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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 interactive domain 1A (SWI-like) IMP (MGI:3789431|PMID:18448678) MGI PMID:18448678 MGI:3789431 NCBI chr 4:133,679,008...133,756,769
Ensembl chr 4:133,679,008...133,756,769
JBrowse link
G Atoh8 atonal bHLH transcription factor 8 IMP (MGI:3798332|PMID:18560595) UniProt PMID:18560595 MGI:3798332 NCBI chr 6:72,206,174...72,235,780
Ensembl chr 6:72,206,177...72,235,577
JBrowse link
G Kif16b kinesin family member 16B IMP (MGI:4889011|PMID:21238925) UniProt PMID:21238925 MGI:4889011 NCBI chr 2:142,618,340...142,901,609
Ensembl chr 2:142,617,474...142,901,531
JBrowse link
axial mesoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Axin1 axin 1 IMP (MGI:894149|PMID:9230313) MGI PMID:9230313 MGI:894149 NCBI chr17:26,131,217...26,195,811
Ensembl chr17:26,138,688...26,195,811
JBrowse link
G Epha2 Eph receptor A2 IMP (MGI:1934524|PMID:11287184) MGI PMID:11287184 MGI:1934524 NCBI chr 4:141,301,221...141,329,384
Ensembl chr 4:141,301,240...141,329,384
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 IMP (MGI:2677178|PMID:14511481) MGI PMID:14511481 MGI:2677178 NCBI chr10:61,417,972...61,425,338
Ensembl chr10:61,417,972...61,425,338
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 2 IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr 7:30,633,616...30,636,509
Ensembl chr 7:30,633,616...30,635,852
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 domain, class 5, transcription factor 1 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr17:35,506,032...35,510,777
Ensembl chr17:35,506,018...35,510,772
JBrowse link
ectoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxa2 forkhead box A2 IGI (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chr 2:148,042,877...148,046,969
Ensembl chr 2:148,042,877...148,046,969
JBrowse link
G Lhx1 LIM homeobox protein 1 IGI (MGI:1344734|PMID:10498685) MGI PMID:10498685 MGI:1344734 NCBI chr11:84,517,975...84,525,534
Ensembl chr11:84,518,284...84,525,535
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 factor 5 IGI (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chr 2:103,412,098...103,450,989
Ensembl chr 2:103,411,688...103,450,989
JBrowse link
G Ets2 E26 avian leukemia oncogene 2, 3' domain IGI (MGI:5616945|PMID:25446535) MGI PMID:25446535 MGI:5616945 NCBI chr16:95,702,407...95,721,049
Ensembl chr16:95,702,075...95,721,051
JBrowse link
G Pou5f1 POU domain, class 5, transcription factor 1 IDA (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr17:35,506,032...35,510,777
Ensembl chr17:35,506,018...35,510,772
JBrowse link
endoderm formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ctnnb1 catenin (cadherin associated protein), beta 1 IMP (MGI:3625553|PMID:12194849)
(MGI:5498579|PMID:23824574)
MGI PMID:12194849, PMID:23824574 MGI:3625553, MGI:5498579 NCBI chr 9:120,933,400...120,960,507
Ensembl chr 9:120,929,216...120,960,507
JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr19:30,545,876...30,549,496
Ensembl chr19:30,545,863...30,549,665
JBrowse link
G Dusp1 dual specificity phosphatase 1 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr17:26,505,591...26,508,472
Ensembl chr17:26,505,590...26,562,128
JBrowse link
G Dusp2 dual specificity phosphatase 2 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 2:127,336,159...127,338,377
Ensembl chr 2:127,336,159...127,338,376
JBrowse link
G Dusp4 dual specificity phosphatase 4 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 8:34,807,610...34,819,894
Ensembl chr 8:34,807,297...34,819,894
JBrowse link
G Dusp5 dual specificity phosphatase 5 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr19:53,529,145...53,541,809
Ensembl chr19:53,529,109...53,542,431
JBrowse link
G Eomes eomesodermin IMP (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 9:118,478,186...118,486,132
Ensembl chr 9:118,478,212...118,486,132
JBrowse link
G Gata4 GATA binding protein 4 IMP (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chr14:63,198,914...63,271,712
Ensembl chr14:63,198,922...63,271,692
JBrowse link
G Hnf1b HNF1 homeobox B ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chr11:83,850,209...83,905,917
Ensembl chr11:83,850,063...83,905,819
JBrowse link
G Lhx1 LIM homeobox protein 1 IMP (MGI:3487194|PMID:15355796) MGI PMID:15355796 MGI:3487194 NCBI chr11:84,517,975...84,525,534
Ensembl chr11:84,518,284...84,525,535
JBrowse link
G Mixl1 Mix1 homeobox-like 1 (Xenopus laevis) IBA
IMP
(MGI:6201960|PMID:21873635)
(MGI:3695524|PMID:17151016)
GO_Central
MGI
PMID:17151016, PMID:21873635 MGI:3695524, MGI:6201960 NCBI chr 1:180,693,043...180,697,034
Ensembl chr 1:180,693,043...180,697,034
JBrowse link
G Nog noggin IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr11:89,300,638...89,302,559
Ensembl chr11:89,300,638...89,302,332
JBrowse link
G Smad2 SMAD family member 2 IMP (MGI:5293253|PMID:21822279) MGI PMID:21822279 MGI:5293253 NCBI chr18:76,241,090...76,311,748
Ensembl chr18:76,241,580...76,310,963
JBrowse link
G Sox17 SRY (sex determining region Y)-box 17 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr 1:4,490,928...4,497,426
Ensembl chr 1:4,490,931...4,497,354
JBrowse link
G Sox7 SRY (sex determining region Y)-box 7 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr14:63,943,706...63,950,732
Ensembl chr14:63,943,673...63,950,732
JBrowse link
G Tnrc6c trinucleotide repeat containing 6C IMP (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chr11:117,653,703...117,763,439
Ensembl chr11:117,654,289...117,763,439
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 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:114,030,479...114,220,756
Ensembl chr 3:114,030,540...114,220,718
JBrowse link
G Col12a1 collagen, type XII, alpha 1 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 9:79,598,987...79,721,141
Ensembl chr 9:79,598,991...79,718,831
JBrowse link
G Col4a2 collagen, type IV, alpha 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 8:11,312,805...11,449,287
Ensembl chr 8:11,312,805...11,449,287
JBrowse link
G Col6a1 collagen, type VI, alpha 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr10:76,708,792...76,726,044
Ensembl chr10:76,708,792...76,726,168
JBrowse link
G Col7a1 collagen, type VII, alpha 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 9:108,953,586...108,984,875
Ensembl chr 9:108,953,586...108,984,875
JBrowse link
G Col8a1 collagen, type VIII, alpha 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:57,624,256...57,754,737
Ensembl chr16:57,624,258...57,754,737
JBrowse link
G Fn1 fibronectin 1 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr 1:71,585,473...71,653,280
Ensembl chr 1:71,585,520...71,653,200
JBrowse link
G Gata6 GATA binding protein 6 IMP (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chr18:11,052,510...11,085,636
Ensembl chr18:11,052,064...11,085,635
JBrowse link
G Hmga2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr10:120,361,268...120,476,469
Ensembl chr10:120,361,275...120,476,469
JBrowse link
G Hsbp1 heat shock factor binding protein 1 IMP (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chr 8:119,344,538...119,348,929
Ensembl chr 8:119,344,488...119,348,922
JBrowse link
G Inhba inhibin beta-A ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr13:16,004,256...16,031,609
Ensembl chr13:16,011,851...16,031,621
JBrowse link
G Itga4 integrin alpha 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 2:79,255,426...79,333,114
Ensembl chr 2:79,255,426...79,333,123
JBrowse link
G Itga5 integrin alpha 5 (fibronectin receptor alpha) ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr15:103,344,286...103,366,791
Ensembl chr15:103,344,286...103,366,763
JBrowse link
G Itga7 integrin alpha 7 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr10:128,933,421...128,958,286
Ensembl chr10:128,933,818...128,958,282
JBrowse link
G Itgav integrin alpha V ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr 2:83,722,303...83,806,917
Ensembl chr 2:83,724,397...83,806,916
JBrowse link
G Itgb2 integrin beta 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr10:77,530,329...77,565,708
Ensembl chr10:77,530,252...77,565,708
JBrowse link
G Itgb5 integrin beta 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:33,829,665...33,949,338
Ensembl chr16:33,829,665...33,949,338
JBrowse link
G Lama3 laminin, alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr18:12,333,417...12,583,013
Ensembl chr18:12,333,819...12,583,013
JBrowse link
G Lamb1 laminin B1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:31,265,146...31,329,644
Ensembl chr12:31,265,234...31,329,644
JBrowse link
G Lamb3 laminin, beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 1:193,294,353...193,343,878
Ensembl chr 1:193,207,699...193,343,878
JBrowse link
G Mixl1 Mix1 homeobox-like 1 (Xenopus laevis) IDA (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chr 1:180,693,043...180,697,034
Ensembl chr 1:180,693,043...180,697,034
JBrowse link
G Mmp14 matrix metallopeptidase 14 (membrane-inserted) ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr14:54,431,598...54,442,456
Ensembl chr14:54,431,612...54,445,364
JBrowse link
G Mmp15 matrix metallopeptidase 15 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 8:95,352,296...95,374,293
Ensembl chr 8:95,352,268...95,375,080
JBrowse link
G Mmp2 matrix metallopeptidase 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 8:92,827,290...92,853,421
Ensembl chr 8:92,827,291...92,853,420
JBrowse link
G Mmp8 matrix metallopeptidase 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 9:7,558,429...7,568,486
Ensembl chr 9:7,558,456...7,568,485
JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 2:164,940,326...164,955,850
Ensembl chr 2:164,940,780...164,955,850
JBrowse link
G Nodal nodal ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr10:61,417,972...61,425,338
Ensembl chr10:61,417,972...61,425,338
JBrowse link
G Setd2 SET domain containing 2 IMP (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chr 9:110,532,500...110,618,633
Ensembl chr 9:110,532,597...110,618,633
JBrowse link
G Vtn vitronectin ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr11:78,499,120...78,502,325
Ensembl chr11:78,499,091...78,502,324
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, Paf1/RNA polymerase II complex component IMP (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 1:143,603,276...143,702,893
Ensembl chr 1:143,598,800...143,702,893
JBrowse link
G Ctnnb1 catenin (cadherin associated protein), beta 1 IMP (MGI:3625553|PMID:12194849) MGI PMID:12194849 MGI:3625553 NCBI chr 9:120,933,400...120,960,507
Ensembl chr 9:120,929,216...120,960,507
JBrowse link
G Ctr9 CTR9 homolog, Paf1/RNA polymerase II complex component IMP (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 7:111,028,951...111,056,377
Ensembl chr 7:111,028,951...111,056,377
JBrowse link
G Leo1 Leo1, Paf1/RNA polymerase II complex component IMP (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 9:75,441,015...75,466,432
Ensembl chr 9:75,441,524...75,466,432
JBrowse link
G Paf1 Paf1, RNA polymerase II complex component IMP (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 7:28,392,996...28,399,383
Ensembl chr 7:28,392,951...28,399,388
JBrowse link
G Pou5f1 POU domain, class 5, transcription factor 1 IDA (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr17:35,506,032...35,510,777
Ensembl chr17:35,506,018...35,510,772
JBrowse link
G Rtf1 RTF1, Paf1/RNA polymerase II complex component IMP (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr 2:119,675,068...119,735,407
Ensembl chr 2:119,675,068...119,735,407
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 IDA (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chr18:11,052,510...11,085,636
Ensembl chr18:11,052,064...11,085,635
JBrowse link
G Sox17 SRY (sex determining region Y)-box 17 IDA (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chr 1:4,490,928...4,497,426
Ensembl chr 1:4,490,931...4,497,354
JBrowse link
endodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eomes eomesodermin IBA
IMP
(MGI:6201960|PMID:21873635)
(MGI:4887279|PMID:21245162)
GO_Central
MGI
PMID:21245162, PMID:21873635 MGI:4887279, MGI:6201960 NCBI chr 9:118,478,186...118,486,132
Ensembl chr 9:118,478,212...118,486,132
JBrowse link
G Hnf1b HNF1 homeobox B IMP (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chr11:83,850,209...83,905,917
Ensembl chr11:83,850,063...83,905,819
JBrowse link
G Nanog Nanog homeobox ISO (MGI:4887279|PMID:21245162) MGI PMID:21245162 MGI:4887279 NCBI chr 6:122,707,489...122,714,633
Ensembl chr 6:122,707,489...122,714,633
JBrowse link
G Pou5f1 POU domain, class 5, transcription factor 1 ISO (MGI:4887279|PMID:21245162) MGI PMID:21245162 MGI:4887279 NCBI chr17:35,506,032...35,510,777
Ensembl chr17:35,506,018...35,510,772
JBrowse link
G Sox2 SRY (sex determining region Y)-box 2 ISO (MGI:4887279|PMID:21245162) MGI PMID:21245162 MGI:4887279 NCBI chr 3:34,649,995...34,652,461
Ensembl chr 3:34,650,405...34,652,461
JBrowse link
hemangioblast cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tal1 T cell acute lymphocytic leukemia 1 IMP (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 4:115,056,426...115,071,755
Ensembl chr 4:115,056,426...115,071,755
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 MGI GO_REF:0000096, MGI:4834177 NCBI chr14:46,383,525...46,390,669
Ensembl chr14:46,383,520...46,390,669
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 IMP (MGI:1928688|PMID:11124112) MGI PMID:11124112 MGI:1928688 NCBI chr 8:121,084,386...121,088,154
Ensembl chr 8:121,084,386...121,088,144
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 IMP (MGI:1345529|PMID:10479450)
(MGI:3695845|PMID:17117439)
MGI PMID:10479450, PMID:17117439 MGI:1345529, MGI:3695845 NCBI chr 2:58,446,438...58,566,828
Ensembl chr 2:58,388,644...58,567,157
JBrowse link
G Armc5 armadillo repeat containing 5 IMP (MGI:5913685|PMID:28911199) MGI PMID:28911199 MGI:5913685 NCBI chr 7:128,237,357...128,245,100
Ensembl chr 7:128,237,342...128,245,100
JBrowse link
G Bmp4 bone morphogenetic protein 4 IDA (MGI:4415813|PMID:18462699), (MGI:70235|PMID:7799920) MGI PMID:7799920, PMID:18462699 MGI:4415813, MGI:70235 NCBI chr14:46,383,525...46,390,669
Ensembl chr14:46,383,520...46,390,669
JBrowse link
G Bmp7 bone morphogenetic protein 7 IGI (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chr 2:172,868,012...172,940,321
Ensembl chr 2:172,868,012...172,940,321
JBrowse link
G Bmpr1a bone morphogenetic protein receptor, type 1A IMP (MGI:3722226|PMID:17699604) MGI PMID:17699604 MGI:3722226 NCBI chr14:34,411,061...34,503,336
Ensembl chr14:34,410,734...34,503,341
JBrowse link
G Bmpr2 bone morphogenetic protein receptor, type II (serine/threonine kinase) IMP (MGI:1855789|PMID:10772805) MGI PMID:10772805 MGI:1855789 NCBI chr 1:59,764,279...59,878,081
Ensembl chr 1:59,763,400...59,879,014
JBrowse link
G Chrd chordin IMP (MGI:2662951|PMID:12810603) MGI PMID:12810603 MGI:2662951 NCBI chr16:20,731,425...20,742,384
Ensembl chr16:20,733,127...20,742,384
JBrowse link
G Crb2 crumbs family member 2 IMP (MGI:5296388|PMID:22072575), (MGI:5823085|PMID:27870829) UniProt PMID:22072575, PMID:27870829 MGI:5296388, MGI:5823085 NCBI chr 2:37,776,225...37,799,103
Ensembl chr 2:37,776,249...37,799,103
JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr19:30,545,876...30,549,496
Ensembl chr19:30,545,863...30,549,665
JBrowse link
G Ecsit ECSIT signalling integrator IMP (MGI:2682456|PMID:14633973) MGI PMID:14633973 MGI:2682456 NCBI chr 9:22,071,435...22,086,296
Ensembl chr 9:22,072,246...22,085,438
JBrowse link
G Eomes eomesodermin IMP
IBA
(MGI:1354065|PMID:10716450)
(MGI:6201960|PMID:21873635)
MGI
GO_Central
PMID:10716450, PMID:21873635 MGI:1354065, MGI:6201960 NCBI chr 9:118,478,186...118,486,132
Ensembl chr 9:118,478,212...118,486,132
JBrowse link
G Etv2 ets variant 2 IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr 7:30,633,616...30,636,509
Ensembl chr 7:30,633,616...30,635,852
JBrowse link
G Ext2 exostosin glycosyltransferase 2 IMP (MGI:3608483|PMID:16236767) MGI PMID:16236767 MGI:3608483 NCBI chr 2:93,695,631...93,822,568
Ensembl chr 2:93,661,028...93,822,568
JBrowse link
G Gpi1 glucose-6-phosphate isomerase 1 IMP (MGI:84014|PMID:8922529) MGI PMID:8922529 MGI:84014 NCBI chr 7:34,201,327...34,230,336
Ensembl chr 7:34,201,330...34,230,336
JBrowse link
G Hand1 heart and neural crest derivatives expressed 1 IMP (MGI:1197801|PMID:9500550) MGI PMID:9500550 MGI:1197801 NCBI chr11:57,828,713...57,832,147
Ensembl chr11:57,828,705...57,832,818
JBrowse link
G Inhba inhibin beta-A IDA (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr13:16,004,256...16,031,609
Ensembl chr13:16,011,851...16,031,621
JBrowse link
G Macf1 microtubule-actin crosslinking factor 1 IMP (MGI:3640889|PMID:16815997) MGI PMID:16815997 MGI:3640889 NCBI chr 4:123,349,633...123,687,802
Ensembl chr 4:123,349,633...123,684,360
JBrowse link
G Mesp1 mesoderm posterior 1 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 7:79,792,241...79,793,590
Ensembl chr 7:79,792,241...79,793,788
JBrowse link
G Mesp2 mesoderm posterior 2 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 7:79,810,727...79,813,431
Ensembl chr 7:79,810,727...79,813,439
JBrowse link
G Msgn1 mesogenin 1 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr12:11,208,382...11,208,948
Ensembl chr12:11,208,360...11,208,972
JBrowse link
G Nf2 neurofibromin 2 IMP (MGI:707944|PMID:9171370) MGI PMID:9171370 MGI:707944 NCBI chr11:4,757,639...4,849,544
Ensembl chr11:4,765,845...4,849,536
JBrowse link
G Nodal nodal TAS
IMP
(MGI:52474|PMID:8429908)
(MGI:2155575|PMID:11311163)
BHF-UCL
MGI
PMID:8429908, PMID:11311163 MGI:2155575, MGI:52474 NCBI chr10:61,417,972...61,425,338
Ensembl chr10:61,417,972...61,425,338
JBrowse link
G Nog noggin IDA (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr11:89,300,638...89,302,559
Ensembl chr11:89,300,638...89,302,332
JBrowse link
G Nr4a3 nuclear receptor subfamily 4, group A, member 3 IMP (MGI:3042044|PMID:13129926) MGI PMID:13129926 MGI:3042044 NCBI chr 4:48,045,078...48,086,447
Ensembl chr 4:48,045,153...48,086,447
JBrowse link
G Pofut2 protein O-fucosyltransferase 2 IMP (MGI:4838381|PMID:20637190) MGI PMID:20637190 MGI:4838381 NCBI chr10:77,259,081...77,269,586
Ensembl chr10:77,259,218...77,269,575
JBrowse link
G Prkaca protein kinase, cAMP dependent, catalytic, alpha IGI (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chr 8:83,972,978...83,996,444
Ensembl chr 8:83,972,993...83,996,443
JBrowse link
G Prkar1a protein kinase, cAMP dependent regulatory, type I, alpha IMP (MGI:2183097|PMID:12004056) MGI PMID:12004056 MGI:2183097 NCBI chr11:109,649,023...109,669,663
Ensembl chr11:109,649,405...109,669,656
JBrowse link
G Scx scleraxis IMP (MGI:1343990|PMID:10477299) UniProt PMID:10477299 MGI:1343990 NCBI chr15:76,457,411...76,459,468
Ensembl chr15:76,457,452...76,459,458
JBrowse link
G Smad2 SMAD family member 2 IMP (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chr18:76,241,090...76,311,748
Ensembl chr18:76,241,580...76,310,963
JBrowse link
G Smad3 SMAD family member 3 IMP (MGI:3039049|PMID:15084457) MGI PMID:15084457 MGI:3039049 NCBI chr 9:63,646,766...63,757,994
Ensembl chr 9:63,646,767...63,757,994
JBrowse link
G Snai1 snail family zinc finger 1 IMP (MGI:2153695|PMID:11689706) UniProt PMID:11689706 MGI:2153695 NCBI chr 2:167,538,195...167,542,814
Ensembl chr 2:167,538,195...167,542,814
JBrowse link
G Srf serum response factor IMP (MGI:1312998|PMID:9799237), (MGI:1927031|PMID:11060034) MGI PMID:9799237, PMID:11060034 MGI:1312998, MGI:1927031 NCBI chr17:46,546,838...46,558,267
Ensembl chr17:46,548,329...46,556,175
JBrowse link
G T brachyury, T-box transcription factor T IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr17:8,434,423...8,442,496
Ensembl chr17:8,434,423...8,442,496
JBrowse link
G Tbx19 T-box 19 IBA (MGI:6201960|PMID:21873635) GO_Central PMID:21873635 MGI:6201960 NCBI chr 1:165,137,834...165,160,773
Ensembl chr 1:165,137,855...165,160,773
JBrowse link
G Tbx6 T-box 6 IMP (MGI:3577662|PMID:15755804)
(MGI:2447720|PMID:9490412)
MGI PMID:9490412, PMID:15755804 MGI:2447720, MGI:3577662 NCBI chr 7:126,781,483...126,785,548
Ensembl chr 7:126,781,483...126,785,560
JBrowse link
G Tlx2 T cell leukemia, homeobox 2 IMP (MGI:1267265|PMID:9550720) MGI PMID:9550720 MGI:1267265 NCBI chr 6:83,068,325...83,070,225
Ensembl chr 6:83,068,324...83,070,293
JBrowse link
G Twsg1 twisted gastrulation BMP signaling modulator 1 IGI (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chr17:65,923,065...65,951,187
Ensembl chr17:65,921,972...65,951,226
JBrowse link
G Txnrd1 thioredoxin reductase 1 IMP (MGI:3721365|PMID:17697936) MGI PMID:17697936 MGI:3721365 NCBI chr10:82,833,951...82,897,724
Ensembl chr10:82,833,951...82,897,712
JBrowse link
G Wls wntless WNT ligand secretion mediator IMP (MGI:4397730|PMID:19841259) UniProt PMID:19841259 MGI:4397730 NCBI chr 3:159,839,650...159,938,666
Ensembl chr 3:159,839,672...159,938,664
JBrowse link
G Wnt3 wingless-type MMTV integration site family, member 3 IMP (MGI:1341483|PMID:10431240) MGI PMID:10431240 MGI:1341483 NCBI chr11:103,774,175...103,818,021
Ensembl chr11:103,774,150...103,817,957
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 IMP (MGI:3821807|PMID:18794329) MGI PMID:18794329 MGI:3821807 NCBI chr 1:119,545,032...119,649,096
Ensembl chr 1:119,545,037...119,649,000
JBrowse link
G T brachyury, T-box transcription factor T IMP (MGI:71468|PMID:7720590) MGI PMID:7720590 MGI:71468 NCBI chr17:8,434,423...8,442,496
Ensembl chr17:8,434,423...8,442,496
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 IDA (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr14:46,383,525...46,390,669
Ensembl chr14:46,383,520...46,390,669
JBrowse link
G Fgfr2 fibroblast growth factor receptor 2 ISO RGD PMID:7803853 RGD:632663 NCBI chr 7:130,162,451...130,266,808
Ensembl chr 7:130,162,451...133,123,350
JBrowse link
G Hmga2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr10:120,361,268...120,476,469
Ensembl chr10:120,361,275...120,476,469
JBrowse link
G Inhba inhibin beta-A IDA (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr13:16,004,256...16,031,609
Ensembl chr13:16,011,851...16,031,621
JBrowse link
G Itga2 integrin alpha 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr13:114,833,081...114,932,100
Ensembl chr13:114,833,081...114,932,100
JBrowse link
G Itga3 integrin alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr11:95,044,475...95,076,844
Ensembl chr11:95,044,474...95,076,801
JBrowse link
G Itga8 integrin alpha 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 2:12,106,632...12,301,985
Ensembl chr 2:12,106,632...12,301,922
JBrowse link
G Itgb1 integrin beta 1 (fibronectin receptor beta) ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 8:128,685,654...128,733,579
Ensembl chr 8:128,685,654...128,733,200
JBrowse link
G Itgb3 integrin beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr11:104,608,000...104,670,476
Ensembl chr11:104,608,000...104,670,476
JBrowse link
G Itgb4 integrin beta 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr11:115,974,725...116,008,412
Ensembl chr11:115,974,709...116,008,412
JBrowse link
G Kdm6a lysine (K)-specific demethylase 6A IMP (MGI:5448135|PMID:22949634) MGI PMID:22949634 MGI:5448135 NCBI chr  X:18,160,862...18,279,936
Ensembl chr  X:18,162,575...18,279,936
JBrowse link
G Kdm6b KDM1 lysine (K)-specific demethylase 6B IMP (MGI:5574281|PMID:23856522) BHF-UCL PMID:23856522 MGI:5574281 NCBI chr11:69,398,508...69,420,367
Ensembl chr11:69,398,508...69,413,675
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 IGI (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chr 6:122,707,489...122,714,633
Ensembl chr 6:122,707,489...122,714,633
JBrowse link
G Pou5f1 POU domain, class 5, transcription factor 1 IDA (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr17:35,506,032...35,510,777
Ensembl chr17:35,506,018...35,510,772
JBrowse link
G Smad1 SMAD family member 1 IGI (MGI:3654744|PMID:16801560) MGI PMID:16801560 MGI:3654744 NCBI chr 8:79,338,395...79,399,428
Ensembl chr 8:79,338,395...79,399,518
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 IMP (MGI:76261|PMID:7657163) MGI PMID:7657163 MGI:76261 NCBI chr14:46,383,525...46,390,669
Ensembl chr14:46,383,520...46,390,669
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 IDA (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr 1:14,168,953...14,311,035
Ensembl chr 1:14,168,954...14,310,235
JBrowse link
G Hoxa11 homeobox A11 IDA (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr 6:52,242,105...52,245,810
Ensembl chr 6:52,242,106...52,245,810
JBrowse link
G Pax2 paired box 2 IDA (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr19:44,746,601...44,838,269
Ensembl chr19:44,756,045...44,837,871
JBrowse link
G Six2 sine oculis-related homeobox 2 IDA (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr17:85,662,736...85,688,254
Ensembl chr17:85,684,277...85,688,274
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 MGI GO_REF:0000096, MGI:4834177 NCBI chr 1:59,482,147...59,486,955
Ensembl chr 1:59,482,424...59,486,955
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 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr 2:27,886,381...28,039,510
Ensembl chr 2:27,886,425...28,039,514
JBrowse link
G Col5a2 collagen, type V, alpha 2 ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr 1:45,374,331...45,503,282
Ensembl chr 1:45,374,321...45,503,282
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 1 IDA (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chr 7:79,792,241...79,793,590
Ensembl chr 7:79,792,241...79,793,788
JBrowse link
G Nanog Nanog homeobox TAS (MGI:3690198|PMID:16501172) HGNC-UCL PMID:16501172 MGI:3690198 NCBI chr 6:122,707,489...122,714,633
Ensembl chr 6:122,707,489...122,714,633
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 MGI GO_REF:0000096, MGI:4834177 NCBI chr19:30,545,876...30,549,496
Ensembl chr19:30,545,863...30,549,665
JBrowse link
G Mesp1 mesoderm posterior 1 IDA (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chr 7:79,792,241...79,793,590
Ensembl chr 7:79,792,241...79,793,788
JBrowse link
G Sfrp2 secreted frizzled-related protein 2 IGI (MGI:3711603|PMID:17462603) MGI PMID:17462603 MGI:3711603 NCBI chr 3:83,765,750...83,774,314
Ensembl chr 3:83,766,321...83,774,316
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 IMP (MGI:1195048|PMID:9441674) MGI PMID:9441674 MGI:1195048 NCBI chr 6:33,249,090...33,973,979
Ensembl chr 6:33,249,085...33,973,979
JBrowse link
G Foxc1 forkhead box C1 IGI
IMP
(MGI:2150572|PMID:11562355)
(MGI:3047050|PMID:15196959)
MGI
UniProt
PMID:11562355, PMID:15196959 MGI:2150572, MGI:3047050 NCBI chr13:31,806,646...31,810,635
Ensembl chr13:31,806,633...31,812,476
JBrowse link
G Foxc2 forkhead box C2 IGI (MGI:2150572|PMID:11562355) MGI PMID:11562355 MGI:2150572 NCBI chr 8:121,116,171...121,118,895
Ensembl chr 8:121,116,171...121,118,895
JBrowse link
G Hnf1a HNF1 homeobox A IGI (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chr 5:114,948,980...114,971,062
Ensembl chr 5:114,948,980...114,971,094
JBrowse link
G Htt huntingtin IMP (MGI:3609520|PMID:16109169) MGI PMID:16109169 MGI:3609520 NCBI chr 5:34,761,721...34,912,534
Ensembl chr 5:34,761,740...34,912,534
JBrowse link
G Lef1 lymphoid enhancer binding factor 1 IGI (MGI:1334099|PMID:10090727) MGI PMID:10090727 MGI:1334099 NCBI chr 3:131,110,297...131,224,357
Ensembl chr 3:131,110,471...131,224,356
JBrowse link
G Wnt11 wingless-type MMTV integration site family, member 11 IGI (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chr 7:98,835,084...98,854,747
Ensembl chr 7:98,835,112...98,855,195
JBrowse link
G Wnt5a wingless-type MMTV integration site family, member 5A IGI (MGI:5634837|PMID:25813538) MGI PMID:25813538 MGI:5634837 NCBI chr14:28,504,543...28,527,448
Ensembl chr14:28,504,750...28,527,448
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 IMP (MGI:86990|PMID:9106663) MGI PMID:9106663 MGI:86990 NCBI chr 8:121,116,171...121,118,895
Ensembl chr 8:121,116,171...121,118,895
JBrowse link
G Wnt3a wingless-type MMTV integration site family, member 3A IMP (MGI:86727|PMID:9126297) MGI PMID:9126297 MGI:86727 NCBI chr11:59,248,036...59,290,751
Ensembl chr11:59,248,033...59,290,752
JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Macroh2a1 macroH2A.1 histone ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr13:56,073,622...56,135,626
Ensembl chr13:56,073,619...56,136,361
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 MGI GO_REF:0000096, MGI:4834177 NCBI chr10:56,377,300...56,390,419
Ensembl chr10:56,377,330...56,402,513
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 wingless-type MMTV integration site family, member 3A ISO MGI GO_REF:0000096, MGI:4834177 NCBI chr11:59,248,036...59,290,751
Ensembl chr11:59,248,033...59,290,752
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 MGI GO_REF:0000096, MGI:4834177 NCBI chr19:30,545,876...30,549,496
Ensembl chr19:30,545,863...30,549,665
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 IGI (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chr14:34,411,061...34,503,336
Ensembl chr14:34,410,734...34,503,341
JBrowse link
G Fgfr1 fibroblast growth factor receptor 1 IGI (MGI:3702797|PMID:16943278) MGI PMID:16943278 MGI:3702797 NCBI chr 8:25,518,759...25,575,718
Ensembl chr 8:25,513,654...25,575,718
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 23386
    developmental process 7030
      anatomical structure formation involved in morphogenesis 1248
        formation of primary germ layer 127
          cell fate commitment involved in formation of primary germ layer + 31
          ectoderm formation + 6
          endoderm formation + 56
          mesoderm formation + 74
Path 2
Term Annotations click to browse term
  biological_process 23386
    developmental process 7030
      anatomical structure development 6504
        multicellular organism development 5968
          embryo development 1302
            embryonic morphogenesis 679
              gastrulation 202
                formation of primary germ layer 127
                  cell fate commitment involved in formation of primary germ layer + 31
                  ectoderm formation + 6
                  endoderm formation + 56
                  mesoderm formation + 74
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.