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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 chr13:25,163,550...25,208,314
Ensembl chr13:25,137,173...25,208,311
JBrowse link
G DKK1 dickkopf WNT signaling pathway inhibitor 1 IEA Ensembl GO_REF:0000107 NCBI chr14:97,487,854...97,490,118
Ensembl chr14:97,487,226...97,490,450
JBrowse link
G DUSP1 dual specificity phosphatase 1 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr16:51,457,924...51,461,095
Ensembl chr16:51,458,020...51,461,086
JBrowse link
G DUSP2 dual specificity phosphatase 2 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 3:47,052,443...47,054,816
Ensembl chr 3:47,052,457...47,054,816
JBrowse link
G DUSP4 dual specificity phosphatase 4 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr15:55,491,084...55,508,460
Ensembl chr15:55,490,468...55,509,459
JBrowse link
G DUSP5 dual specificity phosphatase 5 IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr14:120,906,340...120,919,398
Ensembl chr14:120,906,343...120,919,395
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 chr13:14,209,590...14,216,184
Ensembl chr13:14,210,083...14,215,797
JBrowse link
G GATA4 GATA binding protein 4 ISO (MGI:77407|PMID:8582296) MGI PMID:8582296 MGI:77407 NCBI chr14:14,858,470...14,938,156
Ensembl chr14:14,858,159...14,939,941
JBrowse link
G LHX1 LIM homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr12:38,450,708...38,457,583
Ensembl chr12:38,450,708...38,456,139
JBrowse link
G MIXL1 Mix paired-like homeobox ISO (MGI:3695524|PMID:17151016) MGI PMID:17151016 MGI:3695524 NCBI chr10:14,102,273...14,105,544
Ensembl chr10:14,102,395...14,104,982
JBrowse link
G NOG noggin IEA Ensembl GO_REF:0000107 NCBI chr12:32,891,321...32,892,206
Ensembl chr12:32,891,321...32,892,206
JBrowse link
G SMAD2 SMAD family member 2 IEA Ensembl GO_REF:0000107 NCBI chr 1:97,415,360...97,511,388
Ensembl chr 1:97,415,716...97,511,358
JBrowse link
G SOX17 SRY-box transcription factor 17 ISO (PMID:18682240) UniProtKB PMID:18682240 NCBI chr 4:76,854,218...76,857,143
Ensembl chr 4:76,852,230...76,857,139
JBrowse link
G SOX7 SRY-box transcription factor 7 IEA Ensembl GO_REF:0000107 NCBI chr14:13,938,381...13,945,324
Ensembl chr14:13,938,385...13,945,166
JBrowse link
G TNRC6C trinucleotide repeat containing adaptor 6C ISO (MGI:5315650|PMID:22187428) MGI PMID:22187428 MGI:5315650 NCBI chr12:3,847,522...3,939,054
Ensembl chr12:3,846,428...3,935,391
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 4:115,638,381...115,841,679
Ensembl chr 4:115,540,950...115,840,708
JBrowse link
G COL12A1 collagen type XII alpha 1 chain IBA (PMID:21873635) GO_Central PMID:21873635 NCBI chr 1:90,744,409...90,875,127
Ensembl chr 1:90,744,429...90,875,118
JBrowse link
G COL4A2 collagen type IV alpha 2 chain IEA Ensembl GO_REF:0000107 NCBI chr11:76,996,885...77,161,617
Ensembl chr11:76,997,516...77,161,615
JBrowse link
G COL7A1 collagen type VII alpha 1 chain ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr13:31,262,750...31,295,112 JBrowse link
G COL8A1 collagen type VIII alpha 1 chain IEA Ensembl GO_REF:0000107 NCBI chr13:159,216,138...159,374,718
Ensembl chr13:159,216,138...159,374,504
JBrowse link
G FN1 fibronectin 1 IEA Ensembl GO_REF:0000107 NCBI chr15:117,658,158...117,737,145
Ensembl chr15:117,658,099...117,731,014
JBrowse link
G GATA6 GATA binding protein 6 ISO (MGI:1315079|PMID:9832509) MGI PMID:9832509 MGI:1315079 NCBI chr 6:107,282,709...107,314,725
Ensembl chr 6:107,282,847...107,314,634
JBrowse link
G HMGA2 high mobility group AT-hook 2 ISO (PMID:17624332) UniProtKB PMID:17624332 NCBI chr 5:30,188,521...30,329,635 JBrowse link
G HSBP1 heat shock factor binding protein 1 ISO (MGI:5553204|PMID:24380799) MGI PMID:24380799 MGI:5553204 NCBI chr 6:4,795,203...4,798,158
Ensembl chr 6:4,793,920...4,798,191
JBrowse link
G INHBA inhibin subunit beta A IEA Ensembl GO_REF:0000107 NCBI chr12:53,115,379...53,117,128
NCBI chr18:52,889,684...52,909,260
Ensembl chr18:52,889,684...52,900,967
JBrowse link
G ITGA4 integrin subunit alpha 4 IEA Ensembl GO_REF:0000107 NCBI chr15:86,942,054...87,028,428
Ensembl chr15:86,947,021...87,029,777
JBrowse link
G ITGA5 integrin subunit alpha 5 IEA Ensembl GO_REF:0000107 NCBI chr 5:19,587,361...19,610,580
Ensembl chr 5:19,586,746...19,610,362
JBrowse link
G ITGA7 integrin subunit alpha 7 IEA Ensembl GO_REF:0000107 NCBI chr 5:21,126,565...21,150,875
Ensembl chr 5:21,126,565...21,148,776
JBrowse link
G ITGAV integrin subunit alpha V IEA Ensembl GO_REF:0000107 NCBI chr15:91,604,666...91,711,843
Ensembl chr15:91,604,676...91,711,840
JBrowse link
G ITGB2 integrin subunit beta 2 IEA Ensembl GO_REF:0000107 NCBI chr13:207,514,281...207,544,108
Ensembl chr13:207,512,954...207,544,108
JBrowse link
G ITGB5 integrin subunit beta 5 IEA Ensembl GO_REF:0000107 NCBI chr13:135,468,111...135,587,483
Ensembl chr13:135,467,798...135,587,483
JBrowse link
G LAMA3 laminin subunit alpha 3 IEA Ensembl GO_REF:0000107 NCBI chr 6:108,548,818...108,805,700
Ensembl chr 6:108,548,837...108,805,693
JBrowse link
G LAMB1 laminin subunit beta 1 IEA Ensembl GO_REF:0000107 NCBI chr 9:107,670,120...107,747,242
Ensembl chr 9:107,671,152...107,772,269
JBrowse link
G LAMB3 laminin subunit beta 3 IEA Ensembl GO_REF:0000107 NCBI chr 9:133,298,009...133,351,162
Ensembl chr 9:133,311,834...133,351,197
JBrowse link
G LOC100623720 collagen alpha-1(VI) chain IEA Ensembl GO_REF:0000107 NCBI chr13:208,295,245...208,321,789
Ensembl chr13:208,295,240...208,313,127
JBrowse link
G MIXL1 Mix paired-like homeobox IEA Ensembl GO_REF:0000107 NCBI chr10:14,102,273...14,105,544
Ensembl chr10:14,102,395...14,104,982
JBrowse link
G MMP14 matrix metallopeptidase 14 IEA Ensembl GO_REF:0000107 NCBI chr 7:76,174,502...76,185,931
Ensembl chr 7:76,174,500...76,185,923
JBrowse link
G MMP15 matrix metallopeptidase 15 IEA Ensembl GO_REF:0000107 NCBI chr 6:19,890,867...19,912,941
Ensembl chr 6:19,890,884...19,918,244
JBrowse link
G MMP2 matrix metallopeptidase 2 IEA Ensembl GO_REF:0000107 NCBI chr 6:30,059,247...30,087,031
Ensembl chr 6:30,058,594...30,086,982
JBrowse link
G MMP8 matrix metallopeptidase 8 IEA Ensembl GO_REF:0000107 NCBI chr 9:33,384,034...33,397,637
Ensembl chr 9:33,384,028...33,396,947
JBrowse link
G MMP9 matrix metallopeptidase 9 IEA Ensembl GO_REF:0000107 NCBI chr17:48,179,690...48,186,782
Ensembl chr17:48,175,056...48,188,264
JBrowse link
G NODAL nodal growth differentiation factor IEA Ensembl GO_REF:0000107 NCBI chr14:73,350,358...73,357,064
Ensembl chr14:73,349,965...73,360,618
JBrowse link
G SETD2 SET domain containing 2, histone lysine methyltransferase IEA Ensembl GO_REF:0000107 NCBI chr13:29,884,708...29,996,285
Ensembl chr13:29,884,712...29,996,360
JBrowse link
G VTN vitronectin ISO (PMID:23154389) UniProtKB PMID:23154389 NCBI chr12:44,650,532...44,653,916
Ensembl chr12:44,617,499...44,660,271
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 chr10:575,075...667,618
Ensembl chr10:575,074...667,434
JBrowse link
G CTNNB1 catenin beta 1 IEA Ensembl GO_REF:0000107 NCBI chr13:25,163,550...25,208,314
Ensembl chr13:25,137,173...25,208,311
JBrowse link
G CTR9 CTR9 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr 2:48,700,629...48,729,480
Ensembl chr 2:48,697,972...48,729,307
JBrowse link
G LEO1 LEO1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr 1:119,804,992...119,842,343
Ensembl chr 1:119,805,039...119,897,073
JBrowse link
G PAF1 PAF1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr 6:48,046,487...48,053,631
Ensembl chr 6:48,046,691...48,059,035
JBrowse link
G POU5F1 POU class 5 homeobox 1 IEA Ensembl GO_REF:0000107 NCBI chr 7:23,564,654...23,570,691 JBrowse link
G RTF1 RTF1 homolog, Paf1/RNA polymerase II complex component IEA Ensembl GO_REF:0000107 NCBI chr 1:129,886,798...129,942,845
Ensembl chr 1:129,886,800...129,942,982
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 IEA Ensembl GO_REF:0000107 NCBI chr 6:107,282,709...107,314,725
Ensembl chr 6:107,282,847...107,314,634
JBrowse link
G SOX17 SRY-box transcription factor 17 IEA Ensembl GO_REF:0000107 NCBI chr 4:76,854,218...76,857,143
Ensembl chr 4:76,852,230...76,857,139
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 chr13:14,209,590...14,216,184
Ensembl chr13:14,210,083...14,215,797
JBrowse link
G HNF1B HNF1 homeobox B IEA Ensembl GO_REF:0000107 NCBI chr12:39,143,119...39,201,631
Ensembl chr12:39,143,121...39,313,511
JBrowse link
G NANOG Nanog homeobox ISO (PMID:20713518) MGI PMID:20713518 NCBI chr 5:62,931,642...62,939,086
Ensembl chr 5:62,932,382...62,939,082
JBrowse link
G POU5F1 POU class 5 homeobox 1 ISO (PMID:20713518) MGI PMID:20713518 NCBI chr 7:23,564,654...23,570,691 JBrowse link
G SOX2 SRY-box transcription factor 2 ISO (PMID:21245162) MGI PMID:21245162 NCBI chr13:119,668,476...119,669,435 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 1:273,934,219...274,083,264
Ensembl chr 1:273,971,971...274,085,426
JBrowse link
G COL5A2 collagen type V alpha 2 chain IEA Ensembl GO_REF:0000107 NCBI chr15:93,611,856...93,981,131
Ensembl chr15:93,611,856...93,981,110
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 7:55,322,016...55,327,600
Ensembl chr 7:55,322,010...55,325,732
JBrowse link
positive regulation of endodermal cell differentiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G H2AFY H2A histone family, member Y IEA Ensembl GO_REF:0000107 NCBI chr 2:137,535,128...137,623,886
Ensembl chr 2:137,535,131...137,623,889
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 chr14:97,487,854...97,490,118
Ensembl chr14:97,487,226...97,490,450
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 16548
    developmental process 6302
      anatomical structure formation involved in morphogenesis 1185
        formation of primary germ layer 128
          endoderm formation 56
            endodermal cell differentiation + 46
Path 2
Term Annotations click to browse term
  biological_process 16548
    developmental process 6302
      anatomical structure development 5842
        multicellular organism development 5340
          embryo development 1254
            embryonic morphogenesis 665
              gastrulation 193
                formation of primary germ layer 128
                  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.