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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 Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Arid1a AT-rich interaction domain 1A acts_upstream_of_or_within ISO (MGI:3789431|PMID:18448678) MGI PMID:18448678 MGI:3789431 NCBI chrNW_004936474:11,148,857...11,197,312 JBrowse link
G Atoh8 atonal bHLH transcription factor 8 involved_in ISO (MGI:3798332|PMID:18560595) UniProt PMID:18560595 MGI:3798332 NCBI chrNW_004936712:1,529,508...1,552,148 JBrowse link
G Kif16b kinesin family member 16B involved_in ISO (MGI:4889011|PMID:21238925) UniProt PMID:21238925 MGI:4889011 NCBI chrNW_004936485:3,443,878...3,728,613 JBrowse link
axial mesoderm formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Axin1 axin 1 acts_upstream_of_or_within ISO (MGI:894149|PMID:9230313) MGI PMID:9230313 MGI:894149 NCBI chrNW_004936501:599,963...633,837 JBrowse link
G Epha2 EPH receptor A2 acts_upstream_of_or_within ISO (MGI:1934524|PMID:11287184) MGI PMID:11287184 MGI:1934524 NCBI chrNW_004936474:3,648,395...3,673,856 JBrowse link
axial mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nodal nodal growth differentiation factor acts_upstream_of_or_within ISO (MGI:2677178|PMID:14511481) MGI PMID:14511481 MGI:2677178 NCBI chrNW_004936521:8,171,146...8,178,802 JBrowse link
BMP signaling pathway involved in mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Etv2 ETS variant transcription factor 2 acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936570:671,152...673,768 JBrowse link
cell fate commitment involved in formation of primary germ layer term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pou5f1 POU class 5 homeobox 1 involved_in ISO (PMID:19736317) BHF-UCL PMID:19736317 NCBI chrNW_004936837:827,568...838,933 JBrowse link
ectoderm formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxa2 forkhead box A2 acts_upstream_of_or_within ISO (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chrNW_004936620:2,966,341...2,969,349 JBrowse link
G Lhx1 LIM homeobox 1 acts_upstream_of_or_within ISO (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chrNW_004936490:1,324,378...1,332,177 JBrowse link
ectodermal cell fate commitment term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Elf5 E74 like ETS transcription factor 5 acts_upstream_of_or_within ISO (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chrNW_004936533:3,569,435...3,595,991 JBrowse link
G Ets2 ETS proto-oncogene 2, transcription factor acts_upstream_of_or_within ISO (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chrNW_004936500:4,244,706...4,257,223 JBrowse link
G Pou5f1 POU class 5 homeobox 1 acts_upstream_of_or_within ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chrNW_004936837:827,568...838,933 JBrowse link
endoderm formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ctnnb1 catenin beta 1 acts_upstream_of_or_within ISO (MGI:5498579|PMID:23824574)
(MGI:3625553|PMID:12194849)
MGI PMID:12194849 PMID:23824574 MGI:3625553 MGI:5498579 NCBI chrNW_004936473:29,999,542...30,034,610 JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936787:307,290...309,963 JBrowse link
G Eomes eomesodermin acts_upstream_of_or_within
involved_in
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 chrNW_004936473:18,825,969...18,833,179 JBrowse link
G Gata4 GATA binding protein 4 acts_upstream_of_or_within ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chrNW_004936675:3,408,549...3,420,828 JBrowse link
G Lhx1 LIM homeobox 1 acts_upstream_of_or_within ISO (MGI:3487194|PMID:15355796) MGI PMID:15355796 MGI:3487194 NCBI chrNW_004936490:1,324,378...1,332,177 JBrowse link
G Mixl1 Mix paired-like homeobox acts_upstream_of_or_within ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chrNW_004936526:2,984,900...2,989,494 JBrowse link
G Nog noggin acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936490:6,262,651...6,264,069 JBrowse link
G Smad2 SMAD family member 2 acts_upstream_of_or_within ISO (MGI:5293253|PMID:21822279) MGI PMID:21822279 MGI:5293253 NCBI chrNW_004936497:14,723,199...14,812,160 JBrowse link
G Sox17 SRY-box transcription factor 17 involved_in ISO (PMID:18682240) UniProt PMID:18682240 NCBI chrNW_004936496:1,248,582...1,251,406 JBrowse link
G Sox7 SRY-box transcription factor 7 involved_in ISO (PMID:18682240) UniProt PMID:18682240 NCBI chrNW_004936675:2,616,086...2,622,436 JBrowse link
G Tnrc6c trinucleotide repeat containing adaptor 6C acts_upstream_of_or_within ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chrNW_004936594:2,656,079...2,741,254 JBrowse link
endodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col11a1 collagen type XI alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936730:466,912...680,823 JBrowse link
G Col12a1 collagen type XII alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936788:533,811...645,821 JBrowse link
G Col4a2 collagen type IV alpha 2 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936472:2,270,836...2,416,324 JBrowse link
G Col6a1 collagen type VI alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936778:515,600...530,828 JBrowse link
G Col7a1 collagen type VII alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936529:348,938...381,701 JBrowse link
G Col8a1 collagen type VIII alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936630:3,443,085...3,590,430 JBrowse link
G Fn1 fibronectin 1 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936586:1,708,803...1,773,372 JBrowse link
G Gata6 GATA binding protein 6 acts_upstream_of_or_within ISO (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chrNW_004936550:1,814,336...1,844,399 JBrowse link
G Hmga2 high mobility group AT-hook 2 involved_in ISO (PMID:17624332) UniProt PMID:17624332 NCBI chrNW_004936545:3,944,419...3,958,289 JBrowse link
G Hsbp1 heat shock factor binding protein 1 acts_upstream_of_or_within ISO (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chrNW_004936641:3,911,943...3,916,397 JBrowse link
G Inhba inhibin subunit beta A involved_in ISO (PMID:21828274) BHF-UCL PMID:21828274 NCBI chrNW_004936478:16,878,725...16,884,065 JBrowse link
G Itga4 integrin subunit alpha 4 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936509:10,215,283...10,293,653 JBrowse link
G Itga5 integrin subunit alpha 5 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936512:11,588,818...11,612,580 JBrowse link
G Itga7 integrin subunit alpha 7 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936646:160,661...179,454 JBrowse link
G Itgav integrin subunit alpha V involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936506:10,750,116...10,839,018 JBrowse link
G Itgb2 integrin subunit beta 2 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936778:1,286,475...1,311,184 JBrowse link
G Itgb5 integrin subunit beta 5 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936725:417,824...530,993 JBrowse link
G Lamb1 laminin subunit beta 1 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936479:16,177,200...16,245,268 JBrowse link
G Lamb3 laminin subunit beta 3 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936557:3,429,488...3,487,995 JBrowse link
G LOC101971816 laminin subunit alpha-3 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936550:3,121,163...3,357,517 JBrowse link
G Mixl1 Mix paired-like homeobox involved_in ISO (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chrNW_004936526:2,984,900...2,989,494 JBrowse link
G Mmp14 matrix metallopeptidase 14 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936722:1,447,189...1,457,632 JBrowse link
G Mmp15 matrix metallopeptidase 15 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936475:9,951,876...9,971,631 JBrowse link
G Mmp2 matrix metallopeptidase 2 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936475:7,801,356...7,825,831 JBrowse link
G Mmp8 matrix metallopeptidase 8 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936551:5,228,950...5,238,948 JBrowse link
G Mmp9 matrix metallopeptidase 9 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936514:7,038,240...7,045,873 JBrowse link
G Nodal nodal growth differentiation factor involved_in ISO (PMID:21741376) BHF-UCL PMID:21741376 NCBI chrNW_004936521:8,171,146...8,178,802 JBrowse link
G Setd2 SET domain containing 2, histone lysine methyltransferase involved_in ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chrNW_004936596:795,940...898,823 JBrowse link
G Vtn vitronectin involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936538:4,522,275...4,525,245 JBrowse link
endodermal cell fate commitment term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdc73 cell division cycle 73 involved_in ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936638:1,365,457...1,482,497 JBrowse link
G Ctnnb1 catenin beta 1 acts_upstream_of_or_within ISO (MGI:3625553|PMID:12194849) MGI PMID:12194849 MGI:3625553 NCBI chrNW_004936473:29,999,542...30,034,610 JBrowse link
G Ctr9 CTR9 homolog, Paf1/RNA polymerase II complex component involved_in ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936528:7,585,937...7,613,022 JBrowse link
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component involved_in ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936471:13,753,061...13,783,990 JBrowse link
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component involved_in ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936661:2,236,121...2,241,086 JBrowse link
G Pou5f1 POU class 5 homeobox 1 acts_upstream_of_or_within ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chrNW_004936837:827,568...838,933 JBrowse link
G Rtf1 RTF1 homolog, Paf1/RNA polymerase II complex component involved_in ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936471:4,770,060...4,829,562 JBrowse link
endodermal cell fate determination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gata6 GATA binding protein 6 acts_upstream_of_or_within ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chrNW_004936550:1,814,336...1,844,399 JBrowse link
G Sox17 SRY-box transcription factor 17 acts_upstream_of_or_within ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chrNW_004936496:1,248,582...1,251,406 JBrowse link
endodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eomes eomesodermin acts_upstream_of_or_within ISO (MGI:4887279|PMID:21245162) MGI PMID:21245162 MGI:4887279 NCBI chrNW_004936473:18,825,969...18,833,179 JBrowse link
G Hnf1b HNF1 homeobox B acts_upstream_of_or_within ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chrNW_004936490:649,551...702,448 JBrowse link
G Sox17 SRY-box transcription factor 17 involved_in ISO (MGI:4946573|PMID:21305474) BHF-UCL PMID:21305474 MGI:4946573 NCBI chrNW_004936496:1,248,582...1,251,406 JBrowse link
hemangioblast cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tal1 TAL bHLH transcription factor 1, erythroid differentiation factor acts_upstream_of_or_within 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 chrNW_004936474:28,049,326...28,061,495 JBrowse link
intermediate mesodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmp4 bone morphogenetic protein 4 involved_in ISO (PMID:10021330) UniProt PMID:10021330 NCBI chrNW_004936697:1,054,237...1,061,468 JBrowse link
lateral mesodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxf1 forkhead box F1 acts_upstream_of_or_within ISO (MGI:1928688|PMID:11124112) MGI PMID:11124112 MGI:1928688 NCBI chrNW_004943883:4...1,756 JBrowse link
mesoderm formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Acvr1 activin A receptor type 1 acts_upstream_of_or_within ISO (MGI:3695845|PMID:17117439)
(MGI:1345529|PMID:10479450)
MGI PMID:10479450 PMID:17117439 MGI:1345529 MGI:3695845 NCBI chrNW_004936469:20,743,195...20,811,567 JBrowse link
G Armc5 armadillo repeat containing 5 acts_upstream_of_or_within ISO (MGI:5913685|PMID:28911199) MGI PMID:28911199 MGI:5913685 NCBI chrNW_004936543:8,354,795...8,366,123 JBrowse link
G Bmp4 bone morphogenetic protein 4 acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699), (MGI:70235|PMID:7799920) MGI PMID:7799920 PMID:18462699 MGI:4415813 MGI:70235 NCBI chrNW_004936697:1,054,237...1,061,468 JBrowse link
G Bmp7 bone morphogenetic protein 7 acts_upstream_of_or_within ISO (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chrNW_004936530:71,965...143,940 JBrowse link
G Bmpr1a bone morphogenetic protein receptor type 1A acts_upstream_of_or_within ISO (MGI:3722226|PMID:17699604) MGI PMID:17699604 MGI:3722226 NCBI chrNW_004936804:52,435...115,289 JBrowse link
G Bmpr2 bone morphogenetic protein receptor type 2 acts_upstream_of_or_within ISO (MGI:1855789|PMID:10772805) MGI PMID:10772805 MGI:1855789 NCBI chrNW_004936726:1,543,263...1,711,422 JBrowse link
G Chrd chordin acts_upstream_of_or_within ISO (MGI:2662951|PMID:12810603) MGI PMID:12810603 MGI:2662951 NCBI chrNW_004936578:5,498,473...5,507,195 JBrowse link
G Crb2 crumbs cell polarity complex component 2 involved_in ISO (MGI:5296388|PMID:22072575), (MGI:5823085|PMID:27870829) UniProt PMID:22072575 PMID:27870829 MGI:5296388 MGI:5823085 NCBI chrNW_004936487:11,793,078...11,813,803 JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936787:307,290...309,963 JBrowse link
G Ecsit ECSIT signaling integrator acts_upstream_of_or_within ISO (MGI:2682456|PMID:14633973) MGI PMID:14633973 MGI:2682456 NCBI chrNW_004936659:1,550,192...1,563,534 JBrowse link
G Eomes eomesodermin acts_upstream_of_or_within ISO (MGI:1354065|PMID:10716450) MGI PMID:10716450 MGI:1354065 NCBI chrNW_004936473:18,825,969...18,833,179 JBrowse link
G Etv2 ETS variant transcription factor 2 acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936570:671,152...673,768 JBrowse link
G Ext2 exostosin glycosyltransferase 2 acts_upstream_of_or_within ISO (MGI:3608483|PMID:16236767) MGI PMID:16236767 MGI:3608483 NCBI chrNW_004936562:4,345,146...4,489,180 JBrowse link
G Gpi glucose-6-phosphate isomerase acts_upstream_of_or_within ISO (MGI:84014|PMID:8922529) MGI PMID:8922529 MGI:84014 NCBI chrNW_004936570:1,582,120...1,608,537 JBrowse link
G Hand1 heart and neural crest derivatives expressed 1 acts_upstream_of_or_within ISO (MGI:1197801|PMID:9500550) MGI PMID:9500550 MGI:1197801 NCBI chrNW_004936515:8,289,764...8,292,937 JBrowse link
G Inhba inhibin subunit beta A acts_upstream_of_or_within ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chrNW_004936478:16,878,725...16,884,065 JBrowse link
G Macf1 microtubule actin crosslinking factor 1 acts_upstream_of_or_within ISO (MGI:3640889|PMID:16815997) MGI PMID:16815997 MGI:3640889 NCBI chrNW_004936474:21,053,755...21,401,336 JBrowse link
G Nf2 neurofibromin 2 acts_upstream_of_or_within ISO (MGI:707944|PMID:9171370) MGI PMID:9171370 MGI:707944 NCBI chrNW_004936657:3,536,212...3,622,999 JBrowse link
G Nodal nodal growth differentiation factor acts_upstream_of_or_within ISO (MGI:2155575|PMID:11311163) MGI PMID:11311163 MGI:2155575 NCBI chrNW_004936521:8,171,146...8,178,802 JBrowse link
G Nog noggin acts_upstream_of_or_within ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936490:6,262,651...6,264,069 JBrowse link
G Nr4a3 nuclear receptor subfamily 4 group A member 3 acts_upstream_of_or_within ISO (MGI:3042044|PMID:13129926) MGI PMID:13129926 MGI:3042044 NCBI chrNW_004936524:8,252,321...8,290,747 JBrowse link
G Pofut2 protein O-fucosyltransferase 2 acts_upstream_of_or_within ISO (MGI:4838381|PMID:20637190) MGI PMID:20637190 MGI:4838381 NCBI chrNW_004936778:1,024,066...1,036,365 JBrowse link
G Prkaca protein kinase cAMP-activated catalytic subunit alpha acts_upstream_of_or_within ISO (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chrNW_004936659:2,750,015...2,765,914 JBrowse link
G Prkar1a protein kinase cAMP-dependent type I regulatory subunit alpha acts_upstream_of_or_within ISO (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chrNW_004936541:7,845,876...7,863,677 JBrowse link
G Scx scleraxis bHLH transcription factor involved_in ISO (MGI:1343990|PMID:10477299) UniProt PMID:10477299 MGI:1343990 NCBI chrNW_004936470:7,966,096...7,972,379 JBrowse link
G Smad2 SMAD family member 2 acts_upstream_of_or_within ISO (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chrNW_004936497:14,723,199...14,812,160 JBrowse link
G Smad3 SMAD family member 3 acts_upstream_of_or_within ISO (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chrNW_004936471:27,080,662...27,185,861 JBrowse link
G Snai1 snail family transcriptional repressor 1 involved_in ISO (MGI:2153695|PMID:11689706) UniProt PMID:11689706 MGI:2153695 NCBI chrNW_004936514:4,456,498...4,462,436 JBrowse link
G Srf serum response factor acts_upstream_of_or_within ISO (MGI:1312998|PMID:9799237), (MGI:1927031|PMID:11060034) MGI PMID:9799237 PMID:11060034 MGI:1312998 MGI:1927031 NCBI chrNW_004936476:16,779,941...16,789,499 JBrowse link
G Tbx6 T-box transcription factor 6 acts_upstream_of_or_within ISO (MGI:3577662|PMID:15755804)
(MGI:2447720|PMID:9490412)
MGI PMID:9490412 PMID:15755804 MGI:2447720 MGI:3577662 NCBI chrNW_004936501:12,402,709...12,407,571 JBrowse link
G Tlx2 T cell leukemia homeobox 2 acts_upstream_of_or_within ISO (MGI:1267265|PMID:9550720) MGI PMID:9550720 MGI:1267265 NCBI chrNW_004936556:727,637...729,391 JBrowse link
G Twsg1 twisted gastrulation BMP signaling modulator 1 acts_upstream_of_or_within ISO (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chrNW_004936626:1,901,686...1,946,554 JBrowse link
G Txnrd1 thioredoxin reductase 1 acts_upstream_of_or_within ISO (MGI:3721365|PMID:17697936) MGI PMID:17697936 MGI:3721365 NCBI chrNW_004936492:10,185,096...10,244,466 JBrowse link
G Wls Wnt ligand secretion mediator involved_in ISO (MGI:4397730|PMID:19841259) UniProt PMID:19841259 MGI:4397730 NCBI chrNW_004936591:3,537,981...3,639,774 JBrowse link
mesoderm migration involved in gastrulation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Epb41l5 erythrocyte membrane protein band 4.1 like 5 acts_upstream_of_or_within ISO (MGI:3821807|PMID:18794329) MGI PMID:18794329 MGI:3821807 NCBI chrNW_004936469:50,329,564...50,443,532 JBrowse link
G Tbxt T-box transcription factor T acts_upstream_of_or_within ISO (MGI:71468|PMID:7720590) MGI PMID:7720590 MGI:71468 NCBI chrNW_004936489:16,027,359...16,035,041 JBrowse link
mesodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmp4 bone morphogenetic protein 4 acts_upstream_of_or_within ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chrNW_004936697:1,054,237...1,061,468 JBrowse link
G Fgfr2 fibroblast growth factor receptor 2 ISO RGD PMID:7803853 RGD:632663 NCBI chrNW_004936486:10,506,680...10,606,272 JBrowse link
G Hmga2 high mobility group AT-hook 2 involved_in ISO (PMID:17624332) UniProt PMID:17624332 NCBI chrNW_004936545:3,944,419...3,958,289 JBrowse link
G Inhba inhibin subunit beta A acts_upstream_of_or_within ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chrNW_004936478:16,878,725...16,884,065 JBrowse link
G Itga2 integrin subunit alpha 2 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936480:14,320,292...14,417,828 JBrowse link
G Itga3 integrin subunit alpha 3 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936490:11,553,904...11,583,387 JBrowse link
G Itga8 integrin subunit alpha 8 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936574:5,985,181...6,155,067 JBrowse link
G Itgb1 integrin subunit beta 1 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936574:1,465,981...1,495,717 JBrowse link
G Itgb3 integrin subunit beta 3 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936541:2,822,789...2,871,069 JBrowse link
G Itgb4 integrin subunit beta 4 involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936594:912,302...944,819 JBrowse link
G Kdm6a lysine demethylase 6A acts_upstream_of_or_within ISO (MGI:5448135|PMID:22949634) MGI PMID:22949634 MGI:5448135 NCBI chrNW_004936502:10,980,303...11,196,711 JBrowse link
G Kdm6b lysine demethylase 6B involved_in ISO (MGI:5574281|PMID:23856522) BHF-UCL PMID:23856522 MGI:5574281 NCBI chrNW_004936595:1,077,318...1,099,082 JBrowse link
mesodermal cell fate commitment term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nanog Nanog homeobox acts_upstream_of_or_within ISO (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chrNW_004936892:181,834...187,691 JBrowse link
G Pou5f1 POU class 5 homeobox 1 acts_upstream_of_or_within ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chrNW_004936837:827,568...838,933 JBrowse link
G Smad1 SMAD family member 1 acts_upstream_of_or_within ISO (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chrNW_004936535:3,582,512...3,626,312 JBrowse link
mesodermal cell fate determination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmp4 bone morphogenetic protein 4 acts_upstream_of_or_within ISO (MGI:76261|PMID:7657163) MGI PMID:7657163 MGI:76261 NCBI chrNW_004936697:1,054,237...1,061,468 JBrowse link
mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eya1 EYA transcriptional coactivator and phosphatase 1 involved_in ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chrNW_004936648:395,526...546,705 JBrowse link
G Hoxa11 homeobox A11 involved_in ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chrNW_004936478:3,809,288...3,813,014 JBrowse link
G Pax2 paired box 2 involved_in ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chrNW_004936600:4,850,594...4,939,010 JBrowse link
G Six2 SIX homeobox 2 involved_in ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chrNW_004936508:7,047,563...7,051,129 JBrowse link
negative regulation of ectodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fzd7 frizzled class receptor 7 involved_in ISO (PMID:18681827) BHF-UCL PMID:18681827 NCBI chrNW_004936726:1,256,684...1,275,324 JBrowse link
negative regulation of endodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col5a1 collagen type V alpha 1 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936669:2,474,381...2,613,541 JBrowse link
G Col5a2 collagen type V alpha 2 chain involved_in ISO (PMID:23154389) UniProt PMID:23154389 NCBI chrNW_004936506:8,739,475...8,873,073 JBrowse link
negative regulation of endodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Mesp1 mesoderm posterior bHLH transcription factor 1 involved_in ISO (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chrNW_004936483:15,533,264...15,534,576 JBrowse link
negative regulation of mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 involved_in ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chrNW_004936787:307,290...309,963 JBrowse link
G Mesp1 mesoderm posterior bHLH transcription factor 1 involved_in ISO (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chrNW_004936483:15,533,264...15,534,576 JBrowse link
G Sfrp2 secreted frizzled related protein 2 acts_upstream_of_or_within ISO (MGI:3711603|PMID:17462603) MGI PMID:17462603 MGI:3711603 NCBI chrNW_004936576:604,174...612,440 JBrowse link
paraxial mesoderm formation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxc2 forkhead box C2 acts_upstream_of_or_within ISO (MGI:2150572|PMID:11562355) MGI PMID:11562355 MGI:2150572 NCBI chrNW_004936641:2,236,224...2,238,501 JBrowse link
G Hnf1a HNF1 homeobox A acts_upstream_of_or_within ISO (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chrNW_004936668:62,103...81,549 JBrowse link
G Lef1 lymphoid enhancer binding factor 1 acts_upstream_of_or_within ISO (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chrNW_004936818:453,635...569,194 JBrowse link
G LOC101966195 huntingtin acts_upstream_of_or_within ISO (MGI:3609520|PMID:16109169) MGI PMID:16109169 MGI:3609520 NCBI chrNW_004936477:20,443,101...20,577,167 JBrowse link
G Wnt11 Wnt family member 11 acts_upstream_of_or_within ISO (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chrNW_004936498:4,909,041...4,927,482 JBrowse link
G Wnt5a Wnt family member 5A acts_upstream_of_or_within ISO (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chrNW_004936473:6,031,627...6,052,211 JBrowse link
paraxial mesodermal cell fate commitment term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxc2 forkhead box C2 acts_upstream_of_or_within ISO (MGI:86990|PMID:9106663) MGI PMID:9106663 MGI:86990 NCBI chrNW_004936641:2,236,224...2,238,501 JBrowse link
G Wnt3a Wnt family member 3A acts_upstream_of_or_within ISO (MGI:86727|PMID:9126297) MGI PMID:9126297 MGI:86727 NCBI chrNW_004936864:150,742...179,205 JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC101971629 core histone macro-H2A.1 involved_in ISO (PMID:23595991) UniProt PMID:23595991 NCBI chrNW_004936597:2,496,489...2,556,352 JBrowse link
positive regulation of mesodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gja1 gap junction protein alpha 1 involved_in ISO (PMID:30599359) ARUK-UCL PMID:30599359 NCBI chrNW_004936658:3,920,043...3,932,987 JBrowse link
positive regulation of mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Wnt3a Wnt family member 3A involved_in ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chrNW_004936864:150,742...179,205 JBrowse link
regulation of endodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 involved_in ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chrNW_004936787:307,290...309,963 JBrowse link
regulation of lateral mesodermal cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmpr1a bone morphogenetic protein receptor type 1A acts_upstream_of_or_within ISO (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chrNW_004936804:52,435...115,289 JBrowse link
G Fgfr1 fibroblast growth factor receptor 1 acts_upstream_of_or_within ISO (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chrNW_004936710:1,760,365...1,815,269 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12063
    developmental process 5696
      anatomical structure formation involved in morphogenesis 1107
        formation of primary germ layer 116
          cell fate commitment involved in formation of primary germ layer + 30
          ectoderm formation + 6
          endoderm formation + 50
          mesoderm formation + 68
Path 2
Term Annotations click to browse term
  biological_process 12063
    developmental process 5696
      anatomical structure development 5327
        multicellular organism development 4881
          embryo development 1184
            embryonic morphogenesis 637
              gastrulation 178
                formation of primary germ layer 116
                  cell fate commitment involved in formation of primary germ layer + 30
                  ectoderm formation + 6
                  endoderm formation + 50
                  mesoderm formation + 68
paths to the root