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ONTOLOGY REPORT - ANNOTATIONS

Term:endoderm formation
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Accession:GO:0001706 term browser browse the term
Definition:The formation of the endoderm during gastrulation.
Synonyms:narrow_synonym: endoblast formation


show annotations for term's descendants           Sort by:
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:1858007|MGI:2148567|MGI:4418897 (PMID:12194849), (PMID:23824574) RGD PMID:12194849 PMID:23824574 NCBI chr 8:120,640,008...120,667,110
Ensembl chr 8:120,639,995...120,667,111 		JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 acts_upstream_of_or_within ISO (PMID:18462699) RGD PMID:18462699 NCBI chr 1:228,381,521...228,385,202
Ensembl chr 1:228,381,521...228,385,202 		JBrowse link
G Dusp1 dual specificity phosphatase 1 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr10:16,680,478...16,683,275 JBrowse link
G Dusp2 dual specificity phosphatase 2 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 3:114,556,325...114,558,510
Ensembl chr 3:114,556,325...114,558,499 		JBrowse link
G Dusp4 dual specificity phosphatase 4 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr16:57,376,659...57,398,161
Ensembl chr16:57,377,229...57,398,138 		JBrowse link
G Dusp5 dual specificity phosphatase 5 involved_in IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 1:252,538,408...252,555,320
Ensembl chr 1:252,538,449...252,551,818 		JBrowse link
G Eomes eomesodermin involved_in
acts_upstream_of_or_within		 ISO (MGI:3772748|PMID:18171685)
(PMID:18171685)
MGI:3774028 (PMID:21245162), (PMID:21822279)		 RGD PMID:18171685 PMID:21245162 PMID:21822279 MGI:3772748 NCBI chr 8:118,181,340...118,189,186
Ensembl chr 8:118,181,777...118,188,316 		JBrowse link
G Gata4 GATA binding protein 4 acts_upstream_of_or_within ISO MGI:2179511 (PMID:8582296) RGD PMID:8582296 NCBI chr15:37,459,601...37,531,291
Ensembl chr15:37,459,601...37,505,636 		JBrowse link
G Lhx1 LIM homeobox 1 involved_in
acts_upstream_of_or_within		 ISS
ISO		 GO_REF:0000024
MGI:1857848 (PMID:15355796)		 UniProt
RGD		 PMID:15355796 GO_REF:0000024 NCBI chr10:69,396,829...69,403,617
Ensembl chr10:69,396,829...69,403,617 		JBrowse link
G Mixl1 Mix paired-like homeobox 1 involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:2387829 (PMID:17151016)		 GO_Central
RGD		 PMID:17151016 GO_REF:0000033 NCBI chr13:92,422,031...92,426,065
Ensembl chr13:92,422,031...92,426,065 		JBrowse link
G Nog noggin involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:18462699)		 Ensembl
RGD		 PMID:18462699 GO_REF:0000107 NCBI chr10:74,128,712...74,130,339
Ensembl chr10:74,128,712...74,130,339 		JBrowse link
G Smad2 SMAD family member 2 acts_upstream_of_or_within ISO (PMID:21822279) RGD PMID:21822279 NCBI chr18:69,849,884...69,918,926
Ensembl chr18:69,850,377...69,912,323 		JBrowse link
G Sox17 SRY-box transcription factor 17 involved_in ISO
IBA		 (PMID:18682240)
GO_REF:0000033		 RGD
GO_Central		 PMID:18682240 GO_REF:0000033 NCBI chr 5:15,016,660...15,022,228
Ensembl chr 5:15,016,731...15,022,228 		JBrowse link
G Sox7 SRY-box transcription factor 7 involved_in ISO (PMID:18682240) RGD PMID:18682240 NCBI chr15:38,180,503...38,187,264
Ensembl chr15:38,180,503...38,187,264 		JBrowse link
G Tnrc6c trinucleotide repeat containing adaptor 6C acts_upstream_of_or_within ISO MGI:4124681 (PMID:22187428) RGD PMID:22187428 NCBI chr10:102,908,958...102,979,543
Ensembl chr10:102,868,828...102,978,194 		JBrowse link
endodermal cell differentiation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Brd3 bromodomain containing 3 involved_in ISO (PMID:32895492)
(MGI:6709624|PMID:32895492)		 RGD PMID:32895492 MGI:6709624 NCBI chr 3:10,773,163...10,829,675
Ensembl chr 3:10,775,272...10,829,577 		JBrowse link
G Col11a1 collagen type XI alpha 1 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 2:201,820,715...202,013,853
Ensembl chr 2:201,820,715...202,013,853 		JBrowse link
G Col12a1 collagen type XII alpha 1 chain involved_in ISO
IEA		 (PMID:23154389)
GO_REF:0000107		 RGD
Ensembl		 PMID:23154389 GO_REF:0000107 NCBI chr 8:80,547,592...80,665,665
Ensembl chr 8:80,547,593...80,665,686 		JBrowse link
G Col4a2 collagen type IV alpha 2 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr16:78,047,591...78,183,360
Ensembl chr16:78,047,602...78,183,839 		JBrowse link
G Col6a1 collagen type VI alpha 1 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr20:11,906,105...11,924,599
Ensembl chr20:11,905,957...11,924,597 		JBrowse link
G Col7a1 collagen type VII alpha 1 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 8:109,604,877...109,637,249
Ensembl chr 8:109,604,861...109,637,252 		JBrowse link
G Col8a1 collagen type VIII alpha 1 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr11:42,776,851...42,906,432
Ensembl chr11:42,777,628...42,906,424 		JBrowse link
G Fn1 fibronectin 1 involved_in ISO
IEA		 (PMID:23154389)
GO_REF:0000107		 RGD
Ensembl		 PMID:23154389 GO_REF:0000107 NCBI chr 9:73,196,044...73,264,695
Ensembl chr 9:73,196,044...73,264,678 		JBrowse link
G Gata6 GATA binding protein 6 acts_upstream_of_or_within ISO MGI:2177785 (PMID:9832509) RGD PMID:9832509 NCBI chr18:2,188,121...2,219,532
Ensembl chr18:2,188,121...2,219,532 		JBrowse link
G Grb2 growth factor receptor bound protein 2 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:16908534)		 Ensembl
RGD		 PMID:16908534 GO_REF:0000107 NCBI chr10:100,881,404...100,949,193
Ensembl chr10:100,869,718...100,949,309 		JBrowse link
G Hmga2 high mobility group AT-hook 2 involved_in ISO
ISS		 (PMID:17624332)
GO_REF:0000024		 RGD
UniProt		 PMID:17624332 GO_REF:0000024 NCBI chr 7:55,877,145...55,998,813
Ensembl chr 7:55,880,112...55,994,784 		JBrowse link
G Hsbp1 heat shock factor binding protein 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:24380799)		 Ensembl
RGD		 PMID:24380799 GO_REF:0000107 NCBI chr19:47,401,039...47,405,373
Ensembl chr19:47,400,966...47,435,821 		JBrowse link
G Inhba inhibin subunit beta A involved_in ISO (PMID:21828274) RGD PMID:21828274 NCBI chr17:49,091,635...49,111,573
Ensembl chr17:49,095,920...49,108,982 		JBrowse link
G Itga4 integrin subunit alpha 4 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 3:64,162,764...64,235,010
Ensembl chr 3:64,163,085...64,233,715 		JBrowse link
G Itga5 integrin subunit alpha 5 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 7:134,478,963...134,502,837
Ensembl chr 7:134,478,968...134,502,837 		JBrowse link
G Itga7 integrin subunit alpha 7 involved_in ISO
IEA		 (PMID:23154389)
GO_REF:0000107		 RGD
Ensembl		 PMID:23154389 GO_REF:0000107 NCBI chr 7:1,360,125...1,388,886
Ensembl chr 7:1,359,940...1,388,450 		JBrowse link
G Itgav integrin subunit alpha V involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 3:68,838,514...68,926,653
Ensembl chr 3:68,838,189...68,926,639 		JBrowse link
G Itgb2 integrin subunit beta 2 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr20:11,061,394...11,097,656
Ensembl chr20:11,061,430...11,097,600 		JBrowse link
G Itgb5 integrin subunit beta 5 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr11:66,828,428...66,944,231
Ensembl chr11:66,829,285...66,944,472 		JBrowse link
G Lama3 laminin subunit alpha 3 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr18:3,523,168...3,751,722
Ensembl chr18:3,523,133...3,751,353 		JBrowse link
G Lamb1 laminin subunit beta 1 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 6:47,835,492...47,902,585
Ensembl chr 6:47,835,525...47,902,585 		JBrowse link
G Lamb3 laminin subunit beta 3 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr13:104,833,810...104,875,405
Ensembl chr13:104,833,873...104,875,405 		JBrowse link
G Map2k1 mitogen activated protein kinase kinase 1 involved_in
acts_upstream_of		 IEA
ISO		 GO_REF:0000107
(PMID:16908534)		 Ensembl
RGD		 PMID:16908534 GO_REF:0000107 NCBI chr 8:64,683,449...64,754,900
Ensembl chr 8:64,683,449...64,755,147 		JBrowse link
G Mixl1 Mix paired-like homeobox 1 involved_in ISO (MGI:5447921|PMID:19038793) RGD PMID:19038793 MGI:5447921 NCBI chr13:92,422,031...92,426,065
Ensembl chr13:92,422,031...92,426,065 		JBrowse link
G Mmp14 matrix metallopeptidase 14 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr15:27,887,795...27,897,020
Ensembl chr15:27,887,727...27,899,864 		JBrowse link
G Mmp15 matrix metallopeptidase 15 involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr19:9,663,449...9,684,943
Ensembl chr19:9,663,449...9,684,943 		JBrowse link
G Mmp2 matrix metallopeptidase 2 involved_in ISO
IEA		 (PMID:23154389)
GO_REF:0000107		 RGD
Ensembl		 PMID:23154389 GO_REF:0000107 NCBI chr19:14,154,657...14,182,870
Ensembl chr19:14,154,657...14,182,870 		JBrowse link
G Mmp8 matrix metallopeptidase 8 involved_in IEA
ISO		 GO_REF:0000107
(PMID:23154389)		 Ensembl
RGD		 PMID:23154389 GO_REF:0000107 NCBI chr 8:4,724,009...4,733,864
Ensembl chr 8:4,724,029...4,733,520 		JBrowse link
G Mmp9 matrix metallopeptidase 9 involved_in IEA
ISO		 GO_REF:0000107
(PMID:23154389)		 Ensembl
RGD		 PMID:23154389 GO_REF:0000107 NCBI chr 3:153,684,158...153,692,118
Ensembl chr 3:153,683,858...153,692,120 		JBrowse link
G Myh9 myosin, heavy chain 9 involved_in IEA
ISO		 GO_REF:0000107
MGI:3522434 (PMID:15292239)		 Ensembl
RGD		 PMID:15292239 GO_REF:0000107 NCBI chr 7:109,343,718...109,424,457
Ensembl chr 7:109,343,706...109,424,457 		JBrowse link
G Nodal nodal growth differentiation factor involved_in ISO (PMID:21741376) RGD PMID:21741376 NCBI chr20:29,368,436...29,376,837
Ensembl chr20:29,368,436...29,376,837 		JBrowse link
G Nr0b1 nuclear receptor subfamily 0, group B, member 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:16466956)		 Ensembl
RGD		 PMID:16466956 GO_REF:0000107 NCBI chr  X:50,756,886...50,761,014
Ensembl chr  X:50,756,886...50,761,011 		JBrowse link
G Setd2 SET domain containing 2, histone lysine methyltransferase involved_in ISO (MGI:5908786|PMID:25242323)
(PMID:25242323)		 RGD PMID:25242323 MGI:5908786 NCBI chr 8:110,511,808...110,597,475
Ensembl chr 8:110,511,772...110,597,489 		JBrowse link
G Sox17 SRY-box transcription factor 17 acts_upstream_of ISO (PMID:17940068) RGD PMID:17940068 NCBI chr 5:15,016,660...15,022,228
Ensembl chr 5:15,016,731...15,022,228 		JBrowse link
G Vtn vitronectin involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr10:63,394,732...63,397,812
Ensembl chr10:63,394,719...63,397,810 		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 IEA
ISO
ISS		 GO_REF:0000107
(PMID:19345177)
(MGI:3849235|PMID:19345177)
GO_REF:0000024		 Ensembl
RGD
UniProt		 PMID:19345177 GO_REF:0000024 GO_REF:0000107 MGI:3849235 NCBI chr13:55,357,226...55,449,690
Ensembl chr13:55,357,226...55,449,656 		JBrowse link
G Ctnnb1 catenin beta 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:1858007|MGI:2148567 (PMID:12194849)		 Ensembl
RGD		 PMID:12194849 GO_REF:0000107 NCBI chr 8:120,640,008...120,667,110
Ensembl chr 8:120,639,995...120,667,111 		JBrowse link
G Ctr9 CTR9 homolog, Paf1/RNA polymerase II complex component involved_in ISO (MGI:3849235|PMID:19345177) RGD PMID:19345177 MGI:3849235 NCBI chr 1:165,137,277...165,167,303
Ensembl chr 1:165,137,215...165,167,303 		JBrowse link
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component involved_in ISS
ISO		 GO_REF:0000024
(PMID:19345177)
(MGI:3849235|PMID:19345177)		 UniProt
RGD		 PMID:19345177 GO_REF:0000024 MGI:3849235 NCBI chr 8:76,199,547...76,223,983
Ensembl chr 8:76,199,099...76,223,983 		JBrowse link
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component involved_in ISS
ISO		 GO_REF:0000024
(MGI:3849235|PMID:19345177)		 UniProt
RGD		 PMID:19345177 GO_REF:0000024 MGI:3849235 NCBI chr 1:83,683,654...83,689,233
Ensembl chr 1:83,668,813...83,689,237 		JBrowse link
G Pou5f1 POU class 5 homeobox 1 acts_upstream_of_or_within ISO (PMID:10742100) RGD PMID:10742100 NCBI chr20:3,223,128...3,227,891
Ensembl chr20:3,223,129...3,227,891 		JBrowse link
G Rtf1 Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) involved_in ISO (MGI:3849235|PMID:19345177) RGD PMID:19345177 MGI:3849235 NCBI chr 3:106,659,363...106,718,956
Ensembl chr 3:106,659,308...106,718,970 		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 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:20308546)		 Ensembl
RGD		 PMID:20308546 GO_REF:0000107 NCBI chr18:2,188,121...2,219,532
Ensembl chr18:2,188,121...2,219,532 		JBrowse link
G Sox17 SRY-box transcription factor 17 acts_upstream_of_or_within ISO (PMID:20308546) RGD PMID:20308546 NCBI chr 5:15,016,660...15,022,228
Ensembl chr 5:15,016,731...15,022,228 		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 involved_in
acts_upstream_of_or_within		 IBA
ISO		 GO_REF:0000033
MGI:3774028 (PMID:21245162)		 GO_Central
RGD		 PMID:21245162 GO_REF:0000033 NCBI chr 8:118,181,340...118,189,186
Ensembl chr 8:118,181,777...118,188,316 		JBrowse link
G Hnf1b HNF1 homeobox B involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:1857856 (PMID:18635606)		 Ensembl
RGD		 PMID:18635606 GO_REF:0000107 NCBI chr10:68,735,894...68,789,888
Ensembl chr10:68,735,894...68,789,888 		JBrowse link
G Nanog Nanog homeobox acts_upstream_of_or_within ISO (PMID:20713518) RGD PMID:20713518 NCBI chr 4:155,943,737...155,951,116
Ensembl chr 4:155,943,737...155,951,116 		JBrowse link
G Pou5f1 POU class 5 homeobox 1 acts_upstream_of_or_within ISO (PMID:20713518) RGD PMID:20713518 NCBI chr20:3,223,128...3,227,891
Ensembl chr20:3,223,129...3,227,891 		JBrowse link
G Sox17 SRY-box transcription factor 17 involved_in ISO (MGI:4946573|PMID:21305474)
(PMID:21305474)		 RGD PMID:21305474 MGI:4946573 NCBI chr 5:15,016,660...15,022,228
Ensembl chr 5:15,016,731...15,022,228 		JBrowse link
G Sox2 SRY-box transcription factor 2 acts_upstream_of_or_within ISO (PMID:21245162) RGD PMID:21245162 NCBI chr 2:117,536,929...117,539,340
Ensembl chr 2:117,536,929...117,539,338 		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
IEA		 (PMID:23154389)
GO_REF:0000107		 RGD
Ensembl		 PMID:23154389 GO_REF:0000107 NCBI chr 3:11,208,429...11,356,715
Ensembl chr 3:11,208,512...11,354,588 		JBrowse link
G Col5a2 collagen type V alpha 2 chain involved_in ISO (PMID:23154389) RGD PMID:23154389 NCBI chr 9:47,448,741...47,598,134
Ensembl chr 9:47,448,736...47,598,154 		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) RGD PMID:18593560 MGI:4441249 NCBI chr 1:133,738,357...133,739,875
Ensembl chr 1:133,738,357...133,739,875 		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 Macroh2a1 macroH2A.1 histone involved_in ISO (PMID:23595991) RGD PMID:23595991 NCBI chr17:8,479,331...8,542,071
Ensembl chr17:8,479,372...8,542,072 		JBrowse link
G Map2k1 mitogen activated protein kinase kinase 1 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
(PMID:16908534)		 Ensembl
RGD		 PMID:16908534 GO_REF:0000107 NCBI chr 8:64,683,449...64,754,900
Ensembl chr 8:64,683,449...64,755,147 		JBrowse link
G Sox17 SRY-box transcription factor 17 acts_upstream_of_or_within ISO (PMID:17940068) RGD PMID:17940068 NCBI chr 5:15,016,660...15,022,228
Ensembl chr 5:15,016,731...15,022,228 		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) RGD PMID:20559569 NCBI chr 1:228,381,521...228,385,202
Ensembl chr 1:228,381,521...228,385,202 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20134
    developmental process 7034
      anatomical structure formation involved in morphogenesis 1364
        formation of primary germ layer 139
          endoderm formation 61
            endodermal cell differentiation + 51
Path 2
Term Annotations click to browse term
  biological_process 20134
    developmental process 7034
      anatomical structure development 6553
        multicellular organism development 5285
          embryo development 1362
            embryonic morphogenesis 704
              gastrulation 219
                formation of primary germ layer 139
                  endoderm formation 61
                    endodermal cell differentiation + 51
paths to the root