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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


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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 chrNW_004936473:29,999,542...30,034,610 JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004936787:307,290...309,963 JBrowse link
G Eomes eomesodermin ISO (MGI:4887279|PMID:21245162), (MGI:5293253|PMID:21822279)
(MGI:3772748|PMID:18171685)
MGI
UniProt
PMID:18171685, PMID:21245162, PMID:21822279 MGI:3772748, MGI:4887279, MGI:5293253 NCBI chrNW_004936473:18,825,969...18,833,179 JBrowse link
G Gata4 GATA binding protein 4 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 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 ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chrNW_004936526:2,984,900...2,989,494 JBrowse link
G Nog noggin 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 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 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chrNW_004936496:1,248,582...1,251,406 JBrowse link
G Sox7 SRY-box transcription factor 7 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chrNW_004936675:2,616,086...2,622,436 JBrowse link
G Tnrc6c trinucleotide repeat containing adaptor 6C 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 Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col11a1 collagen type XI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936730:466,912...680,823 JBrowse link
G Col12a1 collagen type XII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936788:533,811...645,821 JBrowse link
G Col4a2 collagen type IV alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936472:2,270,836...2,416,324 JBrowse link
G Col6a1 collagen type VI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936778:515,600...530,828 JBrowse link
G Col7a1 collagen type VII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936529:348,938...381,701 JBrowse link
G Col8a1 collagen type VIII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936630:3,443,085...3,590,430 JBrowse link
G Fn1 fibronectin 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936586:1,708,803...1,773,372 JBrowse link
G Gata6 GATA binding protein 6 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 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chrNW_004936545:3,944,419...3,958,289 JBrowse link
G Hsbp1 heat shock factor binding protein 1 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 ISO (PMID:21828274) BHF-UCL PMID:21828274 NCBI chrNW_004936478:16,878,725...16,884,065 JBrowse link
G Itga4 integrin subunit alpha 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936509:10,215,283...10,293,653 JBrowse link
G Itga5 integrin subunit alpha 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936512:11,588,818...11,612,580 JBrowse link
G Itga7 integrin subunit alpha 7 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936646:160,661...179,454 JBrowse link
G Itgav integrin subunit alpha V ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936506:10,750,116...10,839,018 JBrowse link
G Itgb2 integrin subunit beta 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936778:1,286,475...1,311,184 JBrowse link
G Itgb5 integrin subunit beta 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936725:417,824...530,993 JBrowse link
G Lama3 laminin subunit alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936550:3,121,163...3,357,517 JBrowse link
G Lamb1 laminin subunit beta 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936479:16,177,200...16,245,268 JBrowse link
G Lamb3 laminin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936557:3,429,488...3,487,995 JBrowse link
G Mixl1 Mix paired-like homeobox 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 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936722:1,447,189...1,457,632 JBrowse link
G Mmp15 matrix metallopeptidase 15 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936475:9,951,876...9,971,631 JBrowse link
G Mmp2 matrix metallopeptidase 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936475:7,801,356...7,825,831 JBrowse link
G Mmp8 matrix metallopeptidase 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936551:5,228,950...5,238,948 JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936514:7,038,240...7,045,873 JBrowse link
G Nodal nodal growth differentiation factor 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 ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chrNW_004936596:795,940...898,823 JBrowse link
G Vtn vitronectin ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936538:4,522,275...4,525,245 JBrowse link
endodermal cell fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdc73 cell division cycle 73 ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936638:1,365,457...1,482,497 JBrowse link
G Ctnnb1 catenin beta 1 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 ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004936528:7,585,937...7,613,022 JBrowse link
G LOC101959183 RNA polymerase-associated protein LEO1 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 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 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 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 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 chrNW_004936550:1,814,336...1,844,399 JBrowse link
G Sox17 SRY-box transcription factor 17 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 Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Eomes eomesodermin 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 ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chrNW_004936490:649,551...702,448 JBrowse link
G Nanog Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chrNW_004936892:181,834...187,691 JBrowse link
G Pou5f1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chrNW_004936837:827,568...838,933 JBrowse link
G Sox2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chrNW_004936566:1,630,698...1,632,607 JBrowse link
negative regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Col5a1 collagen type V alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004936669:2,474,381...2,613,541 JBrowse link
G Col5a2 collagen type V alpha 2 chain ISO (PMID:23154389) UniProtKB 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 Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Mesp1 mesoderm posterior bHLH transcription factor 1 ISO (MGI:4441249|PMID:18593560) BHF-UCL PMID:18593560 MGI:4441249 NCBI chrNW_004936483:15,533,264...15,534,576 JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC101971629 core histone macro-H2A.1 ISO (PMID:23595991) UniProt PMID:23595991 NCBI chrNW_004936597:2,496,489...2,556,352 JBrowse link
regulation of endodermal cell fate specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 ISO (PMID:20559569) BHF-UCL PMID:20559569 NCBI chrNW_004936787:307,290...309,963 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12002
    developmental process 5648
      anatomical structure formation involved in morphogenesis 1106
        formation of primary germ layer 116
          endoderm formation 52
            endodermal cell differentiation + 46
Path 2
Term Annotations click to browse term
  biological_process 12002
    developmental process 5648
      anatomical structure development 5286
        multicellular organism development 4845
          embryo development 1176
            embryonic morphogenesis 630
              gastrulation 177
                formation of primary germ layer 116
                  endoderm formation 52
                    endodermal cell differentiation + 46
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.