rn6_v1_chrM_+_9870_9870	0.126787	Msx3	ENSRNOT00000044582|Mt-nd4l|ENSRNOG00000031053|mitochondrially encoded NADH 4L dehydrogenase [Source:RGD Symbol%3BAcc:620494]
rn6_v1_chr3_-_90751055_90751055	0.122837	Msx3	ENSRNOT00000040741|LOC499843|ENSRNOG00000032177|LRRGT00091 [Source:RGD Symbol%3BAcc:1560877]
rn6_v1_chr4_+_147832136_147832136	0.119859	Msx3	ENSRNOT00000064603|Rho|ENSRNOG00000011144|rhodopsin [Source:RGD Symbol%3BAcc:3573]
rn6_v1_chr5_+_6373583_6373583	0.118161	Msx3	ENSRNOT00000084749|AABR07046778.1|ENSRNOG00000058589|
rn6_v1_chr6_-_76552559_76552559	0.116567	Msx3	ENSRNOT00000065230|Ralgapa1|ENSRNOG00000046256|Ral GTPase activating protein catalytic alpha subunit 1 [Source:RGD Symbol%3BAcc:620642]
rn6_v1_chr9_+_73378057_73378111	0.108296	Msx3	ENSRNOT00000043627|Map2|ENSRNOG00000011841|microtubule-associated protein 2 [Source:RGD Symbol%3BAcc:3044]	ENSRNOT00000045766|Map2|ENSRNOG00000011841|microtubule-associated protein 2 [Source:RGD Symbol%3BAcc:3044]	ENSRNOT00000092445|Map2|ENSRNOG00000011841|microtubule-associated protein 2 [Source:RGD Symbol%3BAcc:3044]	ENSRNOT00000037974|Map2|ENSRNOG00000011841|microtubule-associated protein 2 [Source:RGD Symbol%3BAcc:3044]
rn6_v1_chr2_-_219262901_219262901	0.105175	Msx3	ENSRNOT00000037068|Gpr88|ENSRNOG00000026953|G-protein coupled receptor 88 [Source:RGD Symbol%3BAcc:61921]
rn6_v1_chr3_-_165700489_165700489	0.0981023	Msx3	ENSRNOT00000017008|Zfp93|ENSRNOG00000042101|zinc finger protein 93 [Source:RGD Symbol%3BAcc:1309760]
rn6_v1_chr13_+_96303703_96303825	0.0876053	Msx3	ENSRNOT00000084718|Efcab2|ENSRNOG00000042201|EF-hand calcium binding domain 2 [Source:RGD Symbol%3BAcc:1308593]	ENSRNOT00000029723|Efcab2|ENSRNOG00000042201|EF-hand calcium binding domain 2 [Source:RGD Symbol%3BAcc:1308593]
rn6_v1_chr15_-_55209342_55209342	0.0811297	Msx3	ENSRNOT00000021752|Rb1|ENSRNOG00000016029|RB transcriptional corepressor 1 [Source:RGD Symbol%3BAcc:3540]
rn6_v1_chr4_-_66955732_66955732	0.0788094	Msx3	ENSRNOT00000084282|Kdm7a|ENSRNOG00000052445|lysine (K)-specific demethylase 7A [Source:MGI Symbol%3BAcc:MGI:2443388]
rn6_v1_chrX_+_14019961_14019961	0.0730029	Msx3	ENSRNOT00000004785|Sytl5|ENSRNOG00000003585|synaptotagmin-like 5 [Source:RGD Symbol%3BAcc:631342]
rn6_v1_chr12_-_45801842_45801842	0.066417	Msx3	ENSRNOT00000078837|AABR07036513.1|ENSRNOG00000059134|
rn6_v1_chr11_-_71136673_71136673	0.0628547	Msx3	ENSRNOT00000042240|Fyttd1|ENSRNOG00000034233|forty-two-three domain containing 1 [Source:RGD Symbol%3BAcc:1306899]
rn6_v1_chr4_-_176606382_176606382	0.0626642	Msx3	ENSRNOT00000065576|Recql|ENSRNOG00000012602|RecQ like helicase [Source:RGD Symbol%3BAcc:1311071]
rn6_v1_chr8_+_48718329_48718329	0.0620264	Msx3	ENSRNOT00000089763|Slc37a4|ENSRNOG00000011361|solute carrier family 37 member 4 [Source:RGD Symbol%3BAcc:62066]
rn6_v1_chr13_-_76049363_76049363	0.0618064	Msx3	ENSRNOT00000075865|Brinp2|ENSRNOG00000005592|BMP/retinoic acid inducible neural specific 2 [Source:RGD Symbol%3BAcc:708419]	ENSRNOT00000007455|Brinp2|ENSRNOG00000005592|BMP/retinoic acid inducible neural specific 2 [Source:RGD Symbol%3BAcc:708419]
rn6_v1_chr3_-_10196626_10196626	0.061184	Msx3	ENSRNOT00000012234|Prdm12|ENSRNOG00000009218|PR/SET domain 12 [Source:RGD Symbol%3BAcc:1586401]
rn6_v1_chr4_+_88694583_88694583	0.0559572	Msx3	ENSRNOT00000009202|Ppm1k|ENSRNOG00000006893|protein phosphatase%2C Mg2+/Mn2+ dependent%2C 1K [Source:RGD Symbol%3BAcc:1308501]
rn6_v1_chr7_+_24638208_24638208	0.054537	Msx3	ENSRNOT00000009135|Mterf2|ENSRNOG00000006978|mitochondrial transcription termination factor 2 [Source:RGD Symbol%3BAcc:1311836]
rn6_v1_chr15_+_87722221_87722221	0.0527327	Msx3	ENSRNOT00000082688|Scel|ENSRNOG00000024237|sciellin [Source:RGD Symbol%3BAcc:1305102]
rn6_v1_chr2_-_196177775_196177775	0.0524489	Msx3	ENSRNOT00000028553|Zfp687|ENSRNOG00000021026|zinc finger protein 687 [Source:RGD Symbol%3BAcc:2323182]
rn6_v1_chr2_+_57276919_57276919	0.0511832	Msx3	ENSRNOT00000063899|RGD1310081|ENSRNOG00000042118|similar to hypothetical protein FLJ13231 [Source:RGD Symbol%3BAcc:1310081]
rn6_v1_chr2_-_178521038_178521038	0.0508571	Msx3	ENSRNOT00000033107|Rxfp1|ENSRNOG00000024120|relaxin/insulin-like family peptide receptor 1 [Source:RGD Symbol%3BAcc:1302973]
rn6_v1_chrM_+_9451_9451	0.0502871	Msx3	ENSRNOT00000041241|Mt-nd3|ENSRNOG00000033615|mitochondrially encoded NADH dehydrogenase 3 [Source:RGD Symbol%3BAcc:620557]
rn6_v1_chr6_-_42002819_42002819	0.0490412	Msx3	ENSRNOT00000032417|Greb1|ENSRNOG00000024651|growth regulation by estrogen in breast cancer 1 [Source:RGD Symbol%3BAcc:1564091]
rn6_v1_chr2_+_195996521_195996521	0.046562	Msx3	ENSRNOT00000082849|Pogz|ENSRNOG00000053599|pogo transposable element with ZNF domain [Source:RGD Symbol%3BAcc:1309980]
rn6_v1_chr18_+_45023932_45023932	0.0433663	Msx3	ENSRNOT00000039379|Fam170a|ENSRNOG00000015834|family with sequence similarity 170%2C member A [Source:RGD Symbol%3BAcc:1565393]
rn6_v1_chr16_+_84465656_84465656	0.0418972	Msx3	ENSRNOT00000043188|LOC689713|ENSRNOG00000033703|LRRGT00175 [Source:RGD Symbol%3BAcc:1588775]
rn6_v1_chr1_-_241046249_241046256	0.04131	Msx3	ENSRNOT00000067796|Smc5|ENSRNOG00000030572|structural maintenance of chromosomes 5 [Source:RGD Symbol%3BAcc:1307492]	ENSRNOT00000081866|Smc5|ENSRNOG00000030572|structural maintenance of chromosomes 5 [Source:RGD Symbol%3BAcc:1307492]
rn6_v1_chr7_-_120770435_120770435	0.0386428	Msx3	ENSRNOT00000077000|Ddx17|ENSRNOG00000051170|DEAD-box helicase 17 [Source:RGD Symbol%3BAcc:1304945]
rn6_v1_chr4_+_31229913_31229913	0.0372058	Msx3	ENSRNOT00000077134|Samd9l|ENSRNOG00000051922|sterile alpha motif domain containing 9-like [Source:MGI Symbol%3BAcc:MGI:1343184]	ENSRNOT00000087897|Samd9l|ENSRNOG00000051922|sterile alpha motif domain containing 9-like [Source:MGI Symbol%3BAcc:MGI:1343184]
rn6_v1_chr7_+_143122269_143122341	0.0356366	Msx3	ENSRNOT00000082542|Krt86|ENSRNOG00000008367|keratin 86 [Source:RGD Symbol%3BAcc:1303215]	ENSRNOT00000045495|Krt86|ENSRNOG00000008367|keratin 86 [Source:RGD Symbol%3BAcc:1303215]	ENSRNOT00000081386|Krt86|ENSRNOG00000008367|keratin 86 [Source:RGD Symbol%3BAcc:1303215]	ENSRNOT00000067422|Krt86|ENSRNOG00000008367|keratin 86 [Source:RGD Symbol%3BAcc:1303215]
rn6_v1_chr18_-_4294136_4294136	0.0345739	Msx3	ENSRNOT00000091909|Osbpl1a|ENSRNOG00000054058|oxysterol binding protein-like 1A [Source:RGD Symbol%3BAcc:628888]
rn6_v1_chr12_-_22138382_22138382	0.0344756	Msx3	ENSRNOT00000001899|Lrch4|ENSRNOG00000001402|leucine rich repeats and calponin homology domain containing 4 [Source:RGD Symbol%3BAcc:1306145]
rn6_v1_chr4_+_176606649_176606649	0.0341707	Msx3	ENSRNOT00000084700|Golt1b|ENSRNOG00000058386|golgi transport 1B [Source:RGD Symbol%3BAcc:1310691]
rn6_v1_chr1_-_64147251_64147251	0.0333848	Msx3	ENSRNOT00000088502|Cnot3|ENSRNOG00000053234|CCR4-NOT transcription complex%2C subunit 3 [Source:RGD Symbol%3BAcc:1304771]
rn6_v1_chr8_-_39551700_39551700	0.0323486	Msx3	ENSRNOT00000091894|Pknox2|ENSRNOG00000028856|PBX/knotted 1 homeobox 2 [Source:RGD Symbol%3BAcc:1590611]	ENSRNOT00000076025|Pknox2|ENSRNOG00000028856|PBX/knotted 1 homeobox 2 [Source:RGD Symbol%3BAcc:1590611]
rn6_v1_chr17_-_87826421_87826421	0.0297781	Msx3	ENSRNOT00000068156|Arhgap21|ENSRNOG00000008659|Rho GTPase activating protein 21 [Source:RGD Symbol%3BAcc:1311028]
rn6_v1_chr1_+_217459215_217459321	0.0290486	Msx3	ENSRNOT00000092386|Shank2|ENSRNOG00000050206|SH3 and multiple ankyrin repeat domains 2 [Source:RGD Symbol%3BAcc:628772]	ENSRNOT00000092357|Shank2|ENSRNOG00000050206|SH3 and multiple ankyrin repeat domains 2 [Source:RGD Symbol%3BAcc:628772]
rn6_v1_chr1_+_260093641_260093641	0.0284142	Msx3	ENSRNOT00000019521|Ccnj|ENSRNOG00000014551|cyclin J [Source:RGD Symbol%3BAcc:1306399]
rn6_v1_chr13_+_98311827_98311827	0.028361	Msx3	ENSRNOT00000082844|Cdc42bpa|ENSRNOG00000002841|CDC42 binding protein kinase alpha [Source:RGD Symbol%3BAcc:621406]
rn6_v1_chr1_+_101603222_101603222	0.0275826	Msx3	ENSRNOT00000033278|Izumo1|ENSRNOG00000024678|izumo sperm-egg fusion 1 [Source:RGD Symbol%3BAcc:1565454]
rn6_v1_chr2_+_220432037_220432037	0.0272422	Msx3	ENSRNOT00000021988|Frrs1|ENSRNOG00000016351|ferric-chelate reductase 1 [Source:RGD Symbol%3BAcc:1306883]
rn6_v1_chr7_-_72328128_72328128	0.025901	Msx3	ENSRNOT00000008227|Tspyl5|ENSRNOG00000006278|TSPY-like 5 [Source:RGD Symbol%3BAcc:1311262]
rn6_v1_chr3_+_112346627_112346627	0.0234246	Msx3	ENSRNOT00000074392|Snap23|ENSRNOG00000050552|synaptosomal-associated protein 23 [Source:MGI Symbol%3BAcc:MGI:109356]
rn6_v1_chr8_-_6305033_6305033	0.0231046	Msx3	ENSRNOT00000029887|Cep126|ENSRNOG00000021839|centrosomal protein 126 [Source:RGD Symbol%3BAcc:1563556]
rn6_v1_chr13_-_111972603_111972603	0.0222179	Msx3	ENSRNOT00000007870|Hsd11b1|ENSRNOG00000005861|hydroxysteroid 11-beta dehydrogenase 1 [Source:RGD Symbol%3BAcc:2834]
rn6_v1_chrX_+_118197217_118197217	0.0212627	Msx3	ENSRNOT00000090922|Htr2c|ENSRNOG00000030877|5-hydroxytryptamine receptor 2C [Source:RGD Symbol%3BAcc:2848]
rn6_v1_chrX_+_71342775_71342775	0.0205271	Msx3	ENSRNOT00000004888|Itgb1bp2|ENSRNOG00000003596|integrin subunit beta 1 binding protein 2 [Source:RGD Symbol%3BAcc:1565015]
rn6_v1_chr1_-_38538987_38538987	0.0187756	Msx3	ENSRNOT00000090406|LOC102551340|ENSRNOG00000047145|zinc finger protein 728-like [Source:RGD Symbol%3BAcc:7697243]	ENSRNOT00000071275|LOC102551340|ENSRNOG00000047145|zinc finger protein 728-like [Source:RGD Symbol%3BAcc:7697243]
rn6_v1_chr18_-_43945273_43945273	0.0171863	Msx3	ENSRNOT00000088900|Dtwd2|ENSRNOG00000059142|DTW domain containing 2 [Source:RGD Symbol%3BAcc:1306423]
rn6_v1_chr8_+_115546893_115546893	0.0167558	Msx3	ENSRNOT00000018932|Dcaf1|ENSRNOG00000013841|DDB1 and CUL4 associated factor 1 [Source:RGD Symbol%3BAcc:1305176]
rn6_v1_chr10_-_86645529_86645529	0.0139178	Msx3	ENSRNOT00000011947|Med24|ENSRNOG00000008711|mediator complex subunit 24 [Source:RGD Symbol%3BAcc:1564565]
rn6_v1_chr2_-_256154584_256154584	0.0133888	Msx3	ENSRNOT00000072487|AABR07013776.1|ENSRNOG00000048082|
rn6_v1_chr1_-_164101578_164101578	0.012746	Msx3	ENSRNOT00000022176|Uvrag|ENSRNOG00000016206|UV radiation resistance associated [Source:RGD Symbol%3BAcc:1589754]
rn6_v1_chr15_+_39779648_39779648	0.0121356	Msx3	ENSRNOT00000084505|Cab39l|ENSRNOG00000011603|calcium binding protein 39-like [Source:RGD Symbol%3BAcc:1308945]
rn6_v1_chr5_+_133819726_133819726	0.0119628	Msx3	ENSRNOT00000081075|Stil|ENSRNOG00000057760|Scl/Tal1 interrupting locus [Source:RGD Symbol%3BAcc:1304972]
rn6_v1_chr7_-_143228060_143228060	0.00904406	Msx3	ENSRNOT00000088923|Krt75|ENSRNOG00000043203|keratin 75 [Source:RGD Symbol%3BAcc:1359576]	ENSRNOT00000012640|Krt75|ENSRNOG00000043203|keratin 75 [Source:RGD Symbol%3BAcc:1359576]
rn6_v1_chr15_-_36798814_36798814	0.00756087	Msx3	ENSRNOT00000065764|Cenpj|ENSRNOG00000022597|centromere protein J [Source:RGD Symbol%3BAcc:1310464]
rn6_v1_chr6_-_50618694_50618694	0.00727222	Msx3	ENSRNOT00000008980|Dld|ENSRNOG00000006364|dihydrolipoamide dehydrogenase [Source:RGD Symbol%3BAcc:735073]
rn6_v1_chr3_-_165537940_165537940	0.00718839	Msx3	ENSRNOT00000071119|Sall4|ENSRNOG00000050035|spalt-like transcription factor 4 [Source:RGD Symbol%3BAcc:1597672]	ENSRNOT00000070964|Sall4|ENSRNOG00000050035|spalt-like transcription factor 4 [Source:RGD Symbol%3BAcc:1597672]
rn6_v1_chr8_+_104106740_104106740	0.00536256	Msx3	ENSRNOT00000015015|Tfdp2|ENSRNOG00000011241|transcription factor Dp-2 [Source:RGD Symbol%3BAcc:1305814]
rn6_v1_chr5_-_56567320_56567320	0.00498158	Msx3	ENSRNOT00000066081|Topors|ENSRNOG00000006485|TOP1 binding arginine/serine rich protein [Source:RGD Symbol%3BAcc:1305270]
rn6_v1_chr7_+_42304534_42304534	0.00404423	Msx3	ENSRNOT00000085097|Kitlg|ENSRNOG00000005386|KIT ligand [Source:RGD Symbol%3BAcc:3086]
rn6_v1_chr8_+_79638696_79638696	0.00335342	Msx3	ENSRNOT00000085959|Dyx1c1|ENSRNOG00000056654|dyslexia susceptibility 1 candidate 1 [Source:RGD Symbol%3BAcc:1549760]
rn6_v1_chr6_-_111417813_111417954	0.00232777	Msx3	ENSRNOT00000016324|Sptlc2|ENSRNOG00000012210|serine palmitoyltransferase%2C long chain base subunit 2 [Source:RGD Symbol%3BAcc:1305447]	ENSRNOT00000085458|Sptlc2|ENSRNOG00000012210|serine palmitoyltransferase%2C long chain base subunit 2 [Source:RGD Symbol%3BAcc:1305447]
rn6_v1_chr2_-_9472384_9472384	0.00213362	Msx3	ENSRNOT00000084295|Adgrv1|ENSRNOG00000016306|adhesion G protein-coupled receptor V1 [Source:RGD Symbol%3BAcc:1562101]
