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ONTOLOGY REPORT - ANNOTATIONS


Term:formation of primary germ layer
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Accession:GO:0001704 term browser browse the term
Definition:The formation of the ectoderm, mesoderm and endoderm during gastrulation.


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formation of primary germ layer term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ARID1A AT-rich interaction domain 1A ISO (MGI:3789431|PMID:18448678) MGI PMID:18448678 MGI:3789431 NCBI chr 1:25,960,868...26,047,057
Ensembl chr 1:27,018,616...27,103,239
JBrowse link
G ATOH8 atonal bHLH transcription factor 8 ISO (MGI:3798332|PMID:18560595) UniProt PMID:18560595 MGI:3798332 NCBI chr2A:85,803,414...85,837,858
Ensembl chr2A:87,352,904...87,362,938
JBrowse link
G KIF16B kinesin family member 16B ISO (MGI:4889011|PMID:21238925) UniProt PMID:21238925 MGI:4889011 NCBI chr20:16,229,429...16,532,735
Ensembl chr20:16,210,821...16,512,618
JBrowse link
axial mesoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AXIN1 axin 1 ISO (MGI:894149|PMID:9230313) MGI PMID:9230313 MGI:894149 Ensembl chr16:278,239...337,891 JBrowse link
G EPHA2 EPH receptor A2 ISO (MGI:1934524|PMID:11287184) MGI PMID:11287184 MGI:1934524 NCBI chr 1:15,259,915...15,292,983
Ensembl chr 1:16,253,513...16,284,787
JBrowse link
axial mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NODAL nodal growth differentiation factor ISO (MGI:2677178|PMID:14511481) MGI PMID:14511481 MGI:2677178 NCBI chr10:66,906,866...66,916,938
Ensembl chr10:69,433,959...69,443,972
JBrowse link
BMP signaling pathway involved in mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ETV2 ETS variant transcription factor 2 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr19:32,571,829...32,575,083
Ensembl chr19:41,307,864...41,311,004
JBrowse link
cell fate commitment involved in formation of primary germ layer term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G POU5F1 POU class 5 homeobox 1 ISO (PMID:19736317) BHF-UCL PMID:19736317 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
ectoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G FOXA2 forkhead box A2 ISO (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chr20:22,519,942...22,524,262 JBrowse link
G LHX1 LIM homeobox 1 ISO (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chr17:20,134,308...20,140,652
Ensembl chr17:20,430,618...20,437,751
JBrowse link
ectodermal cell fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ELF5 E74 like ETS transcription factor 5 ISO (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chr11:34,453,550...34,486,519
Ensembl chr11:34,329,889...34,362,770
JBrowse link
G ETS2 ETS proto-oncogene 2, transcription factor ISO (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chr21:25,158,457...25,178,035
Ensembl chr21:38,512,835...38,527,651
JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
endoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CTNNB1 catenin beta 1 ISO (MGI:5498579|PMID:23824574)
(MGI:3625553|PMID:12194849)
MGI PMID:12194849, PMID:23824574 MGI:3625553, MGI:5498579 NCBI chr 3:41,104,940...41,145,934
Ensembl chr 3:41,373,726...41,414,030
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
JBrowse link
G EOMES eomesodermin ISO (MGI:4887279|PMID:21245162), (MGI:5293253|PMID:21822279)
(MGI:3772748|PMID:18171685)
MGI
UniProt
PMID:18171685, PMID:21245162, PMID:21822279 MGI:3772748, MGI:4887279, MGI:5293253 NCBI chr 3:27,601,829...27,608,701
Ensembl chr 3:27,925,086...27,930,274
JBrowse link
G GATA4 GATA binding protein 4 ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chr 8:7,442,921...7,526,731 JBrowse link
G LHX1 LIM homeobox 1 ISO (MGI:3487194|PMID:15355796) MGI PMID:15355796 MGI:3487194 NCBI chr17:20,134,308...20,140,652
Ensembl chr17:20,430,618...20,437,751
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chr 1:201,682,488...201,686,358 JBrowse link
G NOG noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr17:50,669,186...50,671,081
Ensembl chr17:55,532,394...55,533,092
JBrowse link
G SMAD2 SMAD family member 2 ISO (MGI:5293253|PMID:21822279) MGI PMID:21822279 MGI:5293253 NCBI chr18:41,213,001...41,309,902
Ensembl chr18:44,580,905...44,668,530
JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr 8:50,883,088...50,885,542
Ensembl chr 8:48,257,287...48,259,808
JBrowse link
G SOX7 SRY-box transcription factor 7 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr 8:8,476,357...8,483,144 JBrowse link
G TNRC6C trinucleotide repeat containing adaptor 6C ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chr17:72,035,737...72,185,489
Ensembl chr17:77,633,564...77,738,511
JBrowse link
endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COL11A1 collagen type XI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 1:105,538,215...105,769,973
Ensembl chr 1:104,249,891...104,481,259
JBrowse link
G COL12A1 collagen type XII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 6:72,927,897...73,049,168
Ensembl chr 6:76,219,319...76,340,496
JBrowse link
G COL4A2 collagen type IV alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr13:91,440,314...91,650,138
Ensembl chr13:110,563,119...110,767,530
JBrowse link
G COL6A1 collagen type VI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr21:32,322,185...32,346,850
Ensembl chr21:45,584,096...45,607,240
JBrowse link
G COL7A1 collagen type VII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:48,485,922...48,518,036
Ensembl chr 3:49,568,163...49,598,919
JBrowse link
G COL8A1 collagen type VIII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:96,732,445...96,892,726
Ensembl chr 3:103,521,159...103,573,617
JBrowse link
G FN1 fibronectin 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:102,623,568...102,698,747
Ensembl chr2B:221,208,431...221,284,003
JBrowse link
G GATA6 GATA binding protein 6 ISO (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chr18:15,411,764...15,444,402 JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr12:22,954,946...23,096,623 JBrowse link
G HSBP1 heat shock factor binding protein 1 ISO (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chr16:64,429,442...64,434,467 JBrowse link
G INHBA inhibin subunit beta A ISO (PMID:21828274) BHF-UCL PMID:21828274 NCBI chr 7:42,538,591...42,556,578
Ensembl chr 7:42,580,730...42,595,097
JBrowse link
G ITGA4 integrin subunit alpha 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:68,719,376...68,802,488
Ensembl chr2B:186,530,187...186,612,203
JBrowse link
G ITGA5 integrin subunit alpha 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:34,326,182...34,350,050
Ensembl chr12:35,052,994...35,075,835
JBrowse link
G ITGA7 integrin subunit alpha 7 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:33,195,602...33,226,796
Ensembl chr12:33,923,549...33,950,886
JBrowse link
G ITGAV integrin subunit alpha V ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:73,880,962...73,972,486
Ensembl chr2B:191,680,655...191,773,028
JBrowse link
G ITGB2 integrin subunit beta 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr21:31,181,228...31,216,033
Ensembl chr21:44,470,999...44,505,963
JBrowse link
G ITGB5 integrin subunit beta 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:121,863,676...122,013,438
Ensembl chr 3:128,762,200...128,877,172
JBrowse link
G LAMA3 laminin subunit alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr18:16,941,316...17,208,363
Ensembl chr18:20,565,649...20,831,957
JBrowse link
G LAMB1 laminin subunit beta 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 7:99,905,761...99,985,233
Ensembl chr 7:112,627,488...112,706,554
JBrowse link
G LAMB3 laminin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 1:185,191,401...185,245,154
Ensembl chr 1:189,996,639...190,034,206
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chr 1:201,682,488...201,686,358 JBrowse link
G MMP14 matrix metallopeptidase 14 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr14:3,654,125...3,665,158
Ensembl chr14:21,753,305...21,764,058
JBrowse link
G MMP15 matrix metallopeptidase 15 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:38,304,856...38,326,193
Ensembl chr16:57,433,813...57,457,122
JBrowse link
G MMP2 matrix metallopeptidase 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:35,711,866...35,738,881
Ensembl chr16:54,812,694...54,844,279
JBrowse link
G MMP8 matrix metallopeptidase 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr11:97,650,408...97,663,731
Ensembl chr11:101,143,268...101,156,736
JBrowse link
G MMP9 matrix metallopeptidase 9 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr20:42,346,305...42,354,018
Ensembl chr20:43,432,389...43,440,129
JBrowse link
G NODAL nodal growth differentiation factor ISO (PMID:21741376) BHF-UCL PMID:21741376 NCBI chr10:66,906,866...66,916,938
Ensembl chr10:69,433,959...69,443,972
JBrowse link
G SETD2 SET domain containing 2, histone lysine methyltransferase ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chr 3:46,916,615...47,064,046
Ensembl chr 3:48,018,517...48,163,999
JBrowse link
G VTN vitronectin ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr17:28,403,813...28,407,202
Ensembl chr17:28,906,508...28,909,583
JBrowse link
endodermal cell fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CDC73 cell division cycle 73 ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 1:168,581,730...168,710,915
Ensembl chr 1:172,875,365...173,004,934
JBrowse link
G CTNNB1 catenin beta 1 ISO (MGI:3625553|PMID:12194849) MGI PMID:12194849 MGI:3625553 NCBI chr 3:41,104,940...41,145,934
Ensembl chr 3:41,373,726...41,414,030
JBrowse link
G CTR9 CTR9 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr11:10,884,353...10,913,246
Ensembl chr11:10,610,892...10,639,808
JBrowse link
G PAF1 PAF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr19:36,484,099...36,489,364
Ensembl chr19:45,031,819...45,037,169
JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
G RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr15:20,355,927...20,424,153
Ensembl chr15:38,599,163...38,662,100
JBrowse link
endodermal cell fate determination term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GATA6 GATA binding protein 6 ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chr18:15,411,764...15,444,402 JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chr 8:50,883,088...50,885,542
Ensembl chr 8:48,257,287...48,259,808
JBrowse link
endodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G EOMES eomesodermin ISO (MGI:4887279|PMID:21245162) MGI PMID:21245162 MGI:4887279 NCBI chr 3:27,601,829...27,608,701
Ensembl chr 3:27,925,086...27,930,274
JBrowse link
G HNF1B HNF1 homeobox B ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chr17:19,333,485...19,392,147
Ensembl chr17:19,633,424...19,691,863
JBrowse link
G NANOG Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chr12:7,913,037...7,919,715 JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
G SOX2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chr 3:178,744,881...178,747,392
Ensembl chr 3:186,922,705...186,923,662
JBrowse link
hemangioblast cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G TAL1 TAL bHLH transcription factor 1, erythroid differentiation factor ISO (MGI:3838687|PMID:19182774)
(MGI:3580923|PMID:15677567), (MGI:3807430|PMID:18550854)
MGI PMID:15677567, PMID:18550854, PMID:19182774 MGI:3580923, MGI:3807430, MGI:3838687 NCBI chr 1:46,524,484...46,540,595
Ensembl chr 1:48,042,594...48,048,622
JBrowse link
intermediate mesodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BMP4 bone morphogenetic protein 4 ISO (PMID:10021330) UniProtKB PMID:10021330 NCBI chr14:34,542,132...34,549,286
Ensembl chr14:52,821,872...52,828,752
JBrowse link
lateral mesodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G FOXF1 forkhead box F1 ISO (MGI:1928688|PMID:11124112) MGI PMID:11124112 MGI:1928688 NCBI chr16:67,183,416...67,188,211
Ensembl chr16:86,516,119...86,519,949
JBrowse link
mesoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G ACVR1 activin A receptor type 1 ISO (MGI:3695845|PMID:17117439)
(MGI:1345529|PMID:10479450)
MGI PMID:10479450, PMID:17117439 MGI:1345529, MGI:3695845 NCBI chr2B:44,994,175...45,133,490
Ensembl chr2B:162,234,823...162,297,805
JBrowse link
G ARMC5 armadillo repeat containing 5 ISO (MGI:5913685|PMID:28911199) MGI PMID:28911199 MGI:5913685 NCBI chr16:23,498,343...23,507,287 JBrowse link
G BMP4 bone morphogenetic protein 4 ISO (MGI:4415813|PMID:18462699), (MGI:70235|PMID:7799920) MGI PMID:7799920, PMID:18462699 MGI:4415813, MGI:70235 NCBI chr14:34,542,132...34,549,286
Ensembl chr14:52,821,872...52,828,752
JBrowse link
G BMP7 bone morphogenetic protein 7 ISO (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chr20:53,509,484...53,606,889
Ensembl chr20:54,788,974...54,885,021
JBrowse link
G BMPR1A bone morphogenetic protein receptor type 1A ISO (MGI:3722226|PMID:17699604) MGI PMID:17699604 MGI:3722226 NCBI chr10:83,185,040...83,353,239
Ensembl chr10:86,837,469...86,912,912
JBrowse link
G BMPR2 bone morphogenetic protein receptor type 2 ISO (MGI:1855789|PMID:10772805) MGI PMID:10772805 MGI:1855789 NCBI chr2B:89,631,622...89,823,438
Ensembl chr2B:207,780,741...207,961,072
JBrowse link
G CHRD chordin ISO (MGI:2662951|PMID:12810603) MGI PMID:12810603 MGI:2662951 NCBI chr 3:181,417,140...181,460,236
Ensembl chr 3:189,898,856...189,908,573
JBrowse link
G CRB2 crumbs cell polarity complex component 2 ISO (MGI:5296388|PMID:22072575), (MGI:5823085|PMID:27870829) UniProt PMID:22072575, PMID:27870829 MGI:5296388, MGI:5823085 NCBI chr 9:94,473,423...94,511,285
Ensembl chr 9:123,011,968...123,032,855
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
JBrowse link
G ECSIT ECSIT signaling integrator ISO (MGI:2682456|PMID:14633973) MGI PMID:14633973 MGI:2682456 NCBI chr19:11,052,057...11,075,308
Ensembl chr19:11,763,701...11,786,743
JBrowse link
G EOMES eomesodermin ISO (MGI:1354065|PMID:10716450) MGI PMID:10716450 MGI:1354065 NCBI chr 3:27,601,829...27,608,701
Ensembl chr 3:27,925,086...27,930,274
JBrowse link
G ETV2 ETS variant transcription factor 2 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr19:32,571,829...32,575,083
Ensembl chr19:41,307,864...41,311,004
JBrowse link
G EXT2 exostosin glycosyltransferase 2 ISO (MGI:3608483|PMID:16236767) MGI PMID:16236767 MGI:3608483 NCBI chr11:44,055,670...44,204,055
Ensembl chr11:44,522,797...44,699,447
JBrowse link
G GPI glucose-6-phosphate isomerase ISO (MGI:84014|PMID:8922529) MGI PMID:8922529 MGI:84014 NCBI chr19:31,301,469...31,355,362
Ensembl chr19:40,024,584...40,080,598
JBrowse link
G HAND1 heart and neural crest derivatives expressed 1 ISO (MGI:1197801|PMID:9500550) MGI PMID:9500550 MGI:1197801 NCBI chr 5:149,876,970...149,880,269
Ensembl chr 5:155,875,935...155,878,166
JBrowse link
G INHBA inhibin subunit beta A ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr 7:42,538,591...42,556,578
Ensembl chr 7:42,580,730...42,595,097
JBrowse link
G LOC100977237 thioredoxin reductase 1, cytoplasmic ISO (MGI:3721365|PMID:17697936) MGI PMID:17697936 MGI:3721365 NCBI chr12:101,862,703...101,925,104
Ensembl chr12:105,187,128...105,321,112
JBrowse link
G MACF1 microtubule actin crosslinking factor 1 ISO (MGI:3640889|PMID:16815997) MGI PMID:16815997 MGI:3640889 NCBI chr 1:38,369,021...38,771,911 JBrowse link
G NF2 neurofibromin 2 ISO (MGI:707944|PMID:9171370) MGI PMID:9171370 MGI:707944 NCBI chr22:10,648,022...10,738,167
Ensembl chr22:28,454,119...28,544,013
JBrowse link
G NODAL nodal growth differentiation factor ISO (MGI:2155575|PMID:11311163) MGI PMID:11311163 MGI:2155575 NCBI chr10:66,906,866...66,916,938
Ensembl chr10:69,433,959...69,443,972
JBrowse link
G NOG noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr17:50,669,186...50,671,081
Ensembl chr17:55,532,394...55,533,092
JBrowse link
G NR4A3 nuclear receptor subfamily 4 group A member 3 ISO (MGI:3042044|PMID:13129926) MGI PMID:13129926 MGI:3042044 NCBI chr 9:70,907,056...70,950,221 JBrowse link
G POFUT2 protein O-fucosyltransferase 2 ISO (MGI:4838381|PMID:20637190) MGI PMID:20637190 MGI:4838381 NCBI chr21:31,572,645...31,594,027
Ensembl chr21:44,855,437...44,876,862
JBrowse link
G PRKACA protein kinase cAMP-activated catalytic subunit alpha ISO (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chr19:13,657,344...13,683,864
Ensembl chr19:14,385,191...14,406,205
JBrowse link
G PRKAR1A protein kinase cAMP-dependent type I regulatory subunit alpha ISO (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chr17:62,448,718...62,488,493
Ensembl chr17:67,838,484...67,877,943
JBrowse link
G SCX scleraxis bHLH transcription factor ISO (MGI:1343990|PMID:10477299) UniProt PMID:10477299 MGI:1343990 NCBI chr 8:141,027,765...141,031,194 JBrowse link
G SMAD2 SMAD family member 2 ISO (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chr18:41,213,001...41,309,902
Ensembl chr18:44,580,905...44,668,530
JBrowse link
G SMAD3 SMAD family member 3 ISO (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chr15:46,013,764...46,143,126
Ensembl chr15:64,284,949...64,414,185
JBrowse link
G SNAI1 snail family transcriptional repressor 1 ISO (MGI:2153695|PMID:11689706) UniProt PMID:11689706 MGI:2153695 NCBI chr20:46,321,075...46,328,865
Ensembl chr20:47,384,818...47,390,733
JBrowse link
G SRF serum response factor ISO (MGI:1312998|PMID:9799237), (MGI:1927031|PMID:11060034) MGI PMID:9799237, PMID:11060034 MGI:1312998, MGI:1927031 NCBI chr 6:42,763,099...42,773,332
Ensembl chr 6:44,057,192...44,066,768
JBrowse link
G TBX6 T-box transcription factor 6 ISO (MGI:3577662|PMID:15755804)
(MGI:2447720|PMID:9490412)
MGI PMID:9490412, PMID:15755804 MGI:2447720, MGI:3577662 Ensembl chr16:30,460,305...30,467,070 JBrowse link
G TLX2 T cell leukemia homeobox 2 ISO (MGI:1267265|PMID:9550720) MGI PMID:9550720 MGI:1267265 NCBI chr2A:74,581,111...74,583,425
Ensembl chr2A:76,087,113...76,089,324
JBrowse link
G TWSG1 twisted gastrulation BMP signaling modulator 1 ISO (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chr18:4,883,688...4,950,963
Ensembl chr18:7,164,091...7,229,271
JBrowse link
G WLS Wnt ligand secretion mediator ISO (MGI:4397730|PMID:19841259) UniProt PMID:19841259 MGI:4397730 NCBI chr 1:67,336,009...67,470,265
Ensembl chr 1:69,318,742...69,425,652
JBrowse link
mesoderm migration involved in gastrulation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G EPB41L5 erythrocyte membrane protein band 4.1 like 5 ISO (MGI:3821807|PMID:18794329) MGI PMID:18794329 MGI:3821807 NCBI chr2B:6,945,289...7,111,595
Ensembl chr2B:120,521,145...120,687,209
JBrowse link
G TBXT T-box transcription factor T ISO (MGI:71468|PMID:7720590) MGI PMID:7720590 MGI:71468 NCBI chr 6:164,112,117...164,122,253
Ensembl chr 6:169,095,723...169,106,595
JBrowse link
mesodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BMP4 bone morphogenetic protein 4 ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr14:34,542,132...34,549,286
Ensembl chr14:52,821,872...52,828,752
JBrowse link
G FGFR2 fibroblast growth factor receptor 2 ISO RGD PMID:7803853 RGD:632663 NCBI chr10:118,055,854...118,175,440
Ensembl chr10:121,469,735...121,588,815
JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr12:22,954,946...23,096,623 JBrowse link
G INHBA inhibin subunit beta A ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr 7:42,538,591...42,556,578
Ensembl chr 7:42,580,730...42,595,097
JBrowse link
G ITGA2 integrin subunit alpha 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 5:60,935,452...61,040,726
Ensembl chr 5:62,555,370...62,659,720
JBrowse link
G ITGA3 integrin subunit alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr17:44,145,974...44,181,343
Ensembl chr17:49,019,892...49,055,245
JBrowse link
G ITGA8 integrin subunit alpha 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr10:15,838,320...16,045,206
Ensembl chr10:16,114,999...16,321,360
JBrowse link
G ITGB1 integrin subunit beta 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr10:33,023,573...33,081,384
Ensembl chr10:33,608,978...33,644,031
JBrowse link
G ITGB3 integrin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr17:10,134,450...10,194,596 JBrowse link
G ITGB4 integrin subunit beta 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr17:69,671,252...69,708,520
Ensembl chr17:75,222,376...75,259,401
JBrowse link
G KDM6A lysine demethylase 6A ISO (MGI:5448135|PMID:22949634) MGI PMID:22949634 MGI:5448135 NCBI chr  X:37,313,000...37,548,630
Ensembl chr  X:45,127,382...45,362,029
JBrowse link
G KDM6B lysine demethylase 6B ISO (MGI:5574281|PMID:23856522) BHF-UCL PMID:23856522 MGI:5574281 NCBI chr17:7,878,783...7,889,372
Ensembl chr17:7,866,973...7,874,937
JBrowse link
mesodermal cell fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G NANOG Nanog homeobox ISO (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chr12:7,913,037...7,919,715 JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
G SMAD1 SMAD family member 1 ISO (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chr 4:137,822,269...137,899,700
Ensembl chr 4:149,481,836...149,558,135
JBrowse link
mesodermal cell fate determination term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BMP4 bone morphogenetic protein 4 ISO (MGI:76261|PMID:7657163) MGI PMID:7657163 MGI:76261 NCBI chr14:34,542,132...34,549,286
Ensembl chr14:52,821,872...52,828,752
JBrowse link
mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G EYA1 EYA transcriptional coactivator and phosphatase 1 ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr 8:67,728,057...68,060,069
Ensembl chr 8:69,387,769...69,551,829
JBrowse link
G HOXA11 homeobox A11 ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr 7:27,826,003...27,829,757
Ensembl chr 7:27,424,759...27,429,103
JBrowse link
G PAX2 paired box 2 ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr10:97,344,978...97,429,086
Ensembl chr10:100,822,676...100,904,028
JBrowse link
G SIX2 SIX homeobox 2 ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr2A:45,109,414...45,113,887
Ensembl chr2A:46,039,582...46,044,035
JBrowse link
negative regulation of ectodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G FZD7 frizzled class receptor 7 ISO (PMID:18681827) BHF-UCL PMID:18681827 NCBI chr2B:89,290,929...89,294,873
Ensembl chr2B:207,439,942...207,446,283
JBrowse link
negative regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G COL5A1 collagen type V alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 9:105,746,388...105,956,280
Ensembl chr 9:134,342,955...134,544,651
JBrowse link
G COL5A2 collagen type V alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:76,339,756...76,487,133
Ensembl chr2B:194,259,316...194,407,237
JBrowse link
negative regulation of endodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G MESP1 mesoderm posterior bHLH transcription factor 1 ISO (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chr15:68,440,626...68,441,935
Ensembl chr15:87,645,768...87,647,210
JBrowse link
negative regulation of mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DKK1 dickkopf WNT signaling pathway inhibitor 1 ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
JBrowse link
G MESP1 mesoderm posterior bHLH transcription factor 1 ISO (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chr15:68,440,626...68,441,935
Ensembl chr15:87,645,768...87,647,210
JBrowse link
G SFRP2 secreted frizzled related protein 2 ISO (MGI:3711603|PMID:17462603) MGI PMID:17462603 MGI:3711603 NCBI chr 4:146,123,075...146,131,543
Ensembl chr 4:157,944,733...157,953,258
JBrowse link
paraxial mesoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G EXOC4 exocyst complex component 4 ISO (MGI:1195048|PMID:9441674) MGI PMID:9441674 MGI:1195048 NCBI chr 7:125,226,107...126,030,486
Ensembl chr 7:137,734,400...138,536,214
JBrowse link
G FOXC1 forkhead box C1 ISO (MGI:2150572|PMID:11562355)
(MGI:3047050|PMID:15196959)
MGI
UniProt
PMID:11562355, PMID:15196959 MGI:2150572, MGI:3047050 NCBI chr 6:1,429,051...1,433,180 JBrowse link
G FOXC2 forkhead box C2 ISO (MGI:2150572|PMID:11562355) MGI PMID:11562355 MGI:2150572 NCBI chr16:67,237,476...67,239,545 JBrowse link
G HNF1A HNF1 homeobox A ISO (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chr12:118,562,308...118,584,596
Ensembl chr12:121,932,671...121,955,911
JBrowse link
G HTT huntingtin ISO (MGI:3609520|PMID:16109169) MGI PMID:16109169 MGI:3609520 NCBI chr 4:3,215,081...3,388,587
Ensembl chr 4:3,128,718...3,283,730
JBrowse link
G LEF1 lymphoid enhancer binding factor 1 ISO (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chr 4:100,552,959...100,674,156
Ensembl chr 4:111,125,312...111,245,980
JBrowse link
G WNT11 Wnt family member 11 ISO (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chr11:71,239,781...71,263,915
Ensembl chr11:74,540,169...74,560,024
JBrowse link
G WNT5A Wnt family member 5A ISO (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chr 3:55,396,279...55,418,579
Ensembl chr 3:56,621,380...56,638,051
JBrowse link
paraxial mesodermal cell fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G FOXC2 forkhead box C2 ISO (MGI:86990|PMID:9106663) MGI PMID:9106663 MGI:86990 NCBI chr16:67,237,476...67,239,545 JBrowse link
G WNT3A Wnt family member 3A ISO (MGI:86727|PMID:9126297) MGI PMID:9126297 MGI:86727 NCBI chr 1:203,409,294...203,463,214
Ensembl chr 1:208,628,706...208,674,469
JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC100974858 core histone macro-H2A.1 ISO (PMID:23595991) UniProt PMID:23595991 NCBI chr 5:130,727,065...130,791,932
Ensembl chr 5:136,868,521...136,933,834
JBrowse link
positive regulation of mesodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G GJA1 gap junction protein alpha 1 ISO (PMID:30599359) ARUK-UCL PMID:30599359 NCBI chr 6:119,213,513...119,227,617 JBrowse link
positive regulation of mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G WNT3A Wnt family member 3A ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chr 1:203,409,294...203,463,214
Ensembl chr 1:208,628,706...208,674,469
JBrowse link
regulation of endodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G DKK1 dickkopf WNT signaling pathway inhibitor 1 ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
JBrowse link
regulation of lateral mesodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G BMPR1A bone morphogenetic protein receptor type 1A ISO (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chr10:83,185,040...83,353,239
Ensembl chr10:86,837,469...86,912,912
JBrowse link
G FGFR1 fibroblast growth factor receptor 1 ISO (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chr 8:37,713,133...37,773,098
Ensembl chr 8:34,890,147...34,948,904
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12566
    developmental process 5839
      anatomical structure formation involved in morphogenesis 1134
        formation of primary germ layer 118
          cell fate commitment involved in formation of primary germ layer + 30
          ectoderm formation + 6
          endoderm formation + 51
          mesoderm formation + 70
Path 2
Term Annotations click to browse term
  biological_process 12566
    developmental process 5839
      anatomical structure development 5452
        multicellular organism development 4984
          embryo development 1206
            embryonic morphogenesis 642
              gastrulation 181
                formation of primary germ layer 118
                  cell fate commitment involved in formation of primary germ layer + 30
                  ectoderm formation + 6
                  endoderm formation + 51
                  mesoderm formation + 70
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.