TF Info Page for IRX5 (Homeodomain)

Conclusion

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

Description

Description: iroquois homeobox 5 [Source:HGNC Symbol;Acc:HGNC:14361]
Entrez Summary This gene encodes a member of the iroquois homeobox gene family, which are involved in several embryonic developmental processes. Knockout mice lacking this gene show that it is required for retinal cone bipolar cell differentiation, and that it negatively regulates potassium channel gene expression in the heart to ensure coordinated cardiac repolarization. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Nov 2011]
Ensembl ID: ENSG00000176842
External Link: CisBP
Interpro IPR001356; IPR003893; IPR008422; IPR009057; IPR017970; ;
Protein Domain: ENSP00000316250
Protein Domain: ENSP00000483446
Protein Domain: ENSP00000378132
Protein Domain: ENSP00000453660
Domain:
Protein: ENSP00000316250DBD: HomeodomainOther:
Protein: ENSP00000483446DBD: HomeodomainOther:
Protein: ENSP00000378132DBD: HomeodomainOther:
Protein: ENSP00000453660DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification Indeterminate - There is no evidence for or against this genes role as a TF___
PMIDS:0
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.
b
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-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
PBMBerger08Inferred - Irx2 (100% AA Identity, Mus musculus)
PBMBerger08Inferred - Irx5 (100% AA Identity, Mus musculus)
B1HJASPARInferred - ara (91% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - caup (90% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - mirr (90% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - IRX1 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - IRX1 (88% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - IRX3 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - IRX3 (88% AA Identity, Homo sapiens)
PBMBerger08Inferred - Irx3 (88% AA Identity, Mus musculus)
PBMBerger08Inferred - Irx3 (88% AA Identity, Mus musculus)
PBMBerger08Inferred - Irx4 (88% AA Identity, Mus musculus)
PBMBerger08Inferred - Irx6 (86% AA Identity, Mus musculus)
PBMZoo_01Inferred - SNAPOd2T00005194001 (75% AA Identity, Oikopleura dioica)
PBMZoo_01Inferred - Cbr-irx-1 (71% AA Identity, Caenorhabditis briggsae)

Structure

Structure PDB Not_Covered

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