mm10_v2_chr15_-_79285502_79285537	10.4452	Msx2_Hoxd4	ENSMUST00000165408.1|Baiap2l2|ENSMUSG00000018126.9|BAI1-associated protein 2-like 2
mm10_v2_chr15_-_79285470_79285498	7.47479	Msx2_Hoxd4	ENSMUST00000170955.1|Baiap2l2|ENSMUSG00000018126.9|BAI1-associated protein 2-like 2
mm10_v2_chr15_-_36879816_36879884	5.60343	Msx2_Hoxd4	ENSMUST00000100713.2|Gm10384|ENSMUSG00000072618.2|predicted gene 10384
mm10_v2_chr2_+_4017727_4017745	4.89858	Msx2_Hoxd4	ENSMUST00000177457.1|Frmd4a|ENSMUSG00000026657.10|FERM domain containing 4A
mm10_v2_chrX_+_21484532_21484547	4.68546	Msx2_Hoxd4	ENSMUST00000089188.2|Agtr2|ENSMUSG00000068122.4|angiotensin II receptor, type 2
mm10_v2_chr6_-_36811361_36811361	4.19176	Msx2_Hoxd4	ENSMUST00000101534.1|Ptn|ENSMUSG00000029838.8|pleiotrophin
mm10_v2_chr1_-_132390301_132390373	4.17739	Msx2_Hoxd4	ENSMUST00000132435.1|Tmcc2|ENSMUSG00000042066.9|transmembrane and coiled-coil domains 2
mm10_v2_chr11_+_95010277_95010293	3.61108	Msx2_Hoxd4	ENSMUST00000124735.1|Samd14|ENSMUSG00000047181.6|sterile alpha motif domain containing 14
mm10_v2_chr11_+_67171095_67171220	2.83395	Msx2_Hoxd4	ENSMUST00000018641.7|Myh2|ENSMUSG00000033196.11|myosin, heavy polypeptide 2, skeletal muscle, adult
mm10_v2_chr3_+_40800778_40800786	2.74247	Msx2_Hoxd4	ENSMUST00000169566.1|Plk4|ENSMUSG00000025758.5|polo-like kinase 4
mm10_v2_chr3_-_150073620_150073620	2.67326	Msx2_Hoxd4	ENSMUST00000057740.5|Rpsa-ps10|ENSMUSG00000047676.5|ribosomal protein SA, pseudogene 10
mm10_v2_chrX_+_56454871_56454887	2.60873	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_chr11_+_67171027_67171071	2.58742	Msx2_Hoxd4	ENSMUST00000170159.1|Myh2|ENSMUSG00000033196.11|myosin, heavy polypeptide 2, skeletal muscle, adult
mm10_v2_chr3_-_36571952_36572150	2.26983	Msx2_Hoxd4	ENSMUST00000029270.3|Ccna2|ENSMUSG00000027715.3|cyclin A2
mm10_v2_chr18_+_34840575_34840589	2.18423	Msx2_Hoxd4	ENSMUST00000043484.7|Reep2|ENSMUSG00000038555.7|receptor accessory protein 2
mm10_v2_chr19_-_46044914_46044988	2.14588	Msx2_Hoxd4	ENSMUST00000026252.7|Ldb1|ENSMUSG00000025223.8|LIM domain binding 1
mm10_v2_chrX_+_159303266_159303281	1.90539	Msx2_Hoxd4	ENSMUST00000112491.1|Rps6ka3|ENSMUSG00000031309.9|ribosomal protein S6 kinase polypeptide 3
mm10_v2_chr3_+_68869563_68869589	1.87645	Msx2_Hoxd4	ENSMUST00000054551.2|1110032F04Rik|ENSMUSG00000046999.2|RIKEN cDNA 1110032F04 gene
mm10_v2_chr1_-_163289214_163289235	1.85358	Msx2_Hoxd4	ENSMUST00000183691.1|Prrx1|ENSMUSG00000026586.10|paired related homeobox 1
mm10_v2_chr2_+_109280738_109280798	1.81426	Msx2_Hoxd4	ENSMUST00000028527.7|Kif18a|ENSMUSG00000027115.8|kinesin family member 18A
mm10_v2_chrX_+_106583184_106583187	1.72584	Msx2_Hoxd4	ENSMUST00000101296.2|Gm5127|ENSMUSG00000073010.3|predicted gene 5127 	ENSMUST00000101297.3|Gm5127|ENSMUSG00000073010.3|predicted gene 5127
mm10_v2_chrX_-_162964557_162964599	1.70736	Msx2_Hoxd4	ENSMUST00000038769.2|S100g|ENSMUSG00000040808.4|S100 calcium binding protein G
mm10_v2_chrX_+_136245065_136245102	1.66372	Msx2_Hoxd4	ENSMUST00000048687.4|Wbp5|ENSMUSG00000042712.4|WW domain binding protein 5
mm10_v2_chrX_-_74246534_74246556	1.62636	Msx2_Hoxd4	ENSMUST00000101454.2|Flna|ENSMUSG00000031328.9|filamin, alpha 	ENSMUST00000033699.6|Flna|ENSMUSG00000031328.9|filamin, alpha
mm10_v2_chr3_-_116253467_116253484	1.61911	Msx2_Hoxd4	ENSMUST00000090473.5|Gpr88|ENSMUSG00000068696.5|G-protein coupled receptor 88
mm10_v2_chr16_-_58524164_58524179	1.58324	Msx2_Hoxd4	ENSMUST00000126978.1|St3gal6|ENSMUSG00000022747.10|ST3 beta-galactoside alpha-2,3-sialyltransferase 6 	ENSMUST00000123918.1|St3gal6|ENSMUSG00000022747.10|ST3 beta-galactoside alpha-2,3-sialyltransferase 6
mm10_v2_chrX_+_159708593_159708612	1.52236	Msx2_Hoxd4	ENSMUST00000080394.6|Sh3kbp1|ENSMUSG00000040990.11|SH3-domain kinase binding protein 1
mm10_v2_chr6_-_136941887_136941911	1.47696	Msx2_Hoxd4	ENSMUST00000111891.1|Arhgdib|ENSMUSG00000030220.7|Rho, GDP dissociation inhibitor (GDI) beta
mm10_v2_chr7_-_115824699_115824752	1.42353	Msx2_Hoxd4	ENSMUST00000169129.1|Sox6|ENSMUSG00000051910.7|SRY-box containing gene 6
mm10_v2_chr4_-_141078302_141078357	1.41098	Msx2_Hoxd4	ENSMUST00000030760.8|Necap2|ENSMUSG00000028923.8|NECAP endocytosis associated 2
mm10_v2_chr6_-_87533219_87533264	1.35785	Msx2_Hoxd4	ENSMUST00000113637.2|Arhgap25|ENSMUSG00000030047.8|Rho GTPase activating protein 25 	ENSMUST00000071024.6|Arhgap25|ENSMUSG00000030047.8|Rho GTPase activating protein 25
mm10_v2_chr18_+_44104407_44104481	1.35282	Msx2_Hoxd4	ENSMUST00000081271.5|Spink12|ENSMUSG00000061144.5|serine peptidase inhibitor, Kazal type 11
mm10_v2_chr3_-_14778452_14778466	1.32197	Msx2_Hoxd4	ENSMUST00000094365.4|Car1|ENSMUSG00000027556.9|carbonic anhydrase 1
mm10_v2_chr2_-_72986716_72986716	1.30827	Msx2_Hoxd4	ENSMUST00000112062.1|Gm11084|ENSMUSG00000079286.1|predicted gene 11084
mm10_v2_chr15_-_101694299_101694318	1.2946	Msx2_Hoxd4	ENSMUST00000023788.6|Krt6a|ENSMUSG00000058354.6|keratin 6A
mm10_v2_chr7_-_121074501_121074530	1.28588	Msx2_Hoxd4	ENSMUST00000047194.2|Igsf6|ENSMUSG00000035004.2|immunoglobulin superfamily, member 6
mm10_v2_chr10_-_63203930_63203956	1.26138	Msx2_Hoxd4	ENSMUST00000095580.2|Mypn|ENSMUSG00000020067.7|myopalladin
mm10_v2_chrX_-_150814265_150814345	1.25602	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_chr1_+_63176818_63176919	1.16718	Msx2_Hoxd4	ENSMUST00000129339.1|Eef1b2|ENSMUSG00000025967.10|eukaryotic translation elongation factor 1 beta 2
mm10_v2_chr2_-_73453918_73453979	1.13201	Msx2_Hoxd4	ENSMUST00000102679.1|Wipf1|ENSMUSG00000075284.4|WAS/WASL interacting protein family, member 1
mm10_v2_chr9_-_77544870_77544914	1.12886	Msx2_Hoxd4	ENSMUST00000183873.1|Lrrc1|ENSMUSG00000032352.9|leucine rich repeat containing 1
mm10_v2_chr13_+_23544052_23544052	1.12746	Msx2_Hoxd4	ENSMUST00000075558.2|Hist1h3f|ENSMUSG00000059309.2|histone cluster 1, H3f
mm10_v2_chr13_+_49544443_49544533	1.12506	Msx2_Hoxd4	ENSMUST00000177948.1|Aspn|ENSMUSG00000021388.7|asporin 	ENSMUST00000021820.6|Aspn|ENSMUSG00000021388.7|asporin
mm10_v2_chr3_-_75270073_75270085	1.12302	Msx2_Hoxd4	ENSMUST00000039047.4|Serpini2|ENSMUSG00000034139.4|serine (or cysteine) peptidase inhibitor, clade I, member 2
mm10_v2_chr11_-_109472611_109472688	1.11371	Msx2_Hoxd4	ENSMUST00000168740.1|Slc16a6|ENSMUSG00000041920.8|solute carrier family 16 (monocarboxylic acid transporters), member 6
mm10_v2_chr7_+_144838590_144838614	1.10249	Msx2_Hoxd4	ENSMUST00000105898.1|Fgf3|ENSMUSG00000031074.8|fibroblast growth factor 3
mm10_v2_chrX_+_150547375_150547459	1.07859	Msx2_Hoxd4	ENSMUST00000066337.6|Alas2|ENSMUSG00000025270.7|aminolevulinic acid synthase 2, erythroid 	ENSMUST00000112715.1|Alas2|ENSMUSG00000025270.7|aminolevulinic acid synthase 2, erythroid
mm10_v2_chr4_-_129121889_129122063	1.06609	Msx2_Hoxd4	ENSMUST00000139450.1|Hpca|ENSMUSG00000028785.6|hippocalcin 	ENSMUST00000125931.1|Hpca|ENSMUSG00000028785.6|hippocalcin 	ENSMUST00000116444.2|Hpca|ENSMUSG00000028785.6|hippocalcin
mm10_v2_chr2_-_164389095_164389095	1.05214	Msx2_Hoxd4	ENSMUST00000167427.1|Slpi|ENSMUSG00000017002.8|secretory leukocyte peptidase inhibitor
mm10_v2_chr10_+_14523062_14523065	1.01483	Msx2_Hoxd4	ENSMUST00000096020.5|Gm10335|ENSMUSG00000071532.5|predicted gene 10335
mm10_v2_chr9_-_77544829_77544862	1.01346	Msx2_Hoxd4	ENSMUST00000183734.1|Lrrc1|ENSMUSG00000032352.9|leucine rich repeat containing 1
mm10_v2_chr4_-_149126688_149126763	0.99096	Msx2_Hoxd4	ENSMUST00000030815.2|Cort|ENSMUSG00000028971.4|cortistatin
mm10_v2_chr8_-_8639363_8639363	0.987432	Msx2_Hoxd4	ENSMUST00000152698.1|Efnb2|ENSMUSG00000001300.9|ephrin B2
mm10_v2_chr1_-_174250976_174250976	0.974868	Msx2_Hoxd4	ENSMUST00000061990.4|Olfr419|ENSMUSG00000050788.4|olfactory receptor 419
mm10_v2_chr7_-_45921418_45921447	0.956364	Msx2_Hoxd4	ENSMUST00000038876.5|Emp3|ENSMUSG00000040212.5|epithelial membrane protein 3
mm10_v2_chr14_+_115042752_115042879	0.95312	Msx2_Hoxd4	ENSMUST00000134140.2|Mir17hg|ENSMUSG00000089726.2|Mir17 host gene 1 (non-protein coding)
mm10_v2_chr12_+_36314160_36314171	0.940679	Msx2_Hoxd4	ENSMUST00000041407.5|Sostdc1|ENSMUSG00000036169.5|sclerostin domain containing 1
mm10_v2_chrX_-_164258186_164258199	0.939519	Msx2_Hoxd4	ENSMUST00000112265.2|Bmx|ENSMUSG00000031377.5|BMX non-receptor tyrosine kinase
mm10_v2_chr4_-_3872105_3872105	0.932713	Msx2_Hoxd4	ENSMUST00000105158.1|Mos|ENSMUSG00000078365.5|Moloney sarcoma oncogene
mm10_v2_chr4_+_101507947_101508032	0.928969	Msx2_Hoxd4	ENSMUST00000149047.1|Dnajc6|ENSMUSG00000028528.10|DnaJ (Hsp40) homolog, subfamily C, member 6 	ENSMUST00000106929.3|Dnajc6|ENSMUSG00000028528.10|DnaJ (Hsp40) homolog, subfamily C, member 6
mm10_v2_chr3_+_64081642_64081642	0.908389	Msx2_Hoxd4	ENSMUST00000029406.4|Vmn2r1|ENSMUSG00000027824.4|vomeronasal 2, receptor 1
mm10_v2_chr17_+_46161021_46161072	0.89114	Msx2_Hoxd4	ENSMUST00000024748.7|Gtpbp2|ENSMUSG00000023952.7|GTP binding protein 2 	ENSMUST00000172170.1|Gtpbp2|ENSMUSG00000023952.7|GTP binding protein 2
mm10_v2_chr13_+_75967704_75967753	0.872608	Msx2_Hoxd4	ENSMUST00000022081.1|Spata9|ENSMUSG00000021590.6|spermatogenesis associated 9
mm10_v2_chr14_+_53795455_53795455	0.84758	Msx2_Hoxd4	ENSMUST00000103671.2|B230359F08Rik|ENSMUSG00000087666.2|RIKEN cDNA B230359F08 gene
mm10_v2_chr2_-_45110336_45110487	0.816418	Msx2_Hoxd4	ENSMUST00000028229.6|Zeb2|ENSMUSG00000026872.10|zinc finger E-box binding homeobox 2 	ENSMUST00000152232.1|Zeb2|ENSMUSG00000026872.10|zinc finger E-box binding homeobox 2
mm10_v2_chr3_-_102964124_102964137	0.815103	Msx2_Hoxd4	ENSMUST00000058899.8|Nr1h5|ENSMUSG00000048938.8|nuclear receptor subfamily 1, group H, member 5
mm10_v2_chr12_+_38783503_38783527	0.804896	Msx2_Hoxd4	ENSMUST00000159334.1|Etv1|ENSMUSG00000004151.10|ets variant gene 1
mm10_v2_chr11_+_103133333_103133359	0.797687	Msx2_Hoxd4	ENSMUST00000124928.1|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2 	ENSMUST00000062530.4|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2
mm10_v2_chr6_+_136518820_136518851	0.78997	Msx2_Hoxd4	ENSMUST00000032335.6|Atf7ip|ENSMUSG00000030213.6|activating transcription factor 7 interacting protein
mm10_v2_chr7_+_126950518_126950584	0.765825	Msx2_Hoxd4	ENSMUST00000106335.1|Sez6l2|ENSMUSG00000030683.5|seizure related 6 homolog like 2 	ENSMUST00000146017.1|Sez6l2|ENSMUSG00000030683.5|seizure related 6 homolog like 2
mm10_v2_chr19_-_53371766_53371766	0.755314	Msx2_Hoxd4	ENSMUST00000086887.1|Gm10197|ENSMUSG00000067085.1|predicted gene 10197
mm10_v2_chr7_-_45920830_45920883	0.750777	Msx2_Hoxd4	ENSMUST00000164119.1|Emp3|ENSMUSG00000040212.5|epithelial membrane protein 3
mm10_v2_chr2_-_33428222_33428222	0.728058	Msx2_Hoxd4	ENSMUST00000091037.2|Zbtb34|ENSMUSG00000068966.4|zinc finger and BTB domain containing 34
mm10_v2_chr2_-_45112890_45113010	0.7277	Msx2_Hoxd4	ENSMUST00000076836.6|Zeb2|ENSMUSG00000026872.10|zinc finger E-box binding homeobox 2
mm10_v2_chr2_+_80638798_80638834	0.724571	Msx2_Hoxd4	ENSMUST00000028382.6|Nup35|ENSMUSG00000026999.8|nucleoporin 35 	ENSMUST00000124377.1|Nup35|ENSMUSG00000026999.8|nucleoporin 35
mm10_v2_chr6_-_131316398_131316398	0.724108	Msx2_Hoxd4	ENSMUST00000121078.1|Styk1|ENSMUSG00000032899.8|serine/threonine/tyrosine kinase 1
mm10_v2_chr1_+_136683375_136683410	0.722438	Msx2_Hoxd4	ENSMUST00000181524.1|Gm19705|ENSMUSG00000097113.1|predicted gene, 19705
mm10_v2_chr18_+_68337504_68337603	0.712131	Msx2_Hoxd4	ENSMUST00000172148.1|Mc5r|ENSMUSG00000007480.3|melanocortin 5 receptor
mm10_v2_chr1_+_186749368_186749415	0.710364	Msx2_Hoxd4	ENSMUST00000180869.1|A430105J06Rik|ENSMUSG00000097784.1|RIKEN cDNA A430105J06 gene
mm10_v2_chr1_+_191025350_191025350	0.703873	Msx2_Hoxd4	ENSMUST00000181050.1|A230020J21Rik|ENSMUSG00000097845.1|RIKEN cDNA A230020J21 gene
mm10_v2_chr9_-_112187766_112187862	0.698341	Msx2_Hoxd4	ENSMUST00000111872.2|Arpp21|ENSMUSG00000032503.11|cyclic AMP-regulated phosphoprotein, 21 	ENSMUST00000164754.2|Arpp21|ENSMUSG00000032503.11|cyclic AMP-regulated phosphoprotein, 21
mm10_v2_chr1_-_149961230_149961300	0.660974	Msx2_Hoxd4	ENSMUST00000070200.8|Pla2g4a|ENSMUSG00000056220.8|phospholipase A2, group IVA (cytosolic, calcium-dependent)
mm10_v2_chr17_-_14694223_14694262	0.639868	Msx2_Hoxd4	ENSMUST00000170872.1|Thbs2|ENSMUSG00000023885.8|thrombospondin 2
mm10_v2_chr10_-_13324160_13324242	0.630495	Msx2_Hoxd4	ENSMUST00000105545.4|Phactr2|ENSMUSG00000062866.9|phosphatase and actin regulator 2
mm10_v2_chr19_+_46396885_46397004	0.608643	Msx2_Hoxd4	ENSMUST00000039922.6|Sufu|ENSMUSG00000025231.10|suppressor of fused homolog (Drosophila) 	ENSMUST00000111867.2|Sufu|ENSMUSG00000025231.10|suppressor of fused homolog (Drosophila) 	ENSMUST00000120778.1|Sufu|ENSMUSG00000025231.10|suppressor of fused homolog (Drosophila)
mm10_v2_chr11_+_103133303_103133332	0.593972	Msx2_Hoxd4	ENSMUST00000107037.1|Hexim2|ENSMUSG00000043372.6|hexamethylene bis-acetamide inducible 2
mm10_v2_chr13_+_23555023_23555039	0.586537	Msx2_Hoxd4	ENSMUST00000045301.6|Hist1h1d|ENSMUSG00000052565.5|histone cluster 1, H1d
mm10_v2_chr17_-_24073479_24073490	0.585705	Msx2_Hoxd4	ENSMUST00000017090.5|Kctd5|ENSMUSG00000016946.5|potassium channel tetramerisation domain containing 5
mm10_v2_chr11_-_87826023_87826113	0.581608	Msx2_Hoxd4	ENSMUST00000103177.3|Lpo|ENSMUSG00000009356.6|lactoperoxidase
mm10_v2_chr15_+_85510812_85510812	0.566846	Msx2_Hoxd4	ENSMUST00000079690.2|Gm4825|ENSMUSG00000063548.2|predicted pseudogene 4825
mm10_v2_chr1_-_183147461_183147461	0.55975	Msx2_Hoxd4	ENSMUST00000171366.1|Disp1|ENSMUSG00000030768.6|dispatched homolog 1 (Drosophila)
mm10_v2_chr5_-_53707532_53707704	0.55722	Msx2_Hoxd4	ENSMUST00000031093.3|Cckar|ENSMUSG00000029193.4|cholecystokinin A receptor
mm10_v2_chr18_+_37518341_37518359	0.553512	Msx2_Hoxd4	ENSMUST00000097609.1|Pcdhb22|ENSMUSG00000073591.3|protocadherin beta 22
mm10_v2_chr18_-_43477764_43477836	0.516221	Msx2_Hoxd4	ENSMUST00000057110.9|Eif3j2|ENSMUSG00000043424.9|eukaryotic translation initiation factor 3, subunit J2
mm10_v2_chr4_-_73950834_73950853	0.513675	Msx2_Hoxd4	ENSMUST00000095023.1|2310002L09Rik|ENSMUSG00000028396.5|RIKEN cDNA 2310002L09 gene 	ENSMUST00000030101.3|2310002L09Rik|ENSMUSG00000028396.5|RIKEN cDNA 2310002L09 gene
mm10_v2_chr2_+_155751117_155751284	0.509006	Msx2_Hoxd4	ENSMUST00000029140.5|Procr|ENSMUSG00000027611.6|protein C receptor, endothelial 	ENSMUST00000132608.1|Procr|ENSMUSG00000027611.6|protein C receptor, endothelial
mm10_v2_chr2_-_152580300_152580315	0.499608	Msx2_Hoxd4	ENSMUST00000053180.3|Defb19|ENSMUSG00000050645.3|defensin beta 19
mm10_v2_chr1_-_152625212_152625220	0.49729	Msx2_Hoxd4	ENSMUST00000027760.7|Rgl1|ENSMUSG00000026482.7|ral guanine nucleotide dissociation stimulator,-like 1
mm10_v2_chr4_-_82850721_82850814	0.496853	Msx2_Hoxd4	ENSMUST00000139401.1|Zdhhc21|ENSMUSG00000028403.9|zinc finger, DHHC domain containing 21
mm10_v2_chr1_-_150164943_150164964	0.490683	Msx2_Hoxd4	ENSMUST00000181308.1|Gm26687|ENSMUSG00000097754.1|predicted gene, 26687
mm10_v2_chrX_-_94123359_94123412	0.485505	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_chr9_-_114390633_114390687	0.481038	Msx2_Hoxd4	ENSMUST00000084881.4|Crtap|ENSMUSG00000032431.6|cartilage associated protein
mm10_v2_chr2_-_60125651_60125775	0.469336	Msx2_Hoxd4	ENSMUST00000112550.1|Baz2b|ENSMUSG00000026987.10|bromodomain adjacent to zinc finger domain, 2B
mm10_v2_chr2_+_57997884_57997884	0.461905	Msx2_Hoxd4	ENSMUST00000112616.1|Galnt5|ENSMUSG00000026828.5|UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 5 	ENSMUST00000166729.1|Galnt5|ENSMUSG00000026828.5|UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 5
mm10_v2_chr9_-_107770945_107771007	0.45995	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_chr4_+_3940747_3940854	0.45852	Msx2_Hoxd4	ENSMUST00000119403.1|Chchd7|ENSMUSG00000042198.6|coiled-coil-helix-coiled-coil-helix domain containing 7
mm10_v2_chr19_-_55241236_55241236	0.455659	Msx2_Hoxd4	ENSMUST00000069183.6|Gucy2g|ENSMUSG00000055523.6|guanylate cyclase 2g
mm10_v2_chr4_-_119492563_119492628	0.442149	Msx2_Hoxd4	ENSMUST00000049994.7|Rimkla|ENSMUSG00000048899.8|ribosomal modification protein rimK-like family member A
mm10_v2_chr7_+_126950687_126950729	0.440878	Msx2_Hoxd4	ENSMUST00000106333.1|Sez6l2|ENSMUSG00000030683.5|seizure related 6 homolog like 2
mm10_v2_chr3_-_49757257_49757316	0.435061	Msx2_Hoxd4	ENSMUST00000035931.7|Pcdh18|ENSMUSG00000037892.8|protocadherin 18
mm10_v2_chr2_+_76650264_76650278	0.43349	Msx2_Hoxd4	ENSMUST00000099986.2|Dfnb59|ENSMUSG00000075267.3|deafness, autosomal recessive 59 (human)
mm10_v2_chr2_-_169962987_169963082	0.432803	Msx2_Hoxd4	ENSMUST00000087964.2|AY702102|ENSMUSG00000067581.2|cDNA sequence AY702102
mm10_v2_chr4_-_99829180_99829191	0.408642	Msx2_Hoxd4	ENSMUST00000146258.1|Itgb3bp|ENSMUSG00000028549.11|integrin beta 3 binding protein (beta3-endonexin)
mm10_v2_chr4_+_101507855_101507871	0.404659	Msx2_Hoxd4	ENSMUST00000038207.5|Dnajc6|ENSMUSG00000028528.10|DnaJ (Hsp40) homolog, subfamily C, member 6
mm10_v2_chr15_+_21111452_21111452	0.403177	Msx2_Hoxd4	ENSMUST00000075132.6|Cdh12|ENSMUSG00000040452.8|cadherin 12
mm10_v2_chr5_+_48242549_48242549	0.402564	Msx2_Hoxd4	ENSMUST00000172493.1|Slit2|ENSMUSG00000031558.9|slit homolog 2 (Drosophila)
mm10_v2_chr18_+_52767994_52768149	0.383043	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_chr9_+_30942541_30942562	0.38256	Msx2_Hoxd4	ENSMUST00000068135.6|Adamts8|ENSMUSG00000031994.7|a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 8
mm10_v2_chr1_+_159737510_159737510	0.381525	Msx2_Hoxd4	ENSMUST00000111669.3|Tnr|ENSMUSG00000015829.8|tenascin R
mm10_v2_chr5_-_62765618_62765656	0.379867	Msx2_Hoxd4	ENSMUST00000159470.1|Arap2|ENSMUSG00000037999.9|ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2
mm10_v2_chr3_-_66296807_66296837	0.3712	Msx2_Hoxd4	ENSMUST00000029419.7|Veph1|ENSMUSG00000027831.9|ventricular zone expressed PH domain-containing 1
mm10_v2_chr2_-_72813665_72813717	0.371023	Msx2_Hoxd4	ENSMUST00000136807.1|6430710C18Rik|ENSMUSG00000085427.1|RIKEN cDNA 6430710C18 gene 	ENSMUST00000148327.1|6430710C18Rik|ENSMUSG00000085427.1|RIKEN cDNA 6430710C18 gene
mm10_v2_chrX_+_133850980_133851129	0.368634	Msx2_Hoxd4	ENSMUST00000033602.8|Tnmd|ENSMUSG00000031250.8|tenomodulin
mm10_v2_chr6_-_124779686_124779742	0.357744	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_chr5_-_31179901_31179942	0.350787	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_chr5_-_72168142_72168199	0.343807	Msx2_Hoxd4	ENSMUST00000013693.6|Commd8|ENSMUSG00000029213.7|COMM domain containing 8
mm10_v2_chr8_-_120228221_120228297	0.341549	Msx2_Hoxd4	ENSMUST00000183235.1|A330074K22Rik|ENSMUSG00000097960.1|RIKEN cDNA A330074K22 gene
mm10_v2_chr13_-_102906046_102906111	0.338669	Msx2_Hoxd4	ENSMUST00000171791.1|Mast4|ENSMUSG00000034751.9|microtubule associated serine/threonine kinase family member 4
mm10_v2_chr1_-_133661318_133661386	0.330489	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_+_171840557_171840570	0.322847	Msx2_Hoxd4	ENSMUST00000135386.1|Cd84|ENSMUSG00000038147.7|CD84 antigen
mm10_v2_chr17_+_17402672_17402771	0.32183	Msx2_Hoxd4	ENSMUST00000115576.2|Lix1|ENSMUSG00000047786.12|limb expression 1 homolog (chicken)
mm10_v2_chr1_-_78968079_78968079	0.317737	Msx2_Hoxd4	ENSMUST00000049117.5|Gm5830|ENSMUSG00000072978.2|predicted pseudogene 5830
mm10_v2_chr4_-_62519885_62519967	0.317687	Msx2_Hoxd4	ENSMUST00000107444.1|Alad|ENSMUSG00000028393.4|aminolevulinate, delta-, dehydratase 	ENSMUST00000030090.3|Alad|ENSMUSG00000028393.4|aminolevulinate, delta-, dehydratase
mm10_v2_chr10_+_115569986_115570035	0.313059	Msx2_Hoxd4	ENSMUST00000173620.1|A930009A15Rik|ENSMUSG00000092210.1|RIKEN cDNA A930009A15 gene
mm10_v2_chr8_+_81856324_81856376	0.31257	Msx2_Hoxd4	ENSMUST00000109851.2|Inpp4b|ENSMUSG00000037940.9|inositol polyphosphate-4-phosphatase, type II
mm10_v2_chr9_-_118014160_118014160	0.311557	Msx2_Hoxd4	ENSMUST00000111769.3|Zcwpw2|ENSMUSG00000032443.9|zinc finger, CW type with PWWP domain 2
mm10_v2_chr7_+_126950837_126950966	0.310055	Msx2_Hoxd4	ENSMUST00000106332.1|Sez6l2|ENSMUSG00000030683.5|seizure related 6 homolog like 2
mm10_v2_chr1_+_106938953_106938958	0.300791	Msx2_Hoxd4	ENSMUST00000112724.2|Serpinb12|ENSMUSG00000059956.8|serine (or cysteine) peptidase inhibitor, clade B (ovalbumin), member 12
mm10_v2_chr13_-_75943812_75943950	0.295426	Msx2_Hoxd4	ENSMUST00000022078.5|Rhobtb3|ENSMUSG00000021589.6|Rho-related BTB domain containing 3 	ENSMUST00000109606.1|Rhobtb3|ENSMUSG00000021589.6|Rho-related BTB domain containing 3
mm10_v2_chr3_+_84952146_84952186	0.293551	Msx2_Hoxd4	ENSMUST00000029727.7|Fbxw7|ENSMUSG00000028086.8|F-box and WD-40 domain protein 7
mm10_v2_chr1_+_70725902_70725927	0.292337	Msx2_Hoxd4	ENSMUST00000161937.1|Vwc2l|ENSMUSG00000045648.9|von Willebrand factor C domain-containing protein 2-like 	ENSMUST00000162182.1|Vwc2l|ENSMUSG00000045648.9|von Willebrand factor C domain-containing protein 2-like
mm10_v2_chr2_-_163417092_163417097	0.29007	Msx2_Hoxd4	ENSMUST00000127038.1|Oser1|ENSMUSG00000035399.6|oxidative stress responsive serine rich 1
mm10_v2_chr10_+_128303322_128303352	0.278642	Msx2_Hoxd4	ENSMUST00000005825.6|Pan2|ENSMUSG00000005682.8|PAN2 polyA specific ribonuclease subunit homolog (S. cerevisiae)
mm10_v2_chr13_+_93304799_93304935	0.261468	Msx2_Hoxd4	ENSMUST00000080127.5|Homer1|ENSMUSG00000007617.11|homer homolog 1 (Drosophila)
mm10_v2_chr2_-_33086366_33086447	0.26032	Msx2_Hoxd4	ENSMUST00000049618.2|Garnl3|ENSMUSG00000038860.9|GTPase activating RANGAP domain-like 3
mm10_v2_chr14_-_88471396_88471396	0.259335	Msx2_Hoxd4	ENSMUST00000061628.5|Pcdh20|ENSMUSG00000050505.6|protocadherin 20
mm10_v2_chr18_+_59062462_59062538	0.244921	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_chr18_+_37320374_37320401	0.240523	Msx2_Hoxd4	ENSMUST00000078271.2|Pcdhb5|ENSMUSG00000063687.2|protocadherin beta 5
mm10_v2_chr6_-_67491849_67491862	0.232893	Msx2_Hoxd4	ENSMUST00000118364.1|Il23r|ENSMUSG00000049093.9|interleukin 23 receptor
mm10_v2_chr5_-_31180110_31180158	0.223969	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_chr5_-_151586924_151586924	0.221878	Msx2_Hoxd4	ENSMUST00000165928.1|Vmn2r18|ENSMUSG00000091794.1|vomeronasal 2, receptor 18
mm10_v2_chrX_+_101640056_101640108	0.220134	Msx2_Hoxd4	ENSMUST00000119299.1|Ogt|ENSMUSG00000034160.7|O-linked N-acetylglucosamine (GlcNAc) transferase (UDP-N-acetylglucosamine:polypeptide-N-acetylglucosaminyl transferase) 	ENSMUST00000044475.4|Ogt|ENSMUSG00000034160.7|O-linked N-acetylglucosamine (GlcNAc) transferase (UDP-N-acetylglucosamine:polypeptide-N-acetylglucosaminyl transferase)
mm10_v2_chr11_+_73350839_73350839	0.217545	Msx2_Hoxd4	ENSMUST00000120137.1|Olfr20|ENSMUSG00000062128.6|olfactory receptor 20
mm10_v2_chr7_+_123123870_123123901	0.21526	Msx2_Hoxd4	ENSMUST00000094053.5|Tnrc6a|ENSMUSG00000052707.7|trinucleotide repeat containing 6a
mm10_v2_chr1_+_70725715_70725830	0.214955	Msx2_Hoxd4	ENSMUST00000053922.5|Vwc2l|ENSMUSG00000045648.9|von Willebrand factor C domain-containing protein 2-like
mm10_v2_chr5_+_87925579_87925621	0.209009	Msx2_Hoxd4	ENSMUST00000001667.6|Csn3|ENSMUSG00000001622.9|casein kappa 	ENSMUST00000113267.1|Csn3|ENSMUSG00000001622.9|casein kappa
mm10_v2_chr12_+_108179738_108179831	0.204084	Msx2_Hoxd4	ENSMUST00000101055.4|Ccnk|ENSMUSG00000021258.9|cyclin K
mm10_v2_chr6_-_119963733_119963836	0.194567	Msx2_Hoxd4	ENSMUST00000161512.2|Wnk1|ENSMUSG00000045962.10|WNK lysine deficient protein kinase 1
mm10_v2_chr8_+_31111816_31111891	0.184924	Msx2_Hoxd4	ENSMUST00000046941.7|Rnf122|ENSMUSG00000039328.9|ring finger protein 122
mm10_v2_chr2_+_36452587_36452587	0.165721	Msx2_Hoxd4	ENSMUST00000072854.1|Olfr340|ENSMUSG00000094266.1|olfactory receptor 340
mm10_v2_chr13_+_51408618_51408781	0.162862	Msx2_Hoxd4	ENSMUST00000087978.3|S1pr3|ENSMUSG00000067586.3|sphingosine-1-phosphate receptor 3
mm10_v2_chr9_+_38877126_38877126	0.159744	Msx2_Hoxd4	ENSMUST00000078289.2|Olfr926|ENSMUSG00000064333.2|olfactory receptor 926
mm10_v2_chr2_+_74691090_74691090	0.159637	Msx2_Hoxd4	ENSMUST00000061745.3|Hoxd10|ENSMUSG00000050368.3|homeobox D10
mm10_v2_chr4_-_73790602_73790709	0.158703	Msx2_Hoxd4	ENSMUST00000058292.6|Rasef|ENSMUSG00000043003.7|RAS and EF hand domain containing 	ENSMUST00000102837.2|Rasef|ENSMUSG00000043003.7|RAS and EF hand domain containing
mm10_v2_chr11_-_74724670_74724702	0.158064	Msx2_Hoxd4	ENSMUST00000021091.8|Pafah1b1|ENSMUSG00000020745.9|platelet-activating factor acetylhydrolase, isoform 1b, subunit 1
mm10_v2_chr4_+_35152056_35152056	0.155017	Msx2_Hoxd4	ENSMUST00000058595.6|Ifnk|ENSMUSG00000042993.6|interferon kappa
mm10_v2_chr18_+_4920509_4920586	0.1458	Msx2_Hoxd4	ENSMUST00000126977.1|Svil|ENSMUSG00000024236.11|supervillin
mm10_v2_chr1_+_180109192_180109265	0.142524	Msx2_Hoxd4	ENSMUST00000143176.1|Cdc42bpa|ENSMUSG00000026490.11|CDC42 binding protein kinase alpha 	ENSMUST00000135056.1|Cdc42bpa|ENSMUSG00000026490.11|CDC42 binding protein kinase alpha
mm10_v2_chr2_+_180710117_180710201	0.139126	Msx2_Hoxd4	ENSMUST00000029090.2|Gid8|ENSMUSG00000027573.5|GID complex subunit 8 homolog (S. cerevisiae)
mm10_v2_chr1_+_72284367_72284419	0.136996	Msx2_Hoxd4	ENSMUST00000027380.5|Tmem169|ENSMUSG00000026188.5|transmembrane protein 169 	ENSMUST00000141783.1|Tmem169|ENSMUSG00000026188.5|transmembrane protein 169
mm10_v2_chr12_+_52516077_52516077	0.131	Msx2_Hoxd4	ENSMUST00000110725.1|Arhgap5|ENSMUSG00000035133.8|Rho GTPase activating protein 5
mm10_v2_chr1_-_186749304_186749358	0.130612	Msx2_Hoxd4	ENSMUST00000001339.5|Rrp15|ENSMUSG00000001305.5|ribosomal RNA processing 15 homolog (S. cerevisiae)
mm10_v2_chr3_+_59952185_59952309	0.127533	Msx2_Hoxd4	ENSMUST00000094227.3|Gm9696|ENSMUSG00000070465.3|predicted gene 9696
mm10_v2_chr11_+_96292453_96292508	0.119008	Msx2_Hoxd4	ENSMUST00000173432.1|Hoxb6|ENSMUSG00000000690.4|homeobox B6
mm10_v2_chr10_-_14718191_14718228	0.116261	Msx2_Hoxd4	ENSMUST00000020016.4|Gje1|ENSMUSG00000019867.4|gap junction protein, epsilon 1
mm10_v2_chr9_+_64235201_64235201	0.115344	Msx2_Hoxd4	ENSMUST00000039011.3|Uchl4|ENSMUSG00000035337.3|ubiquitin carboxyl-terminal esterase L4
mm10_v2_chr7_-_38019505_38019552	0.114408	Msx2_Hoxd4	ENSMUST00000085513.4|Uri1|ENSMUSG00000030421.8|URI1, prefoldin-like chaperone
mm10_v2_chr19_-_39740999_39741054	0.103551	Msx2_Hoxd4	ENSMUST00000099472.3|Cyp2c68|ENSMUSG00000074882.3|cytochrome P450, family 2, subfamily c, polypeptide 68
mm10_v2_chr1_+_137928100_137928170	0.101078	Msx2_Hoxd4	ENSMUST00000054333.2|A130050O07Rik|ENSMUSG00000051480.2|RIKEN cDNA A130050O07 gene
mm10_v2_chr10_+_5593718_5593739	0.0986275	Msx2_Hoxd4	ENSMUST00000051809.8|Myct1|ENSMUSG00000046916.8|myc target 1
mm10_v2_chr10_-_129160982_129160982	0.0901759	Msx2_Hoxd4	ENSMUST00000078914.2|Olfr771|ENSMUSG00000061367.2|olfactory receptor 771
mm10_v2_chr5_-_23616528_23616597	0.0887166	Msx2_Hoxd4	ENSMUST00000088392.4|Srpk2|ENSMUSG00000062604.7|serine/arginine-rich protein specific kinase 2
mm10_v2_chr18_-_37969742_37969782	0.0835038	Msx2_Hoxd4	ENSMUST00000166148.1|Fchsd1|ENSMUSG00000038524.7|FCH and double SH3 domains 1 	ENSMUST00000163131.1|Fchsd1|ENSMUSG00000038524.7|FCH and double SH3 domains 1 	ENSMUST00000043437.7|Fchsd1|ENSMUSG00000038524.7|FCH and double SH3 domains 1
mm10_v2_chr13_+_93304066_93304138	0.0805371	Msx2_Hoxd4	ENSMUST00000109493.1|Homer1|ENSMUSG00000007617.11|homer homolog 1 (Drosophila)
mm10_v2_chr3_+_106113229_106113390	0.0748514	Msx2_Hoxd4	ENSMUST00000079132.5|Chia|ENSMUSG00000062778.6|chitinase, acidic 	ENSMUST00000139086.1|Chia|ENSMUSG00000062778.6|chitinase, acidic
mm10_v2_chr11_-_99322943_99322957	0.063357	Msx2_Hoxd4	ENSMUST00000038004.2|Krt25|ENSMUSG00000035831.2|keratin 25
mm10_v2_chr7_+_84853573_84853573	0.0478329	Msx2_Hoxd4	ENSMUST00000078172.4|Olfr291|ENSMUSG00000070460.3|olfactory receptor 291
mm10_v2_chr12_-_27160498_27160633	0.0418374	Msx2_Hoxd4	ENSMUST00000182592.1|Gm9866|ENSMUSG00000094002.2|predicted gene 9866
mm10_v2_chr6_-_23650206_23650271	0.0401538	Msx2_Hoxd4	ENSMUST00000115354.1|Rnf133|ENSMUSG00000051956.4|ring finger protein 133
mm10_v2_chr14_-_52036143_52036143	0.0390733	Msx2_Hoxd4	ENSMUST00000052560.4|Olfr221|ENSMUSG00000044286.4|olfactory receptor 221
mm10_v2_chr9_-_89705017_89705068	0.0178019	Msx2_Hoxd4	ENSMUST00000058488.6|Tmed3|ENSMUSG00000032353.7|transmembrane emp24 domain containing 3
mm10_v2_chr15_+_92597104_92597121	0.0126497	Msx2_Hoxd4	ENSMUST00000035399.8|Pdzrn4|ENSMUSG00000036218.9|PDZ domain containing RING finger 4
mm10_v2_chr11_+_98798653_98798664	0.00802043	Msx2_Hoxd4	ENSMUST00000037930.6|Msl1|ENSMUSG00000052915.8|male-specific lethal 1 homolog (Drosophila)
mm10_v2_chr17_-_35046539_35046622	0.00585249	Msx2_Hoxd4	ENSMUST00000007250.7|Msh5|ENSMUSG00000007035.9|mutS homolog 5 (E. coli)
mm10_v2_chr12_-_27160311_27160476	0.00328439	Msx2_Hoxd4	ENSMUST00000182473.1|Gm9866|ENSMUSG00000094002.2|predicted gene 9866 	ENSMUST00000177636.1|Gm9866|ENSMUSG00000094002.2|predicted gene 9866 	ENSMUST00000183238.1|Gm9866|ENSMUSG00000094002.2|predicted gene 9866
mm10_v2_chr3_+_116968267_116968267	0.000959477	Msx2_Hoxd4	ENSMUST00000117592.1|4930455H04Rik|ENSMUSG00000080907.1|RIKEN cDNA 4930455H04 gene
mm10_v2_chr13_+_76098734_76098809	0.000878893	Msx2_Hoxd4	ENSMUST00000091466.3|Ttc37|ENSMUSG00000033991.8|tetratricopeptide repeat domain 37
