 8.585 4.639 3.159 4.508 4.475 2.754 4.159 10.670 47 chr1 58466295 58467579 + 0 NA intron (NM_001025378, intron 13 of 14) Lx4A|LINE|L1 -21451 NM_001285827 70225 Mm.340195 NM_027351 ENSMUSG00000026035 Ppil3 2310076N22Rik|2510026K04Rik|Cyp10l peptidylprolyl isomerase (cyclophilin)-like 3 protein-coding 4.946 0.977 1.120 1.729 3.333 3.427 4.492 2.213 1.784 1.335 1.225 0.964 4.714 5.493 2.936 3.808 3.260 2.535 0.894 0.803 1.409 0.419 0.488 0.788 2.319 1427 chr17 24905777 24907745 + 0 NA intron (NM_013931, intron 12 of 31) intron (NM_013931, intron 12 of 31) 10261 NM_019730 79059 Mm.430765 NM_019730 ENSMUSG00000073435 Nme3 1810009F08Rik|AI413736|DR-nm23|Ndk3|Nm23-DR|Nm23-M3 NME/NM23 nucleoside diphosphate kinase 3 protein-coding 0.672 1.391 1.532 0.591 0.593 0.759 1.189 0.845 0.677 0.234 0.231 0.255 0.441 1.042 0.710 0.717 0.641 0.718 4.631 4.248 5.493 5.335 4.619 6.145 0.586 1942 chr2 119074577 119077888 + 0 NA exon (NM_029617, exon 9 of 24) exon (NM_029617, exon 9 of 24) 29113 NM_029617 76464 Mm.202518 NM_029617 ENSMUSG00000027326 Knl1 2310043D08Rik|5730505K17Rik|Casc5 kinetochore scaffold 1 protein-coding 6.204 1.477 0.564 3.801 1.386 1.246 6.298 8.357 2.861 3.782 3.018 1.913 4.629 5.574 5.795 8.184 4.215 6.615 2.502 0.915 0.907 2.127 1.805 1.314 10.502 1484 chr17 32246088 32248277 + 0 NA intron (NM_198094, intron 2 of 12) intron (NM_198094, intron 2 of 12) 5262 NR_102329 100043434 NR_102329 Gm4432 - predicted gene 4432 pseudo 1.055 1.384 0.658 1.244 0.604 0.446 1.147 2.291 1.953 1.886 3.009 4.963 0.865 1.203 0.980 nan 0.707 0.955 2.449 1.196 0.784 1.894 1.066 0.846 1.075 1017 chr14 55731586 55738566 + 0 NA Intergenic MIRb|SINE|MIR 10608 NM_026819 52585 Mm.21623 NM_026819 ENSMUSG00000002332 Dhrs1 1110029G07Rik|AW112170|D14Ertd484e dehydrogenase/reductase (SDR family) member 1 protein-coding 0.821 nan 0.424 1.056 0.788 0.410 0.495 nan 0.518 0.989 0.191 0.437 0.445 1.100 0.906 0.903 0.603 1.002 3.861 3.899 2.695 5.623 3.780 3.552 1.403 270 chr10 67109497 67111182 + 0 NA Intergenic AT_rich|Low_complexity|Low_complexity -13351 NM_178606 28193 Mm.41272 NM_178606 ENSMUSG00000019873 Reep3 D10Ucla1 receptor accessory protein 3 protein-coding 6.442 10.431 6.220 2.392 2.944 1.026 2.536 3.875 2.102 2.693 1.101 0.701 1.169 2.612 2.295 4.916 3.987 2.527 0.939 2.160 1.700 1.222 0.937 0.559 5.139 1057 chr15 10596830 10599361 + 0 NA intron (NM_001166408, intron 5 of 17) intron (NM_001166408, intron 5 of 17) -2198 NR_033541 100038608 Mm.450744 NR_033541 Gm10389 ENSMUSG00000072658 predicted gene 10389 ncRNA 4.918 2.228 0.590 3.067 2.027 0.882 5.646 5.746 3.510 3.063 2.672 1.448 5.294 4.386 4.532 5.069 4.242 4.472 0.630 0.416 0.198 0.213 0.438 0.228 4.841 2042 chr2 160378663 160381181 + 0 NA Intergenic Intergenic -12857 NM_010658 16658 Mm.330745 NM_010658 ENSMUSG00000074622 Mafb Kreisler|Krml|Krml1|kr v-maf musculoaponeurotic fibrosarcoma oncogene family, protein B (avian) protein-coding nan 8.511 6.110 0.283 0.372 0.245 0.421 0.417 nan nan 0.222 0.264 nan nan 0.237 0.705 0.658 nan nan 0.778 0.765 0.354 0.511 0.610 nan 538 chr11 94187391 94194364 + 0 NA Intergenic Intergenic -20577 NM_009427 22057 Mm.259673 NM_009427 ENSMUSG00000037573 Tob1 Tob|Trob transducer of ErbB-2.1 protein-coding 6.585 nan 1.954 5.668 5.739 4.823 7.508 7.674 5.816 7.902 2.385 2.201 7.465 10.200 5.910 8.151 8.226 7.128 4.218 nan 3.549 3.619 nan nan 6.387 2840 chr6 29222271 29225132 + 0 NA Intergenic RLTR23|LTR|ERV1 -7337 NM_001302934 23917 Mm.260707 NM_011829 ENSMUSG00000003500 Impdh1 B930086D20Rik|IMPDH-I inosine 5'-phosphate dehydrogenase 1 protein-coding 6.192 5.122 1.768 9.458 7.511 5.467 6.200 12.359 4.885 5.546 3.917 4.062 6.602 8.441 8.156 8.782 6.551 6.249 nan 2.509 2.547 4.157 2.513 2.134 6.826 1602 chr18 13019778 13021411 + 0 NA intron (NM_153087, intron 2 of 2) intron (NM_153087, intron 2 of 2) 13604 NM_153087 225192 Mm.207073 NM_153087 ENSMUSG00000037346 Hrh4 AXOR35|BG26|GPCR105|GPRv53|H4|H4R|HH4R histamine receptor H4 protein-coding 3.959 2.471 0.400 8.244 1.993 0.557 3.207 5.243 3.400 6.282 1.706 1.877 5.077 3.546 5.013 7.323 3.446 6.707 3.531 1.206 1.235 4.360 2.507 2.342 10.658 521 chr11 85863601 85865299 + 0 NA Intergenic Intergenic -25613 NM_011536 21387 Mm.275336 NM_011536 ENSMUSG00000000094 Tbx4 3930401C23 T-box 4 protein-coding 3.670 0.582 0.259 2.133 2.360 0.798 2.900 0.886 2.921 2.866 0.736 0.762 3.239 3.694 2.869 3.323 2.566 3.818 0.739 0.356 0.277 nan 0.574 0.247 2.233 2007 chr2 152890096 152894088 + 0 NA intron (NM_001141977, intron 16 of 17) intron (NM_001141977, intron 16 of 17) -19260 NM_001081044 228785 Mm.250604 NM_001081044 ENSMUSG00000027470 Mylk2 9830004H17Rik|BB138278 myosin, light polypeptide kinase 2, skeletal muscle protein-coding 2.891 1.063 0.455 6.709 2.099 0.861 1.247 0.949 1.496 1.974 1.251 0.350 0.387 1.561 1.225 1.932 1.064 2.982 nan 1.398 0.459 0.451 0.724 0.480 2.912 1332 chr16 33378887 33383089 + 0 NA promoter-TSS (NR_045709) promoter-TSS (NR_045709) 213 NM_011749 22661 Mm.392667 NM_011749 ENSMUSG00000022811 Zfp148 2210405J08Rik|AI480666|AW045217|BERF-1|BFCOL1|ZBP-89|Znf148 zinc finger protein 148 protein-coding 9.540 8.039 2.938 6.403 6.599 4.733 8.965 8.246 4.804 8.574 6.117 3.812 5.980 8.801 6.741 8.837 6.379 7.600 5.519 3.413 3.410 5.129 6.340 6.229 10.431 162 chr1 153471490 153473038 + 0 NA exon (NM_007842, exon 11 of 28) exon (NM_007842, exon 11 of 28) 15396 NM_007842 13211 Mm.20000 NM_007842 ENSMUSG00000042699 Dhx9 AI326842|Ddx9|HEL-5|NDHII|RHA|mHEL-5 DEAH (Asp-Glu-Ala-His) box polypeptide 9 protein-coding 5.056 0.798 0.538 4.005 2.258 1.211 2.473 3.045 3.589 3.382 2.066 0.701 4.905 4.915 4.058 5.662 3.890 4.372 nan 1.153 0.960 1.229 nan 0.438 3.371 1923 chr2 92262275 92276026 + 0 NA intron (NM_001346704, intron 6 of 18) intron (NM_001346704, intron 6 of 18) 47588 NM_001109690 192285 Mm.330408 NM_138755 ENSMUSG00000058318 Phf21a 80kDa|Bhc|Bhc80|D030065N23Rik|PFTF1 PHD finger protein 21A protein-coding 7.726 2.155 0.729 7.269 2.611 1.382 5.219 10.647 4.719 5.465 2.261 2.025 7.865 9.848 8.302 12.338 8.149 8.849 3.170 1.679 1.263 3.551 2.183 1.518 11.543 880 chr13 37922098 37926175 + 0 NA intron (NR_033615, intron 8 of 9) intron (NR_033615, intron 8 of 9) 35265 NM_001177869 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 5.465 nan 1.277 4.843 4.462 2.100 3.772 5.567 nan 5.487 5.625 2.832 4.313 7.819 5.424 6.413 4.000 5.795 2.388 2.136 1.525 2.270 1.564 0.972 7.981 433 chr11 59474837 59478540 + 0 NA Intergenic Intergenic -4214 NM_178417 237775 Mm.339604 NM_178417 ENSMUSG00000054519 Zfp867 - zinc finger protein 867 protein-coding 8.829 4.711 1.035 9.125 5.617 3.420 6.924 7.668 7.308 11.514 8.722 4.390 7.404 10.531 7.801 8.479 6.159 9.752 nan 3.143 2.434 4.874 3.656 3.210 9.867 3461 chr9 32030120 32032866 + 0 NA Intergenic Intergenic -84643 NM_001195632 330914 Mm.46683 NM_177379 ENSMUSG00000041444 Arhgap32 3426406O18Rik|Gc-gap|Grit|Px-rics|Rics|mKIAA0712|p200Rhogap|p250Gap Rho GTPase activating protein 32 protein-coding 3.087 1.265 0.697 3.279 1.311 0.586 3.018 4.760 3.375 2.829 6.928 3.971 3.403 3.368 3.926 3.591 1.817 5.184 3.869 1.636 0.768 5.158 2.753 1.336 3.564 2164 chr3 30003304 30007604 + 0 NA intron (NM_007963, intron 2 of 14) intron (NM_007963, intron 2 of 14) 7750 NM_007963 14013 Mm.56965 NM_007963 ENSMUSG00000027684 Mecom D630039M04Rik|Evi-1|Evi1|Jbo|Mds|Mds1|Mds1-Evi1|Prdm3|Znfpr1b1 MDS1 and EVI1 complex locus protein-coding 4.425 0.628 0.547 4.570 2.875 1.655 nan 0.884 5.952 6.697 2.672 4.597 6.877 3.983 nan 5.772 5.171 5.306 0.661 0.498 0.513 0.736 0.549 0.759 3.897 1399 chr17 5057294 5059867 + 0 NA intron (NM_001085355, intron 2 of 19) intron (NM_001085355, intron 2 of 19) 63506 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 2.888 2.568 0.811 3.963 2.391 1.101 3.532 1.934 2.533 2.712 1.944 1.259 2.640 3.406 2.886 3.960 2.497 3.226 2.774 1.387 1.238 1.921 1.434 1.025 3.793 1912 chr2 79474729 79479720 + 0 NA Intergenic Intergenic -20588 NM_010894 18012 Mm.4636 NM_010894 ENSMUSG00000034701 Neurod1 BETA2|BHF-1|Nd1|Neurod|bHLHa3 neurogenic differentiation 1 protein-coding 4.767 4.629 1.533 nan 1.648 1.382 3.721 5.606 4.224 6.004 5.054 5.127 4.256 4.241 nan nan 4.003 4.882 2.324 1.126 0.992 1.933 1.283 1.914 nan 3293 chr8 77615632 77619469 + 0 NA Intergenic IMPB_01|Satellite|Satellite -6622 NR_045467 67357 Mm.71129 NR_045467 ENSMUSG00000086781 1700092C02Rik - RIKEN cDNA 1700092C02 gene ncRNA 7.148 nan 1.907 4.162 6.100 4.685 nan 6.427 nan 4.724 3.067 1.741 4.906 6.860 4.967 6.180 6.122 4.675 2.176 2.105 1.945 nan 1.962 2.001 nan 986 chr14 21568524 21569701 + 0 NA intron (NM_017479, intron 2 of 16) intron (NM_017479, intron 2 of 16) 69327 NM_017479 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 3.161 0.823 1.009 1.052 0.418 2.969 4.571 1.790 1.349 1.095 0.745 3.979 4.095 3.575 4.126 3.225 3.511 0.580 0.979 0.122 nan 0.146 0.243 3.022 786 chr12 80640013 80662641 + 0 NA intron (NM_026244, intron 1 of 6) intron (NM_026244, intron 1 of 6) 7112 NM_026244 328133 Mm.238279 NM_026244 ENSMUSG00000048833 Slc39a9 2010002A02Rik|2610511I23Rik|4833420E20Rik|AW209151 solute carrier family 39 (zinc transporter), member 9 protein-coding 6.475 1.139 0.795 3.882 4.030 2.420 6.276 5.186 6.027 6.254 7.110 2.694 9.426 7.230 6.489 nan 8.019 6.290 1.690 1.788 1.230 2.235 1.680 1.133 6.488 740 chr12 53703468 53706396 + 0 NA intron (NM_013780, intron 4 of 11) intron (NM_013780, intron 4 of 11) 456255 NM_013780 27386 Mm.247044 NM_013780 ENSMUSG00000021010 Npas3 4930423H22Rik|bHLHe12 neuronal PAS domain protein 3 protein-coding 11.858 11.803 3.907 9.656 4.353 2.057 6.786 7.837 6.858 8.569 7.644 3.968 10.277 11.104 10.350 12.095 9.883 9.346 4.510 2.137 1.128 6.222 2.024 1.693 11.944 1117 chr15 66574786 66576884 + 0 NA Intergenic Intergenic -1737 NM_001081409 239510 Mm.267473 NM_178718 ENSMUSG00000072501 Phf20l1 CGI-72|E130113K22Rik PHD finger protein 20-like 1 protein-coding 3.993 1.649 0.444 4.594 0.851 0.173 1.169 2.173 2.512 2.878 1.239 0.807 1.392 2.776 2.468 3.324 1.321 3.563 1.067 0.344 0.292 1.603 0.367 0.188 2.992 1008 chr14 54873133 54875144 + 0 NA Intergenic Intergenic 3400 NM_001167908 105651 Mm.297365 NM_001167908 ENSMUSG00000072494 Ppp1r3e A630071A11Rik|AW049239|Gm1211 protein phosphatase 1, regulatory (inhibitor) subunit 3E protein-coding 6.051 5.986 1.590 5.172 2.673 0.506 5.006 8.615 4.300 4.433 4.276 2.271 5.951 7.529 7.171 8.262 3.706 5.571 2.681 1.281 0.838 2.560 1.511 0.478 7.130 3022 chr6 134100231 134103180 + 0 NA intron (NM_001303102, intron 2 of 8) MER44A|DNA|TcMar-Tigger 66005 NM_007961 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 6.349 3.075 1.535 4.470 2.783 1.714 1.629 2.436 3.463 3.656 3.672 1.613 1.364 2.958 2.307 3.157 2.652 3.518 nan 2.444 1.688 0.973 1.300 0.733 3.129 103 chr1 120553815 120558524 + 0 NA Intergenic Lx5|LINE|L1 -46318 NM_010133 13798 Mm.2657 NM_010133 ENSMUSG00000058665 En1 En-1|Mo-en.1|engrailed-1 engrailed 1 protein-coding 1.645 0.789 0.409 1.018 1.339 0.575 3.387 1.752 1.233 1.351 0.576 0.475 3.207 2.265 2.097 4.710 2.152 2.608 1.013 0.659 0.599 0.795 0.500 0.449 1.875 3434 chr9 21418432 21421048 + 0 NA intron (NM_021888, intron 9 of 9) intron (NM_021888, intron 9 of 9) -5168 NM_007871 13430 Mm.433257 NM_007871 ENSMUSG00000033335 Dnm2 Dyn2|Udnm|b2b2159Clo dynamin 2 protein-coding 5.607 7.952 4.590 6.060 3.681 3.296 5.365 5.054 4.593 7.206 5.174 2.637 4.654 6.298 4.954 5.495 4.757 4.762 5.420 4.120 6.795 5.559 4.983 6.248 8.527 201 chr1 179403446 179405442 + 0 NA intron (NM_027188, intron 5 of 11) intron (NM_027188, intron 5 of 11) 113559 NM_027188 69726 Mm.222338 NM_027188 ENSMUSG00000055067 Smyd3 2410008A19Rik|Zmynd1 SET and MYND domain containing 3 protein-coding 5.374 0.385 0.512 1.595 3.203 2.218 3.799 3.868 3.181 3.216 0.750 0.747 4.974 5.469 3.792 4.786 4.154 4.401 1.869 1.294 0.798 2.166 1.041 1.024 2.293 871 chr13 31669371 31671834 + 0 NA Intergenic RLTR20C1_MM|LTR|ERVK 44786 NM_010225 14238 Mm.125548 NM_010225 ENSMUSG00000038402 Foxf2 FREAC2|Fkh20|LUN forkhead box F2 protein-coding 5.189 0.456 0.337 2.200 2.306 1.444 6.893 9.147 4.804 4.852 7.088 4.567 6.596 7.810 5.849 7.631 5.251 5.324 0.578 0.835 0.539 0.753 0.345 0.167 6.668 1401 chr17 5202119 5203425 + 0 NA intron (NM_001085355, intron 4 of 19) intron (NM_001085355, intron 4 of 19) 207698 NM_001085355 239985 Mm.133401 NM_001085355 ENSMUSG00000069729 Arid1b 8030481M12|9330189K18Rik|AI836955|Ardi1b|B230217J03Rik|mKIAA1235 AT rich interactive domain 1B (SWI-like) protein-coding 3.362 1.998 1.056 2.520 2.483 1.122 3.545 2.273 2.573 2.617 1.222 0.947 2.228 4.099 2.437 4.373 3.329 3.138 nan 0.950 0.465 0.957 0.878 0.421 2.806 719 chr12 16859706 16862268 + 0 NA Intergenic Intergenic -33991 NM_009072 19878 Mm.276024 NM_009072 ENSMUSG00000020580 Rock2 B230113H15Rik|ROKalpha|Rho-kinase|Rock-II|Rock2m|mKIAA0619 Rho-associated coiled-coil containing protein kinase 2 protein-coding 12.254 0.970 0.623 5.396 3.606 1.687 7.824 6.073 4.975 5.718 4.522 2.984 8.817 10.731 9.024 9.601 6.294 7.860 2.649 1.464 0.953 2.001 1.517 1.271 11.230 3393 chr8 123048563 123075809 + 0 NA Intergenic MYSERV6-int|LTR|ERVK -3322 NM_153176 234847 Mm.292075 NM_153176 ENSMUSG00000000738 Spg7 AI452278|AU015315|Cmar|PGN spastic paraplegia 7 homolog (human) protein-coding 4.058 nan 1.162 nan 3.347 2.392 nan 6.837 2.356 4.422 1.661 1.188 4.348 5.608 nan 5.101 3.805 nan nan 2.997 3.452 5.998 3.197 nan 6.970 1529 chr17 47747459 47749218 + 0 NA intron (NM_001161723, intron 1 of 8) intron (NM_001161723, intron 1 of 8) 10407 NM_001161723 21425 Mm.2305 NM_011549 ENSMUSG00000023990 Tfeb Tcfeb|bHLHe35 transcription factor EB protein-coding 8.501 10.070 3.558 7.738 5.732 2.863 8.052 5.727 4.209 5.911 4.339 2.459 4.980 7.378 7.785 9.777 7.446 6.401 3.741 3.956 2.461 5.112 4.555 2.941 11.903 902 chr13 45891492 45893999 + 0 NA intron (NM_001199304, intron 2 of 6) intron (NM_001199304, intron 2 of 6) 72246 NM_001199304 20238 Mm.342683 NM_009124 ENSMUSG00000046876 Atxn1 2900016G23Rik|Atx1|C85907|ENSMUSG00000074917|Gm10786|Sca1 ataxin 1 protein-coding 2.173 1.207 0.479 nan 1.442 0.704 3.008 2.540 1.729 2.051 1.534 2.314 1.579 2.718 3.008 3.610 1.543 3.124 1.321 nan 0.547 1.892 0.693 0.384 nan 827 chr12 112670675 112672870 + 0 NA intron (NM_001331107, intron 1 of 13) intron (NM_001331107, intron 1 of 13) 2504 NM_001165894 11651 Mm.6645 NM_009652 ENSMUSG00000001729 Akt1 Akt|LTR-akt|PKB|PKB/Akt|PKBalpha|Rac thymoma viral proto-oncogene 1 protein-coding 6.327 1.872 0.605 nan 3.436 2.290 5.360 4.177 nan 3.927 4.976 2.566 2.261 nan 2.278 3.191 2.351 2.890 0.885 1.550 1.750 1.352 0.516 0.913 nan 266 chr10 61798273 61804175 + 0 NA Intergenic RMER15|LTR|ERVL -17360 NM_207000 404634 Mm.272870 NM_207000 ENSMUSG00000020086 H2afy2 macroH2A2 H2A histone family, member Y2 protein-coding 8.150 5.709 1.482 7.679 6.289 4.895 5.529 7.185 5.886 7.449 6.039 4.757 5.799 8.873 6.307 8.580 6.190 6.931 5.227 2.792 3.002 4.945 3.904 4.335 10.934 2039 chr2 158497950 158509301 + 0 NA intron (NM_145635, intron 1 of 2) URR1A|DNA|hAT-Charlie 1013 NM_145635 246747 Mm.28800 NM_145635 ENSMUSG00000044405 Adig SMAF-1|Smaf1 adipogenin protein-coding nan 10.678 5.257 2.654 1.252 0.466 1.598 0.675 nan nan 0.587 0.425 nan nan 1.246 2.309 1.895 nan nan 0.871 0.770 0.893 0.437 0.488 nan 1353 chr16 76363605 76374556 + 0 NA intron (NM_173440, intron 1 of 3) intron (NM_173440, intron 1 of 3) 3969 NM_173440 268903 Mm.74711 NM_173440 ENSMUSG00000048490 Nrip1 6030458L20Rik|8430438I05Rik|9630050P12|AA959574|AW456757|RIP140 nuclear receptor interacting protein 1 protein-coding 7.245 8.060 3.567 5.474 3.188 1.702 5.517 5.988 4.658 7.595 4.053 3.242 6.728 5.917 6.454 8.826 5.112 nan nan 1.382 1.154 2.253 1.192 1.187 8.529 1742 chr19 10174630 10176915 + 0 NA Intergenic Intergenic -7116 NM_146094 76267 Mm.30158 NM_146094 ENSMUSG00000010663 Fads1 0710001O03Rik|A930006B21Rik|AI317215|DSD fatty acid desaturase 1 protein-coding 5.108 3.247 1.036 3.659 1.416 0.948 4.080 7.091 nan 3.661 7.842 2.836 4.095 5.157 4.582 6.568 7.358 5.527 3.570 3.329 3.019 7.499 5.720 4.769 11.817 3128 chr7 73458991 73460881 + 0 NA intron (NM_001081345, intron 28 of 38) MTD|LTR|ERVL-MaLR 81810 NM_001081345 244059 Mm.34539 NM_001081345 ENSMUSG00000078671 Chd2 2810013C04Rik|2810040A01Rik|5630401D06Rik|AI851092|BC029703|CHD-2 chromodomain helicase DNA binding protein 2 protein-coding 2.229 0.513 0.273 nan 1.661 2.182 3.530 1.967 2.422 2.242 0.585 0.745 0.757 2.788 2.369 2.651 1.639 2.534 0.746 0.968 0.537 0.518 0.500 0.407 4.085 2585 chr4 151413465 151416464 + 0 NA intron (NM_001081557, intron 5 of 23) B3|SINE|B2 325394 NM_001308446 105704528 Mm.415128 NM_001308446 ENSMUSG00000078491 Gm13090 OTTMUSG00000010356 predicted gene 13090 protein-coding 2.061 9.549 3.669 3.154 1.289 1.436 1.880 1.689 1.329 3.263 2.052 1.198 1.439 1.380 2.095 2.918 1.065 2.406 1.916 0.597 0.965 2.456 0.691 1.097 4.287 1624 chr18 39047248 39050858 + 0 NA intron (NM_175164, intron 1 of 22) intron (NM_175164, intron 1 of 22) 55908 NM_175164 71302 Mm.329396 NM_175164 ENSMUSG00000036452 Arhgap26 1810044B20Rik|2610010G17Rik|4933432P15Rik|AI853435|mKIAA0621 Rho GTPase activating protein 26 protein-coding 5.137 3.969 1.619 3.632 1.659 0.721 5.465 4.313 3.299 3.180 1.251 1.331 6.060 5.916 5.511 6.269 3.151 5.903 1.602 1.680 0.870 3.898 1.788 1.045 5.271 2892 chr6 72337854 72346911 + 0 NA intron (NM_138592, intron 2 of 12) B1_Mus2|SINE|Alu 2793 NM_138592 28035 Mm.281900 NM_138592 ENSMUSG00000056305 Usp39 AA408960|AI894154|CGI-21|D6Wsu157e|SAD1 ubiquitin specific peptidase 39 protein-coding 9.160 5.101 2.230 7.226 5.858 3.828 9.723 9.313 5.593 7.815 5.275 2.924 8.962 13.022 7.142 9.128 8.994 7.717 2.174 2.162 1.849 2.206 1.824 1.646 8.327 3363 chr8 119644579 119649426 + 0 NA Intergenic RLTR10B2|LTR|ERVK -11322 NM_025734 66733 Mm.358699 NM_025734 ENSMUSG00000045246 Kcng4 4921535I01Rik|AW049024|KV6.3|KV6.4 potassium voltage-gated channel, subfamily G, member 4 protein-coding 3.186 1.515 0.914 2.610 1.443 1.035 2.815 6.879 3.474 2.737 7.679 4.484 3.945 3.329 4.672 6.209 3.215 5.596 0.761 0.741 0.625 1.056 0.739 0.575 3.718 1219 chr15 100507831 100518755 + 0 NA intron (NM_033476, intron 11 of 15) intron (NM_033476, intron 11 of 15) -18054 NM_153407 207785 Mm.294969 NM_153407 ENSMUSG00000044636 Csrnp2 CSRNP-2|Csnrp2|taip-12 cysteine-serine-rich nuclear protein 2 protein-coding 4.741 2.023 0.767 1.619 1.718 1.251 7.717 10.819 2.505 3.762 0.998 1.023 6.519 5.782 5.260 nan 4.768 3.866 0.710 0.787 0.777 1.322 0.771 0.799 4.745 1695 chr18 82656187 82669654 + 0 NA intron (NM_177832, intron 6 of 29) L1VL2|LINE|L1 29814 NM_177832 329002 Mm.34438 NM_177832 ENSMUSG00000041258 Zfp236 AI447957|Gm335 zinc finger protein 236 protein-coding 6.338 nan 0.882 3.550 4.640 2.856 4.105 7.852 2.952 3.712 4.532 2.704 4.995 6.369 3.097 4.745 3.446 5.540 1.925 nan 1.268 1.880 1.991 1.458 5.520 2534 chr4 140632272 140634226 + 0 NA intron (NM_001290803, intron 1 of 28) intron (NM_001290803, intron 1 of 28) 15507 NM_001112723 72754 Mm.29329 NM_172415 ENSMUSG00000040964 Arhgef10l 2810441C07Rik Rho guanine nucleotide exchange factor (GEF) 10-like protein-coding 4.779 13.003 3.845 6.104 2.549 1.468 4.310 4.195 nan 4.178 2.661 1.636 3.022 5.703 6.506 5.934 1.834 5.977 2.839 1.040 0.733 4.377 nan 0.852 9.869 97 chr1 91436539 91440990 + 0 NA intron (NM_011066, intron 8 of 22) intron (NM_011066, intron 8 of 22) 20564 NM_011066 18627 Mm.482463 NM_011066 ENSMUSG00000055866 Per2 mKIAA0347|mPer2 period circadian clock 2 protein-coding 0.978 0.465 0.113 0.953 0.688 0.193 0.695 0.819 0.661 0.784 0.492 0.471 0.299 0.474 0.615 0.971 0.509 1.089 4.033 1.803 1.284 4.961 3.113 2.199 0.902 2983 chr6 115412461 115422553 + 0 NA intron (NM_001308352, intron 2 of 7) L1_Mus2|LINE|L1 -4559 NM_011146 19016 Mm.3020 NM_011146 ENSMUSG00000000440 Pparg Nr1c3|PPAR-gamma|PPAR-gamma2|PPARgamma|PPARgamma2 peroxisome proliferator activated receptor gamma protein-coding 5.944 0.895 0.446 3.088 2.939 1.807 5.144 6.574 4.255 5.079 1.225 1.641 5.953 8.916 5.836 7.876 7.157 5.329 3.060 1.144 0.868 1.436 nan 1.367 3.641 2378 chr4 58923053 58926199 + 0 NA Intergenic RLTR19-int|LTR|ERVK -11901 NM_172381 230249 Mm.234801 NM_172381 ENSMUSG00000050812 AI314180 AW558785|BB181316|mKIAA0368 expressed sequence AI314180 protein-coding 8.706 nan 3.366 11.144 6.488 5.062 7.251 7.702 5.721 17.257 6.597 5.093 6.395 9.312 9.020 9.737 4.795 10.217 7.758 3.661 4.500 14.847 4.570 6.380 17.445 1704 chr18 83994142 83998210 + 0 NA Intergenic Intergenic 90386 NM_001081300 110796 Mm.102136 NM_001081300 ENSMUSG00000046982 Tshz1 5730407I04Rik|D18Bwg1409e|Mtsh1|NY-CO-33|Sdccag33|Tsh1|mKIAA4206|teashirt1 teashirt zinc finger family member 1 protein-coding 7.764 0.503 0.448 2.321 5.496 2.016 1.149 4.238 5.993 8.758 1.618 1.020 2.119 3.727 1.954 2.111 2.400 4.838 1.585 1.268 0.551 1.180 0.885 0.584 6.149 668 chr11 116969612 116972045 + 0 NA intron (NM_172948, intron 10 of 16) intron (NM_172948, intron 10 of 16) 51965 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 5.308 4.166 1.751 5.777 5.165 3.478 2.678 3.854 3.681 4.240 3.410 1.368 4.529 6.794 4.833 5.423 2.904 5.546 1.259 nan 1.636 1.882 0.873 0.742 4.663 750 chr12 57373519 57404738 + 0 NA intron (NM_001164370, intron 8 of 9) L1VL4|LINE|L1 156993 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 11.204 nan 0.584 4.890 6.868 4.013 10.855 7.329 8.951 10.743 2.252 1.867 12.605 13.424 nan nan 11.412 nan 3.800 2.787 1.988 3.572 2.033 1.590 12.393 688 chr11 119686756 119688324 + 0 NA intron (NM_028898, intron 3 of 33) MTE-int|LTR|ERVL-MaLR 84635 NM_028898 74370 Mm.209933 NM_028898 ENSMUSG00000025583 Rptor 4932417H02Rik|Rap|Raptor|mKIAA1303 regulatory associated protein of MTOR, complex 1 protein-coding 3.079 nan 0.243 2.359 2.551 1.256 2.119 nan 2.656 3.242 1.315 2.771 2.265 4.639 2.447 2.556 0.827 2.666 2.872 nan 0.635 3.391 1.410 0.889 4.282 1749 chr19 10650888 10653529 + 0 NA intron (NM_027913, intron 11 of 19) (TTTC)n|Simple_repeat|Simple_repeat -4155 NR_045316 75096 Mm.399287 NR_045316 4930524O05Rik - RIKEN cDNA 4930524O05 gene ncRNA 8.496 11.012 3.605 8.926 2.646 1.193 7.792 6.537 4.760 5.819 5.009 2.245 4.497 7.427 7.593 7.758 5.530 7.771 2.932 2.748 1.464 5.358 3.439 2.175 11.634 774 chr12 74442180 74444744 + 0 NA Intergenic L1_Rod|LINE|L1 145988 NM_198866 386753 Mm.341686 NM_198866 ENSMUSG00000029878 Dbpht2 Spot2 DNA binding protein with his-thr domain protein-coding 2.575 1.163 0.332 3.868 1.276 0.651 0.856 0.808 1.894 1.948 0.969 0.852 0.918 nan 0.981 nan 1.529 3.071 2.412 0.815 0.521 1.122 1.012 0.684 1.300 1126 chr15 73210297 73211662 + 0 NA intron (NM_007982, intron 29 of 31) intron (NM_007982, intron 29 of 31) -26032 NM_153178 239528 Mm.23095 NM_153178 ENSMUSG00000036698 Ago2 1110029L17Rik|2310051F07Rik|AI225898|AL022874|AW546247|ENSMUSG00000072493|Eif2c2|Gerp95|Gm10365|mKIAA4215 argonaute RISC catalytic subunit 2 protein-coding 2.325 nan 0.696 1.667 2.880 3.563 nan 2.842 2.255 2.462 nan 1.767 3.306 4.112 2.594 1.584 2.256 3.521 0.798 0.670 0.217 nan 1.041 1.069 1.587 3463 chr9 32479737 32480956 + 0 NA intron (NM_008026, intron 1 of 8) intron (NM_008026, intron 1 of 8) 61106 NM_008026 14247 Mm.258908 NM_008026 ENSMUSG00000016087 Fli1 EWSR2|Fli-1|SIC-1|Sic1 Friend leukemia integration 1 protein-coding 5.463 13.186 6.668 5.257 3.190 2.623 3.114 1.826 3.315 4.538 1.958 1.493 1.297 2.678 2.372 3.496 1.730 3.314 1.815 3.778 3.785 1.392 2.425 2.544 3.921 2128 chr2 180740315 180741268 + 0 NA intron (NM_183161, intron 12 of 12) intron (NM_183161, intron 12 of 12) 15452 NM_183161 228993 Mm.87189 NM_183161 ENSMUSG00000023393 Slc17a9 1700019H03Rik|BC019537|Vnut solute carrier family 17, member 9 protein-coding 1.375 0.388 0.608 0.784 0.425 0.229 1.073 1.458 1.652 1.911 0.393 0.309 1.498 3.391 2.387 2.644 1.336 2.270 0.539 0.424 0.129 0.550 0.232 0.026 2.875 910 chr13 47137352 47139664 + 0 NA intron (NM_146042, intron 1 of 7) intron (NM_146042, intron 1 of 7) 10162 NR_126083 319467 Mm.447279 NR_126083 A930002C04Rik - RIKEN cDNA A930002C04 gene ncRNA 3.416 4.815 1.368 nan 1.744 0.815 3.105 3.923 2.834 5.614 3.059 1.990 3.884 4.248 4.633 5.640 2.378 4.609 2.979 nan 1.320 3.564 1.397 2.338 6.903 2701 chr5 105993070 106003205 + 0 NA Intergenic B2_Mm2|SINE|B2 121569 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 3.475 1.543 1.054 2.886 2.849 1.890 4.882 2.936 3.567 4.109 1.239 1.053 4.361 4.318 4.954 5.568 3.189 4.517 nan 0.707 0.619 0.685 0.533 0.290 4.066 693 chr11 119812894 119818360 + 0 NA intron (NM_028898, intron 10 of 33) intron (NM_028898, intron 10 of 33) 18738 NR_045313 319454 Mm.442144 NR_045312 ENSMUSG00000085081 Rptoros A430071A18Rik regulatory associated protein of MTOR, complex 1, opposite strand ncRNA 6.644 3.455 1.356 9.049 7.130 3.822 5.711 4.400 5.260 5.724 4.986 2.765 4.336 7.668 6.416 6.794 3.841 8.385 1.849 nan 1.234 1.691 1.329 0.986 7.536 1341 chr16 38755949 38757399 + 0 NA intron (NM_001285793, intron 3 of 6) intron (NM_001285793, intron 3 of 6) 14415 NM_001285793 56375 Mm.182377 NM_019804 ENSMUSG00000022793 B4galt4 9130402O08Rik|B4galt-IV|b4Gal-T4|beta4Gal-T4|beta4GalT-IV UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 4 protein-coding 6.927 0.959 0.725 2.535 3.696 1.923 1.418 2.171 2.342 3.007 0.625 0.647 1.500 4.211 2.549 3.064 1.924 3.521 0.640 0.855 0.819 1.074 0.797 0.467 3.871 2684 chr5 91186713 91191604 + 0 NA Intergenic Lx9|LINE|L1 49559 NM_009704 11839 Mm.8039 NM_009704 ENSMUSG00000029378 Areg AR|Mcub|Sdgf amphiregulin protein-coding 3.116 0.798 0.319 1.165 0.764 0.313 4.709 2.173 1.236 1.179 6.542 2.657 1.910 2.626 2.596 1.886 1.154 1.186 0.399 0.561 0.401 0.571 0.274 0.246 2.345 3424 chr9 15308524 15313037 + 0 NA intron (NM_029248, intron 5 of 6) intron (NM_029248, intron 5 of 6) -1831 NR_106108 102465758 NR_106108 ENSMUSG00000105847 Gm25500 Mir7650|mmu-mir-7650 predicted gene, 25500 ncRNA 3.763 2.355 1.411 4.725 0.997 0.670 2.232 2.619 2.031 2.470 1.189 1.000 2.168 2.412 3.030 2.738 1.619 4.033 2.871 2.163 1.038 3.986 2.026 1.325 5.095 1534 chr17 47890083 47895379 + 0 NA intron (NM_001110824, intron 2 of 16) B1_Mur2|SINE|Alu 31901 NM_028767 74123 Mm.240062 NM_028767 ENSMUSG00000023991 Foxp4 1200010K03Rik|2310007G05Rik|mFKHLA forkhead box P4 protein-coding 6.250 8.352 4.095 3.453 2.972 2.333 5.375 3.637 2.124 1.985 2.873 1.080 3.320 4.448 2.947 3.931 nan 2.576 0.855 1.418 1.859 0.759 0.491 0.598 5.118 2570 chr4 150223272 150240285 + 0 NA Intergenic Intergenic -5419 NM_023119 13806 Mm.70666 NM_023119 ENSMUSG00000063524 Eno1 0610008I15|AL022784|Eno-1|MBP-1 enolase 1, alpha non-neuron protein-coding 6.248 nan 0.710 5.738 7.321 4.397 5.878 6.719 6.590 7.296 3.688 3.677 6.707 9.913 6.611 6.710 5.099 8.532 2.354 1.171 0.858 2.964 1.404 1.182 5.374 893 chr13 45601598 45605121 + 0 NA intron (NM_001199304, intron 5 of 6) intron (NM_001199304, intron 5 of 6) 95915 NM_025508 66355 Mm.290802 NM_025508 ENSMUSG00000000253 Gmpr 2310004P21Rik|AV028449|GMPR 1 guanosine monophosphate reductase protein-coding 4.169 0.940 0.425 2.996 3.473 1.696 4.379 2.318 3.246 4.186 1.504 1.335 4.318 7.388 5.477 6.687 3.950 4.191 2.319 nan 1.551 2.608 2.359 2.112 9.463 2309 chr3 127621141 127625050 + 0 NA Intergenic (TCC)n|Simple_repeat|Simple_repeat -10050 NM_009718 11924 Mm.42017 NM_009718 ENSMUSG00000027967 Neurog2 Atoh4|Math4A|bHLHa8|ngn-2|ngn2 neurogenin 2 protein-coding 0.584 0.605 0.496 0.479 0.623 0.318 0.703 nan 0.726 0.539 0.604 0.582 0.393 0.623 0.712 nan nan nan 1.394 1.822 1.064 4.389 0.613 0.599 0.447 1915 chr2 91187357 91194555 + 0 NA intron (NM_001177730, intron 4 of 9) intron (NM_001177730, intron 4 of 9) 4079 NM_013839 22259 Mm.22690 NM_013839 ENSMUSG00000002108 Nr1h3 AU018371|LXR|RLD1|Unr1 nuclear receptor subfamily 1, group H, member 3 protein-coding 7.730 0.579 0.464 5.259 2.855 1.587 6.528 7.735 6.474 6.753 2.411 3.026 10.900 8.077 6.466 8.220 9.859 9.032 0.680 1.418 0.852 1.090 0.655 0.566 6.968 2737 chr5 122031718 122039148 + 0 NA intron (NM_001312908, intron 2 of 22) intron (NM_001312908, intron 2 of 22) 12392 NM_007804 13048 Mm.156172 NM_007804 ENSMUSG00000042589 Cux2 1700051K22Rik|Cutl2|Cux-2|ENSMUSG00000072641 cut-like homeobox 2 protein-coding 6.053 3.023 1.781 6.444 4.247 3.547 6.219 6.254 4.548 4.748 3.633 2.912 5.495 6.960 4.321 5.662 4.666 4.951 nan nan 2.086 1.616 nan 1.435 6.165 804 chr12 85525816 85531251 + 0 NA Intergenic Lx8|LINE|L1 54632 NM_010234 14281 Mm.246513 NM_010234 ENSMUSG00000021250 Fos D12Rfj1|c-fos|cFos FBJ osteosarcoma oncogene protein-coding 5.153 6.583 1.831 5.770 2.946 1.452 3.087 4.100 2.819 3.524 2.495 1.656 3.991 5.780 4.943 5.079 3.637 6.549 1.310 1.095 0.867 2.465 0.981 0.583 9.716 83 chr1 77976595 77980385 + 0 NA Intergenic B3A|SINE|B2 218646 NM_008781 18505 Mm.1371 NM_008781 ENSMUSG00000004872 Pax3 Pax-3|Sp|Splchl2|splotch paired box 3 protein-coding 7.193 0.526 0.438 3.972 4.692 2.953 3.003 4.658 4.451 5.834 0.605 0.684 6.196 6.574 4.902 7.045 8.548 6.518 nan nan 0.742 0.440 nan 0.414 5.148 3375 chr8 122232622 122236263 + 0 NA Intergenic Intergenic -47699 NM_009569 22761 Mm.3105 NM_009569 ENSMUSG00000049577 Zfpm1 FOG|Fog1 zinc finger protein, multitype 1 protein-coding 5.417 0.712 0.424 3.895 5.086 2.482 4.509 10.184 3.735 4.741 7.570 4.965 3.637 6.569 4.185 5.370 3.787 3.779 1.767 1.751 1.489 3.048 1.175 1.177 5.275 2558 chr4 148144152 148147526 + 0 NA TTS (NM_027985) TTS (NM_027985) 1157 NR_105989 102465619 NR_105989 ENSMUSG00000099043 Mir7022 Gm27291|mmu-mir-7022 microRNA 7022 ncRNA 0.350 nan 0.244 0.580 0.338 0.435 0.330 0.492 0.455 0.485 0.509 0.386 0.289 0.459 0.355 0.714 0.291 0.707 2.632 1.147 1.046 4.890 3.618 3.171 0.813 1385 chr16 95551446 95563733 + 0 NA intron (NM_001302152, intron 1 of 10) MTC|LTR|ERVL-MaLR -27224 NM_133659 13876 Mm.164531 NM_133659 ENSMUSG00000040732 Erg D030036I24Rik avian erythroblastosis virus E-26 (v-ets) oncogene related protein-coding nan 0.854 0.550 2.842 4.086 2.078 2.882 3.996 nan 4.962 1.165 0.966 5.535 8.515 nan 3.337 4.017 nan nan 3.163 2.095 4.700 4.037 3.071 3.159 2672 chr5 65308849 65312097 + 0 NA intron (NM_001347358, intron 4 of 24) (GAA)n|Simple_repeat|Simple_repeat 25166 NM_011258 19687 Mm.148877 NM_011258 ENSMUSG00000029191 Rfc1 140kDa|Alp145|RFC140|Recc1 replication factor C (activator 1) 1 protein-coding 1.124 6.800 5.401 0.776 0.741 0.416 0.629 0.696 1.021 0.750 0.641 0.513 0.547 0.677 0.752 0.712 0.824 1.042 0.642 1.118 1.127 nan 0.886 0.959 0.608 1818 chr2 17966584 17973081 + 0 NA Intergenic RMER17C-int|LTR|ERVK 27126 NM_026627 68231 Mm.23887 NM_026627 ENSMUSG00000062651 H2afb1 1700113O17Rik|H2A.Bbd|H2al2|TSEG-1|Tseg1 H2A histone family, member B1 protein-coding 3.414 4.504 2.436 4.983 2.005 1.288 8.781 7.516 4.683 6.954 5.488 3.903 6.282 9.141 6.639 8.303 8.996 7.108 3.438 3.309 2.606 4.917 3.160 3.016 3.366 2094 chr2 167727097 167729722 + 0 NA Intergenic MIRb|SINE|MIR 37232 NR_015500 329562 Mm.123101 NM_177851 ENSMUSG00000006462 A530013C23Rik - RIKEN cDNA A530013C23 gene ncRNA 4.362 1.058 0.796 4.264 1.973 1.581 2.432 5.599 3.533 4.948 2.604 2.007 6.126 6.822 5.016 5.643 4.142 6.947 nan 0.481 1.392 1.009 0.852 0.984 8.302 962 chr13 100114093 100115237 + 0 NA TTS (NM_011353) TTS (NM_011353) 6646 NM_011353 20365 Mm.286177 NM_011353 ENSMUSG00000021643 Serf1 4F5|Msmac1|m4F5 small EDRK-rich factor 1 protein-coding 5.299 10.837 2.977 8.362 1.031 0.327 5.011 5.228 3.998 7.014 4.683 2.879 4.831 4.994 8.786 8.206 2.950 7.585 5.586 1.216 1.200 6.259 1.918 1.599 11.646 755 chr12 57505301 57508127 + 0 NA Intergenic Intergenic 39407 NM_008259 15375 Mm.4578 NM_008259 ENSMUSG00000035451 Foxa1 Hnf-3a|Hnf3a|Tcf-3a|Tcf3a forkhead box A1 protein-coding 2.981 4.109 1.844 2.427 1.036 0.412 4.636 3.023 3.270 3.801 0.985 0.649 6.769 6.076 5.484 4.677 4.304 6.055 7.125 1.262 0.888 2.705 2.408 1.251 3.282 1085 chr15 37359321 37362031 + 0 NA intron (NM_026496, intron 15 of 15) intron (NM_026496, intron 15 of 15) -64878 NM_029113 74892 Mm.107630 NM_029113 ENSMUSG00000022288 4930447A16Rik - RIKEN cDNA 4930447A16 gene protein-coding 1.408 1.073 0.640 1.455 0.597 0.269 0.616 1.055 0.449 0.298 0.513 1.213 0.189 0.493 0.379 0.647 0.903 0.874 3.518 4.368 2.377 5.002 7.418 4.992 nan 1714 chr19 4294124 4306334 + 0 NA intron (NM_001290818, intron 1 of 20) intron (NM_001290818, intron 1 of 20) 5993 NM_130863 110355 Mm.254144 NM_130863 ENSMUSG00000024858 Grk2 Adrbk-1|Adrbk1|Bark-1|beta ARK|betaARK1 G protein-coupled receptor kinase 2 protein-coding 6.279 18.397 5.861 7.182 2.825 1.533 3.906 6.645 nan 5.482 5.499 2.558 3.090 4.809 4.874 5.564 4.531 5.310 1.550 2.019 2.200 3.421 1.493 1.279 8.866 1837 chr2 26493647 26496736 + 0 NA intron (NM_008714, intron 2 of 33) intron (NM_008714, intron 2 of 33) 8631 NM_008714 18128 Mm.290610 NM_008714 ENSMUSG00000026923 Notch1 9930111A19Rik|Mis6|N1|Tan1|lin-12 notch 1 protein-coding 7.393 5.416 2.249 5.474 3.508 2.604 6.324 8.582 nan 4.620 4.968 2.534 6.815 7.635 6.866 8.094 6.137 6.156 2.072 2.006 2.778 3.591 1.983 2.007 9.227 143 chr1 136075925 136099493 + 0 NA intron (NM_001081023, intron 14 of 43) MER5A1|DNA|hAT-Charlie 34808 NM_014193 12292 Mm.4418 NM_014193 ENSMUSG00000026407 Cacna1s AW493108|Cav1.1|Cchl1a3|fmd|mdg|sj calcium channel, voltage-dependent, L type, alpha 1S subunit protein-coding 4.515 2.274 0.787 nan 2.390 1.337 4.982 3.982 2.711 3.495 0.550 0.760 3.778 nan 4.174 nan 4.484 4.508 0.643 0.659 0.504 0.819 0.418 0.396 nan 3090 chr7 28964056 28965661 + 0 NA Intergenic RSINE1|SINE|B4 -2578 NM_021895 60595 Mm.81144 NM_021895 ENSMUSG00000054808 Actn4 C77391 actinin alpha 4 protein-coding 6.277 6.328 1.532 7.861 2.054 1.751 6.220 7.087 2.658 8.089 3.234 2.828 6.264 7.427 7.462 8.472 5.396 6.232 4.178 1.392 1.982 4.610 2.283 3.985 14.530 1403 chr17 5220086 5222864 + 0 NA intron (NM_001085355, intron 4 of 19) B4A|SINE|B4 197292 NM_175349 106557 Mm.432764 NM_175349 ENSMUSG00000101959 Ldhal6b 4933402O15Rik|AI326310|LDHL|Ldhal lactate dehydrogenase A-like 6B protein-coding 3.050 1.572 0.823 2.733 2.226 1.181 2.111 2.382 2.807 3.436 1.846 1.028 3.394 5.815 2.753 3.380 2.623 3.149 2.124 1.103 0.686 2.686 1.620 0.442 3.633 2323 chr3 144279584 144280409 + 0 NA Intergenic Intergenic -74741 NM_010723 16911 Mm.29187 NM_010723 ENSMUSG00000028266 Lmo4 A730077C12Rik|Crp3|Etohi4 LIM domain only 4 protein-coding 2.616 1.371 0.606 2.008 0.595 0.204 1.744 1.310 1.985 1.659 0.763 0.657 2.315 3.581 2.526 2.589 1.923 3.156 1.808 0.968 0.638 2.133 1.468 0.750 2.635 3049 chr6 146853436 146863426 + 0 NA intron (NM_027059, intron 3 of 9) B1F|SINE|Alu 8321 NM_027059 69371 Mm.252733 NM_027059 ENSMUSG00000030292 Smco2 1700023A16Rik single-pass membrane protein with coiled-coil domains 2 protein-coding 3.489 1.116 0.603 nan 2.232 1.114 3.488 5.131 2.243 nan 2.126 1.203 nan 5.453 3.955 nan 4.807 3.752 1.427 nan 0.589 nan 1.483 0.662 nan 2822 chr5 152134218 152136614 + 0 NA Intergenic Intergenic -484208 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 1.923 0.789 0.707 nan 1.845 0.723 2.043 2.362 2.001 2.187 6.436 3.445 2.622 2.209 2.098 1.813 1.673 2.755 0.905 0.827 0.242 0.716 0.682 0.500 nan 1051 chr15 7450101 7452529 + 0 NA Intergenic Intergenic -52920 NM_001289498 268780 Mm.203208 NM_178748 ENSMUSG00000042961 Egflam 5930412K08|AU040377 EGF-like, fibronectin type III and laminin G domains protein-coding 2.695 0.664 0.296 2.007 1.860 0.886 2.967 3.762 3.021 3.566 0.422 0.322 6.672 5.359 2.783 2.709 2.572 3.643 0.587 0.334 0.351 0.332 0.320 0.077 1.245 2268 chr3 96303591 96307092 + 0 NA Intergenic Intergenic -11372 NM_010186 14129 Mm.150 NM_010186 ENSMUSG00000015947 Fcgr1 AI323638|AV092959|CD64|FcgammaRI|IGGHAFC Fc receptor, IgG, high affinity I protein-coding 5.117 11.636 3.930 5.678 3.048 1.300 2.597 3.021 5.060 4.724 nan 2.994 5.089 5.487 6.435 5.606 3.820 5.227 2.922 1.661 0.842 4.177 1.989 1.609 7.737 3033 chr6 136498389 136500733 + 0 NA Intergenic Intergenic -19290 NM_019426 54343 Mm.173271 NM_019426 ENSMUSG00000030213 Atf7ip 2610204M12Rik|AM|Mcaf1 activating transcription factor 7 interacting protein protein-coding 4.689 4.615 2.810 3.151 3.421 1.663 5.653 5.505 4.437 4.172 0.955 2.552 4.713 5.439 4.644 7.125 8.100 6.882 2.821 1.367 0.842 1.104 1.359 0.812 2.974 1497 chr17 35096364 35103935 + 0 NA intron (NM_178592, intron 9 of 19) intron (NM_178592, intron 9 of 19) -8151 NM_148947 114652 Mm.222643 NM_148947 ENSMUSG00000034482 Ly6g5c G5c|NG33 lymphocyte antigen 6 complex, locus G5C protein-coding 6.720 2.004 1.213 2.620 3.883 2.950 7.442 4.921 2.293 2.158 8.251 3.818 5.419 7.963 3.577 3.392 4.281 3.714 0.897 1.324 0.950 0.835 0.910 0.982 5.605 518 chr11 85123717 85126787 + 0 NA intron (NM_001029934, intron 1 of 33) B2_Mm2|SINE|B2 14703 NM_001029934 237898 Mm.178524 NM_001029934 ENSMUSG00000000804 Usp32 2900074J03Rik|6430526O11Rik|AW045245 ubiquitin specific peptidase 32 protein-coding nan 11.342 3.589 nan 3.298 1.568 5.449 6.164 5.994 9.165 6.203 3.171 6.882 8.340 7.533 8.649 5.416 7.999 6.181 3.103 2.726 nan 4.494 3.746 9.373 497 chr11 76635646 76641430 + 0 NA Intergenic (TTTC)n|Simple_repeat|Simple_repeat -33932 NM_177182 320522 Mm.131585 NM_177182 ENSMUSG00000044243 Bhlha9 A830053O21Rik|Fingerin basic helix-loop-helix family, member a9 protein-coding 2.201 0.980 0.722 1.162 1.109 0.740 nan 3.783 2.899 1.601 5.451 5.629 1.466 nan nan nan 1.627 1.978 2.761 1.771 nan 2.199 2.578 2.609 0.617 2914 chr6 86495998 86502836 + 0 NA Intergenic B3|SINE|B2 -11190 NR_040292 381792 Mm.333223 NR_040292 ENSMUSG00000101655 2310040G24Rik - RIKEN cDNA 2310040G24 gene ncRNA 4.418 3.681 2.051 nan 7.919 6.341 7.124 4.780 5.114 4.489 4.108 2.021 4.582 7.482 3.939 4.578 3.857 4.425 nan 1.890 1.659 1.299 1.784 1.862 3.537 2906 chr6 83434246 83435267 + 0 NA intron (NM_001347313, intron 3 of 11) intron (NM_001347313, intron 3 of 11) 6922 NM_183138 194388 Mm.211030 NM_183138 ENSMUSG00000034832 Tet3 B430006D22Rik|BC037432|D230004J03Rik tet methylcytosine dioxygenase 3 protein-coding 3.010 2.029 1.733 nan 1.790 0.290 1.747 1.862 1.955 1.759 1.062 1.305 1.907 4.820 2.751 3.005 3.116 nan nan 1.859 1.371 1.360 1.123 0.580 2.587 1211 chr15 100217653 100219847 + 0 NA 3' UTR (NM_172819, exon 33 of 33) 3' UTR (NM_172819, exon 33 of 33) -9109 NM_007497 11908 Mm.676 NM_007497 ENSMUSG00000023027 Atf1 - activating transcription factor 1 protein-coding 2.333 1.247 0.918 4.015 2.693 1.546 7.220 7.640 2.874 1.888 1.097 1.585 11.224 11.003 9.220 3.025 8.622 2.871 0.772 0.476 0.564 0.797 1.418 2.032 6.418 3221 chr8 11777211 11779989 + 0 NA intron (NM_001113517, intron 2 of 18) intron (NM_001113517, intron 2 of 18) 20270 NM_001113518 54126 Mm.244068 NM_017402 ENSMUSG00000031511 Arhgef7 Cool|PIX|Pak3bp|betaPix|betaPix-b|betaPix-c|cool-1|mKIAA0142|p85Cool1|p85SPR Rho guanine nucleotide exchange factor (GEF7) protein-coding 4.702 1.776 0.548 4.474 2.390 0.874 2.407 4.097 2.437 2.956 2.277 1.647 2.096 2.886 3.001 3.485 2.635 4.079 1.316 1.905 0.700 2.744 0.982 0.391 5.536 2852 chr6 38719832 38726225 + 0 NA intron (NM_001294143, intron 9 of 14) intron (NM_001294143, intron 9 of 14) 59959 NM_001101507 665180 Mm.349066 NM_001101507 ENSMUSG00000079598 Clec2l AI414054|AW122724|Gm1064 C-type lectin domain family 2, member L protein-coding 5.137 0.937 0.495 3.313 2.862 1.460 5.465 3.140 2.837 2.852 1.375 0.678 4.801 6.358 4.561 6.762 4.343 6.505 nan 1.233 0.646 nan nan 0.473 nan 2732 chr5 118603007 118605859 + 0 NA intron (NM_001347445, intron 2 of 30) intron (NM_001347445, intron 2 of 30) 43714 NM_172424 76199 Mm.206238 NM_172424 ENSMUSG00000018076 Med13l 2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025 mediator complex subunit 13-like protein-coding 5.755 2.743 0.843 5.826 3.612 2.895 6.511 3.404 3.965 8.876 3.005 1.820 5.493 7.255 5.158 5.506 3.466 7.305 nan nan 1.301 1.853 nan 1.903 6.651 2155 chr3 21857296 21864768 + 0 NA Intergenic Intergenic -215620 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 5.511 nan 3.228 3.838 3.026 1.121 4.815 6.337 5.345 3.410 6.033 3.756 4.554 4.915 5.022 7.146 4.520 6.134 1.130 1.258 0.498 1.865 0.600 0.329 4.970 169 chr1 166248889 166253019 + 0 NA Intergenic Intergenic -3185 NM_001164528 100039795 Mm.101743 NM_001164528 ENSMUSG00000040612 Ildr2 2810478N18Rik|3110063L10Rik|AI852300|D1Ertd471e|Dbsm1|ENSMUSG00000040612|Ll immunoglobulin-like domain containing receptor 2 protein-coding 5.649 0.534 0.319 3.192 2.206 1.770 1.466 0.883 4.716 5.279 0.834 0.679 5.023 3.505 nan 5.021 3.232 4.318 0.508 0.351 0.656 nan nan 0.340 5.345 411 chr11 50189984 50192950 + 0 NA intron (NM_026543, intron 3 of 6) intron (NM_026543, intron 3 of 6) 16616 NM_026543 68067 Mm.40828 NM_026543 ENSMUSG00000020381 Mrnip 2900016G09Rik|3010026O09Rik|AI851514|AW475975 MRN complex interacting protein protein-coding 9.075 16.461 4.288 12.634 5.924 3.008 7.250 7.252 5.733 12.628 7.099 4.377 8.156 10.381 10.275 11.335 6.206 8.802 6.789 3.459 4.335 9.458 3.915 5.207 14.471 2991 chr6 117875547 117876944 + 0 NA Intergenic B1_Mus2|SINE|Alu 13168 NM_001001792 22685 Mm.249661 NM_008616 ENSMUSG00000042097 Zfp239 Mok-2|Mok2|Znf239 zinc finger protein 239 protein-coding 2.493 1.208 1.658 2.307 3.371 2.898 4.753 1.799 2.077 1.906 0.505 0.246 5.482 6.091 2.979 3.525 2.919 2.553 0.929 0.671 0.815 0.860 nan 1.048 3.137 2399 chr4 82342261 82346501 + 0 NA intron (NM_001113210, intron 6 of 11) intron (NM_001113210, intron 6 of 11) 161398 NM_001286127 18028 Mm.317947 NM_008687 ENSMUSG00000008575 Nfib 6720429L07Rik|CTF|E030026I10Rik|NF-I/B|NF1-B|NFI-B nuclear factor I/B protein-coding 0.460 0.430 0.184 0.363 0.086 0.059 0.318 0.309 0.510 0.579 0.299 0.237 0.229 0.227 0.278 0.666 0.310 0.547 6.710 6.070 3.024 8.526 1.831 0.768 0.607 1542 chr17 56170232 56176859 + 0 NA 3' UTR (NM_025566, exon 2 of 2) 3' UTR (NM_025566, exon 2 of 2) 10375 NM_080837 28106 Mm.294870 NM_080837 ENSMUSG00000019579 Mydgf D17Wsu104e|Il25|Ly6elg myeloid derived growth factor protein-coding nan nan 3.413 4.855 4.210 2.350 6.627 5.180 3.387 4.268 2.949 2.125 3.210 5.235 5.710 6.097 4.486 4.906 2.621 2.130 1.829 2.439 1.913 2.007 6.445 1711 chr19 4036038 4039718 + 0 NA promoter-TSS (NM_013541) promoter-TSS (NM_013541) 34 NM_013541 14870 Mm.299292 NM_013541 ENSMUSG00000060803 Gstp1 GstpiB glutathione S-transferase, pi 1 protein-coding 4.641 5.351 2.354 4.313 4.325 3.261 5.585 9.752 nan 4.264 3.631 2.560 4.073 7.070 4.425 nan 5.626 4.641 1.469 1.518 1.989 2.323 2.683 2.862 5.660 2836 chr6 28370818 28374166 + 0 NA Intergenic Intergenic 49232 NM_028900 74375 Mm.332950 NM_028900 ENSMUSG00000029708 Gcc1 4932417P04Rik golgi coiled coil 1 protein-coding 7.923 8.353 3.395 10.343 5.316 3.766 9.530 9.743 5.649 9.462 5.469 3.280 7.721 9.917 9.680 13.691 7.790 8.691 nan 1.964 3.078 5.033 2.329 3.608 12.425 2102 chr2 170091895 170096503 + 0 NA Intergenic MLT1F1|LTR|ERVL-MaLR -23421 NR_033632 100043910 Mm.468546 NR_033632 ENSMUSG00000097065 A630075F10Rik 4831414D02|Gm4722 RIKEN cDNA A630075F10 gene ncRNA 9.600 1.889 1.449 4.125 3.585 2.015 9.566 10.394 4.747 4.045 3.963 2.924 12.020 9.072 7.815 12.070 9.932 6.196 3.183 2.564 1.655 3.465 2.028 1.319 5.384 2579 chr4 150550610 150558792 + 0 NA intron (NM_001085492, intron 11 of 22) intron (NM_001085492, intron 11 of 22) 97473 NM_173774 242773 Mm.29280 NM_173774 ENSMUSG00000039838 Slc45a1 C230078B22|Dnb5 solute carrier family 45, member 1 protein-coding 0.563 nan 0.158 0.677 0.303 0.255 0.270 0.303 0.572 0.892 0.254 0.302 0.411 0.729 0.542 0.636 0.238 0.752 4.639 1.547 1.193 6.902 2.550 1.830 0.627 478 chr11 70709989 70712339 + 0 NA intron (NM_153103, intron 16 of 22) RSINE1|SINE|B4 5174 NR_105890 102465557 NR_105890 ENSMUSG00000105932 Mir6925 mmu-mir-6925 microRNA 6925 ncRNA 5.151 2.096 1.449 1.972 4.969 3.094 3.171 3.094 3.635 4.319 4.728 1.627 4.436 5.366 2.342 3.303 7.433 4.341 1.593 1.971 0.891 0.650 nan 0.630 nan 3242 chr8 26206829 26217258 + 0 NA Intergenic Intergenic 53874 NM_199042 73754 Mm.383241 NM_199042 ENSMUSG00000037214 Thap1 4833431A01Rik|AW490810 THAP domain containing, apoptosis associated protein 1 protein-coding 7.540 14.037 6.511 7.173 4.222 2.073 4.002 9.566 4.602 5.780 6.132 4.147 6.319 7.411 6.597 6.913 4.344 6.661 1.491 2.759 2.328 nan 1.106 1.227 9.057 384 chr11 6419977 6421679 + 0 NA Intergenic MTD|LTR|ERVL-MaLR 4958 NM_008907 268373 Mm.5246 NM_008907 ENSMUSG00000071866 Ppia 2700098C05|Cphn|CyP-18|CypA peptidylprolyl isomerase A protein-coding 6.607 14.629 8.192 3.300 2.700 1.469 4.344 9.388 3.737 3.431 2.471 1.401 6.272 4.511 3.882 4.993 5.135 3.411 0.705 2.193 1.746 0.757 0.578 0.970 4.952 398 chr11 11754266 11755946 + 0 NA intron (NM_001301866, intron 4 of 5) intron (NM_001301866, intron 4 of 5) 53856 NM_021891 60530 Mm.236114 NM_021891 ENSMUSG00000035455 Fignl1 - fidgetin-like 1 protein-coding 1.393 1.037 0.827 1.136 0.850 0.721 1.400 1.074 0.869 0.838 0.412 0.440 0.512 0.718 1.051 2.199 1.833 1.435 8.108 5.748 6.694 6.797 11.985 10.558 1.237 836 chr12 118771444 118775460 + 0 NA Intergenic Intergenic -72877 NM_177082 320145 Mm.51682 NM_177082 ENSMUSG00000048562 Sp8 D930049B17Rik|mBtd trans-acting transcription factor 8 protein-coding 8.650 2.655 0.607 5.768 2.067 0.966 7.790 6.072 5.101 9.842 4.441 1.926 9.978 8.041 9.392 10.966 7.865 8.511 1.294 0.699 0.458 1.862 0.477 0.501 14.882 2016 chr2 153381422 153388178 + 0 NA intron (NM_001039939, intron 3 of 11) intron (NM_001039939, intron 3 of 11) 38661 NM_001039939 228790 Mm.330677 NM_001039939 ENSMUSG00000042548 Asxl1 mKIAA0978 additional sex combs like 1 protein-coding nan 2.084 1.029 1.152 0.420 0.338 0.696 0.798 nan nan 0.411 0.268 nan nan 0.694 1.011 0.618 nan nan 4.050 3.793 6.822 3.838 3.531 nan 3182 chr7 125747380 125749424 + 0 NA intron (NM_001081022, intron 2 of 27) intron (NM_001081022, intron 2 of 27) 40526 NM_001081022 233865 Mm.274389 NM_001081022 ENSMUSG00000032743 D430042O09Rik Kiaa0556 RIKEN cDNA D430042O09 gene protein-coding 4.385 0.570 0.325 2.284 1.436 1.037 6.303 8.470 2.518 3.354 1.873 2.186 7.558 4.481 3.981 5.129 3.861 3.469 0.992 0.841 0.839 1.832 0.778 0.901 5.268 3068 chr7 19606232 19608854 + 0 NA intron (NM_001290457, intron 10 of 10) B3A|SINE|B2 -3057 NR_125836 53609 Mm.20913 NM_016680 ENSMUSG00000061028 Clasrp Clasp|Sfrs16|Srsf16|Swap2 CLK4-associating serine/arginine rich protein protein-coding 2.064 1.036 0.592 1.417 1.129 0.644 7.547 10.084 2.404 2.572 1.154 1.110 5.350 5.286 5.435 4.400 4.749 4.052 0.908 0.901 0.421 0.781 4.628 3.797 3.344 955 chr13 96548980 96550378 + 0 NA intron (NM_023420, intron 2 of 17) intron (NM_023420, intron 2 of 17) 6944 NM_023420 68018 Mm.24125 NM_023420 ENSMUSG00000021669 Col4a3bp 2810404O15Rik|9230101K08Rik|AU016711|CERT|GPBP collagen, type IV, alpha 3 (Goodpasture antigen) binding protein protein-coding 1.164 1.060 0.311 0.908 0.506 0.173 1.408 2.896 1.401 1.420 1.731 0.960 2.021 3.197 1.813 2.501 nan 1.377 0.756 0.277 0.175 0.799 0.231 0.144 0.551 942 chr13 56713554 56716112 + 0 NA intron (NM_001164042, intron 1 of 6) IAPEz-int|LTR|ERVK 11165 NM_001164042 17129 Mm.272920 NM_008541 ENSMUSG00000021540 Smad5 1110051M15Rik|AI451355|Dwf-C|Madh5|MusMLP SMAD family member 5 protein-coding 4.824 2.773 0.817 3.204 1.328 0.576 2.094 1.313 4.159 5.537 8.666 3.169 3.071 3.600 3.505 4.474 2.366 nan 1.046 0.971 0.675 1.669 0.439 0.270 5.778 1735 chr19 7632656 7635029 + 0 NA intron (NM_025731, intron 4 of 5) MurERV4-int|LTR|ERVK 21273 NM_025731 66727 Mm.116803 NM_025731 ENSMUSG00000024973 Hrasls5 1700055A14Rik|1700086E08Rik|4921526K24Rik|HRSL5|iNAT HRAS-like suppressor family, member 5 protein-coding 6.047 11.102 8.123 3.587 3.925 3.163 3.273 4.880 nan 3.980 1.852 2.534 3.197 2.998 2.294 3.817 5.785 3.267 2.565 3.605 3.062 1.903 5.661 5.318 6.756 1376 chr16 92903616 92907701 + 0 NA Intergenic RCHARR1|DNA|hAT-Charlie -79584 NM_001111022 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 3.975 nan 0.333 1.633 1.587 0.691 4.167 4.230 4.070 3.792 7.463 3.030 5.662 4.971 5.149 5.819 2.787 5.252 1.311 0.418 0.180 nan 0.851 0.452 5.078 1888 chr2 38859756 38861661 + 0 NA intron (NM_010264, intron 3 of 10) L1MB4|LINE|L1 6878 NR_029904 723903 NR_029904 ENSMUSG00000065578 Mir181b-2 Mirn181b-2|mir-181b-2 microRNA 181b-2 ncRNA 8.287 10.990 3.154 6.838 4.783 3.402 5.877 9.173 4.645 7.459 6.117 3.621 6.551 8.079 7.865 10.726 7.297 6.966 3.882 2.439 2.878 4.149 3.012 2.578 13.392 3512 chr9 69137132 69138701 + 0 NA intron (NM_013646, intron 1 of 10) intron (NM_013646, intron 1 of 10) -151925 NM_001289916 19883 Mm.378450 NM_013646 ENSMUSG00000032238 Rora 9530021D13Rik|Nr1f1|ROR1|ROR2|ROR3|nmf267|sg|staggerer|tmgc26 RAR-related orphan receptor alpha protein-coding 9.300 8.500 1.784 12.523 5.645 4.501 5.810 9.844 3.902 13.256 0.949 1.249 3.634 8.095 7.602 11.396 4.958 8.895 7.350 3.241 4.928 8.343 5.350 7.488 16.551 3267 chr8 47701740 47704111 + 0 NA Intergenic MT2C_Mm|LTR|ERVL 11006 NM_172407 70925 Mm.393807 NM_172407 ENSMUSG00000038069 Cdkn2aip 4921511I16Rik|AW208986|CARF CDKN2A interacting protein protein-coding 9.318 11.800 6.440 5.692 4.521 3.745 7.482 10.335 4.010 6.200 6.386 3.950 7.996 8.405 8.414 10.639 8.525 7.212 4.979 4.298 5.030 7.517 4.217 4.188 13.679 2030 chr2 156255021 156260839 + 0 NA intron (NM_172674, intron 4 of 17) (TG)n|Simple_repeat|Simple_repeat -54543 NM_027585 70873 Mm.475234 NM_027585 ENSMUSG00000038085 Cnbd2 4921517L17Rik|5430421B09Rik|Cris cyclic nucleotide binding domain containing 2 protein-coding 3.957 0.621 0.430 2.956 2.266 1.100 4.391 7.879 nan nan 1.243 1.005 5.775 6.074 4.437 6.969 5.044 nan nan 0.926 1.001 0.727 0.713 0.485 nan 2286 chr3 106002338 106004443 + 0 NA intron (NM_001200028, intron 1 of 5) L1_Mus3|LINE|L1 -1893 NM_029604 100503311 Mm.386825 NM_029604 ENSMUSG00000010136 Pifo 1700027A23Rik primary cilia formation protein-coding 3.267 0.943 0.623 3.120 4.193 3.117 4.708 2.059 5.137 3.196 2.139 1.269 8.242 6.914 3.802 5.385 5.248 3.313 0.965 0.763 0.535 0.274 0.297 0.500 2.606 2369 chr4 54981901 54987002 + 0 NA intron (NM_172867, intron 1 of 12) intron (NM_172867, intron 1 of 12) 36506 NM_172867 242466 Mm.102904 NM_172867 ENSMUSG00000060206 Zfp462 6030417H05|9430078C22Rik|Gt4-2|Zfpip zinc finger protein 462 protein-coding 3.383 nan 0.274 2.362 1.816 0.821 3.769 4.705 1.957 2.391 1.407 0.299 5.071 7.035 4.233 6.404 1.553 4.804 nan 0.374 0.228 1.161 0.763 0.383 3.296 2647 chr5 34020087 34022332 + 0 NA intron (NM_001289804, intron 20 of 24) Arthur1|DNA|hAT-Tip100 25225 NM_001001985 269642 Mm.274610 NM_001001985 ENSMUSG00000048142 Nat8l 1110038O08Rik|Shati N-acetyltransferase 8-like protein-coding 3.793 0.790 0.434 3.327 4.198 4.787 5.860 5.498 4.051 4.546 1.334 1.279 5.381 6.682 6.559 6.578 5.818 4.943 0.719 0.803 0.730 0.778 0.910 0.869 4.908 1595 chr18 10934092 10938883 + 0 NA Intergenic Intergenic -116023 NM_010258 14465 Mm.329287 NM_010258 ENSMUSG00000005836 Gata6 AA410133|GATA-6 GATA binding protein 6 protein-coding nan 0.585 0.351 1.562 4.582 2.137 7.799 8.684 3.553 3.789 0.940 1.297 nan 7.889 6.508 6.376 5.477 5.920 1.499 1.491 0.708 1.262 2.569 1.748 6.479 190 chr1 173431929 173434511 + 0 NA intron (NM_001013779, intron 2 of 8) intron (NM_001013779, intron 2 of 8) 12616 NM_001013779 383619 Mm.131453 NM_001013779 ENSMUSG00000037860 Aim2 Gm1313|Ifi210 absent in melanoma 2 protein-coding 6.257 10.101 3.670 6.941 4.064 2.655 6.201 5.907 5.104 7.846 5.604 3.760 7.335 nan 6.935 10.677 7.891 7.219 5.070 2.717 2.616 4.832 2.711 2.930 10.936 2816 chr5 151953540 151958811 + 0 NA Intergenic Intergenic -304967 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 4.980 0.650 0.724 3.878 6.121 2.914 2.267 2.803 nan 4.753 1.959 1.160 2.038 5.937 2.700 3.522 2.405 6.217 1.136 1.744 0.893 0.956 1.090 0.940 3.229 1750 chr19 21178611 21181613 + 0 NA Intergenic ORR1D2|LTR|ERVL-MaLR 75402 NR_126458 75354 Mm.243873 NR_126458 4930554I06Rik - RIKEN cDNA 4930554I06 gene ncRNA 7.359 1.095 0.898 3.477 5.468 2.410 8.162 11.540 4.796 5.215 5.945 3.898 5.810 8.860 5.809 7.596 7.839 6.425 1.551 1.750 1.142 3.520 2.849 2.374 7.140 1808 chr19 55939341 55944057 + 0 NA Intergenic Intergenic 46378 NM_001142924 21416 Mm.139815 NM_009333 ENSMUSG00000024985 Tcf7l2 TCF4B|TCF4E|Tcf-4|Tcf4 transcription factor 7 like 2, T cell specific, HMG box protein-coding 3.116 nan 0.631 1.134 1.564 0.977 3.169 6.494 2.453 1.897 1.792 3.054 1.888 3.119 nan 2.775 2.166 2.416 0.309 0.721 0.312 0.328 0.315 0.218 2.613 2802 chr5 147111381 147112697 + 0 NA TTS (NM_181730) TTS (NM_181730) 34693 NM_009087 20018 Mm.317557 NM_009087 ENSMUSG00000029642 Polr1d 1110003G10Rik|AC19|RPA16|Rpo1-3 polymerase (RNA) I polypeptide D protein-coding 4.428 2.676 1.142 2.765 2.092 1.995 4.138 2.773 3.210 4.433 1.106 0.895 3.481 4.702 4.937 4.896 2.737 4.030 1.104 1.628 0.613 0.623 1.693 0.998 4.630 822 chr12 99492368 99498532 + 0 NA Intergenic Intergenic -45376 NM_183186 71375 Mm.341972 NM_183186 ENSMUSG00000033713 Foxn3 5430426H20Rik|AA589593|AW556347|Ches1|Ches1l|HTLFL1 forkhead box N3 protein-coding 9.713 2.199 1.073 5.261 4.272 2.502 3.554 2.790 5.301 10.249 3.837 2.382 8.492 7.082 5.506 7.771 8.186 7.183 2.351 1.103 1.057 2.330 1.308 1.648 11.275 601 chr11 100720655 100722645 + 0 NA intron (NM_024456, intron 1 of 5) intron (NM_024456, intron 1 of 5) 7800 NM_029307 75482 Mm.46175 NM_029307 ENSMUSG00000017832 Hspb9 1700007H20Rik heat shock protein, alpha-crystallin-related, B9 protein-coding 5.250 9.971 2.463 8.623 4.135 2.624 3.796 6.585 4.416 7.219 3.519 2.899 4.995 6.087 5.782 7.386 4.813 5.856 3.039 nan 3.000 6.873 nan nan 8.969 1739 chr19 8894026 8896311 + 0 NA exon (NM_176843, exon 2 of 2) exon (NM_176843, exon 2 of 2) 2181 NM_176843 109077 Mm.290474 NM_176843 ENSMUSG00000071652 Ints5 1110055N21Rik|mKIAA1698 integrator complex subunit 5 protein-coding 15.139 17.178 7.808 13.067 9.087 5.387 16.302 16.600 6.694 15.361 10.574 5.928 10.472 16.026 12.011 12.752 13.753 11.354 4.522 5.092 6.072 7.485 7.920 8.922 21.158 231 chr10 19342093 19350072 + 0 NA Intergenic Intergenic -10457 NM_053008 94222 Mm.156946 NM_053008 ENSMUSG00000045591 Olig3 Bhlhb7|bHLHe20|oligo3 oligodendrocyte transcription factor 3 protein-coding 2.773 1.211 0.775 2.805 1.935 0.927 0.815 3.495 nan 3.038 0.899 0.724 2.727 4.865 1.544 1.793 2.054 3.078 0.903 0.843 0.384 1.220 1.469 0.771 nan 1610 chr18 35635754 35638644 + 0 NA Intergenic MMETn-int|LTR|ERVK -9972 NM_011397 20522 Mm.22702 NM_011397 ENSMUSG00000024354 Slc23a1 D18Ucla2|SVCT1|Slc23a2|YSPL3 solute carrier family 23 (nucleobase transporters), member 1 protein-coding 6.760 0.874 0.834 1.715 1.884 1.036 3.124 5.040 2.328 2.783 7.905 3.289 6.095 4.774 2.550 3.116 3.751 2.794 2.570 2.196 1.126 1.932 2.628 1.751 4.084 779 chr12 79306657 79308441 + 0 NA intron (NM_001252562, intron 4 of 7) MLT1F|LTR|ERVL-MaLR 10198 NM_001252562 19363 Mm.341756 NM_009014 ENSMUSG00000059060 Rad51b AI553500|R51H2|Rad51l1|mREC2 RAD51 paralog B protein-coding 7.013 1.187 0.974 4.047 2.852 0.936 3.683 4.895 4.181 4.484 2.437 1.605 5.404 7.684 6.883 8.536 6.093 6.300 1.185 0.682 0.361 1.153 0.591 0.480 6.590 551 chr11 95263114 95265616 + 0 NA intron (NM_053093, intron 1 of 3) intron (NM_053093, intron 1 of 3) 2836 NM_053093 93670 Mm.40085 NM_053093 ENSMUSG00000020872 Tac4 AW489379|PPT-C tachykinin 4 protein-coding 4.957 nan 0.806 2.882 4.495 1.951 4.757 3.105 2.634 2.956 3.140 3.282 2.150 4.819 3.538 2.862 2.223 3.167 1.210 nan 1.520 0.738 nan nan 3.264 343 chr10 120415081 120416812 + 0 NA intron (NM_001347170, intron 3 of 5) intron (NM_001347170, intron 3 of 5) 26423 NR_040626 320626 Mm.446091 NR_040626 ENSMUSG00000090191 9230105E05Rik - RIKEN cDNA 9230105E05 gene ncRNA 8.598 14.300 3.433 15.131 5.000 5.495 5.967 7.179 5.498 21.023 6.438 4.229 6.266 7.656 11.594 12.548 5.452 12.292 6.582 1.476 6.230 8.170 2.974 7.901 20.092 504 chr11 78220249 78238186 + 0 NA intron (NM_009297, intron 9 of 36) intron (NM_009297, intron 9 of 36) 16486 NM_009297 20926 Mm.20755 NM_009297 ENSMUSG00000002052 Supt6 5131400N11Rik|AI132449|SPT6|Supt6h|mKIAA0162 suppressor of Ty 6 protein-coding nan 0.813 0.440 2.565 3.118 2.062 6.612 5.170 3.245 3.989 1.589 0.991 5.178 6.507 nan 7.292 5.412 5.330 2.124 1.862 nan 3.169 2.349 1.807 6.377 981 chr14 21447656 21455885 + 0 NA Intergenic RSINE1|SINE|B4 -48000 NM_001205241 54169 Mm.248967 NM_017479 ENSMUSG00000021767 Kat6b AI507552|B130044K16Rik|MYST-4|Morf|Myst4|mKIAA0383|qkf|querkopf K(lysine) acetyltransferase 6B protein-coding 2.328 0.771 0.673 2.352 4.634 3.775 0.963 2.466 nan 2.019 1.423 0.903 1.477 2.593 1.526 1.776 1.462 3.232 1.090 1.121 1.172 nan 1.044 1.278 1.410 697 chr11 119898905 119900626 + 0 NA TTS (NM_001306081) TTS (NM_001306081) -14045 NM_001085498 208092 Mm.306673 NM_001085498 ENSMUSG00000025371 Chmp6 2400004G01Rik charged multivesicular body protein 6 protein-coding 1.722 nan 0.465 1.712 2.955 2.259 nan 1.707 1.407 nan 1.314 0.717 0.699 1.681 1.303 0.939 0.928 nan 5.758 5.243 7.988 6.589 6.117 7.210 1.515 2823 chr5 152170066 152172292 + 0 NA Intergenic Intergenic -519971 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 9.857 10.001 3.055 9.024 4.627 2.033 8.519 7.157 nan 9.765 9.654 3.599 9.956 11.549 12.394 11.151 7.528 10.305 7.044 4.549 1.616 7.254 4.583 3.343 10.575 3001 chr6 124752638 124760401 + 0 NA promoter-TSS (NM_007881) promoter-TSS (NM_007881) -32 NM_007881 13498 Mm.333380 NM_007881 ENSMUSG00000004263 Atn1 Atr1|Drpla|atrophin-1 atrophin 1 protein-coding 6.859 nan 0.929 5.559 7.784 5.127 8.425 nan 4.286 6.237 4.719 3.404 6.954 8.543 7.302 7.537 5.613 5.447 4.527 3.743 3.614 4.557 4.819 4.323 7.777 3177 chr7 123340451 123346866 + 0 NA intron (NM_001122641, intron 1 of 18) MTE2a|LTR|ERVL-MaLR 26257 NM_001122643 70497 Mm.403318 NM_144529 ENSMUSG00000030766 Arhgap17 5730403H17Rik|Nadrin|Nadrin2|Rich1|Wbp15 Rho GTPase activating protein 17 protein-coding 2.071 0.893 0.413 1.768 1.905 0.900 2.769 7.024 2.622 2.203 5.715 3.895 2.216 3.016 nan 2.994 2.074 2.706 2.188 0.980 0.754 1.366 1.442 1.361 2.755 3387 chr8 122956037 122976576 + 0 NA intron (NM_001081379, intron 2 of 12) ERVL-B4-int|LTR|ERVL 75978 NR_037865 77087 Mm.31567 NM_001081379 ENSMUSG00000035569 Ankrd11 2410104C19Rik|3010027A04Rik|6330578C09Rik|9530048I21Rik|AA930108|Gm176|Yod ankyrin repeat domain 11 protein-coding 1.278 1.280 0.559 1.538 0.730 0.419 0.892 2.165 1.190 1.232 0.469 0.571 1.556 1.471 1.938 nan 1.374 1.956 4.244 3.742 3.500 10.890 2.985 2.576 2.212 857 chr13 23712036 23715287 + 0 NA Intergenic Intergenic -2807 NM_010424 15216 Mm.2681 NM_010424 ENSMUSG00000006611 Hfe MR2 hemochromatosis protein-coding 6.764 11.163 4.731 9.785 2.894 1.528 4.086 5.060 5.419 6.122 6.256 3.287 4.702 9.393 8.905 8.579 5.709 9.459 5.886 3.515 1.687 6.292 3.726 1.918 10.374 1010 chr14 55048660 55054766 + 0 NA Intergenic B3|SINE|B2 13251 NR_073535 100151693 Mm.378403 NR_073535 ENSMUSG00000072492 Gm10364 EG545052|ENSMUSG00000072492 glyceraldehyde-3-phosphate dehydrogenase pseudogene pseudo 6.044 nan 1.016 6.183 5.370 3.234 4.539 12.763 4.888 8.087 12.318 5.763 5.904 11.513 7.509 4.888 5.035 4.424 1.971 4.067 2.791 3.743 3.399 2.926 8.923 707 chr11 121562675 121569112 + 0 NA intron (NM_029878, intron 17 of 38) Lx8|LINE|L1 -46551 NM_178763 319530 Mm.11395 NM_178763 ENSMUSG00000039238 Zfp750 A030007D23Rik|Znf750 zinc finger protein 750 protein-coding 4.671 nan 1.012 5.371 2.380 1.031 nan 4.229 4.132 6.112 3.362 1.798 4.219 5.831 4.963 6.630 2.870 5.335 0.991 nan 0.705 1.056 0.809 0.680 5.974 1966 chr2 121238234 121242418 + 0 NA intron (NM_001290830, intron 11 of 26) HAL1|LINE|L1 31081 NM_001290830 27223 Mm.215389 NM_013735 ENSMUSG00000043909 Trp53bp1 53BP1|Tp53bp1|m53BP1|p53BP1 transformation related protein 53 binding protein 1 protein-coding 7.864 10.326 4.472 7.113 4.976 4.411 7.953 8.086 5.500 8.799 4.615 3.665 6.789 7.831 6.873 9.503 8.618 7.662 4.983 3.631 4.787 4.341 4.674 5.654 9.696 1665 chr18 65602161 65606600 + 0 NA intron (NM_207255, intron 2 of 5) intron (NM_207255, intron 2 of 5) 15235 NR_105742 100526497 NR_105742 ENSMUSG00000077113 Mir466p mmu-mir-466p microRNA 466p ncRNA 6.089 0.965 0.830 2.061 6.005 4.026 5.072 4.973 3.069 3.151 2.795 1.295 5.196 4.324 2.877 2.414 4.616 3.353 0.829 0.765 0.700 0.455 0.966 1.022 3.086 3310 chr8 88035852 88037907 + 0 NA Intergenic Intergenic -77284 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 5.149 0.533 0.808 2.654 3.774 2.466 4.522 4.519 3.268 3.819 5.510 2.125 6.833 7.439 4.878 6.164 5.717 4.659 nan 0.791 0.457 1.459 0.268 0.438 5.720 261 chr10 43457410 43463603 + 0 NA intron (NM_001168289, intron 7 of 7) intron (NM_001168289, intron 7 of 7) -18634 NM_199028 331623 Mm.490388 NM_199028 ENSMUSG00000038214 Bend3 mKIAA1553 BEN domain containing 3 protein-coding 1.566 11.861 5.658 1.804 0.937 0.371 1.024 2.077 1.018 0.901 0.933 0.756 0.494 0.927 1.439 1.334 0.989 1.224 5.681 4.586 3.211 8.663 4.079 3.082 1.290 1782 chr19 41643514 41645998 + 0 NA intron (NM_015748, intron 13 of 36) intron (NM_015748, intron 13 of 36) 56105 NR_106166 102465884 NR_106166 ENSMUSG00000098286 Mir8091 Gm27575|mmu-mir-8091 microRNA 8091 ncRNA 3.422 1.012 1.028 2.061 1.419 0.874 4.043 5.441 1.912 2.392 0.830 0.522 4.335 4.941 2.529 2.305 6.246 2.953 0.601 0.657 0.871 0.686 0.905 0.919 1.619 2698 chr5 105844485 105845432 + 0 NA Intergenic B4A|SINE|B4 -31610 NR_030777 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 5.924 12.069 3.261 10.016 7.347 5.079 6.621 5.883 4.463 15.200 3.558 1.600 4.547 6.270 8.899 9.284 4.641 9.072 7.087 1.208 5.545 6.720 3.994 8.152 11.682 2439 chr4 117930994 117965620 + 0 NA intron (NM_009176, intron 9 of 11) intron (NM_009176, intron 9 of 11) -18544 NM_001284192 11876 Mm.56897 NM_009711 ENSMUSG00000028539 Artn neublastin artemin protein-coding 5.892 1.077 0.434 4.944 4.745 2.545 7.240 6.421 4.406 8.014 5.377 2.692 6.117 10.031 5.958 7.626 4.114 6.217 3.764 1.991 1.750 3.066 3.345 2.486 10.693 2252 chr3 95050780 95052541 + 0 NA Intergenic MTC|LTR|ERVL-MaLR -9046 NM_008951 19185 Mm.2261 NM_008951 ENSMUSG00000005625 Psmd4 Af1|Mcb1|angiocidin proteasome (prosome, macropain) 26S subunit, non-ATPase, 4 protein-coding 3.617 1.046 1.422 2.194 3.137 4.618 2.449 2.193 2.652 2.219 nan 1.377 2.013 4.597 1.627 nan 2.444 1.862 0.870 1.039 1.600 0.362 1.014 1.377 2.459 2506 chr4 132961800 132964706 + 0 NA Intergenic B1_Mus2|SINE|Alu -10842 NM_010208 14191 Mm.271665 NM_010208 ENSMUSG00000028874 Fgr - FGR proto-oncogene, Src family tyrosine kinase protein-coding 6.328 2.317 0.957 7.540 4.746 3.901 4.059 4.004 4.899 7.002 5.350 2.244 4.099 5.946 4.627 4.798 2.332 6.905 2.502 0.967 1.433 2.882 1.089 1.296 8.261 3403 chr8 125040203 125043835 + 0 NA Intergenic Intergenic -12176 NM_174853 244667 Mm.233504 NM_170596 ENSMUSG00000043051 Disc1 - disrupted in schizophrenia 1 protein-coding 3.607 nan 0.657 7.139 2.153 1.189 nan nan 2.662 2.649 1.824 1.173 1.410 1.985 2.580 3.114 1.707 4.494 nan 0.787 1.067 nan 0.455 nan 4.401 321 chr10 84646239 84648930 + 0 NA intron (NM_027423, intron 10 of 27) ORR1E|LTR|ERVL-MaLR 25147 NM_027423 70428 Mm.335007 NM_027423 ENSMUSG00000034453 Polr3b 2700078H01Rik|A330032P03Rik|C85372|RPC2 polymerase (RNA) III (DNA directed) polypeptide B protein-coding 8.555 8.775 2.073 10.388 4.255 2.689 4.445 7.603 5.056 10.941 5.260 3.802 6.139 7.784 8.494 10.394 4.121 8.963 4.314 1.813 1.807 8.129 nan 3.710 14.313 792 chr12 81011314 81013568 + 0 NA Intergenic L1MB3|LINE|L1 -14367 NM_001146217 64075 Mm.273295 NM_022316 ENSMUSG00000021136 Smoc1 2600002F22Rik|AI848508|SRG SPARC related modular calcium binding 1 protein-coding 5.599 2.731 0.566 7.232 3.121 1.165 2.290 2.424 5.375 6.692 4.718 3.392 4.407 5.856 4.733 4.878 4.022 7.412 1.069 1.388 0.924 2.086 0.807 0.661 8.277 3209 chr7 139990414 140006586 + 0 NA TTS (NM_001286009) TTS (NM_001286009) -5938 NM_001291066 11501 Mm.15969 NM_007403 ENSMUSG00000025473 Adam8 ADAM 8|CD156|CD156a|E430039A18Rik|MS2 a disintegrin and metallopeptidase domain 8 protein-coding 8.745 6.994 2.209 9.099 5.114 2.647 5.539 6.724 nan 9.475 6.782 3.211 7.244 8.789 7.028 8.788 5.781 10.060 1.551 1.599 1.168 1.770 0.776 0.659 11.674 3122 chr7 71142699 71147571 + 0 NA Intergenic Intergenic -764560 NR_130995 78156 Mm.243818 NR_130995 ENSMUSG00000108669 4930441H08Rik - RIKEN cDNA 4930441H08 gene ncRNA 7.456 9.736 4.793 6.406 4.991 4.034 3.785 8.692 5.226 6.073 6.728 2.168 4.511 9.541 4.844 6.575 4.649 3.818 3.975 4.465 4.583 3.291 4.411 4.697 7.983 2896 chr6 72737118 72740035 + 0 NA intron (NM_001079822, intron 3 of 12) B3A|SINE|B2 50469 NM_001079822 21415 Mm.440067 NM_009332 ENSMUSG00000055799 Tcf7l1 Tcf-3|Tcf3|bHLHb21 transcription factor 7 like 1 (T cell specific, HMG box) protein-coding 4.977 2.108 0.287 7.147 1.830 1.291 8.552 5.216 3.165 9.131 1.458 1.462 7.319 8.511 8.871 9.911 5.475 6.958 2.585 1.076 0.844 3.136 1.898 1.991 11.431 1079 chr15 36199553 36200647 + 0 NA intron (NM_012031, intron 9 of 18) intron (NM_012031, intron 9 of 18) 20570 NM_012031 26942 Mm.295539 NM_012031 ENSMUSG00000037617 Spag1 tpis sperm associated antigen 1 protein-coding 4.039 1.167 0.921 1.878 1.069 0.329 3.696 4.254 2.189 1.686 1.204 1.207 3.059 3.151 4.282 3.237 4.792 4.880 0.744 0.704 0.197 nan 0.321 0.104 1.901 1248 chr15 103069431 103073136 + 0 NA Intergenic Intergenic 36888 NM_013553 15423 Mm.1351 NM_013553 ENSMUSG00000075394 Hoxc4 Hox-3.5 homeobox C4 protein-coding 8.535 11.271 4.510 5.482 3.670 1.781 7.722 10.418 nan 5.323 5.598 3.349 8.571 7.487 9.117 nan 7.587 6.330 5.253 2.643 2.060 5.134 2.563 2.713 nan 2422 chr4 107551727 107553076 + 0 NA intron (NM_147221, intron 2 of 10) intron (NM_147221, intron 2 of 10) 117682 NM_147221 230587 Mm.331757 NM_147221 ENSMUSG00000034762 Glis1 Gli5|Gli6|GliH1 GLIS family zinc finger 1 protein-coding 5.360 9.016 2.307 6.171 1.955 1.778 4.219 6.189 5.805 4.932 4.732 3.225 4.981 6.196 7.634 8.612 3.655 7.771 6.034 3.410 2.538 9.602 2.713 2.283 8.975 3407 chr8 126635685 126637723 + 0 NA Intergenic Intergenic -43268 NM_001164598 270110 Mm.334918 NM_001164598 ENSMUSG00000051495 Irf2bp2 E130305N23Rik|IRF-2BP2 interferon regulatory factor 2 binding protein 2 protein-coding 6.142 nan 0.636 nan 2.408 1.323 7.686 6.725 2.084 2.013 6.051 3.080 5.784 6.961 nan 4.959 5.723 nan 1.844 1.234 0.640 nan 3.471 nan 5.723 3368 chr8 121945292 121965236 + 0 NA intron (NM_016812, intron 1 of 13) intron (NM_016812, intron 1 of 13) 4772 NM_001285983 53325 Mm.287163 NM_016812 ENSMUSG00000025316 Banp AA408158|SMAR1 BTG3 associated nuclear protein protein-coding 7.762 4.261 1.286 6.252 5.173 2.922 5.884 11.055 4.363 6.087 6.842 3.241 8.852 10.246 7.700 nan 5.281 7.100 1.282 1.707 1.664 4.087 0.921 0.909 11.269 1590 chr17 87717569 87719127 + 0 NA intron (NM_008628, intron 12 of 15) intron (NM_008628, intron 12 of 15) 45791 NM_008628 17685 Mm.4619 NM_008628 ENSMUSG00000024151 Msh2 AI788990 mutS homolog 2 protein-coding 1.088 0.973 1.558 0.860 1.528 0.991 1.392 1.610 nan 1.713 1.301 0.817 0.392 0.930 0.894 1.712 1.733 1.528 2.131 2.462 4.222 3.133 2.394 2.746 1.252 2401 chr4 82407285 82417145 + 0 NA intron (NM_001113210, intron 2 of 11) intron (NM_001113210, intron 2 of 11) 93564 NM_001286127 18028 Mm.317947 NM_008687 ENSMUSG00000008575 Nfib 6720429L07Rik|CTF|E030026I10Rik|NF-I/B|NF1-B|NFI-B nuclear factor I/B protein-coding 0.719 0.703 0.561 0.269 0.193 0.115 0.378 0.307 0.424 0.523 0.381 0.215 0.199 0.350 0.392 0.691 0.613 0.740 6.433 10.193 5.409 15.030 4.486 3.056 0.718 1652 chr18 56765691 56767172 + 0 NA intron (NM_177115, intron 4 of 4) L1M5|LINE|L1 58618 NM_010721 16906 Mm.4105 NM_010721 ENSMUSG00000024590 Lmnb1 - lamin B1 protein-coding 2.419 nan 0.872 nan 2.563 2.339 3.987 2.679 1.280 1.017 0.286 0.332 3.771 4.042 3.041 2.140 1.928 2.701 nan 0.946 0.722 nan 1.174 1.210 1.963 1516 chr17 46225889 46229667 + 0 NA exon (NM_028198, exon 18 of 32) exon (NM_028198, exon 18 of 32) -3753 NR_030466 751553 NR_030466 ENSMUSG00000076141 Mir693 Mirn693|mir-693|mmu-mir-693 microRNA 693 ncRNA 1.584 0.675 0.686 0.835 0.740 0.765 3.550 4.023 1.433 1.075 0.806 0.452 1.233 nan 1.243 1.777 nan 1.057 0.853 1.129 1.341 0.929 0.647 0.547 1.162 2462 chr4 124807838 124809716 + 0 NA intron (NM_008636, intron 2 of 10) intron (NM_008636, intron 2 of 10) 6228 NM_008636 17764 Mm.272397 NM_008636 ENSMUSG00000028890 Mtf1 MTF-1|Thyls metal response element binding transcription factor 1 protein-coding 5.960 2.677 1.397 3.394 4.095 4.168 2.910 5.442 3.906 4.546 5.653 3.795 3.708 4.433 3.379 3.623 2.617 3.547 2.417 2.183 2.726 1.989 1.469 1.533 4.539 2053 chr2 160628990 160633145 + 0 NA Intergenic Intergenic -14830 NM_009408 21969 Mm.217233 NM_009408 ENSMUSG00000070544 Top1 AI467334|D130064I21Rik|Top-1 topoisomerase (DNA) I protein-coding 4.797 1.818 0.955 6.261 2.680 1.165 2.421 5.207 4.500 4.963 1.170 0.748 3.615 3.805 2.488 3.830 2.764 5.383 nan 0.756 0.368 1.245 0.589 0.319 nan 924 chr13 54569503 54570852 + 0 NA Intergenic B1_Mus2|SINE|Alu -4795 NM_133797 97820 Mm.24593 NM_133797 ENSMUSG00000025871 4833439L19Rik 4930558H15Rik|C81457|Kiaa1191|P33monox RIKEN cDNA 4833439L19 gene protein-coding 8.863 8.542 8.295 7.603 8.932 5.319 9.786 7.500 5.187 7.193 5.331 4.049 4.627 7.290 5.800 6.514 7.204 5.520 4.921 7.761 8.709 4.704 9.946 9.071 9.653 2933 chr6 88873975 88878769 + 0 NA Intergenic MYSERV16_I-int|LTR|ERVK -1328 NM_001347327 319655 Mm.302613 NM_176973 ENSMUSG00000033152 Podxl2 D130074J02Rik|PODLX2 podocalyxin-like 2 protein-coding 4.602 1.995 0.682 5.833 2.003 0.795 4.378 4.500 2.833 3.864 1.650 1.325 6.009 7.548 4.564 6.778 3.467 6.329 nan 0.968 0.449 1.285 2.268 2.220 8.375 2301 chr3 126308051 126318434 + 0 NA Intergenic X6A_LINE|LINE|CR1 -50610 NM_173451 271970 Mm.317021 NM_173451 ENSMUSG00000046561 Arsj 9330196J05Rik|D830047F08 arylsulfatase J protein-coding 5.532 5.687 3.671 3.733 4.895 2.435 8.161 5.668 4.644 3.673 2.431 2.709 7.147 8.431 5.923 nan 4.673 6.716 1.291 1.402 0.764 0.811 0.800 0.734 3.832 760 chr12 70991218 70994546 + 0 NA intron (NR_045055, intron 3 of 3) intron (NR_045055, intron 3 of 3) 18259 NM_011184 19167 Mm.296338 NM_011184 ENSMUSG00000060073 Psma3 Lmpc8 proteasome (prosome, macropain) subunit, alpha type 3 protein-coding 10.629 5.548 1.565 7.186 3.916 2.430 6.159 5.805 4.446 8.959 5.872 4.109 6.380 6.328 6.623 7.979 7.902 7.648 4.964 4.014 2.452 4.134 4.307 3.881 12.726 863 chr13 30758310 30760007 + 0 NA intron (NM_001347508, intron 7 of 8) L1MA8|LINE|L1 9925 NM_013674 16364 Mm.4677 NM_013674 ENSMUSG00000021356 Irf4 AI385587|IRF-4|LSIRF|NF-EM5|Spip interferon regulatory factor 4 protein-coding 1.308 1.248 1.195 1.511 0.447 0.130 0.704 2.238 0.539 1.097 0.249 0.504 5.026 3.212 1.263 3.072 1.327 1.641 0.697 0.590 0.439 0.888 0.547 0.544 2.449 2481 chr4 128660119 128661716 + 0 NA intron (NM_001195130, intron 1 of 14) intron (NM_001195130, intron 1 of 14) 6215 NM_001195130 54383 Mm.473738 NM_018774 ENSMUSG00000028796 Phc2 A3galt2|AA415044|D130050K19Rik|D4Ertd810e|Edr2|Mph2|p36 polyhomeotic-like 2 (Drosophila) protein-coding 3.813 2.507 1.387 2.869 3.489 3.260 2.115 1.913 2.522 2.642 1.115 1.385 2.798 4.131 nan 3.283 1.657 2.913 0.919 0.965 1.471 1.154 1.110 0.970 3.167 531 chr11 88048313 88052848 + 0 NA 3' UTR (NM_001078167, exon 3 of 3) 3' UTR (NM_001078167, exon 3 of 3) 3207 NM_173374 110809 Mm.391719 NM_173374 ENSMUSG00000018379 Srsf1 1110054N12Rik|5730507C05Rik|6330415C05Rik|AI482334|AW491331|Asf|Sf2|Sfrs1 serine/arginine-rich splicing factor 1 protein-coding nan 1.402 0.887 nan 2.264 1.029 2.838 2.343 1.557 2.297 1.085 1.242 1.917 4.063 3.569 2.573 1.664 2.044 6.373 3.332 2.412 nan 5.970 4.897 nan 2027 chr2 156136984 156139140 + 0 NA intron (NM_010911, intron 4 of 12) B2_Mm2|SINE|B2 -6091 NM_001164216 67067 Mm.371623 NM_025946 ENSMUSG00000067847 Romo1 2010100O12Rik|AI853864 reactive oxygen species modulator 1 protein-coding nan 17.054 5.506 8.056 4.578 3.310 5.933 9.629 nan nan 5.168 3.010 8.970 7.813 8.176 12.389 6.694 nan 5.397 1.831 3.490 5.962 3.569 4.636 15.504 2469 chr4 128409958 128415997 + 0 NA intron (NM_001281955, intron 23 of 70) L1MB7|LINE|L1 151933 NR_130980 75242 Mm.488254 NR_130980 Hmgb4os 4930546G22Rik high-mobility group box 4, opposite strand ncRNA 4.069 6.557 2.420 6.007 4.817 2.582 4.151 5.126 4.556 5.147 6.290 3.599 4.746 6.507 6.011 7.035 2.468 6.721 4.862 2.994 2.461 5.746 3.418 2.772 6.169 3317 chr8 89386589 89388794 + 0 NA Intergenic Intergenic -343529 NM_021390 58198 Mm.214361 NM_021390 ENSMUSG00000031665 Sall1 Msal-3 sal-like 1 (Drosophila) protein-coding 4.446 4.328 5.012 2.477 3.910 2.145 1.310 2.289 2.051 2.605 1.460 1.325 1.419 1.537 1.153 2.189 1.979 1.959 nan 1.371 1.285 0.753 1.229 1.198 1.823 172 chr1 166432891 166435255 + 0 NA Intergenic Intergenic -24245 NM_001142948 71592 Mm.192094 NM_175170 ENSMUSG00000040596 Pogk 9130401E23Rik|BASS2|mKIAA1513 pogo transposable element with KRAB domain protein-coding 4.717 1.611 0.773 2.716 4.069 3.384 4.169 3.935 4.067 3.682 1.623 2.440 3.136 4.551 5.018 6.214 5.049 5.043 0.856 0.877 0.726 nan nan 0.573 3.415 1745 chr19 10245223 10248679 + 0 NA 3' UTR (NM_198114, exon 20 of 20) 3' UTR (NM_198114, exon 20 of 20) -6203 NM_001033481 225908 Mm.329716 NM_001033481 ENSMUSG00000036098 Myrf 6030439E18|Gm1804|Gm98|Mrf myelin regulatory factor protein-coding 6.001 2.159 1.526 2.860 1.197 0.725 4.304 7.260 nan 3.360 6.128 3.256 5.168 4.296 3.343 nan 7.052 5.617 0.707 1.043 1.042 1.453 1.228 1.303 4.591 2594 chr4 151573923 151582145 + 0 NA intron (NM_001081557, intron 4 of 23) intron (NM_001081557, intron 4 of 23) 283734 NM_001081557 100072 Mm.318846 NM_001081557 ENSMUSG00000014592 Camta1 1810059M14Rik|2310058O09Rik|AI316882|AW987475|mKIAA0833 calmodulin binding transcription activator 1 protein-coding 0.926 nan 0.641 1.584 0.864 0.415 0.588 1.514 1.018 1.054 0.514 0.587 0.514 0.513 0.973 1.130 0.530 1.173 3.085 1.258 1.340 6.469 1.272 1.417 1.029 2111 chr2 178394453 178397135 + 0 NA intron (NM_177191, intron 7 of 43) intron (NM_177191, intron 7 of 43) 11864 NM_177191 320558 Mm.70781 NM_177191 ENSMUSG00000060445 Sycp2 3830402K23Rik|4930518F03Rik synaptonemal complex protein 2 protein-coding 4.426 0.432 0.237 2.955 2.359 1.350 4.235 1.056 5.002 5.426 0.634 0.519 5.156 4.318 5.563 7.910 7.052 nan 1.037 0.681 0.525 0.633 0.471 0.391 8.315 1366 chr16 91547377 91553235 + 0 NA intron (NM_008338, intron 1 of 6) B3A|SINE|B2 3212 NM_008338 15980 Mm.249364 NM_008338 ENSMUSG00000022965 Ifngr2 Ifgr2|Ifgt interferon gamma receptor 2 protein-coding 9.913 nan 2.328 6.918 8.061 6.182 10.644 12.397 6.387 8.036 4.772 4.911 10.247 11.039 10.654 11.566 7.106 9.443 2.454 2.367 2.754 nan 1.626 2.144 9.177 223 chr1 195332048 195350607 + 0 NA Intergenic MMVL30-int|LTR|ERV1 -164612 NM_007758 12902 Mm.235387 NM_007758 ENSMUSG00000026616 Cr2 C3DR|CD21|CD35|Cr-1|Cr-2|Cr1 complement receptor 2 protein-coding 0.595 0.915 0.383 0.438 0.175 0.102 1.529 1.605 0.921 0.636 8.296 3.061 0.604 0.574 0.672 nan 1.186 0.721 1.355 0.819 0.450 1.253 nan 0.922 nan 2124 chr2 179980846 179987108 + 0 NA Intergenic Intergenic 7124 NR_033782 66730 Mm.31773 NR_033782 ENSMUSG00000085704 4921531C22Rik - RIKEN cDNA 4921531C22 gene ncRNA 4.587 1.009 0.707 2.888 3.439 2.543 3.873 5.557 4.249 4.518 2.619 2.711 3.927 4.505 3.356 nan 3.495 4.542 0.677 0.783 0.799 0.921 0.643 0.635 nan 721 chr12 29468036 29472545 + 0 NA Intergenic B3A|SINE|B2 -58094 NM_001093775 17933 Mm.253067 NM_008666 ENSMUSG00000061911 Myt1l 2900046C06Rik|2900093J19Rik|C630034G21Rik|Nztf1|Pmng1|Png-1|mKIAA1106 myelin transcription factor 1-like protein-coding 0.514 1.459 0.608 0.479 0.244 0.055 0.301 0.574 0.281 0.209 0.297 0.198 0.257 0.270 0.282 0.602 0.389 0.475 3.404 2.276 1.327 3.750 4.537 3.022 0.902 1897 chr2 68793505 68795646 + 0 NA Intergenic Intergenic -66866 NM_172856 241447 Mm.222222 NM_172856 ENSMUSG00000027035 Cers6 4732462C07Rik|AW544719|Lass6|T1L ceramide synthase 6 protein-coding 3.968 1.841 0.781 0.433 0.388 0.209 2.162 1.456 0.478 0.920 0.369 0.140 3.286 1.885 1.387 2.461 1.697 2.509 1.176 0.587 0.114 1.139 0.563 0.226 3.231 3482 chr9 45918422 45920175 + 0 NA exon (NM_008794, exon 11 of 17) exon (NM_008794, exon 11 of 17) -12387 NM_001310840 235315 Mm.3255 NM_178709 ENSMUSG00000042790 Rnf214 D130054N24Rik ring finger protein 214 protein-coding 7.191 1.953 0.862 4.621 3.712 3.454 3.101 2.742 3.712 4.279 2.510 3.723 3.248 4.005 2.956 3.909 3.311 5.603 1.653 2.174 1.154 nan 1.140 0.646 3.557 1043 chr14 100181688 100185796 + 0 NA Intergenic RSINE1|SINE|B4 -33946 NM_010636 16597 Mm.396499 NM_010636 ENSMUSG00000072294 Klf12 2700063E05Rik|AI225908|AI315654|AP-2rep|B130052C06Rik|D530033K05Rik Kruppel-like factor 12 protein-coding 5.344 nan 0.264 3.982 3.160 1.454 4.130 6.125 5.723 7.580 1.251 0.996 6.321 7.324 4.088 6.378 4.555 7.274 0.754 0.518 0.358 0.582 0.810 0.548 4.226 1255 chr16 4592083 4597329 + 0 NA promoter-TSS (NM_031184) promoter-TSS (NM_031184) -7 NM_031184 83396 Mm.134072 NM_031184 ENSMUSG00000014303 Glis2 Gli5|Klf16|Nkl GLIS family zinc finger 2 protein-coding 3.991 2.546 0.742 5.750 1.828 1.206 5.252 6.686 2.053 4.227 2.186 1.898 4.790 5.077 5.085 7.542 4.177 5.717 3.143 1.248 1.356 3.181 1.974 2.549 8.383 2660 chr5 45884737 45888292 + 0 NA Intergenic Intergenic -28974 NM_178142 209707 Mm.71498 NM_172153 ENSMUSG00000015882 Lcorl Mlr1 ligand dependent nuclear receptor corepressor-like protein-coding 7.714 3.917 1.284 6.889 3.568 2.021 5.174 4.275 5.377 6.539 1.888 1.738 5.655 5.680 7.364 8.384 4.214 8.628 1.770 1.344 1.437 2.683 1.235 0.965 8.714 669 chr11 116973716 116983243 + 0 NA exon (NM_172948, exon 14 of 17) exon (NM_172948, exon 14 of 17) 59616 NM_172948 268510 Mm.35141 NM_172948 ENSMUSG00000043857 Mgat5b C330018B01|GnT-IX|mGnTVB mannoside acetylglucosaminyltransferase 5, isoenzyme B protein-coding 6.770 5.960 2.527 8.830 4.513 2.977 nan nan 5.220 6.687 4.328 3.583 5.999 6.944 6.504 7.362 4.962 nan 4.432 nan 2.397 4.153 3.328 3.046 8.266 282 chr10 75896216 75914786 + 0 NA intron (NM_011418, intron 6 of 8) B3|SINE|B2 12103 NM_024440 70377 Mm.275878 NM_024440 ENSMUSG00000009092 Derl3 1810006I20Rik|1810063P04Rik|IZP6|derlin-3 Der1-like domain family, member 3 protein-coding 7.578 1.656 0.859 nan 4.717 3.562 5.206 3.354 4.393 5.910 1.721 1.119 5.983 6.981 nan 7.939 5.468 6.980 nan 1.006 0.964 1.281 1.021 0.883 10.287 420 chr11 53360280 53362250 + 0 NA intron (NM_033565, intron 1 of 20) intron (NM_033565, intron 1 of 20) 10498 NM_033565 93736 Mm.395281 NM_033565 ENSMUSG00000049470 Aff4 AF5Q31|Alf4|Laf4l|MCEF AF4/FMR2 family, member 4 protein-coding 2.816 0.617 0.134 3.807 1.596 1.103 2.463 3.088 3.721 3.523 0.663 0.612 2.944 5.270 3.693 5.877 4.734 4.144 nan 0.742 0.249 1.345 0.707 0.339 3.769 1852 chr2 32441136 32449263 + 0 NA intron (NM_146118, intron 1 of 10) intron (NM_146118, intron 1 of 10) -5258 NM_194335 71254 Mm.102341 NM_194335 ENSMUSG00000039164 Naif1 2310007O20Rik|4933440H19Rik nuclear apoptosis inducing factor 1 protein-coding 6.246 5.201 1.950 6.665 3.630 2.783 6.131 7.720 nan 6.916 1.205 1.230 7.058 9.449 8.326 12.464 8.738 6.453 1.791 1.310 1.835 3.587 0.996 0.832 14.455 3548 chr9 108586364 108592118 + 0 NA intron (NM_028944, intron 2 of 8) intron (NM_028944, intron 2 of 8) 8359 NM_028944 74443 Mm.226534 NM_028944 ENSMUSG00000006675 P4htm 4933406E20Rik|AI853847|BB128974|Ph-4 prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) protein-coding 5.435 0.994 0.713 3.519 3.712 3.064 4.224 4.943 3.456 4.139 1.075 0.708 4.468 5.752 5.206 5.673 3.775 6.953 1.982 1.030 1.028 1.691 2.119 1.993 7.671 3449 chr9 22220605 22224021 + 0 NA intron (NR_030448, intron 1 of 4) intron (NR_030448, intron 1 of 4) -3390 NM_172763 235047 Mm.290849 NM_172763 ENSMUSG00000057982 Zfp809 BB114266|C330026E23 zinc finger protein 809 protein-coding 5.885 0.681 0.512 3.400 1.916 1.136 4.220 4.296 3.957 5.052 0.557 0.726 6.321 6.544 4.284 4.521 4.802 4.169 0.999 1.190 0.900 1.809 0.758 0.662 5.638 639 chr11 109510395 109514570 + 0 NA intron (NM_028710, intron 4 of 13) ID4_|SINE|ID -31229 NM_001166177 74008 Mm.482224 NM_028710 ENSMUSG00000020604 Arsg 6330406P08Rik|AI846872 arylsulfatase G protein-coding 8.061 9.095 3.585 7.985 5.994 3.675 6.777 6.610 4.791 9.781 5.369 3.418 4.761 7.278 6.658 7.745 6.374 7.023 6.437 4.992 3.632 nan 5.037 4.219 8.795 989 chr14 21664077 21668548 + 0 NA intron (NM_017479, intron 16 of 16) RSINE1|SINE|B4 48264 NM_001013826 435391 Mm.295860 NM_001013826 ENSMUSG00000063821 Dupd1 EG435391 dual specificity phosphatase and pro isomerase domain containing 1 protein-coding 5.849 2.992 1.175 3.175 4.561 2.235 5.354 7.077 4.821 3.936 7.886 3.333 4.172 8.826 6.746 4.732 3.804 3.888 1.674 1.245 0.836 nan 1.092 0.720 5.989 1505 chr17 36972741 36974830 + 0 NA Intergenic Intergenic 7452 NM_029747 76797 Mm.159787 NM_029747 ENSMUSG00000064308 2410137M14Rik - RIKEN cDNA 2410137M14 gene protein-coding 8.026 9.021 5.060 7.067 4.663 2.927 8.202 7.635 5.538 8.198 4.723 4.935 5.562 7.504 7.271 11.655 8.453 6.980 5.057 3.033 2.351 3.671 3.091 2.810 11.026 2372 chr4 55114000 55115008 + 0 NA Intergenic Intergenic 166559 NM_172867 242466 Mm.102904 NM_172867 ENSMUSG00000060206 Zfp462 6030417H05|9430078C22Rik|Gt4-2|Zfpip zinc finger protein 462 protein-coding 0.804 nan 0.125 0.692 0.704 0.120 1.026 1.272 0.782 1.134 0.240 0.737 2.559 3.661 0.729 3.200 0.624 1.464 nan 0.595 0.608 0.485 0.522 0.093 0.919 1348 chr16 62806707 62809023 + 0 NA intron (NM_026577, intron 5 of 9) intron (NM_026577, intron 5 of 9) -6811 NM_026588 68159 Mm.386793 NM_026588 ENSMUSG00000047854 Stx19 A030009B12Rik syntaxin 19 protein-coding 6.740 1.090 0.446 3.718 4.281 1.940 5.611 7.752 4.876 5.012 2.193 2.039 7.490 7.986 8.091 9.743 6.444 8.198 8.169 4.576 1.937 6.945 5.246 2.885 7.245 2945 chr6 97764676 97769060 + 0 NA Intergenic Intergenic -40190 NM_001113198 17342 Mm.333284 NM_008601 ENSMUSG00000035158 Mitf BCC2|Bhlhe32|Gsfbcc2|Vitiligo|Wh|bw|mi|vit microphthalmia-associated transcription factor protein-coding 4.394 1.036 0.641 2.923 1.994 0.838 3.778 1.857 2.647 2.471 1.149 0.384 1.669 4.154 6.739 9.314 4.223 5.426 nan nan 0.224 0.897 0.451 0.175 3.451 2248 chr3 94845249 94847193 + 0 NA intron (NM_001165948, intron 1 of 18) intron (NM_001165948, intron 1 of 18) 8654 NM_172683 229584 Mm.274787 NM_172683 ENSMUSG00000038902 Pogz 9530006B08Rik pogo transposable element with ZNF domain protein-coding 7.913 6.839 4.012 6.600 7.925 4.808 6.758 6.860 5.754 6.390 5.019 3.674 6.564 9.283 7.072 6.766 5.687 6.940 4.056 3.169 2.376 3.957 3.756 3.591 7.395 577 chr11 97436077 97440082 + 0 NA Intergenic Intergenic -12081 NM_021493 58996 Mm.394118 NM_021493 ENSMUSG00000049807 Arhgap23 A330041B18Rik Rho GTPase activating protein 23 protein-coding 3.904 nan 0.228 3.488 2.131 1.423 4.201 5.197 2.082 4.274 0.786 0.645 3.348 4.327 5.050 5.824 3.862 4.770 0.831 nan 1.598 2.257 nan nan 6.547 1137 chr15 75750324 75755637 + 0 NA Intergenic Intergenic -5058 NM_194350 378435 Mm.309589 NM_194350 ENSMUSG00000047591 Mafa RIPE3b1 v-maf musculoaponeurotic fibrosarcoma oncogene family, protein A (avian) protein-coding 5.162 3.669 2.332 3.570 2.709 1.806 5.867 9.086 2.961 nan nan 1.767 6.474 6.491 5.812 5.809 6.904 4.211 3.165 2.934 2.135 3.231 2.446 2.237 5.670 3511 chr9 66548628 66550691 + 0 NA intron (NM_001302122, intron 1 of 12) intron (NM_001302122, intron 1 of 12) -35066 NM_175206 74165 Mm.297998 NM_175206 ENSMUSG00000050503 Fbxl22 1110004B15Rik F-box and leucine-rich repeat protein 22 protein-coding 0.622 0.498 0.666 0.357 0.257 0.321 0.567 0.537 0.439 0.415 0.460 0.374 0.165 0.459 nan 0.619 0.662 0.649 7.747 5.280 3.468 5.864 7.995 6.199 0.845 2809 chr5 151871929 151874682 + 0 NA Intergenic Intergenic -222097 NM_027009 69263 Mm.12553 NM_027009 ENSMUSG00000033970 Rfc3 2810416I22Rik|38kDa|AU022547|Recc3 replication factor C (activator 1) 3 protein-coding 4.265 1.049 0.589 4.644 3.061 0.890 3.073 1.732 4.814 4.855 1.763 0.968 3.862 5.858 4.680 5.690 2.975 6.358 1.969 1.065 0.841 2.216 0.824 0.401 5.733 1227 chr15 101113525 101115427 + 0 NA Intergenic Intergenic -1279 NM_144790 208258 Mm.152952 NM_144790 ENSMUSG00000047034 Ankrd33 A930021G21Rik|Panky|Panky-a ankyrin repeat domain 33 protein-coding 10.820 12.593 2.869 9.370 3.925 2.010 9.354 11.867 7.006 9.769 7.016 3.136 9.747 9.877 11.707 12.161 7.490 9.824 4.886 3.600 1.771 5.971 3.693 2.164 12.657 3504 chr9 63863955 63871648 + 0 NA Intergenic ORR1C1-int|LTR|ERVL-MaLR -109807 NM_016769 17127 Mm.7320 NM_016769 ENSMUSG00000032402 Smad3 AU022421|Madh3 SMAD family member 3 protein-coding 5.555 2.771 0.546 7.469 1.665 1.340 5.894 7.627 5.091 9.328 6.471 3.780 5.398 8.050 8.042 9.471 4.501 8.036 nan 1.012 1.291 2.090 1.214 1.233 14.232 1417 chr17 24487104 24506242 + 0 NA exon (NM_027937, exon 5 of 20) exon (NM_027937, exon 5 of 20) 7890 NM_027937 268932 Mm.70989 NM_027937 ENSMUSG00000033597 Caskin1 3300002N10Rik|C130061I24|C630036E02Rik|mKIAA1306 CASK interacting protein 1 protein-coding 6.663 3.467 1.579 5.358 3.834 2.492 8.547 4.399 6.117 8.219 1.500 1.323 7.698 8.985 8.029 nan 7.177 7.395 1.727 1.128 1.362 1.787 0.973 0.990 12.474 216 chr1 193119378 193121272 + 0 NA exon (NM_145415, exon 6 of 12) exon (NM_145415, exon 6 of 12) 9926 NM_145415 215193 Mm.173758 NM_145415 ENSMUSG00000016181 Diexf AA408296|AW045375|Def digestive organ expansion factor homolog (zebrafish) protein-coding 2.758 1.094 0.639 1.639 4.090 1.038 1.513 1.636 1.179 2.248 0.864 0.554 1.220 3.907 1.375 3.798 1.677 1.941 1.046 1.729 0.988 2.612 nan 0.698 3.509 3381 chr8 122433669 122441944 + 0 NA intron (NR_028354, intron 6 of 10) intron (NR_028354, intron 6 of 10) -4866 NM_007806 13057 Mm.271671 NM_007806 ENSMUSG00000006519 Cyba b558|nmf333|p22-phox|p22phox cytochrome b-245, alpha polypeptide protein-coding 7.096 4.143 2.275 4.618 4.474 3.443 6.603 8.714 5.238 6.783 4.587 4.531 9.309 10.231 7.953 nan 7.908 6.172 1.721 2.215 2.135 3.128 1.792 1.952 8.377 852 chr13 23527745 23529919 + 0 NA Intergenic Intergenic -2212 NM_153173 69386 Mm.158272 NM_153173 ENSMUSG00000060981 Hist1h4h 1700024H08Rik histone cluster 1, H4h protein-coding 4.798 4.596 2.926 3.732 4.235 2.427 3.780 4.400 3.792 3.863 4.211 2.873 3.269 6.117 4.007 4.290 3.367 4.470 3.048 3.735 2.807 2.868 3.502 3.250 3.317 3351 chr8 108830654 108833320 + 0 NA intron (NM_007496, intron 3 of 9) intron (NM_007496, intron 3 of 9) -104873 NR_037295 100526511 NR_037295 ENSMUSG00000093241 Mir3108 mir-3108|mmu-mir-3108 microRNA 3108 ncRNA 5.132 3.320 2.064 3.285 2.734 1.413 4.119 8.601 3.678 4.003 2.854 2.963 7.261 6.441 4.766 5.607 5.412 5.186 5.511 5.827 2.773 nan 6.703 2.969 4.397 643 chr11 115464635 115465748 + 0 NA intron (NM_001080934, intron 2 of 3) B2_Mm2|SINE|B2 2718 NM_001080934 217316 Mm.25773 NM_001080934 ENSMUSG00000045775 Slc16a5 A130015N09Rik|MCT 5|MCT 6|MCT5 solute carrier family 16 (monocarboxylic acid transporters), member 5 protein-coding 10.120 27.342 6.567 17.808 4.543 2.271 8.414 8.437 7.735 20.854 10.157 5.730 9.705 9.752 14.192 13.111 4.191 12.373 6.824 nan 5.814 7.267 3.052 7.132 20.575 3478 chr9 44329443 44336966 + 0 NA 3' UTR (NM_007875, exon 9 of 9) 3' UTR (NM_007875, exon 9 of 9) -1511 NM_010436 15270 Mm.245931 NM_010436 ENSMUSG00000049932 H2afx AW228881|H2A.X|H2ax|Hist5-2ax|gammaH2ax H2A histone family, member X protein-coding 0.672 13.460 6.431 1.091 0.634 0.164 0.425 0.496 0.853 0.989 0.571 0.362 0.350 0.382 nan nan 0.431 0.933 0.582 1.043 0.652 nan 0.327 0.597 nan 1951 chr2 119566127 119568834 + 0 NA intron (NM_019769, intron 3 of 6) B1_Mus1|SINE|Alu 19773 NM_019769 56398 Mm.214765 NM_019769 ENSMUSG00000014077 Chp1 1500003O03Rik|AA960066|AI046351|Cahp|Chp|Sid470p|p24|vac calcineurin-like EF hand protein 1 protein-coding 4.598 7.587 2.856 4.720 1.754 1.047 3.756 6.348 2.639 5.288 1.787 1.254 3.938 4.546 4.553 7.490 3.872 4.275 1.617 0.948 0.703 2.001 0.903 1.518 8.430 2766 chr5 136124124 136129134 + 0 NA intron (NM_027891, intron 11 of 14) RodERV21-int|LTR|ERV1 9445 NM_027891 71735 Mm.425292 NM_027891 ENSMUSG00000029703 Lrwd1 1200011O22Rik|AU042569|AW548074|Orca leucine-rich repeats and WD repeat domain containing 1 protein-coding 3.223 0.639 0.589 3.352 3.714 3.005 4.239 3.820 3.688 3.408 2.830 2.568 5.370 5.731 3.243 4.175 4.891 3.071 2.578 1.479 1.455 1.014 nan 4.064 2.681 1120 chr15 68077796 68079956 + 0 NA Intergenic Intergenic 179980 NM_001145888 380993 Mm.309526 NM_198644 ENSMUSG00000022335 Zfat Gm922|Zfat1|Zfp406 zinc finger and AT hook domain containing protein-coding 3.846 0.782 0.358 2.615 1.450 0.940 2.082 2.010 2.335 3.160 0.560 0.703 3.197 4.251 3.671 3.580 2.942 4.347 0.658 0.545 0.227 1.027 0.306 0.235 5.947 2928 chr6 87961562 87964335 + 0 NA Intergenic RLTR9D|LTR|ERVK 18534 NM_198622 243529 Mm.33796 NM_198622 ENSMUSG00000044927 H1fx Gm461|H1.10|H1X H1 histone family, member X protein-coding 4.326 0.666 0.800 nan 3.864 2.471 4.555 3.097 1.971 2.651 1.707 0.791 3.222 5.932 2.447 2.979 2.824 4.210 nan 0.775 0.627 0.808 0.771 0.834 4.428 1475 chr17 30206529 30207721 + 0 NA intron (NM_148926, intron 4 of 4) intron (NM_148926, intron 4 of 4) 49410 NR_105839 102465223 NR_105839 ENSMUSG00000098522 Mir6412 Gm27364|mmu-mir-6412 microRNA 6412 ncRNA 2.179 0.577 0.815 0.808 1.659 0.612 2.732 1.599 1.503 1.133 0.698 0.511 1.191 2.819 1.892 1.930 2.205 1.444 1.286 1.404 0.264 1.180 2.131 1.136 1.622 1794 chr19 46544380 46547028 + 0 NA intron (NM_019718, intron 3 of 5) intron (NM_019718, intron 3 of 5) 27381 NM_019718 56350 Mm.22085 NM_019718 ENSMUSG00000025035 Arl3 - ADP-ribosylation factor-like 3 protein-coding 6.050 12.698 4.628 7.165 5.076 2.975 10.266 8.078 5.294 6.348 4.894 5.342 5.647 7.878 7.922 8.967 7.107 8.139 2.033 2.653 2.235 3.987 2.468 2.195 10.357 1187 chr15 83356787 83362627 + 0 NA intron (NR_027980, intron 3 of 3) intron (NR_027980, intron 3 of 3) 7590 NR_027980 69291 Mm.66794 NM_001033147 1700001L05Rik - RIKEN cDNA 1700001L05 gene ncRNA 6.167 1.716 0.449 6.853 1.506 0.989 7.026 8.214 3.972 5.762 3.097 2.940 9.677 7.520 nan 8.147 6.379 nan nan 1.275 1.128 nan 2.613 1.727 7.400 2193 chr3 62242871 62244575 + 0 NA Intergenic Intergenic -95054 NM_001081295 622434 Mm.153974 NM_001081295 ENSMUSG00000036885 Arhgef26 4631416L12Rik|8430436L14Rik|AI303572|AW491953|SGEF Rho guanine nucleotide exchange factor (GEF) 26 protein-coding 3.442 0.416 0.472 3.194 2.212 1.169 4.670 1.862 2.773 2.462 1.371 0.533 5.546 5.163 3.104 3.644 5.003 5.712 0.983 0.753 0.967 0.677 0.770 0.499 3.174 3522 chr9 72525442 72530366 + 0 NA intron (NR_045735, intron 1 of 2) MTC-int|LTR|ERVL-MaLR 3954 NR_045735 75115 Mm.280755 NR_045735 ENSMUSG00000096986 4930509E16Rik - RIKEN cDNA 4930509E16 gene ncRNA 2.639 0.850 1.326 2.112 4.001 4.285 1.516 1.703 2.292 2.424 1.018 1.193 1.963 2.748 nan 2.007 1.991 2.150 nan 1.145 1.616 0.941 1.676 2.236 2.215 2636 chr5 30918937 30920281 + 0 NA intron (NM_133918, intron 5 of 7) B2_Mm2|SINE|B2 -1950 NM_001310525 16548 Mm.22451 NM_008439 ENSMUSG00000029162 Khk - ketohexokinase protein-coding 1.433 0.897 0.549 1.551 1.474 0.722 5.787 5.485 2.168 1.852 1.289 3.188 3.208 3.970 2.932 2.328 1.714 2.138 4.774 3.843 3.161 6.028 5.057 2.882 1.481 2968 chr6 100218222 100219508 + 0 NA Intergenic Intergenic 68493 NM_019743 56353 Mm.321633 NM_019743 ENSMUSG00000072872 Rybp 2410018J24Rik|DEDAF|YEAF1 RING1 and YY1 binding protein protein-coding 2.283 0.615 0.303 2.428 3.501 1.509 2.160 1.366 2.928 2.298 0.523 0.263 2.719 4.878 nan 2.696 2.069 4.022 nan nan 0.402 0.411 0.730 0.395 1.292 2092 chr2 167681827 167687795 + 0 NA Intergenic Intergenic -4104 NM_009883 12608 Mm.439656 NM_009883 ENSMUSG00000056501 Cebpb C/EBPbeta|CRP2|IL-6DBP|LAP|LIP|NF-IL6|NF-M|Nfil6 CCAAT/enhancer binding protein (C/EBP), beta protein-coding 4.751 1.844 0.743 7.785 4.785 3.420 3.068 7.287 4.075 6.366 4.337 2.110 4.084 4.770 4.585 4.958 3.310 6.186 nan 1.728 1.675 4.557 1.535 1.498 5.072 676 chr11 118939397 118940725 + 0 NA Intergenic Intergenic -28464 NM_001285437 52897 Mm.341103 NM_001024931 ENSMUSG00000025576 Rbfox3 Fox-3|Hrnbp3|NeuN|Neuna60 RNA binding protein, fox-1 homolog (C. elegans) 3 protein-coding 3.977 3.672 1.315 3.682 1.818 0.855 5.698 6.261 2.021 3.199 1.394 0.713 4.577 5.319 4.453 5.155 3.424 nan 4.757 nan 2.342 7.062 3.198 1.792 7.647 1251 chr15 103187963 103190165 + 0 NA Intergenic Intergenic -25780 NM_027885 71726 Mm.254820 NM_027885 ENSMUSG00000036061 Smug1 1200013B09Rik|A930006H09Rik|C85220 single-strand selective monofunctional uracil DNA glycosylase protein-coding 6.039 1.734 0.870 4.382 4.786 3.387 1.292 2.166 2.291 3.070 1.741 0.986 1.948 3.620 2.628 2.424 1.809 2.824 1.019 1.494 1.085 0.702 1.105 0.674 3.192 277 chr10 67566305 67570227 + 0 NA Intergenic MLT1A1|LTR|ERVL-MaLR -19311 NM_001005419 211488 Mm.297250 NM_001005419 ENSMUSG00000057134 Ado Gm237 2-aminoethanethiol (cysteamine) dioxygenase protein-coding 8.070 2.224 1.564 5.544 5.270 2.234 3.773 4.142 4.315 5.048 4.173 2.398 6.191 8.060 4.164 5.214 5.233 5.552 1.565 1.837 1.333 1.456 0.689 0.659 4.509 2456 chr4 123237923 123243598 + 0 NA intron (NM_013905, intron 2 of 4) intron (NM_013905, intron 2 of 4) 7204 NM_013905 56198 Mm.103615 NM_013905 ENSMUSG00000032744 Heyl Hey3|Hrt3|bHLHb33|hesr3 hairy/enhancer-of-split related with YRPW motif-like protein-coding 5.548 9.062 4.609 4.373 4.009 3.133 3.334 3.331 3.388 3.609 3.255 1.359 2.448 3.974 3.717 4.581 3.309 4.359 1.134 2.063 1.664 0.912 0.781 0.592 4.047 3191 chr7 132632436 132640808 + 0 NA intron (NM_029609, intron 3 of 6) intron (NM_029609, intron 3 of 6) 25979 NM_029609 76429 Mm.276721 NM_029609 ENSMUSG00000030946 Lhpp 2310007H09Rik phospholysine phosphohistidine inorganic pyrophosphate phosphatase protein-coding 6.267 6.927 4.265 5.741 5.476 3.546 5.779 6.461 6.313 7.176 3.635 3.299 6.731 7.195 5.306 5.766 5.403 6.644 2.233 2.519 1.791 2.749 2.798 2.215 6.170 1192 chr15 85429785 85433820 + 0 NA intron (NM_016843, intron 9 of 11) intron (NM_016843, intron 9 of 11) 71425 NM_001256072 328577 Mm.212960 NM_001256072 ENSMUSG00000096607 7530416G11Rik - RIKEN cDNA 7530416G11 gene protein-coding 3.159 1.528 0.688 nan 2.190 1.212 nan 5.462 nan 2.782 1.765 2.465 2.554 3.344 nan nan nan nan nan 3.391 3.049 nan 5.210 3.803 3.522 879 chr13 37873578 37877527 + 0 NA intron (NM_001039188, intron 1 of 9) AT_rich|Low_complexity|Low_complexity -12882 NR_033218 68750 Mm.491109 NM_026830 ENSMUSG00000039087 Rreb1 1110037N09Rik|AA414966|B930013M22Rik ras responsive element binding protein 1 protein-coding 2.194 nan 0.427 1.060 1.157 0.617 nan nan nan nan 6.398 4.412 2.871 3.500 2.761 nan 1.048 nan 0.938 0.625 0.873 1.479 0.622 0.534 nan 3306 chr8 87984961 87986700 + 0 NA Intergenic B1_Mus2|SINE|Alu -26235 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 7.171 0.590 0.748 1.572 1.752 1.202 3.686 6.468 2.193 2.786 2.258 1.149 7.515 4.255 3.988 7.069 6.253 4.321 nan 2.166 1.434 2.133 1.158 0.907 5.936 3017 chr6 133984099 133987745 + 0 NA Intergenic B3A|SINE|B2 -49778 NM_001303102 14011 Mm.269995 NM_007961 ENSMUSG00000030199 Etv6 AW123102|AW557856|Tel ets variant 6 protein-coding 10.883 9.800 3.851 11.495 5.303 3.070 9.847 11.615 6.363 11.267 10.070 5.929 8.656 10.161 10.276 11.605 10.524 9.455 6.798 4.794 4.203 7.510 5.160 5.933 14.027 2640 chr5 31214821 31219623 + 0 NA intron (NM_008014, intron 1 of 9) B2_Mm2|SINE|B2 3323 NM_008014 14208 Mm.14501 NM_008014 ENSMUSG00000029147 Ppm1g AI385652|Fin13 protein phosphatase 1G (formerly 2C), magnesium-dependent, gamma isoform protein-coding 7.250 3.429 1.108 7.723 3.180 1.590 2.756 3.156 3.288 4.844 2.173 0.947 2.413 6.009 3.760 3.872 2.289 4.691 1.937 2.144 1.545 2.047 1.979 1.306 5.347 2700 chr5 105946619 105958113 + 0 NA Intergenic Intergenic 75798 NM_018759 54367 Mm.248876 NM_018759 ENSMUSG00000029290 Zfp326 5730470H14Rik|ZAN75|Znf326 zinc finger protein 326 protein-coding 7.356 5.123 2.268 5.806 5.273 3.349 10.644 4.739 6.750 8.999 1.425 1.629 8.551 7.725 8.628 8.689 6.125 8.270 nan 1.801 1.833 2.433 2.073 2.066 7.803 1095 chr15 57649400 57651834 + 0 NA Intergenic Intergenic -44050 NM_199449 387609 Mm.36557 NM_199449 ENSMUSG00000071757 Zhx2 Afr-1|Afr1|Raf|mKIAA0854 zinc fingers and homeoboxes 2 protein-coding 3.065 1.750 0.669 2.822 3.273 1.852 4.300 1.653 nan 4.233 0.875 0.737 5.717 7.261 3.042 3.519 5.258 4.059 0.751 1.381 1.736 2.124 1.331 0.903 2.771 3104 chr7 35013042 35020932 + 0 NA intron (NM_008820, intron 9 of 14) intron (NM_008820, intron 9 of 14) 39579 NM_009884 12611 Mm.273090 NM_009884 ENSMUSG00000056216 Cebpg C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP CCAAT/enhancer binding protein (C/EBP), gamma protein-coding 6.207 5.282 2.567 4.486 5.764 4.276 5.278 11.196 4.311 6.494 4.018 4.123 5.149 6.646 5.965 6.237 5.771 5.702 4.018 2.588 3.016 5.314 3.084 2.804 6.751 1183 chr15 81986507 81998937 + 0 NA 3' UTR (NM_134095, exon 6 of 6) 3' UTR (NM_134095, exon 6 of 6) 12182 NM_025503 66346 Mm.54292 NM_025503 ENSMUSG00000061633 1700029P11Rik - RIKEN cDNA 1700029P11 gene protein-coding 3.969 12.639 6.784 3.587 2.294 1.373 nan 11.674 3.146 nan nan 2.552 5.833 nan 7.061 5.726 6.723 4.956 1.151 1.520 1.054 nan 1.075 0.923 4.493 2975 chr6 113048797 113051093 + 0 NA intron (NM_008188, intron 3 of 9) MTA_Mm|LTR|ERVL-MaLR 3618 NM_008188 14911 Mm.781 NM_008188 ENSMUSG00000030264 Thumpd3 AW556087|Gt(ROSA)26asSor|Gtrosa26as THUMP domain containing 3 protein-coding 6.591 3.319 2.286 4.267 4.887 2.060 5.598 8.385 4.448 4.177 4.894 3.379 6.389 7.012 6.025 6.018 6.696 5.653 5.275 2.821 1.555 3.227 nan 2.232 2.601 1444 chr17 26746293 26749426 + 0 NA intron (NM_029870, intron 4 of 8) MTB|LTR|ERVL-MaLR 32209 NM_029870 77128 Mm.275414 NM_029870 ENSMUSG00000048249 Crebrf A930001N09Rik|LRF CREB3 regulatory factor protein-coding 4.423 1.548 0.679 4.513 3.172 1.365 4.199 5.450 2.354 2.464 4.889 2.464 3.697 6.346 3.127 3.654 1.757 4.567 1.459 0.735 0.732 3.568 0.555 0.295 4.130 2747 chr5 123378565 123381812 + 0 NA Intergenic Intergenic -14610 NM_133917 208104 Mm.83277 NM_133917 ENSMUSG00000038342 Mlxip AW228700|Mir|bHLHe36 MLX interacting protein protein-coding 5.503 0.605 0.832 3.635 5.738 5.672 4.475 4.451 5.420 4.335 1.130 2.249 4.994 5.572 nan 5.124 4.762 nan nan 1.365 1.467 0.905 nan 1.270 nan 1883 chr2 38376713 38398046 + 0 NA Intergenic Intergenic 36071 NM_010710 16870 Mm.142856 NM_010710 ENSMUSG00000000247 Lhx2 LH2A|Lh-2|Lim2|ap|apterous LIM homeobox protein 2 protein-coding 7.154 1.916 0.767 4.406 3.885 2.202 7.355 6.681 4.117 nan 1.941 1.737 7.114 6.110 6.258 10.663 5.555 7.462 1.985 1.057 0.839 1.356 1.009 0.483 10.569 1846 chr2 30837925 30842968 + 0 NA Intergenic Intergenic -4921 NM_009116 20204 Mm.1802 NM_009116 ENSMUSG00000039476 Prrx2 Prx2|S8 paired related homeobox 2 protein-coding 5.522 1.752 1.006 3.381 4.841 3.389 5.814 9.287 nan 4.067 2.262 2.030 5.748 7.120 6.099 8.003 6.967 5.003 2.640 1.590 1.934 3.019 2.498 2.522 8.648 2215 chr3 88355793 88358658 + 0 NA intron (NM_178246, intron 16 of 21) intron (NM_178246, intron 16 of 21) -7364 NM_198410 68957 Mm.441486 NM_198410 ENSMUSG00000041423 Paqr6 1500001B10Rik progestin and adipoQ receptor family member VI protein-coding 10.162 10.781 3.717 11.020 6.983 5.546 13.966 10.503 8.188 10.978 7.760 5.985 11.746 14.598 11.743 12.334 10.331 10.642 5.586 3.803 4.476 6.010 4.658 6.402 16.013 2671 chr5 65275013 65278426 + 0 NA intron (NM_001347358, intron 15 of 24) G-rich|Low_complexity|Low_complexity 58920 NM_011258 19687 Mm.148877 NM_011258 ENSMUSG00000029191 Rfc1 140kDa|Alp145|RFC140|Recc1 replication factor C (activator 1) 1 protein-coding 2.853 7.953 4.859 1.480 1.360 0.747 1.830 1.252 1.087 1.156 0.879 0.993 1.562 2.046 2.306 1.702 1.314 2.030 1.025 0.814 0.821 nan 0.669 0.383 2.108 133 chr1 134284361 134288806 + 0 NA Intergenic B1_Mur3|SINE|Alu -3421 NM_031189 17928 Mm.16528 NM_031189 ENSMUSG00000026459 Myog MYF4|bHLHc3|myo myogenin protein-coding 3.810 2.980 1.027 nan 1.824 0.747 0.802 0.958 1.617 2.539 0.889 1.127 1.025 nan 1.835 2.873 1.144 3.452 6.116 2.163 2.823 4.824 4.041 3.362 nan 123 chr1 127455255 127458593 + 0 NA intron (NM_145128, intron 13 of 17) intron (NM_145128, intron 13 of 17) 221097 NM_028135 72160 Mm.281287 NM_028135 ENSMUSG00000026347 Tmem163 2610024A01Rik|SV31 transmembrane protein 163 protein-coding 12.797 nan 1.816 7.975 5.803 3.354 9.060 9.742 6.119 9.635 8.603 4.358 10.220 10.120 8.916 14.729 9.417 9.219 nan 2.217 2.164 4.756 3.334 2.763 12.002 304 chr10 80409319 80411930 + 0 NA exon (NM_011548, exon 18 of 19) exon (NM_011548, exon 18 of 19) -3803 NM_025650 66594 Mm.379119 NM_025650 ENSMUSG00000020163 Uqcr11 0710008D09Rik|AL022707|Uqcr ubiquinol-cytochrome c reductase, complex III subunit XI protein-coding 4.755 1.811 0.694 4.047 2.407 1.768 5.278 6.461 3.120 2.770 3.853 2.444 4.587 6.355 4.890 5.363 2.857 5.328 nan 1.566 1.429 4.125 1.671 1.750 6.750 2600 chr4 154232919 154238992 + 0 NA intron (NM_001162977, intron 4 of 36) intron (NM_001162977, intron 4 of 36) 63940 NM_001112744 230972 Mm.38481 NM_001112744 ENSMUSG00000029032 Arhgef16 - Rho guanine nucleotide exchange factor (GEF) 16 protein-coding 1.932 1.040 0.360 1.855 0.970 0.400 0.962 4.470 2.594 2.862 1.159 1.558 0.837 1.918 1.722 3.051 1.428 2.349 0.926 0.458 0.418 1.467 1.125 0.788 4.972 2515 chr4 134289548 134292289 + 0 NA Intergenic ORR1A4|LTR|ERVL-MaLR -3072 NM_146156 230809 Mm.22778 NM_146156 ENSMUSG00000050890 Pdik1l BC027088|stk35l2 PDLIM1 interacting kinase 1 like protein-coding 8.166 3.617 1.104 5.762 4.343 2.989 3.821 8.892 5.702 6.280 6.920 5.347 5.262 7.181 5.987 8.509 3.438 5.915 2.453 2.102 2.652 2.819 nan 2.420 5.442 2417 chr4 99703978 99707959 + 0 NA Intergenic B3|SINE|B2 -9662 NM_001081264 320438 Mm.32408 NM_001081264 ENSMUSG00000073792 Alg6 E230028F23Rik asparagine-linked glycosylation 6 (alpha-1,3,-glucosyltransferase) protein-coding 4.337 nan 0.282 3.053 1.823 0.830 3.761 2.043 4.276 5.704 0.646 0.406 5.976 4.345 nan 6.532 4.287 5.394 0.645 2.107 0.969 nan 1.015 0.561 6.699 1631 chr18 46885812 46888713 + 0 NA intron (NM_029008, intron 13 of 19) intron (NM_029008, intron 13 of 19) -34553 NM_001033446 381142 Mm.329423 NM_001033446 ENSMUSG00000073568 Arl14epl Gm949 ADP-ribosylation factor-like 14 effector protein-like protein-coding 1.571 1.005 0.763 4.030 1.658 1.747 1.023 1.778 1.412 2.033 0.474 0.494 0.781 1.416 1.664 1.723 1.496 nan 3.967 2.057 2.364 4.380 6.075 7.392 2.626 1828 chr2 26195940 26198690 + 0 NA Intergenic Intergenic 9260 NM_001039653 16871 Mm.386765 NM_010711 ENSMUSG00000026934 Lhx3 Lim3|P-LIM|mLIM3|mLim-3 LIM homeobox protein 3 protein-coding 4.069 1.178 0.571 4.048 0.733 0.353 1.819 3.608 2.411 3.327 1.091 0.334 3.004 3.933 2.875 7.455 5.157 6.645 2.933 1.828 1.506 4.394 2.648 2.325 8.985 2605 chr4 154521939 154527893 + 0 NA intron (NM_001177995, intron 2 of 15) intron (NM_001177995, intron 2 of 15) 111451 NR_045643 320939 Mm.436738 NR_045643 5930403L14Rik - RIKEN cDNA 5930403L14 gene ncRNA 4.906 2.235 0.481 8.258 2.539 1.136 5.268 6.114 4.109 6.568 4.260 2.488 5.390 7.766 6.380 7.844 2.420 7.399 3.131 1.195 0.806 8.587 1.111 0.986 9.371 2294 chr3 121902289 121907051 + 0 NA Intergenic Intergenic -48656 NM_172525 214137 Mm.229287 NM_172525 ENSMUSG00000039831 Arhgap29 6720461J18Rik|A830014I19|AU040217|B130017I01Rik|C76601|Parg1 Rho GTPase activating protein 29 protein-coding 2.189 1.628 0.709 1.590 1.134 0.650 2.270 3.029 1.202 nan 7.716 3.203 2.129 1.602 1.313 nan 1.289 1.946 1.376 1.967 1.232 1.726 nan 1.116 nan 56 chr1 64143273 64144944 + 0 NA Intergenic Intergenic -22719 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 5.969 1.293 0.641 5.464 1.764 1.032 3.350 3.791 3.138 2.730 1.734 1.795 3.834 4.367 2.574 5.001 2.039 4.808 1.695 1.807 1.100 1.593 1.735 1.361 3.573 1369 chr16 92608382 92629291 + 0 NA intron (NM_001111022, intron 5 of 6) IMPB_01|Satellite|Satellite 78493 NM_001111023 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 4.474 nan 0.523 3.082 4.773 2.479 3.956 6.317 3.453 3.992 6.631 2.932 4.796 6.586 4.432 5.991 3.005 nan 0.995 1.006 0.663 nan 0.725 0.510 4.825 3006 chr6 125140403 125142084 + 0 NA intron (NM_138747, intron 14 of 15) intron (NM_138747, intron 14 of 15) -3981 NR_126495 320678 Mm.129415 NM_178787 ENSMUSG00000038271 Iffo1 4733401N06Rik|A930037G23Rik|HOM-TES-103|Iffo intermediate filament family orphan 1 protein-coding 4.688 15.615 7.424 3.986 2.985 1.667 4.974 nan 2.396 3.499 3.121 2.187 4.476 4.997 5.390 nan 4.887 3.949 6.578 5.522 4.776 5.269 10.487 7.896 7.779 54 chr1 64124031 64127856 + 0 NA Intergenic B3|SINE|B2 -4554 NM_033563 93691 Mm.29466 NM_033563 ENSMUSG00000025959 Klf7 9830124P08Rik Kruppel-like factor 7 (ubiquitous) protein-coding 5.481 1.266 0.539 5.368 3.052 1.030 2.272 2.996 2.999 3.517 2.496 1.102 3.651 4.849 2.857 4.675 nan 4.545 1.323 1.013 0.588 0.929 1.098 0.475 3.663 1151 chr15 76286425 76297116 + 0 NA intron (NM_028852, intron 4 of 4) intron (NM_028852, intron 4 of 4) -2664 NM_001195537 100503915 Mm.393455 NM_001195537 ENSMUSG00000071724 Smpd5 ENSMUSG00000071724|Gm10345|MA-nSMase sphingomyelin phosphodiesterase 5 protein-coding nan nan 0.439 nan 1.187 0.728 nan 3.170 1.518 nan nan 0.615 3.274 nan 3.650 3.378 nan 3.587 4.099 2.075 2.036 nan 2.556 1.805 6.056 3347 chr8 108709264 108712038 + 0 NA Intergenic Intergenic -3993 NM_007496 11906 Mm.416972 NM_007496 ENSMUSG00000038872 Zfhx3 A230102L03Rik|Atbf1|Sci|WBP9|mKIAA4228 zinc finger homeobox 3 protein-coding 3.062 1.425 0.692 2.035 2.249 0.919 3.487 5.272 1.821 1.794 3.773 2.105 4.210 6.213 3.426 3.755 4.808 2.933 0.693 2.092 0.827 nan 0.568 0.703 3.030 306 chr10 80447572 80450947 + 0 NA Intergenic Intergenic -15606 NM_001164148 21423 Mm.3406 NM_011548 ENSMUSG00000020167 Tcf3 A1|AA408400|ALF2|AW209082|E12|E12/E47|E2A|E47|KA1|ME2|Pan1|Pan2|TCF-3|Tcfe2a|VDIR|bHLHb21 transcription factor 3 protein-coding 5.231 9.801 4.072 8.229 3.415 3.372 3.647 5.106 3.594 4.997 2.114 1.611 4.199 7.971 5.407 5.935 3.671 5.939 5.424 3.812 3.831 7.072 3.762 4.298 7.771 1204 chr15 98814435 98817195 + 0 NA intron (NM_016781, intron 3 of 11) intron (NM_016781, intron 3 of 11) -7890 NM_001013741 13199 Mm.390810 NM_001013741 ENSMUSG00000059213 Ddn Gm748 dendrin protein-coding 11.888 11.044 6.003 9.120 7.058 4.478 8.971 10.180 6.447 7.789 7.590 4.917 9.715 8.893 8.371 8.113 10.237 9.160 12.400 8.280 6.242 10.385 13.170 10.566 7.757 70 chr1 72974645 72980358 + 0 NA Intergenic Intergenic 38398 NM_009407 21958 Mm.425024 NM_009407 ENSMUSG00000026182 Tnp1 Stp-1|TP1|Tp-1 transition protein 1 protein-coding 1.869 0.680 0.365 1.144 0.495 0.256 1.716 1.631 1.699 1.831 0.295 0.295 3.026 nan 3.434 6.459 nan nan 4.221 3.220 1.683 7.064 2.630 1.718 3.013 839 chr12 118895501 118904925 + 0 NA intron (NM_029961, intron 20 of 27) intron (NM_029961, intron 20 of 27) 53884 NM_177082 320145 Mm.51682 NM_177082 ENSMUSG00000048562 Sp8 D930049B17Rik|mBtd trans-acting transcription factor 8 protein-coding nan 1.482 0.938 5.730 2.576 1.055 2.594 2.047 3.630 3.441 4.026 1.288 2.115 2.810 2.836 nan 2.738 5.163 1.098 1.213 0.693 0.957 0.685 0.494 2.694 2520 chr4 135385863 135390512 + 0 NA intron (NM_145555, intron 1 of 4) intron (NM_145555, intron 1 of 4) -2515 NM_001243305 230822 Mm.35548 NM_145555 ENSMUSG00000043924 Ncmap A330049M08Rik|AA545175|Mp11 noncompact myelin associated protein protein-coding nan 0.888 0.585 4.097 1.497 0.956 0.683 1.145 nan 2.140 2.287 1.175 1.166 1.951 1.623 1.455 0.764 1.892 4.687 2.553 2.050 5.449 nan 1.963 1.068 166 chr1 153535432 153539015 + 0 NA intron (NM_028749, intron 3 of 11) intron (NM_028749, intron 3 of 11) 12491 NM_028749 74091 Mm.24887 NM_028749 ENSMUSG00000042684 Npl 0610033B02Rik N-acetylneuraminate pyruvate lyase protein-coding 9.390 3.071 2.041 4.594 5.020 3.914 3.094 3.925 4.863 5.606 5.476 2.778 5.813 5.833 3.508 5.187 4.345 5.449 nan 1.311 1.302 1.046 nan 1.300 3.972 2225 chr3 89379641 89390949 + 0 NA intron (NM_009565, intron 1 of 2) intron (NM_009565, intron 1 of 2) -6569 NR_040403 545539 Mm.393389 NR_040403 ENSMUSG00000074466 Gm15417 ENSMUSG00000074466|OTTMUSG00000021274 predicted gene 15417 ncRNA 4.387 0.602 0.338 2.208 2.767 1.753 3.453 3.292 2.078 3.143 0.738 0.506 3.516 5.038 3.087 3.379 2.663 2.828 4.515 2.738 2.201 5.767 2.949 2.201 4.484 88 chr1 82928419 82929329 + 0 NA Intergenic Intergenic 89414 NM_001347077 15463 Mm.392569 NM_010472 ENSMUSG00000026159 Agfg1 AU045498|C130049H11Rik|C85612|D730048C23Rik|Hrb|RAB|Rip ArfGAP with FG repeats 1 protein-coding 1.616 0.279 0.289 1.095 3.138 3.143 1.117 1.952 1.714 2.032 0.336 0.609 2.738 3.205 0.796 2.002 1.990 2.438 nan nan 0.747 0.139 nan 0.308 nan 1578 chr17 83795131 83796930 + 0 NA intron (NM_054082, intron 14 of 16) intron (NM_054082, intron 14 of 16) 50760 NM_025325 107766 Mm.30100 NM_025325 ENSMUSG00000000673 Haao 0610007K21Rik|0610012J07Rik|3-HAO|3-HAOxase|3HAO 3-hydroxyanthranilate 3,4-dioxygenase protein-coding 3.730 6.729 5.522 1.959 2.407 1.015 2.529 2.211 nan 2.792 1.460 1.886 2.129 2.090 2.137 2.537 3.573 2.189 1.212 2.673 1.174 0.485 1.308 0.824 2.118 1009 chr14 55031863 55034648 + 0 NA Intergenic Intergenic -5207 NR_073535 100151693 Mm.378403 NR_073535 ENSMUSG00000072492 Gm10364 EG545052|ENSMUSG00000072492 glyceraldehyde-3-phosphate dehydrogenase pseudogene pseudo 6.344 8.989 4.299 4.564 3.546 1.975 5.182 6.317 3.897 5.428 3.701 2.232 6.525 7.546 4.887 6.720 3.754 5.904 1.341 2.273 1.601 2.654 1.296 0.605 8.178 30 chr1 37529669 37532018 + 0 NA intron (NM_001290801, intron 1 of 14) L1M4b|LINE|L1 5561 NM_001290801 269181 Mm.25861 NM_173870 ENSMUSG00000026110 Mgat4a 9530018I07Rik|GnT-IVa|glcNAc-T-IVa mannoside acetylglucosaminyltransferase 4, isoenzyme A protein-coding 6.532 14.309 7.269 3.324 1.957 1.331 2.942 3.482 3.642 3.260 2.410 2.677 6.137 3.869 3.478 nan 5.016 4.271 0.945 2.024 2.125 0.907 0.898 0.506 4.069 403 chr11 24026270 24033488 + 0 NA Intergenic Intergenic -48177 NM_016707 14025 Mm.53687 NM_016707 ENSMUSG00000000861 Bcl11a 2810047E18Rik|BCL-11A|Ctip1|D930021L15Rik|Evi9|Evi9a|Evi9b|Evi9c|mKIAA1809 B cell CLL/lymphoma 11A (zinc finger protein) protein-coding 0.404 9.225 4.342 nan 0.145 0.089 0.193 0.188 0.365 0.276 0.392 0.222 0.108 0.129 0.314 0.498 nan 0.490 0.369 0.309 0.272 0.488 0.278 0.146 0.420 466 chr11 69808574 69811799 + 0 NA Intergenic PB1D10|SINE|Alu -4562 NM_001033433 380705 Mm.490673 NM_001033433 ENSMUSG00000089876 Tmem102 4632403M07Rik|Cbap|Tmem102-ps transmembrane protein 102 protein-coding 15.739 12.753 7.195 9.335 13.090 8.770 13.173 11.355 5.936 14.266 9.775 4.600 7.367 16.397 7.855 9.228 11.961 7.276 5.144 8.584 6.759 4.697 8.155 8.078 13.562 134 chr1 134556332 134558616 + 0 NA Intergenic Intergenic -2704 NM_152895 75605 Mm.28995 NM_152895 ENSMUSG00000042207 Kdm5b 2010009J12Rik|2210016I17Rik|AW556288|D1Ertd202e|Jarid1b|PLU-1|PUT1|Plu1|RBBP2H1A|Rb-Bp2|mKIAA4034 lysine (K)-specific demethylase 5B protein-coding 0.811 1.030 0.371 nan 0.228 0.163 0.592 0.668 0.555 0.431 0.296 0.406 0.338 nan 0.353 nan 0.709 0.569 4.498 2.895 2.013 2.311 8.648 6.746 nan 3438 chr9 21554206 21559133 + 0 NA intron (NM_153141, intron 1 of 14) B1_Mus2|SINE|Alu 9775 NM_153141 59035 Mm.178115 NM_021531 ENSMUSG00000032185 Carm1 Prmt4 coactivator-associated arginine methyltransferase 1 protein-coding 4.189 1.757 0.748 6.033 3.150 2.757 4.068 5.207 4.188 5.608 3.142 1.529 5.830 7.589 5.615 7.965 4.352 6.861 3.046 1.774 1.805 2.927 2.134 2.146 8.264 3038 chr6 136865794 136869516 + 0 NA Intergenic RLTR20A4|LTR|ERVK 8168 NM_008597 17313 Mm.243085 NM_008597 ENSMUSG00000030218 Mgp Mglap matrix Gla protein protein-coding 0.438 1.134 0.914 0.648 0.178 0.232 1.369 0.651 0.539 0.225 1.660 1.101 0.265 nan 0.448 0.759 0.776 nan 1.614 1.010 4.589 0.703 0.554 nan 2151 chr3 21535914 21538919 + 0 NA Intergenic Intergenic -539236 NM_030732 81004 Mm.202966 NM_030732 ENSMUSG00000027630 Tbl1xr1 8030499H02Rik|A630076E03Rik|AW539987|C21|C230089I12Rik|DC42|Ira1|TBLR1 transducin (beta)-like 1X-linked receptor 1 protein-coding 0.574 nan 0.386 0.913 0.902 0.395 0.780 0.713 1.235 0.940 6.584 2.504 0.790 0.782 0.738 0.638 0.710 1.521 1.005 0.697 0.262 1.186 0.259 0.350 0.703 618 chr11 101137960 101140177 + 0 NA Intergenic Intergenic -16816 NM_134028 103768 Mm.142348 NM_134028 ENSMUSG00000045007 Tubg2 AI504772|Tubgl tubulin, gamma 2 protein-coding 9.119 3.875 0.820 6.599 4.341 1.856 10.570 8.842 5.695 6.443 7.814 3.675 10.093 12.889 12.129 12.242 7.194 8.612 2.677 nan 0.995 3.016 nan nan 14.423 3290 chr8 77513644 77515796 + 0 NA intron (NM_030113, intron 1 of 22) (TTTG)n|Simple_repeat|Simple_repeat -2336 NR_028125 70345 Mm.411813 NR_028125 ENSMUSG00000097882 0610038B21Rik - RIKEN cDNA 0610038B21 gene ncRNA 3.063 nan 0.580 2.408 2.840 2.703 nan 3.441 nan 2.177 0.555 0.979 2.390 4.705 3.124 2.998 3.539 2.462 1.979 1.306 1.409 nan 2.421 1.882 2.813 848 chr13 15160406 15163417 + 0 NA Intergenic L1_Rod|LINE|L1 -301812 NM_008130 14634 Mm.5098 NM_008130 ENSMUSG00000021318 Gli3 AI854843|AU023367|Bph|GLI3-190|GLI3FL|Pdn|Xt|add GLI-Kruppel family member GLI3 protein-coding 2.498 0.236 0.523 1.705 3.703 3.906 2.193 0.596 1.149 1.137 0.452 0.289 2.215 nan 0.865 0.635 nan 1.811 0.604 1.856 1.613 0.317 1.481 2.160 nan 1829 chr2 26329507 26332655 + 0 NA intron (NM_153410, intron 9 of 13) (TTTG)n|Simple_repeat|Simple_repeat 11311 NM_001199147 67839 Mm.266611 NM_153410 ENSMUSG00000026930 Gpsm1 1810037C22Rik|AW107933|Ags3 G-protein signalling modulator 1 (AGS3-like, C. elegans) protein-coding 4.689 1.273 0.701 7.500 1.237 0.832 1.509 4.173 2.894 3.060 2.726 0.985 2.410 3.034 3.187 4.090 1.629 4.563 0.859 0.491 0.423 1.858 0.548 0.304 5.726 1904 chr2 72919753 72921389 + 0 NA Intergenic ORR1B1|LTR|ERVL-MaLR 58710 NM_001098425 20687 Mm.124328 NM_011450 ENSMUSG00000027109 Sp3 D130027J01Rik trans-acting transcription factor 3 protein-coding 5.520 0.684 0.435 3.150 1.851 0.778 3.437 4.057 3.268 4.101 0.756 0.453 5.627 5.523 4.801 6.905 4.259 4.709 0.876 0.957 1.086 1.032 0.736 1.002 10.727 1629 chr18 39552950 39558693 + 0 NA Intergenic Intergenic -68576 NM_008173 14815 Mm.129481 NM_008173 ENSMUSG00000024431 Nr3c1 GR|Grl-1|Grl1 nuclear receptor subfamily 3, group C, member 1 protein-coding 5.594 1.117 0.749 2.612 2.086 1.082 4.812 6.068 3.735 3.143 2.100 1.755 6.845 5.105 4.830 5.482 4.358 5.726 0.781 0.584 0.375 0.931 0.530 0.581 6.553 1761 chr19 28373142 28375340 + 0 NA intron (NM_001305671, intron 3 of 9) intron (NM_001305671, intron 3 of 9) -303983 NR_045330 320176 Mm.406716 NR_045330 ENSMUSG00000097735 D930032P07Rik - RIKEN cDNA D930032P07 gene ncRNA nan 0.675 0.374 nan 0.473 0.002 0.498 3.453 0.999 0.762 7.807 3.101 0.567 1.230 0.776 0.804 0.502 0.632 3.774 1.247 0.669 6.359 nan 1.237 1.170 2755 chr5 124475239 124476990 + 0 NA intron (NM_030259, intron 1 of 3) B1_Mur1|SINE|Alu 2121 NM_030259 80291 Mm.425280 NM_030259 ENSMUSG00000029401 Rilpl2 - Rab interacting lysosomal protein-like 2 protein-coding 1.770 3.384 0.757 4.750 3.212 1.765 3.534 1.973 2.881 3.384 2.759 2.418 1.500 4.013 3.176 2.989 nan 3.560 3.085 3.503 2.606 6.556 3.183 2.896 2.463 2196 chr3 67386432 67387591 + 0 NA intron (NM_010801, intron 2 of 6) ORR1B1-int|LTR|ERVL-MaLR 12914 NM_001039543 17349 Mm.10414 NM_010801 ENSMUSG00000048416 Mlf1 HLS7 myeloid leukemia factor 1 protein-coding 5.146 7.450 1.921 6.280 2.525 1.061 4.543 3.826 4.192 6.531 3.933 2.250 4.528 5.520 6.472 7.420 3.792 7.698 2.806 1.355 1.268 3.212 1.571 2.234 9.569 1918 chr2 91297196 91299488 + 0 NA intron (NM_001311144, intron 4 of 8) B3A|SINE|B2 33227 NM_023854 77038 Mm.43636 NM_023854 ENSMUSG00000027255 Arfgap2 2310032E02Rik|Zfp289 ADP-ribosylation factor GTPase activating protein 2 protein-coding 6.289 1.476 0.679 9.416 1.518 1.121 5.654 8.932 4.223 6.907 1.168 1.785 7.949 6.373 7.905 9.150 6.767 8.977 1.445 1.782 1.113 3.133 1.031 1.353 15.593 1323 chr16 25848493 25850964 + 0 NA intron (NM_001127259, intron 4 of 13) intron (NM_001127259, intron 4 of 13) 47812 NM_001127264 22061 Mm.20894 NM_011641 ENSMUSG00000022510 Trp63 AI462811|Ket|P51/P63|P63|P73l|Tp63|Trp53rp1 transformation related protein 63 protein-coding 2.075 0.565 0.551 1.388 1.222 0.931 3.328 2.895 1.935 1.745 7.091 1.697 nan 4.538 2.710 3.618 2.002 2.025 0.551 0.294 0.540 1.283 nan 0.420 3.296 3237 chr8 23915599 23920037 + 0 NA intron (NM_001277239, intron 5 of 7) intron (NM_001277239, intron 5 of 7) 248157 NM_177086 320158 Mm.121274 NM_177086 ENSMUSG00000037492 Zmat4 9630048M01Rik zinc finger, matrin type 4 protein-coding 8.467 14.510 7.583 7.583 5.155 2.942 5.815 8.298 4.424 6.091 6.410 4.081 6.055 7.751 7.355 8.735 6.439 6.379 5.167 4.113 2.830 nan 4.757 3.648 8.438 1455 chr17 27928427 27931895 + 0 NA intron (NM_001286040, intron 1 of 24) B4A|SINE|B4 20855 NM_181413 224650 Mm.32556 NM_181413 ENSMUSG00000024219 Anks1 Anks1a|mKIAA0229 ankyrin repeat and SAM domain containing 1 protein-coding 5.906 1.164 1.520 4.247 5.871 5.879 6.751 5.929 5.671 5.440 5.444 5.510 6.608 7.743 5.017 6.116 10.077 4.859 1.979 2.014 2.782 2.294 1.534 2.106 5.995 3150 chr7 112723558 112726119 + 0 NA intron (NM_009346, intron 1 of 12) intron (NM_009346, intron 1 of 12) -34546 NM_001166585 21676 Mm.24685 NM_009346 ENSMUSG00000055320 Tead1 2610024B07Rik|B230114H05Rik|Gtrgeo5|TEAD-1|TEF-1|Tcf13|mTEF-1 TEA domain family member 1 protein-coding 4.135 1.072 1.064 4.918 3.813 1.529 2.581 4.480 3.924 4.297 0.682 0.789 3.874 4.731 3.496 4.494 3.985 7.637 nan 1.229 0.691 1.038 2.020 0.893 5.397 2662 chr5 53415665 53419274 + 0 NA Intergenic Intergenic -138310 NM_001080928 19664 Mm.209292 NM_009035 ENSMUSG00000039191 Rbpj AI843960|CBF1|Igkjrb|Igkrsbp|RBP-J|RBP-J kappa|RBP-Jkappa|RBPjk|Rbpsuh recombination signal binding protein for immunoglobulin kappa J region protein-coding 2.840 0.492 0.561 1.344 0.834 0.497 3.883 2.442 1.682 1.688 1.109 0.454 2.661 2.264 3.317 3.233 2.139 2.791 1.128 1.420 1.189 3.422 0.880 0.729 5.554 1492 chr17 35029929 35032198 + 0 NA intron (NM_013600, intron 18 of 23) intron (NM_013600, intron 18 of 23) -3047 NM_023893 78376 Mm.390966 NM_023893 ENSMUSG00000036185 Sapcd1 2810436B06Rik|G7d|Ng23 suppressor APC domain containing 1 protein-coding nan 7.013 2.462 4.530 2.197 1.487 6.096 3.780 3.043 7.094 2.722 1.953 3.800 6.488 6.628 7.918 4.280 5.511 3.364 1.580 2.047 4.248 1.956 2.712 9.671 3164 chr7 116779117 116782269 + 0 NA Intergenic Intergenic 276324 NM_001130479 53322 Mm.9901 NM_016773 ENSMUSG00000030659 Nucb2 AI607786|Calnuc|Nefa|Nesfatin-1 nucleobindin 2 protein-coding 6.030 1.282 0.696 6.465 5.547 2.414 2.828 4.458 3.203 2.998 7.143 2.277 3.715 5.414 4.089 3.496 2.544 5.555 1.680 1.075 0.934 1.878 1.225 0.913 4.620 2729 chr5 118458823 118462631 + 0 NA Intergenic B3|SINE|B2 -99992 NM_001347445 76199 Mm.206238 NM_172424 ENSMUSG00000018076 Med13l 2210413I17Rik|6330591G05Rik|9030618F05Rik|Thrap2|Trap240L|mKIAA1025 mediator complex subunit 13-like protein-coding 0.258 0.751 0.380 0.512 0.054 0.225 0.318 0.380 0.277 0.214 0.077 0.181 0.155 0.466 0.389 0.289 0.493 3.553 nan 1.171 5.578 nan 1.027 0.556 703 chr11 120657145 120664713 + 0 NA promoter-TSS (NM_175263) promoter-TSS (NM_175263) -92 NM_175263 77583 Mm.32839 NM_175263 ENSMUSG00000042988 Notum 5730593N15Rik notum pectinacetylesterase homolog (Drosophila) protein-coding 5.062 nan 1.369 4.643 4.245 3.470 nan nan 4.808 6.020 2.883 1.716 5.804 7.173 4.053 5.157 4.945 nan 1.596 nan 2.115 1.643 1.750 1.992 4.208 3560 chr9 118515340 118522750 + 0 NA intron (NM_018748, intron 2 of 23) intron (NM_018748, intron 2 of 23) 12727 NM_018748 54214 Mm.10409 NM_018748 ENSMUSG00000038708 Golga4 AI225887|AU019508|Olp-1 golgi autoantigen, golgin subfamily a, 4 protein-coding 5.774 2.569 0.960 6.049 2.282 1.539 6.720 7.201 6.114 10.717 1.193 0.702 6.059 9.594 8.140 9.321 5.329 10.152 2.025 1.021 0.840 1.718 nan 1.046 15.758 3454 chr9 25804216 25806740 + 0 NA Intergenic Lx3_Mus|LINE|L1 323881 NM_026189 67484 Mm.112977 NM_026189 ENSMUSG00000036611 Eepd1 2310005P05Rik|AI481005 endonuclease/exonuclease/phosphatase family domain containing 1 protein-coding 1.126 1.361 0.885 0.869 0.477 0.189 0.721 0.657 1.882 1.214 0.166 0.132 1.451 0.900 1.948 3.379 1.443 1.668 0.641 0.444 0.291 0.409 0.224 0.220 2.452 1134 chr15 75691330 75693442 + 0 NA Intergenic Intergenic -11902 NM_001163465 14787 Mm.57052 NM_008164 ENSMUSG00000022580 Rhpn1 BB023497|Grbp|Rhophilin|mKIAA1929 rhophilin, Rho GTPase binding protein 1 protein-coding 5.773 6.997 3.040 5.281 4.377 2.773 6.741 10.013 3.867 nan 4.556 3.743 4.975 6.268 4.713 4.591 3.828 4.874 2.285 1.475 2.821 nan 2.007 2.822 5.557 3304 chr8 87954512 87957138 + 0 NA intron (NM_033327, intron 1 of 7) intron (NM_033327, intron 1 of 7) 3770 NM_033327 94187 Mm.23452 NM_033327 ENSMUSG00000045333 Zfp423 Ebfaz|Roaz|Zfp104|Znf423|ataxia1|mKIAA0760|nur12 zinc finger protein 423 protein-coding 6.591 7.592 2.793 6.512 3.258 3.012 4.357 4.589 nan 6.586 4.046 1.886 5.215 5.244 5.101 6.136 4.487 4.971 nan 3.312 2.782 5.891 3.515 3.858 6.204 1100 chr15 57814008 57821367 + 0 NA intron (NM_199449, intron 2 of 3) MLTR73|LTR|ERV1 74731 NM_024207 67819 Mm.289387 NM_024207 ENSMUSG00000022365 Derl1 1110021N07Rik|AI195141|AW551338|Derlin-1 Der1-like domain family, member 1 protein-coding 6.379 1.289 0.612 nan 1.256 0.510 4.503 9.252 nan nan 4.611 0.856 3.993 5.389 6.154 6.749 6.672 4.698 0.763 0.779 0.384 1.151 0.620 0.358 9.228 2885 chr6 72188408 72196909 + 0 NA Intergenic Intergenic 42919 NM_153778 71093 Mm.87449 NM_153778 ENSMUSG00000037621 Atoh8 4933425C05Rik|Hath6|Math6|bHLHa21|okadin atonal bHLH transcription factor 8 protein-coding 7.897 1.469 0.567 5.786 3.868 2.062 16.867 9.402 4.970 6.431 4.249 2.267 12.684 14.590 13.482 16.201 8.854 9.998 1.221 1.408 1.183 2.120 1.215 0.943 12.871 2861 chr6 47787518 47791263 + 0 NA Intergenic Intergenic 14262 NR_030485 735289 NR_030485 ENSMUSG00000076060 Mir704 Mirn704|mir-704|mmu-mir-704 microRNA 704 ncRNA 5.249 1.613 1.185 3.014 2.752 2.139 5.072 7.228 2.925 3.137 1.265 0.923 5.370 5.263 6.197 8.308 7.730 5.089 nan 0.885 0.650 0.931 0.719 0.558 7.123 1377 chr16 93013235 93014863 + 0 NA Intergenic Intergenic -187975 NM_001111022 12394 Mm.4081 NM_009821 ENSMUSG00000022952 Runx1 AML1|CBF-alpha-2|Cbfa2|Pebp2a2|Pebpa2b runt related transcription factor 1 protein-coding 3.268 0.912 0.326 0.882 1.621 0.380 1.717 3.881 nan 1.831 4.937 0.873 3.047 4.356 4.160 3.383 1.071 2.792 nan 0.645 0.301 2.028 0.896 0.561 3.747 3106 chr7 35071847 35078710 + 0 NA Intergenic MLT1A0|LTR|ERVL-MaLR -18712 NM_009884 12611 Mm.273090 NM_009884 ENSMUSG00000056216 Cebpg C/EBP[g]|C/EBPgamma|GPE1-BP|Gpe1bp|Ig/EBP CCAAT/enhancer binding protein (C/EBP), gamma protein-coding 4.019 1.211 0.984 5.072 4.384 3.396 2.846 3.266 3.810 2.533 1.970 2.123 3.355 3.124 2.800 2.799 2.814 5.155 1.763 1.194 1.299 2.008 1.298 1.329 2.531 2488 chr4 128903274 128930614 + 0 NA Intergenic RSINE1|SINE|B4 32804 NM_178110 67525 Mm.30653 NM_178110 ENSMUSG00000041000 Trim62 6330414G21Rik|AI450348|Dear1 tripartite motif-containing 62 protein-coding 5.576 1.309 0.619 4.285 4.688 3.155 7.858 6.995 4.393 6.096 5.343 3.140 6.217 8.389 6.961 8.109 4.288 5.991 2.705 2.041 1.703 3.266 2.189 1.861 9.642 1461 chr17 28166023 28174756 + 0 NA intron (NM_001004366, intron 21 of 21) B1F|SINE|Alu -7029 NM_172617 224656 Mm.267359 NM_172617 ENSMUSG00000024220 Zfp523 2810027J07|BC025615|Znf76 zinc finger protein 523 protein-coding 2.912 1.183 0.351 5.881 2.147 1.481 4.026 2.530 3.162 3.281 3.499 1.373 3.472 4.107 4.315 5.717 3.568 5.274 0.915 0.651 0.702 1.617 0.805 0.796 6.614 185 chr1 168930625 168932713 + 0 NA Intergenic L1Md_F2|LINE|L1 441026 NR_105766 102465178 NR_105766 ENSMUSG00000098407 Mir6348 Gm27412|mmu-mir-6348 microRNA 6348 ncRNA 4.753 3.463 0.589 5.605 1.959 1.119 1.740 1.696 nan 6.158 2.214 1.325 2.420 2.479 2.391 2.353 1.546 3.520 1.065 1.124 1.164 nan nan 1.691 6.171 2487 chr4 128781434 128786468 + 0 NA intron (NM_001081098, intron 6 of 8) intron (NM_001081098, intron 6 of 8) 22161 NM_001081098 230761 Mm.22616 NM_001081098 ENSMUSG00000028799 Zfp362 - zinc finger protein 362 protein-coding 3.401 0.512 0.373 1.400 0.917 0.418 5.790 6.708 1.657 1.710 0.666 0.892 6.116 4.319 nan 6.963 3.811 3.176 3.222 1.180 0.998 3.521 3.638 2.021 6.067 3188 chr7 127266486 127268836 + 0 NA Intergenic ID4_|SINE|ID 6398 NM_009266 20768 Mm.20294 NM_009266 ENSMUSG00000049091 Sephs2 Sps2|Ysg3 selenophosphate synthetase 2 protein-coding 7.143 1.311 0.746 4.142 2.463 1.185 3.271 3.538 3.920 4.807 1.768 1.123 6.150 5.672 4.720 6.128 6.087 4.745 1.041 1.240 0.551 0.788 0.823 0.504 7.518 1719 chr19 5484108 5488337 + 0 NA intron (NM_027877, intron 5 of 15) intron (NM_027877, intron 5 of 15) 2114 NM_027877 71711 Mm.27697 NM_027877 ENSMUSG00000024906 Mus81 1200008A18Rik|AI182501|AW045863 MUS81 structure-specific endonuclease subunit protein-coding 6.227 4.019 1.322 6.010 2.372 1.258 6.140 6.471 nan 5.927 2.702 1.363 6.165 8.284 6.578 8.908 5.337 7.207 1.822 1.254 0.837 3.555 1.742 1.247 17.144 2716 chr5 106304202 106306577 + 0 NA Intergenic MTE2a|LTR|ERVL-MaLR -15951 NR_136913 102635633 Mm.383511 NR_136913 ENSMUSG00000105508 Gm32921 - predicted gene, 32921 ncRNA 8.421 7.460 1.943 8.743 5.343 4.350 7.708 8.907 5.571 10.731 7.682 3.669 5.592 9.235 8.374 9.715 6.181 7.618 nan 2.227 2.087 4.439 2.663 4.317 10.962 4 chr1 6717899 6727740 + 0 NA intron (NM_001244693, intron 2 of 22) intron (NM_001244693, intron 2 of 22) -7232 NR_045189 240690 Mm.234612 NM_173868 ENSMUSG00000033740 St18 AV348974|Myt3|NZF-3|Nzf3|mKIAA0535 suppression of tumorigenicity 18 protein-coding 0.435 0.410 0.419 0.367 0.143 0.096 0.185 0.314 0.284 0.260 0.151 0.224 0.206 0.207 0.261 0.573 0.505 0.341 8.397 3.548 1.677 5.419 5.244 3.615 0.226 1985 chr2 144415136 144416404 + 0 NA Intergenic (TGGG)n|Simple_repeat|Simple_repeat -43510 NR_033459 668917 Mm.152805 NR_033459 ENSMUSG00000083674 Zfp133-ps OTTMUSG00000003825|Zfp133 zinc finger protein 133, pseudogene pseudo 1.817 0.347 0.243 0.770 1.877 0.719 2.028 5.206 1.708 1.601 0.950 0.377 1.718 3.388 2.802 1.808 1.811 3.186 2.986 0.535 0.145 0.672 1.822 0.853 1.129 2669 chr5 64749974 64751923 + 0 NA Intergenic (TC)n|Simple_repeat|Simple_repeat -52575 NM_008453 16599 Mm.392759 NM_008453 ENSMUSG00000029178 Klf3 9930027G08Rik|AL024007|Bklf|Tef-2 Kruppel-like factor 3 (basic) protein-coding 2.303 4.166 0.985 5.798 0.765 0.513 0.704 0.959 2.375 1.481 2.977 2.190 1.136 2.201 2.471 2.232 0.664 3.345 0.832 0.476 0.629 nan 0.303 0.207 1.841 1691 chr18 80783055 80785877 + 0 NA intron (NM_001201569, intron 13 of 29) intron (NM_001201569, intron 13 of 29) -71395 NM_001164109 18018 Mm.329560 NM_016791 ENSMUSG00000033016 Nfatc1 2210017P03Rik|AI449492|AV076380|NF-ATc|NFAT2|NFATc|Nfatcb nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 protein-coding 1.206 nan 0.477 1.247 1.574 0.698 1.605 1.830 4.080 nan 0.807 0.317 4.784 5.483 2.612 3.994 2.059 2.299 1.502 nan 0.469 2.111 1.058 0.445 4.011 3567 chrX 13231170 13233798 + 0 NA Intergenic B4A|SINE|B4 3799 NR_045430 72122 Mm.75434 NR_045429 ENSMUSG00000100714 2010308F09Rik - RIKEN cDNA 2010308F09 gene ncRNA 4.545 5.078 3.053 4.033 1.703 0.832 0.864 1.620 2.533 2.453 2.060 1.061 1.302 1.944 2.114 1.833 2.051 2.854 1.336 2.385 0.692 1.153 0.920 0.768 1.619 2003 chr2 152118964 152121182 + 0 NA Intergenic Intergenic 14549 NM_029688 76650 Mm.218639 NM_029688 ENSMUSG00000032802 Srxn1 1700127B04Rik|AI854065|AW488194|Npn3|Srx|Srx1|TX01 sulfiredoxin 1 homolog (S. cerevisiae) protein-coding 7.180 7.367 2.087 7.422 4.859 2.611 5.345 8.682 4.676 8.473 5.103 2.424 6.131 7.108 5.778 9.103 6.047 7.135 nan 2.985 1.781 4.952 3.248 2.960 9.687