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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 IEA Ensembl GO_REF:0000107 NCBI chr 2:73,331,606...73,401,151
Ensembl chr 2:73,324,852...73,401,102
JBrowse link
G ATOH8 atonal bHLH transcription factor 8 ISO (MGI:3798332|PMID:18560595) UniProt PMID:18560595 MGI:3798332 NCBI chr17:39,255,725...39,280,022 JBrowse link
G KIF16B kinesin family member 16B IEA Ensembl GO_REF:0000107 NCBI chr24:6,260,558...6,576,544
Ensembl chr24:6,261,553...6,575,845
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 NCBI chr 6:40,155,797...40,218,330
Ensembl chr 6:40,158,244...40,218,343
JBrowse link
G EPHA2 EPH receptor A2 IEA Ensembl GO_REF:0000107 NCBI chr 2:81,534,130...81,561,722
Ensembl chr 2:81,534,125...81,561,725
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 IEA Ensembl GO_REF:0000107 NCBI chr 4:21,366,828...21,374,623
Ensembl chr 4:21,367,583...21,375,151
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 chr 1:116,971,238...116,974,831
Ensembl chr 1:116,971,365...116,985,796
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 chr12:860,702...866,099 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 chr24:1,010,370...1,013,791
Ensembl chr24:1,010,651...1,013,072
JBrowse link
G LHX1 LIM homeobox 1 ISS UniProtKB GO_REF:0000024 NCBI chr 9:36,760,890...36,768,345
Ensembl chr 9:36,761,826...36,768,164
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 IEA Ensembl GO_REF:0000107 NCBI chr18:33,342,962...33,376,012
Ensembl chr18:33,332,324...33,374,828
JBrowse link
G ETS2 ETS proto-oncogene 2, transcription factor IEA Ensembl GO_REF:0000107 NCBI chr31:33,846,821...33,861,394
Ensembl chr31:33,839,010...33,860,330
JBrowse link
G POU5F1 POU class 5 homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr12:860,702...866,099 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 chr23:10,559,722...10,572,933
Ensembl chr23:10,559,718...10,572,927
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 IEA Ensembl GO_REF:0000107 NCBI chr26:35,697,428...35,701,596
Ensembl chr26:35,697,618...35,701,496
JBrowse link
G DUSP1 dual specificity phosphatase 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 4:39,588,833...39,591,065
Ensembl chr 4:39,588,339...39,590,514
JBrowse link
G DUSP2 dual specificity phosphatase 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr17:34,586,635...34,589,076
Ensembl chr17:34,586,716...34,588,453
JBrowse link
G DUSP4 dual specificity phosphatase 4 IBA (PMID:21873635) GO_Central PMID:21873635 Ensembl chr16:34,801,869...34,814,111 JBrowse link
G DUSP5 dual specificity phosphatase 5 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr28:21,829,891...21,844,590
Ensembl chr28:21,829,921...21,841,454
JBrowse link
G EOMES eomesodermin ISO (MGI:3772748|PMID:18171685)
(MGI:4887279|PMID:21245162), (MGI:5293253|PMID:21822279)
UniProt
MGI
PMID:18171685, PMID:21245162, PMID:21822279 MGI:3772748, MGI:4887279, MGI:5293253 NCBI chr23:16,476,498...16,512,406
Ensembl chr23:16,506,032...16,511,527
JBrowse link
G GATA4 GATA binding protein 4 ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chr25:26,126,172...26,211,474
Ensembl chr25:26,127,853...26,182,989
JBrowse link
G LHX1 LIM homeobox 1 ISS UniProtKB GO_REF:0000024 NCBI chr 9:36,760,890...36,768,345
Ensembl chr 9:36,761,826...36,768,164
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chr 4:39,420,840...39,424,565 JBrowse link
G NOG noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr 9:31,453,604...31,456,060 JBrowse link
G SMAD2 SMAD family member 2 IEA Ensembl GO_REF:0000107 NCBI chr 7:43,696,883...43,778,063
Ensembl chr 7:43,700,445...43,769,983
JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr29:5,979,092...5,981,504
Ensembl chr29:5,979,261...5,981,124
JBrowse link
G SOX7 SRY-box transcription factor 7 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr25:27,216,111...27,222,142
Ensembl chr25:27,215,528...27,220,227
JBrowse link
G TNRC6C trinucleotide repeat containing adaptor 6C ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chr 9:3,018,599...3,122,664
Ensembl chr 9:3,020,533...3,171,471
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 IEA Ensembl GO_REF:0000107 NCBI chr 6:47,425,387...47,622,189
Ensembl chr 6:47,425,307...47,621,012
JBrowse link
G COL12A1 collagen type XII alpha 1 chain IBA
IEA
(PMID:21873635) GO_Central
Ensembl
PMID:21873635 GO_REF:0000107 NCBI chr12:36,720,686...36,838,321
Ensembl chr12:36,646,408...36,838,622
JBrowse link
G COL4A2 collagen type IV alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr22:58,656,579...58,820,560
Ensembl chr22:58,697,175...58,773,297
JBrowse link
G COL6A1 collagen type VI alpha 1 chain IEA Ensembl GO_REF:0000107 NCBI chr31:39,301,718...39,319,895
Ensembl chr31:39,301,748...39,448,062
JBrowse link
G COL7A1 collagen type VII alpha 1 chain IEA Ensembl GO_REF:0000107 NCBI chr20:40,519,121...40,550,305
Ensembl chr20:40,519,378...40,552,935
JBrowse link
G COL8A1 collagen type VIII alpha 1 chain IEA Ensembl GO_REF:0000107 NCBI chr33:6,285,742...6,428,172
Ensembl chr33:6,285,415...6,425,414
JBrowse link
G FN1 fibronectin 1 IEA Ensembl GO_REF:0000107 NCBI chr37:22,456,854...22,522,410
Ensembl chr37:22,420,428...22,523,123
JBrowse link
G GATA6 GATA binding protein 6 ISO (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chr 7:65,932,114...65,962,574 JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr10:8,348,101...8,491,435 JBrowse link
G HSBP1 heat shock factor binding protein 1 IEA Ensembl GO_REF:0000107 NCBI chr 5:68,474,960...68,479,206
Ensembl chr 5:68,475,948...68,479,145
JBrowse link
G INHBA inhibin subunit beta A IEA Ensembl GO_REF:0000107 NCBI chr18:8,272,978...8,288,432
Ensembl chr18:8,272,872...8,283,794
JBrowse link
G ITGA4 integrin subunit alpha 4 IEA Ensembl GO_REF:0000107 NCBI chr36:24,670,464...24,686,719
Ensembl chr36:24,653,408...24,729,057
JBrowse link
G ITGA5 integrin subunit alpha 5 IEA Ensembl GO_REF:0000107 NCBI chr27:904,892...924,757
Ensembl chr27:904,102...924,084
JBrowse link
G ITGA7 integrin subunit alpha 7 IEA Ensembl GO_REF:0000107 NCBI chr10:91,782...110,839
Ensembl chr10:91,391...110,817
JBrowse link
G ITGAV integrin subunit alpha V IEA Ensembl GO_REF:0000107 NCBI chr36:28,815,215...28,890,569
Ensembl chr36:28,804,013...28,887,430
JBrowse link
G ITGB2 integrin subunit beta 2 IEA Ensembl GO_REF:0000107 NCBI chr31:38,520,733...38,547,003
Ensembl chr31:38,521,103...38,547,018
JBrowse link
G ITGB5 integrin subunit beta 5 IEA Ensembl GO_REF:0000107 NCBI chr33:27,797,204...27,912,558
Ensembl chr33:27,797,667...27,912,584
JBrowse link
G LAMA3 laminin subunit alpha 3 IEA Ensembl GO_REF:0000107 NCBI chr 7:64,405,719...64,654,910
Ensembl chr 7:64,406,082...64,655,268
JBrowse link
G LAMB1 laminin subunit beta 1 IEA Ensembl GO_REF:0000107 NCBI chr18:12,634,640...12,700,311
Ensembl chr18:12,630,554...12,700,308
JBrowse link
G LAMB3 laminin subunit beta 3 IEA Ensembl GO_REF:0000107 NCBI chr 7:8,272,326...8,313,322
Ensembl chr 7:8,272,736...8,310,474
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chr 4:39,420,840...39,424,565 JBrowse link
G MMP14 matrix metallopeptidase 14 IEA Ensembl GO_REF:0000107 NCBI chr 8:3,183,419...3,193,079
Ensembl chr 8:3,183,606...3,194,122
JBrowse link
G MMP15 matrix metallopeptidase 15 IEA Ensembl GO_REF:0000107 NCBI chr 2:58,501,783...58,512,507
Ensembl chr 2:58,504,848...58,512,371
JBrowse link
G MMP2 matrix metallopeptidase 2 IEA Ensembl GO_REF:0000107 NCBI chr 2:60,471,092...60,492,991
Ensembl chr 2:60,471,257...60,494,113
JBrowse link
G MMP8 matrix metallopeptidase 8 IEA Ensembl GO_REF:0000107 NCBI chr 5:29,036,381...29,047,180
Ensembl chr 5:29,035,820...29,046,808
JBrowse link
G MMP9 matrix metallopeptidase 9 IEA Ensembl GO_REF:0000107 NCBI chr24:33,274,260...33,281,116
Ensembl chr24:33,274,268...33,281,293
JBrowse link
G NODAL nodal growth differentiation factor IEA Ensembl GO_REF:0000107 NCBI chr 4:21,366,828...21,374,623
Ensembl chr 4:21,367,583...21,375,151
JBrowse link
G SETD2 SET domain containing 2, histone lysine methyltransferase ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chr20:41,675,539...41,800,697
Ensembl chr20:41,675,599...41,800,612
JBrowse link
G VTN vitronectin IEA Ensembl GO_REF:0000107 NCBI chr 9:42,617,860...42,620,825
Ensembl chr 9:42,614,941...42,630,864
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 IEA Ensembl GO_REF:0000107 NCBI chr38:5,826,209...5,937,930
Ensembl chr38:5,805,916...5,938,111
JBrowse link
G CTNNB1 catenin beta 1 IEA Ensembl GO_REF:0000107 NCBI chr23:10,559,722...10,572,933
Ensembl chr23:10,559,718...10,572,927
JBrowse link
G CTR9 CTR9 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr21:33,915,804...33,949,597
Ensembl chr21:33,915,772...33,949,103
JBrowse link
G LEO1 LEO1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr30:17,614,502...17,651,715
Ensembl chr30:17,598,076...17,651,290
JBrowse link
G PAF1 PAF1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr 1:113,828,219...113,832,747
Ensembl chr 1:113,828,007...113,832,735
JBrowse link
G POU5F1 POU class 5 homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr12:860,702...866,099 JBrowse link
G RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr30:8,468,001...8,524,712
Ensembl chr30:8,467,761...8,522,874
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 chr 7:65,932,114...65,962,574 JBrowse link
G SOX17 SRY-box transcription factor 17 IEA Ensembl GO_REF:0000107 NCBI chr29:5,979,092...5,981,504
Ensembl chr29:5,979,261...5,981,124
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 (PMID:21873635) GO_Central PMID:21873635 NCBI chr23:16,476,498...16,512,406
Ensembl chr23:16,506,032...16,511,527
JBrowse link
G HNF1B HNF1 homeobox B IEA Ensembl GO_REF:0000107 NCBI chr 9:37,437,992...37,493,200
Ensembl chr 9:37,438,583...37,492,993
JBrowse link
G NANOG Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chr27:37,262,558...37,266,449 JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chr12:860,702...866,099 JBrowse link
G SOX2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chr34:14,853,000...14,855,153 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 chr15:13,446,752...13,462,038
Ensembl chr15:13,449,481...13,462,047
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 IEA Ensembl GO_REF:0000107 NCBI chr 8:29,997,563...30,254,307
Ensembl chr 8:29,997,569...30,004,557
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 IEA Ensembl GO_REF:0000107 NCBI chr 5:66,343,776...66,347,785
Ensembl chr 5:66,345,150...66,347,935
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 IEA Ensembl GO_REF:0000107 NCBI chr36:3,743,257...3,818,659
Ensembl chr36:3,744,163...3,818,652
JBrowse link
G ARMC5 armadillo repeat containing 5 IEA Ensembl GO_REF:0000107 NCBI chr 6:16,782,732...16,789,490
Ensembl chr 6:16,781,860...16,788,878
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 chr 8:29,997,563...30,254,307
Ensembl chr 8:29,997,569...30,004,557
JBrowse link
G BMP7 bone morphogenetic protein 7 ISO (MGI:3578079|PMID:15843411) MGI PMID:15843411 MGI:3578079 NCBI chr24:42,203,183...42,294,105
Ensembl chr24:42,204,823...42,294,653
JBrowse link
G BMPR1A bone morphogenetic protein receptor type 1A IEA Ensembl GO_REF:0000107 NCBI chr 4:34,499,898...34,582,481
Ensembl chr 4:34,517,492...34,578,923
JBrowse link
G BMPR2 bone morphogenetic protein receptor type 2 IEA Ensembl GO_REF:0000107 NCBI chr37:11,342,292...11,540,199
Ensembl chr37:11,342,384...11,533,024
JBrowse link
G CHRD chordin IEA Ensembl GO_REF:0000107 NCBI chr34:17,255,770...17,264,776
Ensembl chr34:17,255,562...17,271,713
JBrowse link
G CRB2 crumbs cell polarity complex component 2 IEA Ensembl GO_REF:0000107 NCBI chr 9:59,427,661...59,450,436
Ensembl chr 9:59,427,569...59,450,434
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 IEA Ensembl GO_REF:0000107 NCBI chr26:35,697,428...35,701,596
Ensembl chr26:35,697,618...35,701,496
JBrowse link
G ECSIT ECSIT signaling integrator ISO (MGI:2682456|PMID:14633973) MGI PMID:14633973 MGI:2682456 NCBI chr20:49,848,848...49,867,075
Ensembl chr20:49,848,912...49,867,066
JBrowse link
G EOMES eomesodermin IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr23:16,476,498...16,512,406
Ensembl chr23:16,506,032...16,511,527
JBrowse link
G ETV2 ETS variant transcription factor 2 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr 1:116,971,238...116,974,831
Ensembl chr 1:116,971,365...116,985,796
JBrowse link
G EXT2 exostosin glycosyltransferase 2 IEA Ensembl GO_REF:0000107 NCBI chr18:44,987,310...45,122,339
Ensembl chr18:44,987,748...45,129,974
JBrowse link
G GPI glucose-6-phosphate isomerase ISO (MGI:84014|PMID:8922529) MGI PMID:8922529 MGI:84014 NCBI chr 1:117,922,380...117,948,325
Ensembl chr 1:117,922,635...117,948,316
JBrowse link
G HAND1 heart and neural crest derivatives expressed 1 IEA Ensembl GO_REF:0000107 NCBI chr 4:55,231,061...55,234,640
Ensembl chr 4:55,231,481...55,234,265
JBrowse link
G INHBA inhibin subunit beta A ISO (MGI:70235|PMID:7799920) MGI PMID:7799920 MGI:70235 NCBI chr18:8,272,978...8,288,432
Ensembl chr18:8,272,872...8,283,794
JBrowse link
G MACF1 microtubule actin crosslinking factor 1 ISO (MGI:3640889|PMID:16815997) MGI PMID:16815997 MGI:3640889 NCBI chr15:3,361,887...3,703,891
Ensembl chr15:3,362,867...3,573,325
JBrowse link
G MESP1 mesoderm posterior bHLH transcription factor 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:52,738,333...52,739,962
Ensembl chr 3:52,738,366...52,739,755
JBrowse link
G MESP2 mesoderm posterior bHLH transcription factor 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:52,757,581...52,759,987
Ensembl chr 3:52,756,836...52,760,004
JBrowse link
G MSGN1 mesogenin 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr17:13,266,674...13,267,968
Ensembl chr17:13,266,674...13,267,240
JBrowse link
G NF2 neurofibromin 2 IEA Ensembl GO_REF:0000107 NCBI chr26:22,816,869...22,896,103
Ensembl chr26:22,816,551...22,894,196
JBrowse link
G NODAL nodal growth differentiation factor ISO (MGI:2155575|PMID:11311163) MGI PMID:11311163 MGI:2155575 NCBI chr 4:21,366,828...21,374,623
Ensembl chr 4:21,367,583...21,375,151
JBrowse link
G NOG noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr 9:31,453,604...31,456,060 JBrowse link
G NR4A3 nuclear receptor subfamily 4 group A member 3 IEA Ensembl GO_REF:0000107 NCBI chr11:56,806,506...56,846,997
Ensembl chr11:56,812,804...56,847,689
JBrowse link
G POFUT2 protein O-fucosyltransferase 2 ISO (MGI:4838381|PMID:20637190) MGI PMID:20637190 MGI:4838381 NCBI chr31:38,813,252...38,821,656
Ensembl chr31:38,813,255...38,818,734
JBrowse link
G PRKACA protein kinase cAMP-activated catalytic subunit alpha IEA Ensembl GO_REF:0000107 NCBI chr20:48,416,730...48,425,237
Ensembl chr20:48,409,045...48,426,669
JBrowse link
G PRKAR1A protein kinase cAMP-dependent type I regulatory subunit alpha IEA Ensembl GO_REF:0000107 NCBI chr 9:15,180,940...15,203,035
Ensembl chr 9:15,181,393...15,200,683
JBrowse link
G SCX scleraxis bHLH transcription factor ISS UniProt GO_REF:0000024 NCBI chr13:37,701,781...37,704,949
Ensembl chr13:37,703,232...37,704,657
JBrowse link
G SMAD2 SMAD family member 2 IEA Ensembl GO_REF:0000107 NCBI chr 7:43,696,883...43,778,063
Ensembl chr 7:43,700,445...43,769,983
JBrowse link
G SMAD3 SMAD family member 3 IEA Ensembl GO_REF:0000107 NCBI chr30:31,246,313...31,360,098
Ensembl chr30:31,245,657...31,363,337
JBrowse link
G SNAI1 snail family transcriptional repressor 1 IEA Ensembl GO_REF:0000107 NCBI chr24:36,498,343...36,503,623
Ensembl chr24:36,498,062...36,503,628
JBrowse link
G SRF serum response factor IEA Ensembl GO_REF:0000107 NCBI chr12:11,664,441...11,673,846
Ensembl chr12:11,664,527...11,671,533
JBrowse link
G TBX19 T-box transcription factor 19 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 7:30,198,912...30,248,410
Ensembl chr 7:30,185,850...30,365,512
JBrowse link
G TBX6 T-box transcription factor 6 IEA Ensembl GO_REF:0000107 NCBI chr 6:18,093,201...18,098,592
Ensembl chr 6:18,093,189...18,097,636
JBrowse link
G TBXT T-box transcription factor T IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 1:54,183,495...54,192,331
Ensembl chr 1:54,183,153...54,192,352
JBrowse link
G TLX2 T cell leukemia homeobox 2 IEA Ensembl GO_REF:0000107 NCBI chr17:48,625,008...48,627,085
Ensembl chr17:48,625,632...48,627,052
JBrowse link
G TWSG1 twisted gastrulation BMP signaling modulator 1 IEA Ensembl GO_REF:0000107 NCBI chr 7:75,337,347...75,397,485
Ensembl chr 7:75,335,235...75,398,325
JBrowse link
G TXNRD1 thioredoxin reductase 1 IEA Ensembl GO_REF:0000107 NCBI chr10:33,904,065...34,021,549
Ensembl chr10:33,886,343...34,021,696
JBrowse link
G WLS Wnt ligand secretion mediator IEA Ensembl GO_REF:0000107 NCBI chr 6:77,053,242...77,146,549
Ensembl chr 6:77,053,237...77,317,761
JBrowse link
G WNT3 Wnt family member 3 IEA Ensembl GO_REF:0000107 NCBI chr 9:10,073,019...10,124,454
Ensembl chr 9:10,077,567...10,124,508
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 IEA Ensembl GO_REF:0000107 NCBI chr19:29,916,994...30,063,243
Ensembl chr19:29,921,636...30,063,216
JBrowse link
G TBXT T-box transcription factor T IEA Ensembl GO_REF:0000107 NCBI chr 1:54,183,495...54,192,331
Ensembl chr 1:54,183,153...54,192,352
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 chr 8:29,997,563...30,254,307
Ensembl chr 8:29,997,569...30,004,557
JBrowse link
G FGFR2 fibroblast growth factor receptor 2 ISO RGD PMID:7803853 RGD:632663 NCBI chr28:31,303,882...31,411,015
Ensembl chr28:31,303,894...31,411,621
JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr10:8,348,101...8,491,435 JBrowse link
G INHBA inhibin subunit beta A IEA Ensembl GO_REF:0000107 NCBI chr18:8,272,978...8,288,432
Ensembl chr18:8,272,872...8,283,794
JBrowse link
G ITGA2 integrin subunit alpha 2 IEA Ensembl GO_REF:0000107 NCBI chr 4:62,170,137...62,268,962
Ensembl chr 4:62,170,452...62,268,983
JBrowse link
G ITGA3 integrin subunit alpha 3 IEA Ensembl GO_REF:0000107 NCBI chr 9:26,065,792...26,095,649
Ensembl chr 9:26,062,393...26,094,422
JBrowse link
G ITGA8 integrin subunit alpha 8 IEA Ensembl GO_REF:0000107 NCBI chr 2:21,034,630...21,244,304
Ensembl chr 2:21,075,653...21,241,951
JBrowse link
G ITGB1 integrin subunit beta 1 IEA Ensembl GO_REF:0000107 NCBI chr 2:3,728,472...3,757,696
Ensembl chr 2:3,670,596...3,756,961
JBrowse link
G ITGB3 integrin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 9:9,179,667...9,231,061
Ensembl chr 9:9,182,562...9,231,451
JBrowse link
G ITGB4 integrin subunit beta 4 IEA Ensembl GO_REF:0000107 NCBI chr 9:4,825,148...4,855,266
Ensembl chr 9:4,825,292...4,855,820
JBrowse link
G KDM6A lysine demethylase 6A ISO (MGI:5448135|PMID:22949634) MGI PMID:22949634 MGI:5448135 NCBI chr  X:38,745,854...38,964,029
Ensembl chr  X:38,745,854...38,959,842
JBrowse link
G KDM6B lysine demethylase 6B IEA Ensembl GO_REF:0000107 NCBI chr 5:32,689,000...32,711,026
Ensembl chr 5:32,696,211...32,710,666
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 chr27:37,262,558...37,266,449 JBrowse link
G POU5F1 POU class 5 homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr12:860,702...866,099 JBrowse link
G SMAD1 SMAD family member 1 IEA Ensembl GO_REF:0000107 NCBI chr15:44,093,491...44,171,177
Ensembl chr15:44,095,497...44,170,098
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 IEA Ensembl GO_REF:0000107 NCBI chr 8:29,997,563...30,254,307
Ensembl chr 8:29,997,569...30,004,557
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 IEA Ensembl GO_REF:0000107 NCBI chr29:20,176,306...20,595,131
Ensembl chr29:20,177,014...20,525,653
JBrowse link
G HOXA11 homeobox A11 IEA Ensembl GO_REF:0000107 NCBI chr14:40,355,907...40,360,120
Ensembl chr14:40,357,478...40,359,919
JBrowse link
G PAX2 paired box 2 ISO (MGI:3768605|PMID:17785448) UniProt PMID:17785448 MGI:3768605 NCBI chr28:13,442,894...13,519,853
Ensembl chr28:13,442,893...13,532,094
JBrowse link
G SIX2 SIX homeobox 2 IEA Ensembl GO_REF:0000107 NCBI chr10:47,399,152...47,403,503
Ensembl chr10:47,400,034...47,403,509
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 chr37:11,054,572...11,061,173
Ensembl chr37:11,053,521...11,060,821
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 IEA Ensembl GO_REF:0000107 NCBI chr 9:50,706,852...50,856,691
Ensembl chr 9:50,770,277...50,854,728
JBrowse link
G COL5A2 collagen type V alpha 2 chain IEA Ensembl GO_REF:0000107 NCBI chr36:30,538,863...30,677,450
Ensembl chr36:30,540,229...30,691,564
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 IEA Ensembl GO_REF:0000107 NCBI chr 3:52,738,333...52,739,962
Ensembl chr 3:52,738,366...52,739,755
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 IEA Ensembl GO_REF:0000107 NCBI chr26:35,697,428...35,701,596
Ensembl chr26:35,697,618...35,701,496
JBrowse link
G MESP1 mesoderm posterior bHLH transcription factor 1 IEA Ensembl GO_REF:0000107 NCBI chr 3:52,738,333...52,739,962
Ensembl chr 3:52,738,366...52,739,755
JBrowse link
G SFRP2 secreted frizzled related protein 2 IEA Ensembl GO_REF:0000107 NCBI chr15:51,541,197...51,548,765
Ensembl chr15:51,540,500...51,548,765
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 IEA Ensembl GO_REF:0000107 NCBI chr14:3,334,286...4,077,478
Ensembl chr14:3,334,220...4,077,411
JBrowse link
G FOXC2 forkhead box C2 ISO (MGI:2150572|PMID:11562355) MGI PMID:11562355 MGI:2150572 NCBI chr 5:66,234,336...66,296,007
Ensembl chr 5:66,294,176...66,295,693
JBrowse link
G HNF1A HNF1 homeobox A IEA Ensembl GO_REF:0000107 NCBI chr26:16,805,690...16,826,065
Ensembl chr26:16,805,690...16,824,790
JBrowse link
G HTT huntingtin ISO (MGI:3609520|PMID:16109169) MGI PMID:16109169 MGI:3609520 NCBI chr 3:61,076,934...61,221,462
Ensembl chr 3:61,079,904...61,330,290
JBrowse link
G LEF1 lymphoid enhancer binding factor 1 IEA Ensembl GO_REF:0000107 NCBI chr32:28,516,002...28,633,759
Ensembl chr32:28,517,108...28,634,019
JBrowse link
G WNT11 Wnt family member 11 IEA Ensembl GO_REF:0000107 NCBI chr21:22,442,496...22,463,040
Ensembl chr21:22,446,051...22,463,173
JBrowse link
G WNT5A Wnt family member 5A IEA Ensembl GO_REF:0000107 NCBI chr20:34,756,430...34,790,937
Ensembl chr20:34,769,930...34,786,673
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 IEA Ensembl GO_REF:0000107 NCBI chr 5:66,234,336...66,296,007
Ensembl chr 5:66,294,176...66,295,693
JBrowse link
G WNT3A Wnt family member 3A IEA Ensembl GO_REF:0000107 NCBI chr14:864,393...899,698
Ensembl chr14:863,424...896,412
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 IEA Ensembl GO_REF:0000107 NCBI chr11:23,369,957...23,448,235
Ensembl chr11:23,370,300...23,438,219
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 IEA Ensembl GO_REF:0000107 NCBI chr 1:60,941,772...60,944,694
Ensembl chr 1:60,929,097...60,942,936
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 IEA Ensembl GO_REF:0000107 NCBI chr14:864,393...899,698
Ensembl chr14:863,424...896,412
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 IEA Ensembl GO_REF:0000107 NCBI chr26:35,697,428...35,701,596
Ensembl chr26:35,697,618...35,701,496
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 IEA Ensembl GO_REF:0000107 NCBI chr 4:34,499,898...34,582,481
Ensembl chr 4:34,517,492...34,578,923
JBrowse link
G FGFR1 fibroblast growth factor receptor 1 IEA Ensembl GO_REF:0000107 NCBI chr16:27,029,902...27,080,514
Ensembl chr16:27,031,588...27,078,261
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16186
    developmental process 6313
      anatomical structure formation involved in morphogenesis 1178
        formation of primary germ layer 126
          cell fate commitment involved in formation of primary germ layer + 31
          ectoderm formation + 6
          endoderm formation + 56
          mesoderm formation + 73
Path 2
Term Annotations click to browse term
  biological_process 16186
    developmental process 6313
      anatomical structure development 5861
        multicellular organism development 5354
          embryo development 1245
            embryonic morphogenesis 654
              gastrulation 191
                formation of primary germ layer 126
                  cell fate commitment involved in formation of primary germ layer + 31
                  ectoderm formation + 6
                  endoderm formation + 56
                  mesoderm formation + 73
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.