mm10_v2_chr1_-_190170671_190170744	11.9411	Msx2_Hoxd4	ENSMUST00000175916.1|Prox1|ENSMUSG00000010175.7|prospero-related homeobox 1
mm10_v2_chr5_-_62766153_62766246	9.92905	Msx2_Hoxd4	ENSMUST00000076623.4|Arap2|ENSMUSG00000037999.9|ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2
mm10_v2_chr1_-_190170178_190170237	9.17516	Msx2_Hoxd4	ENSMUST00000177288.1|Prox1|ENSMUSG00000010175.7|prospero-related homeobox 1
mm10_v2_chr12_+_38783503_38783527	7.20951	Msx2_Hoxd4	ENSMUST00000159334.1|Etv1|ENSMUSG00000004151.10|ets variant gene 1
mm10_v2_chr15_-_79285502_79285537	6.92372	Msx2_Hoxd4	ENSMUST00000165408.1|Baiap2l2|ENSMUSG00000018126.9|BAI1-associated protein 2-like 2
mm10_v2_chr10_-_33624587_33624769	6.45605	Msx2_Hoxd4	ENSMUST00000160299.1|Clvs2|ENSMUSG00000019785.7|clavesin 2 	ENSMUST00000019920.6|Clvs2|ENSMUSG00000019785.7|clavesin 2
mm10_v2_chr1_-_163725123_163725232	5.0115	Msx2_Hoxd4	ENSMUST00000159679.1|Mettl11b|ENSMUSG00000040113.8|methyltransferase like 11B
mm10_v2_chr14_-_88471396_88471396	4.93157	Msx2_Hoxd4	ENSMUST00000061628.5|Pcdh20|ENSMUSG00000050505.6|protocadherin 20
mm10_v2_chr2_+_125136692_125136769	4.1321	Msx2_Hoxd4	ENSMUST00000099452.2|Ctxn2|ENSMUSG00000074872.2|cortexin 2
mm10_v2_chr3_+_68869563_68869589	3.94717	Msx2_Hoxd4	ENSMUST00000054551.2|1110032F04Rik|ENSMUSG00000046999.2|RIKEN cDNA 1110032F04 gene
mm10_v2_chr6_-_36811361_36811361	3.81364	Msx2_Hoxd4	ENSMUST00000101534.1|Ptn|ENSMUSG00000029838.8|pleiotrophin
mm10_v2_chr14_+_115042752_115042879	3.4843	Msx2_Hoxd4	ENSMUST00000134140.2|Mir17hg|ENSMUSG00000089726.2|Mir17 host gene 1 (non-protein coding)
mm10_v2_chr9_+_22454290_22454290	3.01526	Msx2_Hoxd4	ENSMUST00000168332.1|Gm17545|ENSMUSG00000091159.1|predicted gene, 17545
mm10_v2_chr6_+_124304646_124304671	2.98569	Msx2_Hoxd4	ENSMUST00000112541.2|Cd163|ENSMUSG00000008845.3|CD163 antigen 	ENSMUST00000032234.2|Cd163|ENSMUSG00000008845.3|CD163 antigen
mm10_v2_chr2_+_4017727_4017745	2.74447	Msx2_Hoxd4	ENSMUST00000177457.1|Frmd4a|ENSMUSG00000026657.10|FERM domain containing 4A
mm10_v2_chr3_+_52268337_52268388	2.70505	Msx2_Hoxd4	ENSMUST00000053764.5|Foxo1|ENSMUSG00000044167.5|forkhead box O1
mm10_v2_chrM_+_7759_7927	2.61814	Msx2_Hoxd4	ENSMUST00000082407.1|mt-Atp8|ENSMUSG00000064356.3|mitochondrially encoded ATP synthase 8 	ENSMUST00000082408.1|mt-Atp6|ENSMUSG00000064357.1|mitochondrially encoded ATP synthase 6
mm10_v2_chr18_+_52767994_52768149	2.59776	Msx2_Hoxd4	ENSMUST00000025413.7|Sncaip|ENSMUSG00000024534.9|synuclein, alpha interacting protein (synphilin) 	ENSMUST00000163742.2|Sncaip|ENSMUSG00000024534.9|synuclein, alpha interacting protein (synphilin) 	ENSMUST00000178011.1|Sncaip|ENSMUSG00000024534.9|synuclein, alpha interacting protein (synphilin)
mm10_v2_chr13_+_75967704_75967753	2.43737	Msx2_Hoxd4	ENSMUST00000022081.1|Spata9|ENSMUSG00000021590.6|spermatogenesis associated 9
mm10_v2_chr7_-_101845300_101845339	2.40546	Msx2_Hoxd4	ENSMUST00000094141.5|Folr2|ENSMUSG00000032725.9|folate receptor 2 (fetal)
mm10_v2_chr1_+_165788681_165788728	2.30623	Msx2_Hoxd4	ENSMUST00000161971.1|Cd247|ENSMUSG00000005763.9|CD247 antigen 	ENSMUST00000178336.1|Cd247|ENSMUSG00000005763.9|CD247 antigen 	ENSMUST00000005907.5|Cd247|ENSMUSG00000005763.9|CD247 antigen 	ENSMUST00000027849.4|Cd247|ENSMUSG00000005763.9|CD247 antigen
mm10_v2_chr4_+_136143497_136143497	2.27783	Msx2_Hoxd4	ENSMUST00000008016.2|Id3|ENSMUSG00000007872.3|inhibitor of DNA binding 3
mm10_v2_chrX_+_56454871_56454887	2.22268	Msx2_Hoxd4	ENSMUST00000039374.2|Ddx26b|ENSMUSG00000035967.9|DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26B 	ENSMUST00000101553.2|Ddx26b|ENSMUSG00000035967.9|DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 26B
mm10_v2_chr12_+_36314160_36314171	2.19799	Msx2_Hoxd4	ENSMUST00000041407.5|Sostdc1|ENSMUSG00000036169.5|sclerostin domain containing 1
mm10_v2_chr10_+_75037066_75037100	2.18493	Msx2_Hoxd4	ENSMUST00000147802.1|Rab36|ENSMUSG00000020175.7|RAB36, member RAS oncogene family 	ENSMUST00000020391.5|Rab36|ENSMUSG00000020175.7|RAB36, member RAS oncogene family
mm10_v2_chr2_+_109280738_109280798	2.1801	Msx2_Hoxd4	ENSMUST00000028527.7|Kif18a|ENSMUSG00000027115.8|kinesin family member 18A
mm10_v2_chr3_+_62419668_62419668	2.13086	Msx2_Hoxd4	ENSMUST00000161057.1|Arhgef26|ENSMUSG00000036885.8|Rho guanine nucleotide exchange factor (GEF) 26
mm10_v2_chr1_+_165788746_165788769	2.02301	Msx2_Hoxd4	ENSMUST00000161559.2|Cd247|ENSMUSG00000005763.9|CD247 antigen
mm10_v2_chr1_-_152625212_152625220	2.0076	Msx2_Hoxd4	ENSMUST00000027760.7|Rgl1|ENSMUSG00000026482.7|ral guanine nucleotide dissociation stimulator,-like 1
mm10_v2_chr3_+_84952146_84952186	1.86632	Msx2_Hoxd4	ENSMUST00000029727.7|Fbxw7|ENSMUSG00000028086.8|F-box and WD-40 domain protein 7
mm10_v2_chr6_-_124779686_124779742	1.80573	Msx2_Hoxd4	ENSMUST00000147669.1|Lrrc23|ENSMUSG00000030125.5|leucine rich repeat containing 23 	ENSMUST00000128697.1|Lrrc23|ENSMUSG00000030125.5|leucine rich repeat containing 23 	ENSMUST00000032218.3|Lrrc23|ENSMUSG00000030125.5|leucine rich repeat containing 23 	ENSMUST00000112475.2|Lrrc23|ENSMUSG00000030125.5|leucine rich repeat containing 23
mm10_v2_chr3_-_49757257_49757316	1.7785	Msx2_Hoxd4	ENSMUST00000035931.7|Pcdh18|ENSMUSG00000037892.8|protocadherin 18
mm10_v2_chr12_+_74297474_74297474	1.76726	Msx2_Hoxd4	ENSMUST00000072100.3|Dbpht2|ENSMUSG00000029878.5|DNA binding protein with his-thr domain
mm10_v2_chr9_-_114390633_114390687	1.67341	Msx2_Hoxd4	ENSMUST00000084881.4|Crtap|ENSMUSG00000032431.6|cartilage associated protein
mm10_v2_chr16_-_44016387_44016436	1.65584	Msx2_Hoxd4	ENSMUST00000036174.3|Gramd1c|ENSMUSG00000036292.7|GRAM domain containing 1C
mm10_v2_chr18_+_59062462_59062538	1.53122	Msx2_Hoxd4	ENSMUST00000058633.2|A730017C20Rik|ENSMUSG00000050875.5|RIKEN cDNA A730017C20 gene 	ENSMUST00000175897.1|A730017C20Rik|ENSMUSG00000050875.5|RIKEN cDNA A730017C20 gene 	ENSMUST00000118510.1|A730017C20Rik|ENSMUSG00000050875.5|RIKEN cDNA A730017C20 gene 	ENSMUST00000175830.1|A730017C20Rik|ENSMUSG00000050875.5|RIKEN cDNA A730017C20 gene
mm10_v2_chr17_-_90088343_90088373	1.50466	Msx2_Hoxd4	ENSMUST00000173917.1|Nrxn1|ENSMUSG00000024109.12|neurexin I
mm10_v2_chr7_-_45920830_45920883	1.49664	Msx2_Hoxd4	ENSMUST00000164119.1|Emp3|ENSMUSG00000040212.5|epithelial membrane protein 3
mm10_v2_chr4_+_124657646_124657656	1.47687	Msx2_Hoxd4	ENSMUST00000053491.7|Pou3f1|ENSMUSG00000090125.2|POU domain, class 3, transcription factor 1
mm10_v2_chr2_-_63184253_63184292	1.43805	Msx2_Hoxd4	ENSMUST00000075052.3|Kcnh7|ENSMUSG00000059742.4|potassium voltage-gated channel, subfamily H (eag-related), member 7 	ENSMUST00000112454.1|Kcnh7|ENSMUSG00000059742.4|potassium voltage-gated channel, subfamily H (eag-related), member 7
mm10_v2_chr3_+_40800778_40800786	1.29639	Msx2_Hoxd4	ENSMUST00000169566.1|Plk4|ENSMUSG00000025758.5|polo-like kinase 4
mm10_v2_chr2_-_33086366_33086447	1.28679	Msx2_Hoxd4	ENSMUST00000049618.2|Garnl3|ENSMUSG00000038860.9|GTPase activating RANGAP domain-like 3
mm10_v2_chr3_-_85741389_85741389	1.27691	Msx2_Hoxd4	ENSMUST00000094148.4|Fam160a1|ENSMUSG00000051000.11|family with sequence similarity 160, member A1
mm10_v2_chr7_-_45921418_45921447	1.26243	Msx2_Hoxd4	ENSMUST00000038876.5|Emp3|ENSMUSG00000040212.5|epithelial membrane protein 3
mm10_v2_chr17_-_25785324_25785343	1.26012	Msx2_Hoxd4	ENSMUST00000150324.1|Haghl|ENSMUSG00000061046.3|hydroxyacylglutathione hydrolase-like
mm10_v2_chr2_-_60125651_60125775	1.25979	Msx2_Hoxd4	ENSMUST00000112550.1|Baz2b|ENSMUSG00000026987.10|bromodomain adjacent to zinc finger domain, 2B
mm10_v2_chr2_-_144527341_144527424	1.24938	Msx2_Hoxd4	ENSMUST00000163701.1|Dzank1|ENSMUSG00000037259.9|double zinc ribbon and ankyrin repeat domains 1 	ENSMUST00000081982.5|Dzank1|ENSMUSG00000037259.9|double zinc ribbon and ankyrin repeat domains 1
mm10_v2_chrM_+_2743_2761	1.19405	Msx2_Hoxd4	ENSMUST00000082392.1|mt-Nd1|ENSMUSG00000064341.1|mitochondrially encoded NADH dehydrogenase 1
mm10_v2_chr5_-_62765618_62765656	1.16744	Msx2_Hoxd4	ENSMUST00000159470.1|Arap2|ENSMUSG00000037999.9|ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2
mm10_v2_chr4_-_129121889_129122063	1.16731	Msx2_Hoxd4	ENSMUST00000139450.1|Hpca|ENSMUSG00000028785.6|hippocalcin 	ENSMUST00000125931.1|Hpca|ENSMUSG00000028785.6|hippocalcin 	ENSMUST00000116444.2|Hpca|ENSMUSG00000028785.6|hippocalcin
mm10_v2_chr7_-_84679346_84679401	1.1522	Msx2_Hoxd4	ENSMUST00000069537.2|Zfand6|ENSMUSG00000030629.8|zinc finger, AN1-type domain 6 	ENSMUST00000178385.1|Zfand6|ENSMUSG00000030629.8|zinc finger, AN1-type domain 6
mm10_v2_chr11_+_103133333_103133359	1.11425	Msx2_Hoxd4	ENSMUST00000124928.1|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2 	ENSMUST00000062530.4|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2
mm10_v2_chr5_-_107875035_107875107	1.11132	Msx2_Hoxd4	ENSMUST00000138111.1|Evi5|ENSMUSG00000011831.10|ecotropic viral integration site 5 	ENSMUST00000112642.1|Evi5|ENSMUSG00000011831.10|ecotropic viral integration site 5
mm10_v2_chr5_+_48242549_48242549	1.06918	Msx2_Hoxd4	ENSMUST00000172493.1|Slit2|ENSMUSG00000031558.9|slit homolog 2 (Drosophila)
mm10_v2_chr3_-_150073620_150073620	1.01515	Msx2_Hoxd4	ENSMUST00000057740.5|Rpsa-ps10|ENSMUSG00000047676.5|ribosomal protein SA, pseudogene 10
mm10_v2_chrM_+_9452_9468	1.01373	Msx2_Hoxd4	ENSMUST00000082411.1|mt-Nd3|ENSMUSG00000064360.1|mitochondrially encoded NADH dehydrogenase 3
mm10_v2_chr3_-_116253467_116253484	1.0135	Msx2_Hoxd4	ENSMUST00000090473.5|Gpr88|ENSMUSG00000068696.5|G-protein coupled receptor 88
mm10_v2_chrM_-_14060_14074	1.00367	Msx2_Hoxd4	ENSMUST00000082419.1|mt-Nd6|ENSMUSG00000064368.1|mitochondrially encoded NADH dehydrogenase 6
mm10_v2_chr13_+_23555023_23555039	1.00207	Msx2_Hoxd4	ENSMUST00000045301.6|Hist1h1d|ENSMUSG00000052565.5|histone cluster 1, H1d
mm10_v2_chr1_-_132390301_132390373	0.983717	Msx2_Hoxd4	ENSMUST00000132435.1|Tmcc2|ENSMUSG00000042066.9|transmembrane and coiled-coil domains 2
mm10_v2_chrX_-_94123359_94123412	0.981627	Msx2_Hoxd4	ENSMUST00000137853.1|Zfx|ENSMUSG00000079509.4|zinc finger protein X-linked 	ENSMUST00000088102.5|Zfx|ENSMUSG00000079509.4|zinc finger protein X-linked 	ENSMUST00000113927.1|Zfx|ENSMUSG00000079509.4|zinc finger protein X-linked
mm10_v2_chr4_-_40722307_40722398	0.98158	Msx2_Hoxd4	ENSMUST00000181475.1|Gm6297|ENSMUSG00000097123.1|predicted gene 6297
mm10_v2_chr3_-_36571952_36572150	0.963496	Msx2_Hoxd4	ENSMUST00000029270.3|Ccna2|ENSMUSG00000027715.3|cyclin A2
mm10_v2_chr17_-_46327949_46327987	0.938485	Msx2_Hoxd4	ENSMUST00000047970.7|Abcc10|ENSMUSG00000032842.7|ATP-binding cassette, sub-family C (CFTR/MRP), member 10
mm10_v2_chr13_+_51408618_51408781	0.937409	Msx2_Hoxd4	ENSMUST00000087978.3|S1pr3|ENSMUSG00000067586.3|sphingosine-1-phosphate receptor 3
mm10_v2_chr11_+_103133303_103133332	0.936377	Msx2_Hoxd4	ENSMUST00000107037.1|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2
mm10_v2_chr17_-_14694223_14694262	0.91322	Msx2_Hoxd4	ENSMUST00000170872.1|Thbs2|ENSMUSG00000023885.8|thrombospondin 2
mm10_v2_chr2_+_155751117_155751284	0.885932	Msx2_Hoxd4	ENSMUST00000029140.5|Procr|ENSMUSG00000027611.6|protein C receptor, endothelial 	ENSMUST00000132608.1|Procr|ENSMUSG00000027611.6|protein C receptor, endothelial
mm10_v2_chr3_-_146495115_146495139	0.864491	Msx2_Hoxd4	ENSMUST00000093951.2|Spata1|ENSMUSG00000028188.7|spermatogenesis associated 1
mm10_v2_chr2_+_76650264_76650278	0.853499	Msx2_Hoxd4	ENSMUST00000099986.2|Dfnb59|ENSMUSG00000075267.3|deafness, autosomal recessive 59 (human)
mm10_v2_chr1_-_24612700_24612700	0.827512	Msx2_Hoxd4	ENSMUST00000088336.1|Gm10222|ENSMUSG00000067736.1|predicted gene 10222
mm10_v2_chr3_+_19957037_19957073	0.786175	Msx2_Hoxd4	ENSMUST00000091309.5|Cp|ENSMUSG00000003617.10|ceruloplasmin 	ENSMUST00000108329.1|Cp|ENSMUSG00000003617.10|ceruloplasmin 	ENSMUST00000003714.6|Cp|ENSMUSG00000003617.10|ceruloplasmin
mm10_v2_chr3_-_66296807_66296837	0.783957	Msx2_Hoxd4	ENSMUST00000029419.7|Veph1|ENSMUSG00000027831.9|ventricular zone expressed PH domain-containing 1
mm10_v2_chr17_+_45506825_45506857	0.769523	Msx2_Hoxd4	ENSMUST00000024733.7|Aars2|ENSMUSG00000023938.7|alanyl-tRNA synthetase 2, mitochondrial (putative)
mm10_v2_chr2_+_132847719_132847743	0.76771	Msx2_Hoxd4	ENSMUST00000124836.1|Crls1|ENSMUSG00000027357.10|cardiolipin synthase 1 	ENSMUST00000154160.1|Crls1|ENSMUSG00000027357.10|cardiolipin synthase 1
mm10_v2_chr6_+_29853746_29853790	0.748522	Msx2_Hoxd4	ENSMUST00000064872.6|Ahcyl2|ENSMUSG00000029772.11|S-adenosylhomocysteine hydrolase-like 2 	ENSMUST00000152581.1|Ahcyl2|ENSMUSG00000029772.11|S-adenosylhomocysteine hydrolase-like 2 	ENSMUST00000176265.1|Ahcyl2|ENSMUSG00000029772.11|S-adenosylhomocysteine hydrolase-like 2 	ENSMUST00000154079.1|Ahcyl2|ENSMUSG00000029772.11|S-adenosylhomocysteine hydrolase-like 2
mm10_v2_chr13_-_95250166_95250336	0.719802	Msx2_Hoxd4	ENSMUST00000162153.1|Pde8b|ENSMUSG00000021684.10|phosphodiesterase 8B 	ENSMUST00000160957.2|Pde8b|ENSMUSG00000021684.10|phosphodiesterase 8B 	ENSMUST00000159598.1|Pde8b|ENSMUSG00000021684.10|phosphodiesterase 8B 	ENSMUST00000162412.1|Pde8b|ENSMUSG00000021684.10|phosphodiesterase 8B
mm10_v2_chr11_-_109472611_109472688	0.709488	Msx2_Hoxd4	ENSMUST00000168740.1|Slc16a6|ENSMUSG00000041920.8|solute carrier family 16 (monocarboxylic acid transporters), member 6
mm10_v2_chr13_+_49544443_49544533	0.705502	Msx2_Hoxd4	ENSMUST00000177948.1|Aspn|ENSMUSG00000021388.7|asporin 	ENSMUST00000021820.6|Aspn|ENSMUSG00000021388.7|asporin
mm10_v2_chr7_+_144838590_144838614	0.697866	Msx2_Hoxd4	ENSMUST00000105898.1|Fgf3|ENSMUSG00000031074.8|fibroblast growth factor 3
mm10_v2_chr4_+_3940747_3940854	0.676167	Msx2_Hoxd4	ENSMUST00000119403.1|Chchd7|ENSMUSG00000042198.6|coiled-coil-helix-coiled-coil-helix domain containing 7
mm10_v2_chr16_+_14705832_14705858	0.674595	Msx2_Hoxd4	ENSMUST00000023356.6|Snai2|ENSMUSG00000022676.6|snail homolog 2 (Drosophila)
mm10_v2_chr6_+_34746368_34746393	0.642734	Msx2_Hoxd4	ENSMUST00000142716.1|Cald1|ENSMUSG00000029761.10|caldesmon 1
mm10_v2_chr10_+_128303322_128303352	0.632064	Msx2_Hoxd4	ENSMUST00000005825.6|Pan2|ENSMUSG00000005682.8|PAN2 polyA specific ribonuclease subunit homolog (S. cerevisiae)
mm10_v2_chr18_+_37320374_37320401	0.603509	Msx2_Hoxd4	ENSMUST00000078271.2|Pcdhb5|ENSMUSG00000063687.2|protocadherin beta 5
mm10_v2_chr18_+_37518341_37518359	0.592229	Msx2_Hoxd4	ENSMUST00000097609.1|Pcdhb22|ENSMUSG00000073591.3|protocadherin beta 22
mm10_v2_chrM_+_10167_10167	0.589828	Msx2_Hoxd4	ENSMUST00000082414.1|mt-Nd4|ENSMUSG00000064363.1|mitochondrially encoded NADH dehydrogenase 4
mm10_v2_chr9_-_89705017_89705068	0.56705	Msx2_Hoxd4	ENSMUST00000058488.6|Tmed3|ENSMUSG00000032353.7|transmembrane emp24 domain containing 3
mm10_v2_chr15_+_85510812_85510812	0.560617	Msx2_Hoxd4	ENSMUST00000079690.2|Gm4825|ENSMUSG00000063548.2|predicted pseudogene 4825
mm10_v2_chr1_-_163289214_163289235	0.544091	Msx2_Hoxd4	ENSMUST00000183691.1|Prrx1|ENSMUSG00000026586.10|paired related homeobox 1
mm10_v2_chr7_-_121074501_121074530	0.543768	Msx2_Hoxd4	ENSMUST00000047194.2|Igsf6|ENSMUSG00000035004.2|immunoglobulin superfamily, member 6
mm10_v2_chr2_-_73453918_73453979	0.534974	Msx2_Hoxd4	ENSMUST00000102679.1|Wipf1|ENSMUSG00000075284.4|WAS/WASL interacting protein family, member 1
mm10_v2_chr15_+_21111452_21111452	0.524883	Msx2_Hoxd4	ENSMUST00000075132.6|Cdh12|ENSMUSG00000040452.8|cadherin 12
mm10_v2_chr17_-_24073479_24073490	0.508932	Msx2_Hoxd4	ENSMUST00000017090.5|Kctd5|ENSMUSG00000016946.5|potassium channel tetramerisation domain containing 5
mm10_v2_chr1_-_133921393_133921414	0.488558	Msx2_Hoxd4	ENSMUST00000048432.5|Prelp|ENSMUSG00000041577.5|proline arginine-rich end leucine-rich repeat
mm10_v2_chr1_+_63176818_63176919	0.484431	Msx2_Hoxd4	ENSMUST00000129339.1|Eef1b2|ENSMUSG00000025967.10|eukaryotic translation elongation factor 1 beta 2
mm10_v2_chrM_+_9870_9885	0.459914	Msx2_Hoxd4	ENSMUST00000084013.1|mt-Nd4l|ENSMUSG00000065947.3|mitochondrially encoded NADH dehydrogenase 4L
mm10_v2_chr1_-_133661318_133661386	0.450624	Msx2_Hoxd4	ENSMUST00000179598.1|Zbed6|ENSMUSG00000094410.1|zinc finger, BED domain containing 6 	ENSMUST00000027736.6|Zc3h11a|ENSMUSG00000026464.6|zinc finger CCCH type containing 11A
mm10_v2_chr1_-_186749304_186749358	0.447991	Msx2_Hoxd4	ENSMUST00000001339.5|Rrp15|ENSMUSG00000001305.5|ribosomal RNA processing 15 homolog (S. cerevisiae)
mm10_v2_chr10_-_13324160_13324242	0.446065	Msx2_Hoxd4	ENSMUST00000105545.4|Phactr2|ENSMUSG00000062866.9|phosphatase and actin regulator 2
mm10_v2_chr4_-_148159838_148159930	0.440671	Msx2_Hoxd4	ENSMUST00000151127.1|Fbxo44|ENSMUSG00000029001.9|F-box protein 44 	ENSMUST00000105705.2|Fbxo44|ENSMUSG00000029001.9|F-box protein 44
mm10_v2_chr10_+_5593718_5593739	0.434499	Msx2_Hoxd4	ENSMUST00000051809.8|Myct1|ENSMUSG00000046916.8|myc target 1
mm10_v2_chr4_-_149126688_149126763	0.428975	Msx2_Hoxd4	ENSMUST00000030815.2|Cort|ENSMUSG00000028971.4|cortistatin
mm10_v2_chr4_-_141078302_141078357	0.413721	Msx2_Hoxd4	ENSMUST00000030760.8|Necap2|ENSMUSG00000028923.8|NECAP endocytosis associated 2
mm10_v2_chr11_+_95010277_95010293	0.380322	Msx2_Hoxd4	ENSMUST00000124735.1|Samd14|ENSMUSG00000047181.6|sterile alpha motif domain containing 14
mm10_v2_chr9_-_112187766_112187862	0.377171	Msx2_Hoxd4	ENSMUST00000111872.2|Arpp21|ENSMUSG00000032503.11|cyclic AMP-regulated phosphoprotein, 21 	ENSMUST00000164754.2|Arpp21|ENSMUSG00000032503.11|cyclic AMP-regulated phosphoprotein, 21
mm10_v2_chr12_-_85374696_85374719	0.3647	Msx2_Hoxd4	ENSMUST00000040766.7|Tmed10|ENSMUSG00000021248.8|transmembrane emp24-like trafficking protein 10 (yeast)
mm10_v2_chr7_+_126950837_126950966	0.362022	Msx2_Hoxd4	ENSMUST00000106332.1|Sez6l2|ENSMUSG00000030683.5|seizure related 6 homolog like 2
mm10_v2_chr3_+_144570409_144570490	0.349697	Msx2_Hoxd4	ENSMUST00000082437.3|Sep15|ENSMUSG00000037072.9|selenoprotein
mm10_v2_chr8_-_70527645_70527783	0.345197	Msx2_Hoxd4	ENSMUST00000132867.1|Kxd1|ENSMUSG00000055553.10|KxDL motif containing 1
mm10_v2_chr14_+_54259227_54259241	0.338975	Msx2_Hoxd4	ENSMUST00000041197.7|Abhd4|ENSMUSG00000040997.7|abhydrolase domain containing 4
mm10_v2_chr5_-_31180110_31180158	0.326002	Msx2_Hoxd4	ENSMUST00000043161.6|Gtf3c2|ENSMUSG00000029144.10|general transcription factor IIIC, polypeptide 2, beta 	ENSMUST00000088010.5|Gtf3c2|ENSMUSG00000029144.10|general transcription factor IIIC, polypeptide 2, beta
mm10_v2_chr1_+_180109192_180109265	0.30761	Msx2_Hoxd4	ENSMUST00000143176.1|Cdc42bpa|ENSMUSG00000026490.11|CDC42 binding protein kinase alpha 	ENSMUST00000135056.1|Cdc42bpa|ENSMUSG00000026490.11|CDC42 binding protein kinase alpha
mm10_v2_chr15_-_50890396_50890463	0.277523	Msx2_Hoxd4	ENSMUST00000185183.1|Trps1|ENSMUSG00000038679.10|trichorhinophalangeal syndrome I (human)
mm10_v2_chr2_+_72054598_72054640	0.257703	Msx2_Hoxd4	ENSMUST00000028525.5|Rapgef4|ENSMUSG00000049044.10|Rap guanine nucleotide exchange factor (GEF) 4
mm10_v2_chr5_-_31179901_31179942	0.254319	Msx2_Hoxd4	ENSMUST00000101411.2|Gtf3c2|ENSMUSG00000029144.10|general transcription factor IIIC, polypeptide 2, beta 	ENSMUST00000140793.1|Gtf3c2|ENSMUSG00000029144.10|general transcription factor IIIC, polypeptide 2, beta
mm10_v2_chr10_-_14718191_14718228	0.252828	Msx2_Hoxd4	ENSMUST00000020016.4|Gje1|ENSMUSG00000019867.4|gap junction protein, epsilon 1
mm10_v2_chr12_-_76177251_76177265	0.24993	Msx2_Hoxd4	ENSMUST00000101291.3|Esr2|ENSMUSG00000021055.7|estrogen receptor 2 (beta) 	ENSMUST00000076634.4|Esr2|ENSMUSG00000021055.7|estrogen receptor 2 (beta)
mm10_v2_chrM_+_8600_8616	0.243895	Msx2_Hoxd4	ENSMUST00000082409.1|mt-Co3|ENSMUSG00000064358.1|mitochondrially encoded cytochrome c oxidase III
mm10_v2_chr4_-_148160031_148160083	0.210314	Msx2_Hoxd4	ENSMUST00000057907.3|Fbxo44|ENSMUSG00000029001.9|F-box protein 44
mm10_v2_chr19_-_53371766_53371766	0.200703	Msx2_Hoxd4	ENSMUST00000086887.1|Gm10197|ENSMUSG00000067085.1|predicted gene 10197
mm10_v2_chr5_-_146220901_146220987	0.18814	Msx2_Hoxd4	ENSMUST00000169407.2|Rnf6|ENSMUSG00000029634.9|ring finger protein (C3H2C3 type) 6 	ENSMUST00000161331.1|Rnf6|ENSMUSG00000029634.9|ring finger protein (C3H2C3 type) 6 	ENSMUST00000159074.2|Rnf6|ENSMUSG00000029634.9|ring finger protein (C3H2C3 type) 6 	ENSMUST00000067837.3|Rnf6|ENSMUSG00000029634.9|ring finger protein (C3H2C3 type) 6
mm10_v2_chr3_+_144570687_144570721	0.174983	Msx2_Hoxd4	ENSMUST00000106211.1|Sep15|ENSMUSG00000037072.9|selenoprotein
mm10_v2_chr7_+_123123870_123123901	0.173182	Msx2_Hoxd4	ENSMUST00000094053.5|Tnrc6a|ENSMUSG00000052707.7|trinucleotide repeat containing 6a
mm10_v2_chrX_-_150814265_150814345	0.170848	Msx2_Hoxd4	ENSMUST00000026302.6|Maged2|ENSMUSG00000025268.9|melanoma antigen, family D, 2 	ENSMUST00000129768.1|Maged2|ENSMUSG00000025268.9|melanoma antigen, family D, 2 	ENSMUST00000112699.2|Maged2|ENSMUSG00000025268.9|melanoma antigen, family D, 2
mm10_v2_chr9_-_107770945_107771007	0.170349	Msx2_Hoxd4	ENSMUST00000183248.1|Rbm5|ENSMUSG00000032580.6|RNA binding motif protein 5 	ENSMUST00000182022.1|Rbm5|ENSMUSG00000032580.6|RNA binding motif protein 5 	ENSMUST00000035199.6|Rbm5|ENSMUSG00000032580.6|RNA binding motif protein 5 	ENSMUST00000182659.1|Rbm5|ENSMUSG00000032580.6|RNA binding motif protein 5
mm10_v2_chr18_-_43477764_43477836	0.167359	Msx2_Hoxd4	ENSMUST00000057110.9|Eif3j2|ENSMUSG00000043424.9|eukaryotic translation initiation factor 3, subunit J2
mm10_v2_chrX_-_8132770_8132857	0.166185	Msx2_Hoxd4	ENSMUST00000130832.1|Wdr13|ENSMUSG00000031166.7|WD repeat domain 13 	ENSMUST00000033506.6|Wdr13|ENSMUSG00000031166.7|WD repeat domain 13 	ENSMUST00000115623.1|Wdr13|ENSMUSG00000031166.7|WD repeat domain 13 	ENSMUST00000153839.1|Wdr13|ENSMUSG00000031166.7|WD repeat domain 13
mm10_v2_chr8_+_70527724_70527766	0.162927	Msx2_Hoxd4	ENSMUST00000119353.2|Fkbp8|ENSMUSG00000019428.10|FK506 binding protein 8 	ENSMUST00000075491.7|Fkbp8|ENSMUSG00000019428.10|FK506 binding protein 8
mm10_v2_chr1_-_72284248_72284314	0.154286	Msx2_Hoxd4	ENSMUST00000097698.4|Pecr|ENSMUSG00000026189.7|peroxisomal trans-2-enoyl-CoA reductase 	ENSMUST00000027381.6|Pecr|ENSMUSG00000026189.7|peroxisomal trans-2-enoyl-CoA reductase
mm10_v2_chr12_-_108179237_108179339	0.151335	Msx2_Hoxd4	ENSMUST00000071095.7|Setd3|ENSMUSG00000056770.9|SET domain containing 3
mm10_v2_chr7_-_34654342_34654398	0.148548	Msx2_Hoxd4	ENSMUST00000108069.1|Kctd15|ENSMUSG00000030499.3|potassium channel tetramerisation domain containing 15
mm10_v2_chr3_-_144570136_144570227	0.144986	Msx2_Hoxd4	ENSMUST00000043325.7|Hs2st1|ENSMUSG00000040151.8|heparan sulfate 2-O-sulfotransferase 1
mm10_v2_chr17_+_46161021_46161072	0.131673	Msx2_Hoxd4	ENSMUST00000024748.7|Gtpbp2|ENSMUSG00000023952.7|GTP binding protein 2 	ENSMUST00000172170.1|Gtpbp2|ENSMUSG00000023952.7|GTP binding protein 2
mm10_v2_chr11_+_78465697_78465735	0.119272	Msx2_Hoxd4	ENSMUST00000001126.3|Slc46a1|ENSMUSG00000020829.9|solute carrier family 46, member 1
mm10_v2_chr2_-_176144697_176144697	0.11262	Msx2_Hoxd4	ENSMUST00000178872.1|Gm2004|ENSMUSG00000095648.1|predicted gene 2004
mm10_v2_chr12_+_108179738_108179831	0.107972	Msx2_Hoxd4	ENSMUST00000101055.4|Ccnk|ENSMUSG00000021258.9|cyclin K
mm10_v2_chr4_-_62519885_62519967	0.105471	Msx2_Hoxd4	ENSMUST00000107444.1|Alad|ENSMUSG00000028393.4|aminolevulinate, delta-, dehydratase 	ENSMUST00000030090.3|Alad|ENSMUSG00000028393.4|aminolevulinate, delta-, dehydratase
mm10_v2_chr10_+_14523062_14523065	0.0947808	Msx2_Hoxd4	ENSMUST00000096020.5|Gm10335|ENSMUSG00000071532.5|predicted gene 10335
mm10_v2_chr11_-_74724670_74724702	0.0906341	Msx2_Hoxd4	ENSMUST00000021091.8|Pafah1b1|ENSMUSG00000020745.9|platelet-activating factor acetylhydrolase, isoform 1b, subunit 1
mm10_v2_chr6_+_34745952_34746007	0.0871707	Msx2_Hoxd4	ENSMUST00000123823.1|Cald1|ENSMUSG00000029761.10|caldesmon 1 	ENSMUST00000136907.1|Cald1|ENSMUSG00000029761.10|caldesmon 1 	ENSMUST00000126181.1|Cald1|ENSMUSG00000029761.10|caldesmon 1
mm10_v2_chr7_+_65693417_65693446	0.073106	Msx2_Hoxd4	ENSMUST00000032726.7|Tm2d3|ENSMUSG00000078681.4|TM2 domain containing 3 	ENSMUST00000107495.3|Tm2d3|ENSMUSG00000078681.4|TM2 domain containing 3
mm10_v2_chr7_-_73541738_73541758	0.0710715	Msx2_Hoxd4	ENSMUST00000169922.2|Chd2|ENSMUSG00000078671.4|chromodomain helicase DNA binding protein 2
mm10_v2_chr9_+_78051938_78051958	0.0684275	Msx2_Hoxd4	ENSMUST00000024104.7|Gcm1|ENSMUSG00000023333.7|glial cells missing homolog 1 (Drosophila)
mm10_v2_chr12_+_52516077_52516077	0.0642717	Msx2_Hoxd4	ENSMUST00000110725.1|Arhgap5|ENSMUSG00000035133.8|Rho GTPase activating protein 5
mm10_v2_chr3_-_154330543_154330576	0.0606968	Msx2_Hoxd4	ENSMUST00000184966.1|Lhx8|ENSMUSG00000096225.2|LIM homeobox protein 8 	ENSMUST00000177846.2|Lhx8|ENSMUSG00000096225.2|LIM homeobox protein 8
mm10_v2_chr7_+_97400003_97400047	0.0514189	Msx2_Hoxd4	ENSMUST00000032882.8|Ndufc2|ENSMUSG00000030647.8|NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2
mm10_v2_chr5_-_72168142_72168199	0.0425078	Msx2_Hoxd4	ENSMUST00000013693.6|Commd8|ENSMUSG00000029213.7|COMM domain containing 8
mm10_v2_chr6_-_136941887_136941911	0.0368675	Msx2_Hoxd4	ENSMUST00000111891.1|Arhgdib|ENSMUSG00000030220.7|Rho, GDP dissociation inhibitor (GDI) beta
mm10_v2_chr9_+_30942541_30942562	0.0307047	Msx2_Hoxd4	ENSMUST00000068135.6|Adamts8|ENSMUSG00000031994.7|a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 8
mm10_v2_chr2_+_180710117_180710201	0.0237197	Msx2_Hoxd4	ENSMUST00000029090.2|Gid8|ENSMUSG00000027573.5|GID complex subunit 8 homolog (S. cerevisiae)
mm10_v2_chrX_-_103981242_103981287	0.0232892	Msx2_Hoxd4	ENSMUST00000121153.1|Rlim|ENSMUSG00000056537.5|ring finger protein, LIM domain interacting 	ENSMUST00000070705.4|Rlim|ENSMUSG00000056537.5|ring finger protein, LIM domain interacting
mm10_v2_chr1_+_137928100_137928170	0.0229194	Msx2_Hoxd4	ENSMUST00000054333.2|A130050O07Rik|ENSMUSG00000051480.2|RIKEN cDNA A130050O07 gene
mm10_v2_chr9_-_55919605_55919605	0.0227056	Msx2_Hoxd4	ENSMUST00000037408.8|Scaper|ENSMUSG00000034007.9|S phase cyclin A-associated protein in the ER
mm10_v2_chr3_+_106113229_106113390	0.0152642	Msx2_Hoxd4	ENSMUST00000079132.5|Chia|ENSMUSG00000062778.6|chitinase, acidic 	ENSMUST00000139086.1|Chia|ENSMUSG00000062778.6|chitinase, acidic
