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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:3625553|PMID:12194849)
(MGI:5498579|PMID:23824574)
MGI PMID:12194849, PMID:23824574 MGI:3625553, MGI:5498579 NCBI chrNW_004955420:29,030,716...29,047,447
Ensembl chrNW_004955420:29,030,716...29,047,449
JBrowse link
G Dkk1 dickkopf WNT signaling pathway inhibitor 1 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004955425:7,353,964...7,357,599 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 chrNW_004955430:19,280,460...19,287,060
Ensembl chrNW_004955430:19,281,602...19,286,867
JBrowse link
G Gata4 GATA binding protein 4 ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chrNW_004955403:52,958,318...53,029,267
Ensembl chrNW_004955403:52,987,644...53,029,267
JBrowse link
G Lhx1 LIM homeobox 1 ISO (MGI:3487194|PMID:15355796) MGI PMID:15355796 MGI:3487194 NCBI chrNW_004955451:1,037,936...1,048,501
Ensembl chrNW_004955451:1,037,825...1,048,501
JBrowse link
G Mixl1 Mix paired-like homeobox ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chrNW_004955489:418,650...422,428 JBrowse link
G Nog noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chrNW_004955451:6,192,368...6,193,766
Ensembl chrNW_004955451:6,193,042...6,193,740
JBrowse link
G Smad2 SMAD family member 2 ISO (MGI:5293253|PMID:21822279) MGI PMID:21822279 MGI:5293253 NCBI chrNW_004955402:33,131,760...33,217,144
Ensembl chrNW_004955402:33,136,778...33,216,844
JBrowse link
G Sox17 SRY-box transcription factor 17 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chrNW_004955454:13,689,403...13,690,019 JBrowse link
G Sox7 SRY-box transcription factor 7 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chrNW_004955403:52,253,816...52,259,884
Ensembl chrNW_004955403:52,253,482...52,259,884
JBrowse link
G Tnrc6c trinucleotide repeat containing adaptor 6C ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chrNW_004955506:4,440,555...4,579,642
Ensembl chrNW_004955506:4,440,555...4,559,070
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_004955435:7,352,617...7,545,235
Ensembl chrNW_004955435:7,352,617...7,545,235
JBrowse link
G Col12a1 collagen type XII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955488:8,128,816...8,240,714
Ensembl chrNW_004955488:8,131,846...8,240,777
JBrowse link
G Col4a2 collagen type IV alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955404:2,092,184...2,178,079
Ensembl chrNW_004955404:2,092,184...2,178,079
JBrowse link
G Col6a1 collagen type VI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955407:42,461,837...42,479,048
Ensembl chrNW_004955407:42,461,952...42,478,261
JBrowse link
G Col7a1 collagen type VII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955532:650,913...681,186 JBrowse link
G Col8a1 collagen type VIII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955427:1,187,550...1,335,794
Ensembl chrNW_004955427:1,187,550...1,335,794
JBrowse link
G Fn1 fibronectin 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955457:629,599...694,948
Ensembl chrNW_004955457:629,518...696,975
JBrowse link
G Hmga2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chrNW_004955458:12,493,790...12,624,805 JBrowse link
G Hsbp1 heat shock factor binding protein 1 ISO (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chrNW_004955564:396,985...400,975 JBrowse link
G Inhba inhibin subunit beta A ISO (PMID:21828274) BHF-UCL PMID:21828274 NCBI chrNW_004955460:2,054,879...2,066,628
Ensembl chrNW_004955460:2,046,588...2,066,609
JBrowse link
G Itga4 integrin subunit alpha 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955403:15,726,296...15,807,055
Ensembl chrNW_004955403:15,723,785...15,807,111
JBrowse link
G Itga5 integrin subunit alpha 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955458:1,635,554...1,657,609
Ensembl chrNW_004955458:1,632,282...1,658,295
JBrowse link
G Itga7 integrin subunit alpha 7 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955458:3,322,735...3,343,275
Ensembl chrNW_004955458:3,321,259...3,343,275
JBrowse link
G Itgav integrin subunit alpha V ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955403:11,588,536...11,669,809
Ensembl chrNW_004955403:11,592,339...11,659,297
JBrowse link
G Itgb2 integrin subunit beta 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955407:41,779,849...41,805,637
Ensembl chrNW_004955407:41,777,777...41,800,201
JBrowse link
G Itgb5 integrin subunit beta 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955427:23,851,475...23,952,211
Ensembl chrNW_004955427:23,850,261...23,939,950
JBrowse link
G Lama3 laminin subunit alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955402:11,980,980...12,362,143 JBrowse link
G Lamb1 laminin subunit beta 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955410:12,241,235...12,305,433
Ensembl chrNW_004955410:12,241,235...12,305,433
JBrowse link
G Lamb3 laminin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955489:2,547,611...2,603,079
Ensembl chrNW_004955489:2,568,650...2,607,595
JBrowse link
G Mixl1 Mix paired-like homeobox ISO (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chrNW_004955489:418,650...422,428 JBrowse link
G Mmp14 matrix metallopeptidase 14 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955409:37,438,924...37,448,704
Ensembl chrNW_004955409:37,440,541...37,448,437
JBrowse link
G Mmp15 matrix metallopeptidase 15 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955433:15,584,206...15,603,162
Ensembl chrNW_004955433:15,584,780...15,601,739
JBrowse link
G Mmp2 matrix metallopeptidase 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955433:13,024,844...13,050,041
Ensembl chrNW_004955433:13,024,418...13,052,775
JBrowse link
G Mmp8 matrix metallopeptidase 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955412:5,928,997...5,939,012
Ensembl chrNW_004955412:5,928,997...5,939,012
JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955445:11,295,500...11,303,322
Ensembl chrNW_004955445:11,295,448...11,303,288
JBrowse link
G Nodal nodal growth differentiation factor ISO (PMID:21741376) BHF-UCL PMID:21741376 NCBI chrNW_004955437:20,828,448...20,835,486
Ensembl chrNW_004955437:20,828,448...20,835,628
JBrowse link
G Setd2 SET domain containing 2, histone lysine methyltransferase ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chrNW_004955420:25,070,626...25,178,410
Ensembl chrNW_004955420:25,090,798...25,177,760
JBrowse link
G Vtn vitronectin ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955481:4,765,078...4,768,027 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_004955406:30,533,919...30,665,812
Ensembl chrNW_004955406:30,533,060...30,665,812
JBrowse link
G Ctnnb1 catenin beta 1 ISO (MGI:3625553|PMID:12194849) MGI PMID:12194849 MGI:3625553 NCBI chrNW_004955420:29,030,716...29,047,447
Ensembl chrNW_004955420:29,030,716...29,047,449
JBrowse link
G Ctr9 CTR9 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004955414:26,347,508...26,373,726
Ensembl chrNW_004955414:26,347,508...26,373,785
JBrowse link
G Leo1 LEO1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004955409:2,711,475...2,727,879
Ensembl chrNW_004955409:2,711,564...2,727,755
JBrowse link
G Paf1 PAF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004955468:166,477...172,200 JBrowse link
G Pou5f1 POU class 5 homeobox 1 ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chrNW_004955583:995,707...1,003,202 JBrowse link
G Rtf1 RTF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chrNW_004955416:8,237,439...8,293,802
Ensembl chrNW_004955416:8,237,439...8,293,802
JBrowse link
endodermal cell fate determination term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Sox17 SRY-box transcription factor 17 ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chrNW_004955454:13,689,403...13,690,019 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_004955430:19,280,460...19,287,060
Ensembl chrNW_004955430:19,281,602...19,286,867
JBrowse link
G Hnf1b HNF1 homeobox B ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chrNW_004955451:320,283...371,420
Ensembl chrNW_004955451:320,283...371,420
JBrowse link
G Nanog Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chrNW_004955413:6,561,323...6,565,770 JBrowse link
G Pou5f1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chrNW_004955583:995,707...1,003,202 JBrowse link
G Sox2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chrNW_004955420:10,671,888...10,674,080
Ensembl chrNW_004955420:10,671,978...10,672,934
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_004955513:3,533,612...3,660,605
Ensembl chrNW_004955513:3,533,614...3,658,161
JBrowse link
G Col5a2 collagen type V alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chrNW_004955403:9,562,401...9,703,828
Ensembl chrNW_004955403:9,562,401...9,703,828
JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC102008188 core histone macro-H2A.1 ISO (PMID:23595991) UniProt PMID:23595991 NCBI chrNW_004955408:30,497,531...30,550,095
Ensembl chrNW_004955408:30,497,531...30,550,118
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_004955425:7,353,964...7,357,599 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 11892
    developmental process 5616
      anatomical structure formation involved in morphogenesis 1090
        formation of primary germ layer 115
          endoderm formation 50
            endodermal cell differentiation + 44
Path 2
Term Annotations click to browse term
  biological_process 11892
    developmental process 5616
      anatomical structure development 5254
        multicellular organism development 4812
          embryo development 1169
            embryonic morphogenesis 626
              gastrulation 176
                formation of primary germ layer 115
                  endoderm formation 50
                    endodermal cell differentiation + 44
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.