TF Info Page for SOX17 (HMG/Sox)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: SRY-box 17 [Source:HGNC Symbol;Acc:HGNC:18122]
Entrez Summary NA
Ensembl ID: ENSG00000164736
External Link: CisBP
Interpro IPR009071; IPR021934;
Protein Domain: ENSP00000297316
Domain:
Protein: ENSP00000297316DBD: HMGOther: Sox17_18_mid

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_Transactivation_
PMIDS:15163629 15220343 15220343
Vaquerizas 2009 TF classification
"a" Has direct evidence of TF function;
"b" Has evidence for an orthologous TF;
"c" contains likely DBDs, but has no functional evidence;
"x" is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other" category contains proteins without clear DBDs they curated from external sources.
a
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" Yes
GO-Info GO:0001228
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IEA - GO_REF:0000019
GO:0003705
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
ISS - GO_REF:0000024
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
1a1, Direct HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
SMiLE-seqIsakova2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBadis09Inferred - Sox17 (100% AA Identity, Mus musculus)
ChIP-seqhmCHIPInferred - Sox17 (100% AA Identity, Mus musculus)
SELEXJASPARInferred - Sox17 (100% AA Identity, Mus musculus)

Structure

Structure PDB 3F27

Experimental History

Method Constructs
Tried in PBM?
(Whether the protein was tried in PBM or not)
Tried in HT-SELEX
(Whether the protein was tried in HT-SELEX or not, and if so, then what kind of clones were tested)
Other Information?
(Tried with another method and failed?)

External Contribution