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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 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
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
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
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

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16190
    developmental process 6310
      anatomical structure formation involved in morphogenesis 1177
        formation of primary germ layer 126
          endoderm formation 56
            endodermal cell differentiation + 46
Path 2
Term Annotations click to browse term
  biological_process 16190
    developmental process 6310
      anatomical structure development 5858
        multicellular organism development 5351
          embryo development 1243
            embryonic morphogenesis 654
              gastrulation 191
                formation of primary germ layer 126
                  endoderm formation 56
                    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.