TF Info Page for LHX9 (Homeodomain)


Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook


Description: LIM homeobox 9 [Source:HGNC Symbol;Acc:HGNC:14222]
Entrez Summary This gene encodes a member of the LIM homeobox gene family of developmentally expressed transcription factors. The encoded protein contains a homeodomain and two cysteine-rich zinc-binding LIM domains involved in protein-protein interactions. The protein is highly similar to a mouse protein that causes gonadal agenesis when inactivated, suggesting a role in gonadal development. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000143355
External Link: CisBP
Interpro IPR001356; IPR001781; IPR009057; IPR017970;
Protein Domain: ENSP00000356357
Protein Domain: ENSP00000356360
Protein Domain: ENSP00000482898
Protein Domain: ENSP00000356358
Protein Domain: ENSP00000483170
Protein: ENSP00000356357DBD: HomeodomainOther: LIM
Protein: ENSP00000356360DBD: HomeodomainOther: LIM
Protein: ENSP00000482898DBD: HomeodomainOther:
Protein: ENSP00000356358DBD: HomeodomainOther:
Protein: ENSP00000483170DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification Indeterminate - There is no evidence for or against this genes role as a TF___
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.
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
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


Published Motif Data

Source Annotation Motif Evidence
PBMZoo_01Inferred - LHX2 (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Lhx2 (100% AA Identity, Mus musculus)
PBMBerger08Inferred - Lhx9 (100% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - LHX2 (100% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - LHX2 (100% AA Identity, Homo sapiens)
MiscHocoMocoInferred - LHX2 (100% AA Identity, Homo sapiens)
MiscHOMERInferred - Lhx2 (100% AA Identity, Mus musculus)
B1HJASPARInferred - ap (94% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - ap (94% AA Identity, Drosophila melanogaster)


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