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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 chr 3:41,104,940...41,145,934
Ensembl chr 3:41,373,726...41,414,030
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
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 chr 3:27,601,829...27,608,701
Ensembl chr 3:27,925,086...27,930,274
JBrowse link
G GATA4 GATA binding protein 4 ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chr 8:7,442,921...7,526,731 JBrowse link
G LHX1 LIM homeobox 1 ISO (MGI:3487194|PMID:15355796) MGI PMID:15355796 MGI:3487194 NCBI chr17:20,134,308...20,140,652
Ensembl chr17:20,430,618...20,437,751
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chr 1:201,682,488...201,686,358 JBrowse link
G NOG noggin ISO (MGI:4415813|PMID:18462699) MGI PMID:18462699 MGI:4415813 NCBI chr17:50,669,186...50,671,081
Ensembl chr17:55,532,394...55,533,092
JBrowse link
G SMAD2 SMAD family member 2 ISO (MGI:5293253|PMID:21822279) MGI PMID:21822279 MGI:5293253 NCBI chr18:41,213,001...41,309,902
Ensembl chr18:44,580,905...44,668,530
JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr 8:50,883,088...50,885,542
Ensembl chr 8:48,257,287...48,259,808
JBrowse link
G SOX7 SRY-box transcription factor 7 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr 8:8,476,357...8,483,144 JBrowse link
G TNRC6C trinucleotide repeat containing adaptor 6C ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chr17:72,035,737...72,185,489
Ensembl chr17:77,633,564...77,738,511
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 chr 1:105,538,215...105,769,973
Ensembl chr 1:104,249,891...104,481,259
JBrowse link
G COL12A1 collagen type XII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 6:72,927,897...73,049,168
Ensembl chr 6:76,219,319...76,340,496
JBrowse link
G COL4A2 collagen type IV alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr13:91,440,314...91,650,138
Ensembl chr13:110,563,119...110,767,530
JBrowse link
G COL6A1 collagen type VI alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr21:32,322,185...32,346,850
Ensembl chr21:45,584,096...45,607,240
JBrowse link
G COL7A1 collagen type VII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:48,485,922...48,518,036
Ensembl chr 3:49,568,163...49,598,919
JBrowse link
G COL8A1 collagen type VIII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:96,732,445...96,892,726
Ensembl chr 3:103,521,159...103,573,617
JBrowse link
G FN1 fibronectin 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:102,623,568...102,698,747
Ensembl chr2B:221,208,431...221,284,003
JBrowse link
G GATA6 GATA binding protein 6 ISO (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chr18:15,411,764...15,444,402 JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr12:22,954,946...23,096,623 JBrowse link
G HSBP1 heat shock factor binding protein 1 ISO (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chr16:64,429,442...64,434,467 JBrowse link
G INHBA inhibin subunit beta A ISO (PMID:21828274) BHF-UCL PMID:21828274 NCBI chr 7:42,538,591...42,556,578
Ensembl chr 7:42,580,730...42,595,097
JBrowse link
G ITGA4 integrin subunit alpha 4 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:68,719,376...68,802,488
Ensembl chr2B:186,530,187...186,612,203
JBrowse link
G ITGA5 integrin subunit alpha 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:34,326,182...34,350,050
Ensembl chr12:35,052,994...35,075,835
JBrowse link
G ITGA7 integrin subunit alpha 7 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:33,195,602...33,226,796
Ensembl chr12:33,923,549...33,950,886
JBrowse link
G ITGAV integrin subunit alpha V ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:73,880,962...73,972,486
Ensembl chr2B:191,680,655...191,773,028
JBrowse link
G ITGB2 integrin subunit beta 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr21:31,181,228...31,216,033
Ensembl chr21:44,470,999...44,505,963
JBrowse link
G ITGB5 integrin subunit beta 5 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 3:121,863,676...122,013,438
Ensembl chr 3:128,762,200...128,877,172
JBrowse link
G LAMA3 laminin subunit alpha 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr18:16,941,316...17,208,363
Ensembl chr18:20,565,649...20,831,957
JBrowse link
G LAMB1 laminin subunit beta 1 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 7:99,905,761...99,985,233
Ensembl chr 7:112,627,488...112,706,554
JBrowse link
G LAMB3 laminin subunit beta 3 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr 1:185,191,401...185,245,154
Ensembl chr 1:189,996,639...190,034,206
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:5447921|PMID:19038793) BHF-UCL PMID:19038793 MGI:5447921 NCBI chr 1:201,682,488...201,686,358 JBrowse link
G MMP14 matrix metallopeptidase 14 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr14:3,654,125...3,665,158
Ensembl chr14:21,753,305...21,764,058
JBrowse link
G MMP15 matrix metallopeptidase 15 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:38,304,856...38,326,193
Ensembl chr16:57,433,813...57,457,122
JBrowse link
G MMP2 matrix metallopeptidase 2 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr16:35,711,866...35,738,881
Ensembl chr16:54,812,694...54,844,279
JBrowse link
G MMP8 matrix metallopeptidase 8 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr11:97,650,408...97,663,731
Ensembl chr11:101,143,268...101,156,736
JBrowse link
G MMP9 matrix metallopeptidase 9 ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr20:42,346,305...42,354,018
Ensembl chr20:43,432,389...43,440,129
JBrowse link
G NODAL nodal growth differentiation factor ISO (PMID:21741376) BHF-UCL PMID:21741376 NCBI chr10:66,906,866...66,916,938
Ensembl chr10:69,433,959...69,443,972
JBrowse link
G SETD2 SET domain containing 2, histone lysine methyltransferase ISO (MGI:5908786|PMID:25242323) UniProt PMID:25242323 MGI:5908786 NCBI chr 3:46,916,615...47,064,046
Ensembl chr 3:48,018,517...48,163,999
JBrowse link
G VTN vitronectin ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr17:28,403,813...28,407,202
Ensembl chr17:28,906,508...28,909,583
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 chr 1:168,581,730...168,710,915
Ensembl chr 1:172,875,365...173,004,934
JBrowse link
G CTNNB1 catenin beta 1 ISO (MGI:3625553|PMID:12194849) MGI PMID:12194849 MGI:3625553 NCBI chr 3:41,104,940...41,145,934
Ensembl chr 3:41,373,726...41,414,030
JBrowse link
G CTR9 CTR9 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr11:10,884,353...10,913,246
Ensembl chr11:10,610,892...10,639,808
JBrowse link
G PAF1 PAF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr19:36,484,099...36,489,364
Ensembl chr19:45,031,819...45,037,169
JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (MGI:1355046|PMID:10742100) MGI PMID:10742100 MGI:1355046 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
G RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component ISO (MGI:3849235|PMID:19345177) UniProt PMID:19345177 MGI:3849235 NCBI chr15:20,355,927...20,424,153
Ensembl chr15:38,599,163...38,662,100
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 chr18:15,411,764...15,444,402 JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (MGI:4442295|PMID:20308546) MGI PMID:20308546 MGI:4442295 NCBI chr 8:50,883,088...50,885,542
Ensembl chr 8:48,257,287...48,259,808
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 chr 3:27,601,829...27,608,701
Ensembl chr 3:27,925,086...27,930,274
JBrowse link
G HNF1B HNF1 homeobox B ISO (MGI:3807614|PMID:18635606) MGI PMID:18635606 MGI:3807614 NCBI chr17:19,333,485...19,392,147
Ensembl chr17:19,633,424...19,691,863
JBrowse link
G NANOG Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chr12:7,913,037...7,919,715 JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chr 6:30,910,421...30,916,465
Ensembl chr 6:31,775,343...31,781,426
JBrowse link
G SOX2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chr 3:178,744,881...178,747,392
Ensembl chr 3:186,922,705...186,923,662
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 chr 9:105,746,388...105,956,280
Ensembl chr 9:134,342,955...134,544,651
JBrowse link
G COL5A2 collagen type V alpha 2 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr2B:76,339,756...76,487,133
Ensembl chr2B:194,259,316...194,407,237
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 chr15:68,440,626...68,441,935
Ensembl chr15:87,645,768...87,647,210
JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G LOC100974858 core histone macro-H2A.1 ISO (PMID:23595991) UniProt PMID:23595991 NCBI chr 5:130,727,065...130,791,932
Ensembl chr 5:136,868,521...136,933,834
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 chr10:48,950,704...48,953,815
Ensembl chr10:51,084,027...51,089,776
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 12566
    developmental process 5839
      anatomical structure formation involved in morphogenesis 1134
        formation of primary germ layer 118
          endoderm formation 51
            endodermal cell differentiation + 45
Path 2
Term Annotations click to browse term
  biological_process 12566
    developmental process 5839
      anatomical structure development 5452
        multicellular organism development 4984
          embryo development 1206
            embryonic morphogenesis 642
              gastrulation 181
                formation of primary germ layer 118
                  endoderm formation 51
                    endodermal cell differentiation + 45
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.