TF Info Page for HOXA13 (Homeodomain)

Conclusion

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

Description

Description: homeobox A13 [Source:HGNC Symbol;Acc:HGNC:5102]
Entrez Summary In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate gene expression, morphogenesis, and differentiation. Expansion of a polyalanine tract in the encoded protein can cause hand-foot-uterus syndrome, also known as hand-foot-genital syndrome. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000106031
External Link: CisBP
Interpro IPR001356; IPR009057; IPR017970; IPR022067;
Protein Domain: ENSP00000222753
Domain:
Protein: ENSP00000222753DBD: HomeodomainOther: HoxA13_N

Previous Annotations

Source Annotation
TF-CAT classification No
PMIDS:
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" No
GO-Info
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
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBerger08Inferred - Hoxa13 (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXC13 (92% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC13 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC13 (92% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc13 (92% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXC13 (92% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (89% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (89% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD13 (89% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD13 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD13 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD13 (89% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd13 (89% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXD13 (89% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (87% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB13 (84% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB13 (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB13 (84% AA Identity, Homo sapiens)
PBMZoo_01Inferred - HOXB13 (84% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb13 (84% AA Identity, Mus musculus)
PBMZoo_01Inferred - hoxd13a (84% AA Identity, Danio rerio)

Structure

Structure PDB 2LD5

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