PeakID (cmd=annotatePeaks.pl merged_SE_SSE2_MS9.GO0043565.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 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 1801 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 71 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 1648 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 1481 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 2266 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 1178 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 1387 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 3.897 512 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 1932 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 463 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 2.262 517 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 5.000 458 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 1785 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 1250 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 1363 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 8.903 722 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 1109 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 2067 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 1630 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 1597 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 1.683 728 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 1244 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 2154 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 1638 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 2.047 742 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 29 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 1.710 350 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 1969 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 1810 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 2203 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 58 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 6.079 153 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 1546 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 1.661 101 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 1.537 340 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 2.301 311 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 11.818 825 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 5.586 917 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 7.218 495 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 1703 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 2086 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 1322 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 1816 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 1172 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 1259 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 7.282 834 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 3.598 285 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 1216 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 2285 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 2274 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 2194 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 1135 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 2002 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 1203 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 96 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 2088 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 1068 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 1667 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 2114 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 10.302 486 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 2134 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 1354 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 8.302 569 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 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 2045 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 1396 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 6.803 686 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 1760 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 2033 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 5.268 391 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 0.379 943 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 1887 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 1375 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 4.477 180 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 1585 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 1877 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 1.882 246 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 2227 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 3.049 690 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 1168 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 61 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 3.810 536 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 1767 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 1653 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 2237 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 1688 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 1266 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 1458 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 6.126 444 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 4.882 508 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 1336 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 39 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 1089 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 8.314 558 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 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 1554 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 2168 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 2.219 573 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 1084 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 638 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 6.872 875 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 1522 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 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 4.911 506 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 11.230 136 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 116 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 1197 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 1580 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 2146 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 6.310 661 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 1935 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 1.499 581 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 11.275 308 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 8.828 678 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 1517 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 1975 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 1973 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 1991 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 4.113 927 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 6.813 301 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 2302 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 51 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 1758 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 1822 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 4.716 456 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 6.111 652 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 1033 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 2258 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 2034 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 1539 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 2029 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 5.102 796 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 7.757 366 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 2.233 844 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 1541 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 4.301 272 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 0.305 775 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 2108 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 20 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 8.315 888 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 1983 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 1011 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 1754 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 1627 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 1161 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 12.149 468 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 2093 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 1019 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 5.385 700 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 1927 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 78 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 1380 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 5.800 990 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 6.819 413 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 9.536 294 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 2218 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 1614 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 1442 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 10.980 764 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 11.530 349 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 1743 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 2075 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 1981 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 2081 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 1383 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 7.772 606 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 3.817 137 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 1414 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 1855 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 4.891 666 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 5.686 432 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 1074 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 15.125 860 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 2308 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 1567 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 1063 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 1776 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 2158 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 0.847 708 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 1601 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 14.232 710 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 1656 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 9.456 323 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 4.889 856 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 2142 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 1834 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 1664 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 3.134 112 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 11.339 545 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 11.053 191 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 1.607 187 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 14.230 588 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 1684 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 20.478 756 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 1283 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 8.240 262 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 1944 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 3.111 212 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 1331 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 2.296 542 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 1305 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 2.912 961 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 2099 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 1662 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 6.805 574 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 3.880 170 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 1921 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 6.320 660 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 26 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 2116 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 5.714 977 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 2250 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 13.376 566 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 9.716 526 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 1901 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 359 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 1229 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 2299 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 7.881 108 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 604 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 1001 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 4.575 232 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 14.165 477 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 1338 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 1182 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 10.241 225 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 1447 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 3.834 330 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 142 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 2.358 207 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 1510 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 48 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 1857 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 7.568 360 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 1988 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 1076 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 5.762 766 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 7.005 449 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 1574 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 1579 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 1.134 659 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 1141 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 2.965 682 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 3.613 353 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 7.302 375 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 2.534 984 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 1155 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 1485 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 7.050 788 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 6.684 128 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 501 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 1313 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 278 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 1617 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 4.960 490 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 1843 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 5.663 155 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 4.440 387 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 1913 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 1112 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 2.597 626 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 1294 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 5.345 461 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 1562 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 1426 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 16.013 257 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 1358 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 5.384 951 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 1.056 782 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 85 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 12.566 809 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 2200 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 1156 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 2281 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 1557 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 1486 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 3.129 425 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 2056 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 5.536 736 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 3.374 539 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 5.885 781 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 1950 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 1698 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 1.427 520 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 2037 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 8.907 532 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 1193 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 55 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 1890 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 1681 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 57 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 8.861 872 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 1146 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 4.590 395 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 89 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 175 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 9.928 584 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 6.876 988 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 35 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 2295 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 1882 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 1550 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 1454 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 1421 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 7.832 665 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 1476 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 1207 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 1584 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 5.309 904 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 12.955 930 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 1675 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 5.402 649 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 2150 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 1318 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 2.757 648 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 4.388 642 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 2006 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 2245 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 1764 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 2130 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 1908 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 1028 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 1589 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 6.136 198 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 1718 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 1098 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 1059 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 1.930 913 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 2019 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 8.423 202 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 5.789 361 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 184 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 776 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 2183 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 1819 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 1459 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 1570 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 1984 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 1269 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 181 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 1.940 412 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 5.070 307 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 1671 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 2041 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 1467 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 1463 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 830 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 8.383 154 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 2062 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 1101 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 3.134 704 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 9.253 326 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 1462 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 1165 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 2.496 681 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 7.772 335 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 1029 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 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 2105 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 1957 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 1.698 554 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 12.129 552 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 1867 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 1623 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 74 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 2.426 890 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 10.247 440 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 1926 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 1289 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 0.444 299 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 2024 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 1282 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 1694 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 3.791 841 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 1898 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 1044 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 1350 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 1751 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 91 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 2137 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 1240 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 3.980 467 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 2121 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 6.864 474 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 1.672 481 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 15.267 867 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 1976 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 5.470 817 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 1.777 563 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 6.627 229 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 3.460 673 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 68 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 2059 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 0.436 315 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 1827 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 1947 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 1347 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 222 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 1504 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 25 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 2270 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 4.264 305 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 1253 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 15.593 928 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 1644 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 1526 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 0.802 217 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 1730 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 7.653 158 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 6.222 281 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 46 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 1851 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 1316 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 1418 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 36 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 2263 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 1368 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 2.742 748 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 3.013 472 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 1655 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 1943 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 4.197 317 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 711 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 9.819 132 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 1791 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 1254 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 1642 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 8.838 892 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 2180 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 2071 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 1428 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 1.394 546 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 4.059 537 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 1018 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 1125 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 2279 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 1007 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 1443 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 6.351 741 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 1833 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 1186 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 5.292 998 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 1789 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 2240 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 2076 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 0.905 529 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 1545 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 1838 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 1773 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 1058 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 14.763 987 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 1150 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 1535 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 1335 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 13.751 908 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 5.138 284 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 1340 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 903 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 3.212 247 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 6.335 165 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 12.477 289 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 6.906 729 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 2119 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 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 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 4.252 845 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 2125 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 1847 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 1231 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 1249 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 2.645 147 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 2.293 973 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 1046 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 1142 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 2095 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 1291 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 0.545 319 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 1179 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 1052 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 1922 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 11.722 735 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 1493 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 0.565 974 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 1271 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 1668 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 1715 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 2.108 344 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 1613 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 2103 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 7.867 636 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 1710 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 1406 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 1104 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 2224 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 1133 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 6.033 209 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 1905 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 1118 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 1575 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 6.364 117 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 2207 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 3.256 600 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 80 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 0.805 336 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 2.014 457 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 1301 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 9.687 821 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 3.188 696 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 2.316 383 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 1873 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 1721 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 2179 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 2172 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 1431 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 92 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 1489 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 1212 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 2253 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 1805 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 1727 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 1477 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 1164 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 9.239 505 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 7.858 670 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 1094 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 1.683 419 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 2178 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 0.497 995 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 1225 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 17.863 837 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 2015 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 11.651 290 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 625 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 1.154 149 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 2.334 712 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 7.062 210 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 7.771 406 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 2289 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 2312 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 19 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 1030 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 6.519 365 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 4.456 763 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 2021 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 1895 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 2038 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 5.735 570 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 1880 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 3.451 252 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 1159 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 15.324 883 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 2048 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 11.674 655 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 11.693 421 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 1998 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 1367 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 6.840 271 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 1070 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 1024 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 20.552 491 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 1863 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 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 13.086 105 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 1514 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 11.073 840 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 1647 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 1.138 597 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 5.861 111 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 1411 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 4.827 408 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 1480 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 0.638 242 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 10.588 559 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 1588 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 32 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 2.319 443 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 2234 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 1795 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 580 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 1257 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 6.489 846 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 31 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 1689 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 2307 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 1861 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 1296 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 1553 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 2161 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 1303 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 2133 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 1654 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 1.373 968 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 11.864 675 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 15 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 8.433 431 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 10.073 382 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 2236 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 1506 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 12.100 139 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 8.868 129 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 926 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 2145 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 1246 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 859 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 1083 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 4.115 739 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 1293 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 2.380 876 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 1792 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 7.198 662 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 5.463 168 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 2.448 135 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 1518 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 3.296 145 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 1.232 178 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 1131 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 1876 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 5.952 124 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 5.345 772 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 1759 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 1429 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 1974 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 2032 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 1374 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 1528 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 2303 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 6.181 653 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 1692 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 2259 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 9.832 509 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 2212 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 1015 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 5.833 367 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 7.315 976 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 13.336 716 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 1886 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 1821 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 1972 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 14.530 940 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 6.323 685 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 2.896 743 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 2265 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 21 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 0.771 523 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 2129 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 1460 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 23.861 453 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 1.583 723 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 1202 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 12.509 351 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 1040 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 14.017 595 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 1755 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 1138 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 21.158 488 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 1854 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 1012 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 1498 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 0.621 835 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 2182 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 1267 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 1032 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 5.175 113 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 11.420 901 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 2191 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 14.242 152 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 0.613 342 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 1419 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 1.143 862 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 9.673 341 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 1056 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 2189 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 2287 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 2284 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 64 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 1473 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 1.917 881 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 45 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 0.767 405 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 8.334 507 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 1173 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 1963 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 5.872 309 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 1734 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 2085 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 1733 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 2113 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 2153 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 1258 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 824 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 6.981 120 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 1148 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 1.820 254 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 1.048 392 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 1321 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 2242 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 2254 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 1987 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 11.708 813 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 2014 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 12.411 644 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 851 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 1820 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 0.602 399 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 2296 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 2110 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 1811 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 436 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 1342 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 1968 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 1802 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 94 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 5.586 213 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 1450 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 12.058 568 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 2273 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 1129 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 11.338 791 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 1143 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 1355 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 2231 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 1961 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 5.528 386 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 0.239 916 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 2043 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 1457 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 6.285 200 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 1261 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 1352 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 5.072 329 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 525 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 1621 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 27 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 10.153 787 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 1902 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 1561 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 3.865 161 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 1866 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 2001 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 1310 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 7.039 109 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 2115 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 1239 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 0.753 769 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 1556 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 1181 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 1809 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 0.613 803 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 1766 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 60 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 1245 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 1400 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 1067 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 13.693 691 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 1676 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 1388 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 1.651 346 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 4.720 911 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 9.775 427 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 2072 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 82 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 2202 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 8.686 650 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 1154 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 7.126 895 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 1763 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 69 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 1910 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 1157 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 1470 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 3.055 224 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 2100 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 1982 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 1006 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 13.870 426 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 3.691 996 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 1435 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 1840 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 8.899 279 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 2069 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 9.057 956 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 3.112 483 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 7.314 498 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 5.974 629 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 2055 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 1487 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 2.635 372 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 2028 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 1540 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 1661 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 1330 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 1284 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 1606 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 2064 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 1160 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 99 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 869 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 1592 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 1933 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 2022 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 5.182 790 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 16.498 533 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 2080 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 1122 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 1697 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 1053 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 1.141 414 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 7.084 462 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 1770 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 1209 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 0.779 263 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 0.318 991 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 2.771 931 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 2246 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 5.462 615 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 476 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 1198 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 1626 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 1409 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 2219 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 2141 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 1077 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 1716 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 0.608 293 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 1272 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 1781 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 1299 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 1663 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 5.545 967 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 2157 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 1611 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 6.655 322 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 2.903 469 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 4.401 635 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 1088 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 0.995 575 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 1835 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 1566 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 0.954 979 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 9.227 709 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 40 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 4.305 310 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 7.922 192 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 1.748 699 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 1115 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 10.321 960 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 4.130 818 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 1038 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 2293 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 1707 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 10.426 267 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 1.237 543 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 1892 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 1777 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 2044 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 2.488 354 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 1437 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 1064 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 7.203 757 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 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 1217 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 1740 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 1600 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 3.341 603 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 90 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 1850 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 1.720 565 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 1346 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 1964 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 3.344 850 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 13.721 891 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 1004 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 2106 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 1360 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 233 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 1013 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 1490 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 2198 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 1693 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 15.280 316 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 1806 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 2288 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 1738 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 2025 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 1370 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 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 2.296 511 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 12.209 842 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 9.063 899 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 2000 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 5.320 199 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 1979 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 1899 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 1929 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 1737 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 1948 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 2.913 795 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 1609 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 11.615 794 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 8.395 944 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 1780 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 1113 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 2122 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 3.424 674 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 2280 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 1317 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 280 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 5.876 957 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 2.273 273 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 0.631 471 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 1503 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 2262 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 1509 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 1936 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 1325 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 1643 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 4.752 131 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 1565 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 1.055 502 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 1286 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 2.279 314 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 1796 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 1502 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 1872 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 6.558 355 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 13.828 553 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 2058 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 1252 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 5.679 555 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 1037 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 37 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 3.663 855 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 1.005 195 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 2005 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 1706 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 1839 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 1788 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 2186 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 14.717 679 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 4.542 680 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 2.558 831 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 1147 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 1960 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 1241 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 1441 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 6.071 647 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 1206 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 6.662 334 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 2292 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 1997 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 1027 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 1680 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 4.685 423 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 1953 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 1139 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 1319 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 1826 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 2077 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 1222 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 2036 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 1747 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 4.088 174 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 2.087 820 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 1799 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 1571 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 8.520 422 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 6.011 905 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 1552 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 1194 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 41 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 52 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 1451 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 1.443 302 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 1453 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 1.817 866 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 2223 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 1.323 593 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 1.752 770 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 12.236 188 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 5.139 402 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 1940 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 1097 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 15.264 641 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 1641 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 6.049 838 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 2.946 616 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 8.452 640 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 1121 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 3.067 870 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 1384 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 8.670 896 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 1468 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 2068 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 1726 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 1464 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 2165 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 1494 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 1.842 777 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 2018 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 1906 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 2.397 464 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 1672 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 1685 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 2011 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 1891 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 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 3.057 562 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 1304 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 2269 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 1102 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 4.774 183 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 1478 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 5.989 439 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 7.371 362 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 1379 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 1593 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 12.344 705 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 1720 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 2206 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 2177 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 4.202 407 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 18 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 4.749 376 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 4.528 912 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 1432 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 4.029 785 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 1930 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 599 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 1393 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 1167 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 13.840 587 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 609 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 1235 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 4.668 298 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 95 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 7.172 923 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 3.950 243 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 2051 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 1.999 148 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 3.471 753 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 1343 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 10.583 726 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 2171 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 4.056 106 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 157 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 3.595 964 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 2009 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 65 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 1909 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 2.263 935 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 7.171 203 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 1213 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 1093 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 81 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 1023 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 2084 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 1300 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 1199 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 86 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 4.865 624 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 1158 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 2170 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 0.463 371 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 656 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 0.360 204 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 1041 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 1990 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 1.245 435 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 6.479 814 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 1482 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 2109 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 8.074 885 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 1412 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 0.603 884 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 1709 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 5.206 339 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 4.700 228 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 1.168 749 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 3.129 268 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 1.142 829 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 0.850 345 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 9.215 596 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 1297 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 2090 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 1521 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 1862 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 4.650 613 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 1082 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 1066 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 5.271 121 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 5.178 952 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 1071 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 6.553 494 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 4.208 487 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 1956 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 2235 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 9.147 238 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 8.328 873 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 3.296 253 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 1.228 448 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 2278 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 63 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 1637 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 7.813 179 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 1532 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 1105 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 4.615 713 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 1334 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 2096 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 1784 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 1.134 938 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 2149 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 1679 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 1830 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 1620 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 2241 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 1262 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 1290 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 1527 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 2162 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 1132 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 6.163 929 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 1925 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 5.140 547 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 1.844 631 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 1616 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 1583 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 1544 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 1538 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 9.631 396 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 7.838 258 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 1422 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 8.997 482 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 4.779 949 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 4.585 499 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 1047 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 2138 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 1055 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 1276 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 3.304 141 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 14.021 909 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 1124 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 1230 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 75 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 1917 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 1163 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 4.433 450 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 1702 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 1405 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 1713 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 1060 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 2104 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 2126 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 4.388 900 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 2.661 318 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 1729 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 3.206 972 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 6.525 473 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 1774 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 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 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 2.476 146 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 1351 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 9.665 356 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 2.714 802 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 2063 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 11.373 528 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 7.742 164 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 3.495 807 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 2040 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 1049 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 10.838 882 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 1050 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 1488 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 2.957 560 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 5.738 798 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 6.418 898 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 1031 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 1273 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 5.626 451 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 20.575 454 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 1364 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 1408 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 3.414 634 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 3.722 578 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 14.050 695 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 1.403 978 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 2144 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 4.095 325 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 5.194 378 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 3.725 889 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 1233 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 6.802 540 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 1162 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 1615 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 2.232 211 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 11.460 684 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 2073 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 1732 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 2.188 861 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 5.996 337 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 76 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 1924 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 11.845 982 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 2.493 571 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 1214 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 1190 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 13.457 389 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 1660 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 1171 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 1345 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 2290 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 10.694 966 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 1123 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 2216 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 0.565 992 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 5.530 236 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 10.900 758 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 1954 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 218 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 5.786 706 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 14 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 1608 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 2.871 234 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 6.367 594 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 1438 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 1903 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 2188 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 1778 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 1859 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 3.387 160 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 98 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 1048 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 1278 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 1000 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 1381 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 43 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 1061 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 2054 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 1728 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 8.318 193 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 4.163 288 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 5.724 119 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 1555 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 7.197 586 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 410 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 5.614 999 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 1180 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 2169 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 0.367 430 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 1185 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 3.376 447 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 1446 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 1741 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 2118 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 3.634 415 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 1130 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 1315 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 4.462 189 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 1292 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 1356 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 12.531 480 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 0.592 107 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 17.172 438 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 1153 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 1871 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 87 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 1022 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 1832 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 2.398 953 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 2.919 221 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 1424 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 1560 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 6.903 417 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 1.619 784 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 1762 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 260 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 2061 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 1844 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 1530 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 4.036 762 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 1144 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 17.467 734 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 1723 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 2047 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 3.077 144 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 1440 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 3.454 381 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 1471 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 1814 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 906 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 2205 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 1349 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 6.281 177 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 2213 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 0.816 373 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 2078 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 3.304 773 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 1247 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 22 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 5.056 205 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 1309 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 1752 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 1576 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 1622 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 1260 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 4.189 874 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 4.319 975 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 10.876 493 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 1708 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 2220 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 1436 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 1911 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 1591 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 1677 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 2199 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 2174 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 1320 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 1026 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 1390 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 1993 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 1893 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 1469 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 1499 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 1646 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 7.808 400 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 6.547 534 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 7.873 746 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 1.795 919 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 6.956 744 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 1268 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 633 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 1372 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 11.438 151 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 1977 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 2023 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 1669 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 1825 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 1285 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 1952 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 287 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 7.437 475 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 4.761 932 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 1549 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 1959 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 9.588 515 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 1525 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 1242 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 10.727 138 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 1107 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 1208 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 1874 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 1803 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 6.985 724 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 1201 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 7.668 519 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 1195 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 17 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 1327 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 2192 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 1274 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 4.639 110 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 333 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 1995 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 2210 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 1.228 646 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 446 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 2181 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 2229 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 1220 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 1582 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 1599 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 2306 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 1149 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 2283 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 2243 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 1087 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 1288 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 1.129 810 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 1238 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 33 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 1587 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 1559 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 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 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 3.370 227 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 1701 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 1860 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 1937 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 2013 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 8.684 255 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 8.379 264 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 0.817 806 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 2230 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 1885 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 2.106 182 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 1817 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 556 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 6.783 717 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 6.216 815 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 7.653 671 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 1511 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 2249 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 10.129 167 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 2.121 692 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 1605 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 0.853 663 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 1907 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 1.537 854 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 1945 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 969 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 1174 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 1946 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 510 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 16.800 393 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 2276 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 1501 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 5.280 658 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 1.038 274 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 0.307 549 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 6.660 877 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 1508 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 1128 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 1771 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 5.159 946 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 1724 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 1520 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 2148 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 3.895 250 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 1.068 303 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 1361 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 614 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 1765 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 2.617 130 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 53 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 1373 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 1465 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 1302 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 2239 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 1397 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 7.702 941 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 7.738 583 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 1879 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 1824 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 1869 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 9.391 591 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 2304 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 1.698 832 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 2135 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 1.823 828 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 2.835 276 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 0.358 102 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 1920 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 1831 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 1218 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 1404 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 1543 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 5.907 259 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 1.805 424 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 1625 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 9.865 163 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 1106 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 1402 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 1836 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 1531 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 1841 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 7.465 347 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 1333 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 6.004 434 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 9.984 865 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 1184 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 5.528 442 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 2156 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 1577 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 1572 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 9.330 689 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 10.554 886 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 1116 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 1329 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 1725 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 2.345 727 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 6.829 320 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 8.291 939 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 3.571 811 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 1670 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 2010 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 2.035 465 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 1.186 249 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 1612 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 2.710 819 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 1177 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 1189 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 1127 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 1537 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 2.615 894 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 1748 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 2127 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 3.876 858 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 1298 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 4.664 140 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 2222 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 1900 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 16.338 385 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 0.632 954 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 1359 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 1479 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 4.309 801 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 5.940 985 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 7.770 971 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 5.995 754 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 8.691 479 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 4.282 847 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 1166 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 2166 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 1563 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 1003 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 1378 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 1054 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 1800 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 2101 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 14.505 619 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 1717 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 1.055 698 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 1634 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 0.755 621 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 2.280 524 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 2176 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 1848 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 2310 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 6.480 598 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 780 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 4.493 240 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 1433 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 1666 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 2209 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 15.622 230 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 5.376 115 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 4.826 377 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 2050 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 1.926 602 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 2.513 922 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 1311 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 1072 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 1787 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 1394 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 2.198 612 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 936 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 1391 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 2251 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 1277 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 1086 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 4.061 701 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 5.271 214 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 18.581 564 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 1650 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 2074 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 5.779 731 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 1967 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 6.990 657 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 2139 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 1865 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 1783 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 3.275 768 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 1928 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 1092 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 2.274 503 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 2255 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 1756 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 1636 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 1483 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 9.807 338 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 3.404 576 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 2.830 761 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 1996 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 3.347 738 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 1775 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 1415 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 6.948 484 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 1036 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 1078 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 1243 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 2065 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 1265 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 4.316 544 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 2.006 623 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 1512 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 1196 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 1114 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 7.033 328 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 13.478 239 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 4.897 122 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 3.972 269 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 3.982 628 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 0.723 878 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 1223 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 2277 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 13.127 363 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 9.373 733 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 2159 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 2.465 630 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 10.994 997 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 1449 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 2.181 608 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 1234 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 1649 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 2226 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 1314 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 1798 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 1474 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 4.909 125 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 522 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 1632 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 44 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 1423 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 2152 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 1687 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 6.624 667 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 1188 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 2008 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 1.019 714 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 1280 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 1564 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 7.189 313 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 2017 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 1324 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 397 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 1096 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 1657 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 2185 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 1191 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 5.292 459 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 9.054 823 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 1495 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 0.731 771 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 1753 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 13.850 401 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 18.274 186 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 1797 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 1119 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 1914 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 1705 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 1919 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 1938 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 5.421 915 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 1586 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 1986 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 1456 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 6.260 404 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 6.889 516 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 1813 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 2004 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 2060 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 1551 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 3.816 702 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 2297 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 2163 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 2214 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 2195 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 561 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 2112 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 2221 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 1.182 357 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 1307 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 1812 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 1941 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 1769 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 2.612 455 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 1875 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 1673 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 2132 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 10.396 297 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 3.252 963 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 2031 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 2272 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 1889 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 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 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 1596 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 1.251 550 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 2083 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 2097 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 1081 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 1651 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 0.630 958 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 1569 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 1736 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 3.778 592 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 2123 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 1978 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 1640 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 9.269 173 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 23.981 530 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 66 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 3.305 470 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 2026 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 1524 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 5.685 793 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 1205 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 1287 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 1696 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 6.311 654 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 2261 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 6.484 283 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 4.106 156 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 59 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 2091 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 1971 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 1226 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 1256 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 1949 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 2247 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 1744 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 1853 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 17.155 864 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 2.034 219 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 1016 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 2300 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 2.410 799 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 1170 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 10.287 925 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 1896 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 2.894 390 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 1042 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 1515 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 1686 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 38 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 1955 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 196 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 2.560 945 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 1169 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 4.204 206 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 1.074 118 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 3.371 959 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 1674 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 1.057 358 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 4.499 331 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 1065 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 1659 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 4.287 737 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 4.126 767 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 2228 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 2070 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 2173 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 1020 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 2.439 805 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 84 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 2.432 437 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 3.426 194 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 1768 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 2.712 220 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 1312 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 1021 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 1263 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 7.830 934 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 1989 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 7.983 948 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 2160 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 5.185 572 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 1398 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 10.874 226 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 12.215 527 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 1430 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 1145 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 1870 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 1448 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 62 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 2.528 833 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 1472 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 1573 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 4.539 548 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 2020 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 1110 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 2204 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 1999 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 1772 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 2.681 418 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 7.977 933 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 2.412 783 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 2217 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 1357 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 9.552 348 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 1152 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 0.658 789 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 49 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 2046 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 2052 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 3.148 993 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 8.337 627 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 1090 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 1308 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 2117 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 3.729 715 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 1934 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 2201 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 1916 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 23 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 1722 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 2.442 388 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 1.121 364 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 1425 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 6.851 950 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 1445 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 1678 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 1845 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 1025 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 1992 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 1842 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 1466 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 12.300 485 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 2143 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 1.281 778 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 6.170 720 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 1270 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 460 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 1645 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 4.553 324 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 1389 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 10.990 244 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 14.671 637 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 2066 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 9.478 752 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 1232 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 13.392 379 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 1607 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 1386 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 1536 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 1639 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 1035 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 2.118 452 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 2.280 579 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 9.507 295 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 1894 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 1.239 535 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 1618 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 77 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 3.538 683 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 2260 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 12.552 541 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 1215 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 1712 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 2.021 765 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 1.468 897 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 16.643 312 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 1628 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 1002 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 2.059 237 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 12.020 370 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 567 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 22.704 416 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 1.077 914 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 5.078 380 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 2.976 100 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 965 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 8.726 300 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 1279 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 1439 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 2079 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 5.659 286 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 1395 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 1075 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 800 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 2232 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 1365 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 1407 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 5.182 496 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 13.493 605 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 1779 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 1568 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 6.687 607 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 1807 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 1699 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 42 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 1.849 759 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 1228 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 7.867 235 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 1073 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 2291 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 2187 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 1931 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 1.694 694 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 2.951 816 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 1103 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 2244 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 7.815 296 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 265 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 1062 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 2.302 171 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 1700 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 1.354 445 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 2131 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 1339 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 2012 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 5.397 582 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 1884 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 2120 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 1858 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 5.248 557 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 4.095 718 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 2147 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 1581 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 1507 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 1604 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 9.255 441 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 3.360 868 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 1.873 672 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 1140 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 16.576 983 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 15.307 275 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 2035 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 4.043 197 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 2208 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 1731 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 13.182 853 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 11.305 751 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 1500 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 1746 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 2167 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 2136 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 1980 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 2275 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 1295 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 1.165 677 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 1111 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 7.640 907 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 2238 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 1868 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 3.518 590 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 1210 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 0.637 664 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 1790 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 1878 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 2264 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 1690 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 2.799 617 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 79 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 1420 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 13.534 352 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 16.995 126 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 251 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 1034 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 1594 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 8.512 369 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 1533 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 1548 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 1.018 651 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 8.915 176 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 7.412 947 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 5.460 256 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 1823 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 2267 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 7.809 920 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 4.536 428 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 2305 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 5.657 887 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 72 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 5.488 500 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 1221 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 1496 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 1200 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 1757 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 9.863 918 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 1682 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 1413 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 2107 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 1108 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 1275 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 2211 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 1598 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 2282 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 1014 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 3.983 843 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 1856 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 1491 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 1362 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 1804 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 1.819 632 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 6.522 394 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 1371 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 2257 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 11.727 610 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 2.318 514 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 6.495 725 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 1.321 513 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 50 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 1519 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 1994 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 9.430 797 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 2197 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 1136 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 1175 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 1236 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 1683 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 15.256 645 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 1326 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 1382 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 1176 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 1452 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 1039 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 1815 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 1005 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 28 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 2089 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 8.109 589 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 2087 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 1337 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 3.810 215 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 1.024 687 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 2098 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 2184 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 14.303 150 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 2298 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 3.718 245 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 2190 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 10.689 826 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 1344 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 9.933 332 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 1099 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 1965 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 4.676 745 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 34 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 2082 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 5.613 620 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 1410 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 1434 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 1547 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 3.419 937 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 1045 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 1619 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 3.312 730 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 16 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 5.048 921 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 1069 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 2311 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 1224 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 11.619 368 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 994 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 5.580 611 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 1786 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 1849 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 12.298 849 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 10.705 492 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 4.095 208 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 2140 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 2271 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 1523 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 93 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 5.465 292 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 291 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 374 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 1.872 114 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 429 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 1306 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 1939 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 1328 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 73 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 1.354 409 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 1091 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 67 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 2.418 812 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 1.452 241 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 1958 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 1962 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 9.986 489 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 10.063 585 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 327 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 1392 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 1970 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 1080 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 1281 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 9.696 732 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 1864 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 2233 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 1603 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 7.543 622 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 1881 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 2.524 970 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 24 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 1416 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 2256 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 2049 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 1658 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 13.375 104 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 2057 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 1558 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 1237 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 1635 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 2175 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 1513 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 1264 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 8.923 747 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 0.762 159 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 1633 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 47 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 1427 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 1942 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 1484 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 1017 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 5.125 270 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 1057 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 2042 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 2.876 538 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 1602 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 2.560 521 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 2007 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 1332 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 162 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 1923 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 4.719 880 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 6.886 433 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 2164 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 1399 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 1912 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 5.293 986 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 2.991 786 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 10.805 740 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 1117 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 1008 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 1.175 103 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 201 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 16.562 871 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 1401 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 2.541 719 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 1529 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 0.718 902 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 4.803 827 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 3.123 266 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 2039 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 1353 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 1742 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 1624 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 1219 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 1695 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 97 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 1704 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 3.360 668 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 750 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 5.557 688 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 1749 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 6.651 774 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 1126 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 2128 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 9.608 910 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 4.947 693 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 1341 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 1534 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 3.289 893 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 2309 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 1915 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 9.344 804 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 83 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 1385 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 1818 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 2094 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 5.006 962 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 11.577 755 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 1085 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 1714 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 1837 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 8.431 143 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 1403 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 1051 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 2268 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 1497 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 0.613 518 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 20.135 497 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 1211 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 2155 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 3.298 169 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 1.948 411 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 1542 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 1711 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 2102 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 3.389 478 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 0.676 384 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 2.665 398 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 11.242 836 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 2016 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 1.932 955 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 9.916 942 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 1735 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 1376 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 1888 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 2030 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 2286 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 1595 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 6.030 190 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 1750 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 1808 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 7.305 822 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 2.669 601 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 1739 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 0.347 231 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 1610 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 5.442 779 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 5.068 551 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 10.221 343 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 0.764 504 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 4.301 981 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 6.304 697 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 2.298 857 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 1010 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 5.118 707 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 1966 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 1665 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 3.081 261 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 1782 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 2252 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 3.772 321 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 1.360 792 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 1079 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 1248 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 1590 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 1652 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 1516 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 2053 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 12.027 924 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 2301 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 3.395 760 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 5.782 863 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 0.938 531 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 2027 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 1.100 172 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 1745 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 2111 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 1366 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 15.889 223 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 2124 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 0.687 721 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 1897 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 1043 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 1255 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 4.333 669 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 282 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 7.000 420 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 1852 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 2.576 639 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 5.402 989 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 1505 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 1348 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 2248 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 14.232 577 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 1137 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 1227 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 1417 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 3.214 216 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 2.271 852 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 5.539 643 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 1951 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 1120 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 1475 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 1794 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 1187 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 2193 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 2092 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 3.354 676 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 1251 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 4.585 277 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 1192 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 3.005 879 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 1095 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 1183 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 1444 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 1883 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 1846 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 2215 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 3.564 133 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 123 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 5.048 304 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 1631 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 1828 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 2294 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 56 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 1369 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 54 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 1151 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 1.170 306 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 1204 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 70 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 3.216 839 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 10.692 166 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 2225 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 88 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 1578 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 1009 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 30 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 6.804 403 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 8.786 466 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 5.506 134 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 2151 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 12.249 618 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 7.981 848 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 1829 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 1904 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 1629 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 1761 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 2196 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 1918 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 1323 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 1455 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 1492 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 0.775 703 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 1134 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 1100 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 1377 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 1461 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 5.161 185 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 1719 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 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 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 1691 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 2003 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