mm10_v2_chr9_-_53975246_53975348	1.11511	Msx3	ENSMUST00000048409.7|Elmod1|ENSMUSG00000041986.9|ELMO/CED-12 domain containing 1
mm10_v2_chr4_-_14621805_14621819	0.969367	Msx3	ENSMUST00000042221.7|Slc26a7|ENSMUSG00000040569.7|solute carrier family 26, member 7
mm10_v2_chr2_-_45117349_45117395	0.856208	Msx3	ENSMUST00000176438.2|Zeb2|ENSMUSG00000026872.10|zinc finger E-box binding homeobox 2
mm10_v2_chr4_-_14621494_14621506	0.71499	Msx3	ENSMUST00000149633.1|Slc26a7|ENSMUSG00000040569.7|solute carrier family 26, member 7
mm10_v2_chr1_-_158356258_158356313	0.663731	Msx3	ENSMUST00000004133.8|Brinp2|ENSMUSG00000004031.8|bone morphogenic protein/retinoic acid inducible neural-specific 2
mm10_v2_chr10_+_81257277_81257309	0.569855	Msx3	ENSMUST00000117488.1|Matk|ENSMUSG00000004933.11|megakaryocyte-associated tyrosine kinase 	ENSMUST00000105328.3|Matk|ENSMUSG00000004933.11|megakaryocyte-associated tyrosine kinase 	ENSMUST00000121205.1|Matk|ENSMUSG00000004933.11|megakaryocyte-associated tyrosine kinase
mm10_v2_chr13_+_83732438_83732566	0.51763	Msx3	ENSMUST00000182701.1|C130071C03Rik|ENSMUSG00000050334.6|RIKEN cDNA C130071C03 gene
mm10_v2_chrX_-_143933204_143933311	0.466563	Msx3	ENSMUST00000112851.1|Dcx|ENSMUSG00000031285.8|doublecortin 	ENSMUST00000112856.2|Dcx|ENSMUSG00000031285.8|doublecortin 	ENSMUST00000033642.3|Dcx|ENSMUSG00000031285.8|doublecortin
mm10_v2_chr10_+_39612934_39612934	0.448414	Msx3	ENSMUST00000019987.6|Traf3ip2|ENSMUSG00000019842.6|TRAF3 interacting protein 2
mm10_v2_chr4_+_102254739_102254761	0.447101	Msx3	ENSMUST00000106907.2|Pde4b|ENSMUSG00000028525.10|phosphodiesterase 4B, cAMP specific
mm10_v2_chrX_-_143933089_143933142	0.424496	Msx3	ENSMUST00000087313.3|Dcx|ENSMUSG00000031285.8|doublecortin
mm10_v2_chr2_-_33087169_33087253	0.400175	Msx3	ENSMUST00000102810.3|Garnl3|ENSMUSG00000038860.9|GTPase activating RANGAP domain-like 3
mm10_v2_chr2_-_33086366_33086447	0.399855	Msx3	ENSMUST00000049618.2|Garnl3|ENSMUSG00000038860.9|GTPase activating RANGAP domain-like 3
mm10_v2_chr7_+_103550368_103550368	0.392391	Msx3	ENSMUST00000106888.1|Olfr613|ENSMUSG00000078624.2|olfactory receptor 613
mm10_v2_chr5_+_14514918_14514951	0.384745	Msx3	ENSMUST00000030691.10|Pclo|ENSMUSG00000061601.9|piccolo (presynaptic cytomatrix protein) 	ENSMUST00000182407.1|Pclo|ENSMUSG00000061601.9|piccolo (presynaptic cytomatrix protein)
mm10_v2_chr18_+_37819543_37819570	0.376096	Msx3	ENSMUST00000055935.5|Pcdhga9|ENSMUSG00000023036.8|protocadherin gamma subfamily A, 9
mm10_v2_chr17_+_21383725_21383766	0.31988	Msx3	ENSMUST00000056107.4|Zfp677|ENSMUSG00000062743.3|zinc finger protein 677 	ENSMUST00000162659.1|Zfp677|ENSMUSG00000062743.3|zinc finger protein 677
mm10_v2_chr4_-_14621669_14621786	0.318756	Msx3	ENSMUST00000143105.1|Slc26a7|ENSMUSG00000040569.7|solute carrier family 26, member 7
mm10_v2_chr9_+_35423582_35423589	0.283945	Msx3	ENSMUST00000154652.1|Cdon|ENSMUSG00000038119.8|cell adhesion molecule-related/down-regulated by oncogenes
mm10_v2_chr7_-_127895578_127895647	0.280082	Msx3	ENSMUST00000033074.6|Vkorc1|ENSMUSG00000096145.1|vitamin K epoxide reductase complex, subunit 1
mm10_v2_chr6_+_134640940_134641097	0.26304	Msx3	ENSMUST00000062755.8|Loh12cr1|ENSMUSG00000042992.9|loss of heterozygosity, 12, chromosomal region 1 homolog (human)
mm10_v2_chr10_+_88379217_88379299	0.257711	Msx3	ENSMUST00000130301.1|Gnptab|ENSMUSG00000035311.10|N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits 	ENSMUST00000020251.8|Gnptab|ENSMUSG00000035311.10|N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits
mm10_v2_chrX_+_16619698_16619758	0.249799	Msx3	ENSMUST00000026013.5|Maoa|ENSMUSG00000025037.6|monoamine oxidase A
mm10_v2_chr11_+_70018421_70018484	0.246791	Msx3	ENSMUST00000108588.1|Dlg4|ENSMUSG00000020886.10|discs, large homolog 4 (Drosophila)
mm10_v2_chr15_+_82252397_82252475	0.238671	Msx3	ENSMUST00000136948.1|1500009C09Rik|ENSMUSG00000068099.4|RIKEN cDNA 1500009C09 gene
mm10_v2_chr9_-_15301555_15301607	0.209182	Msx3	ENSMUST00000034414.8|4931406C07Rik|ENSMUSG00000031938.8|RIKEN cDNA 4931406C07 gene
mm10_v2_chr12_+_72441852_72441866	0.209176	Msx3	ENSMUST00000162159.1|Lrrc9|ENSMUSG00000021090.9|leucine rich repeat containing 9
mm10_v2_chr7_+_3645267_3645352	0.202231	Msx3	ENSMUST00000038913.9|Cnot3|ENSMUSG00000035632.10|CCR4-NOT transcription complex, subunit 3
mm10_v2_chr18_+_57468478_57468541	0.200217	Msx3	ENSMUST00000091892.2|Ctxn3|ENSMUSG00000069372.2|cortexin 3
mm10_v2_chr16_+_11406618_11406675	0.157658	Msx3	ENSMUST00000122168.1|Snx29|ENSMUSG00000071669.8|sorting nexin 29
mm10_v2_chr8_+_72219726_72219785	0.150425	Msx3	ENSMUST00000003123.8|Fam32a|ENSMUSG00000003039.8|family with sequence similarity 32, member A
mm10_v2_chr12_+_102128718_102128739	0.149882	Msx3	ENSMUST00000159329.1|Slc24a4|ENSMUSG00000041771.7|solute carrier family 24 (sodium/potassium/calcium exchanger), member 4
mm10_v2_chr5_+_88583527_88583590	0.149086	Msx3	ENSMUST00000031229.6|Rufy3|ENSMUSG00000029291.7|RUN and FYVE domain containing 3
mm10_v2_chr12_+_72441933_72441970	0.148745	Msx3	ENSMUST00000161284.1|Lrrc9|ENSMUSG00000021090.9|leucine rich repeat containing 9
mm10_v2_chr8_+_107031218_107031229	0.138477	Msx3	ENSMUST00000034388.9|Vps4a|ENSMUSG00000031913.9|vacuolar protein sorting 4a (yeast)
mm10_v2_chr5_-_62766153_62766246	0.136944	Msx3	ENSMUST00000076623.4|Arap2|ENSMUSG00000037999.9|ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2
mm10_v2_chr17_-_24527830_24527884	0.124286	Msx3	ENSMUST00000176353.1|Traf7|ENSMUSG00000052752.9|TNF receptor-associated factor 7 	ENSMUST00000176237.1|Traf7|ENSMUSG00000052752.9|TNF receptor-associated factor 7
mm10_v2_chr10_+_88379127_88379169	0.1241	Msx3	ENSMUST00000127615.1|Gnptab|ENSMUSG00000035311.10|N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits
mm10_v2_chrM_+_9870_9885	0.122252	Msx3	ENSMUST00000084013.1|mt-Nd4l|ENSMUSG00000065947.3|mitochondrially encoded NADH dehydrogenase 4L
mm10_v2_chr11_+_53433299_53433357	0.107482	Msx3	ENSMUST00000018382.6|Gdf9|ENSMUSG00000018238.6|growth differentiation factor 9
mm10_v2_chr3_+_94837533_94837567	0.105455	Msx3	ENSMUST00000107270.2|Pogz|ENSMUSG00000038902.8|pogo transposable element with ZNF domain
mm10_v2_chr1_-_52190901_52190915	0.104934	Msx3	ENSMUST00000156887.1|Gls|ENSMUSG00000026103.8|glutaminase 	ENSMUST00000129107.1|Gls|ENSMUSG00000026103.8|glutaminase
mm10_v2_chr7_-_99141068_99141149	0.104815	Msx3	ENSMUST00000037968.8|Uvrag|ENSMUSG00000035354.8|UV radiation resistance associated gene
mm10_v2_chr17_-_24527925_24527938	0.0956154	Msx3	ENSMUST00000176652.1|Traf7|ENSMUSG00000052752.9|TNF receptor-associated factor 7
mm10_v2_chr3_+_138374121_138374163	0.0890405	Msx3	ENSMUST00000171054.1|Adh6-ps1|ENSMUSG00000090306.1|alcohol dehydrogenase 6 (class V), pseudogene 1
mm10_v2_chrX_+_101449078_101449089	0.0887335	Msx3	ENSMUST00000033674.5|Itgb1bp2|ENSMUSG00000031312.5|integrin beta 1 binding protein 2
mm10_v2_chr12_-_84617326_84617466	0.0807161	Msx3	ENSMUST00000021666.4|Abcd4|ENSMUSG00000021240.5|ATP-binding cassette, sub-family D (ALD), member 4
mm10_v2_chr3_+_94837702_94837723	0.079555	Msx3	ENSMUST00000107266.1|Pogz|ENSMUSG00000038902.8|pogo transposable element with ZNF domain 	ENSMUST00000042402.5|Pogz|ENSMUSG00000038902.8|pogo transposable element with ZNF domain 	ENSMUST00000107269.1|Pogz|ENSMUSG00000038902.8|pogo transposable element with ZNF domain
mm10_v2_chr6_+_145934113_145934136	0.0729929	Msx3	ENSMUST00000032383.7|Sspn|ENSMUSG00000030255.7|sarcospan
mm10_v2_chr10_-_76110956_76110962	0.0708297	Msx3	ENSMUST00000120757.1|Slc5a4b|ENSMUSG00000020226.9|solute carrier family 5 (neutral amino acid transporters, system A), member 4b
mm10_v2_chr15_+_44787746_44787782	0.0674263	Msx3	ENSMUST00000181839.1|2310069G16Rik|ENSMUSG00000097102.1|RIKEN cDNA 2310069G16 gene
mm10_v2_chr11_+_116843278_116843278	0.0579062	Msx3	ENSMUST00000106370.3|Mettl23|ENSMUSG00000090266.4|methyltransferase like 23
mm10_v2_chr16_+_49699198_49699304	0.0528264	Msx3	ENSMUST00000046777.4|Ift57|ENSMUSG00000032965.4|intraflagellar transport 57 	ENSMUST00000142682.1|Ift57|ENSMUSG00000032965.4|intraflagellar transport 57
mm10_v2_chr12_+_71136848_71136848	0.052213	Msx3	ENSMUST00000149564.1|2700049A03Rik|ENSMUSG00000034601.10|RIKEN cDNA 2700049A03 gene 	ENSMUST00000045907.8|2700049A03Rik|ENSMUSG00000034601.10|RIKEN cDNA 2700049A03 gene
mm10_v2_chr6_+_8948608_8948619	0.0424306	Msx3	ENSMUST00000160300.1|Nxph1|ENSMUSG00000046178.3|neurexophilin 1
mm10_v2_chr4_-_129378116_129378116	0.0411561	Msx3	ENSMUST00000030610.2|Zbtb8a|ENSMUSG00000028807.2|zinc finger and BTB domain containing 8a
mm10_v2_chr2_+_121956411_121956480	0.0339981	Msx3	ENSMUST00000110578.1|Ctdspl2|ENSMUSG00000033411.10|CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2
mm10_v2_chr2_+_121956651_121956664	0.0273437	Msx3	ENSMUST00000110574.1|Ctdspl2|ENSMUSG00000033411.10|CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2
mm10_v2_chr15_+_38661904_38661981	0.0229271	Msx3	ENSMUST00000022904.6|Atp6v1c1|ENSMUSG00000022295.7|ATPase, H+ transporting, lysosomal V1 subunit C1
mm10_v2_chr4_+_134930898_134930997	0.0208729	Msx3	ENSMUST00000030622.2|Syf2|ENSMUSG00000028821.2|SYF2 homolog, RNA splicing factor (S. cerevisiae)
mm10_v2_chr9_+_44398176_44398176	0.0130774	Msx3	ENSMUST00000165839.1|Slc37a4|ENSMUSG00000032114.8|solute carrier family 37 (glucose-6-phosphate transporter), member 4
mm10_v2_chr12_-_71136611_71136701	0.00672953	Msx3	ENSMUST00000021486.8|Timm9|ENSMUSG00000021079.9|translocase of inner mitochondrial membrane 9 	ENSMUST00000166120.1|Timm9|ENSMUSG00000021079.9|translocase of inner mitochondrial membrane 9
mm10_v2_chr2_-_150255591_150255591	0.00139357	Msx3	ENSMUST00000063463.5|Gm21994|ENSMUSG00000074735.2|predicted gene 21994
