TF Info Page for HMGA1 (AT hook)
Conclusion
| Assessment | Binding Mode | Motif Status | Notes | Comments |
|---|---|---|---|---|
| Known motif | 1 Monomer or homomultimer | In vivo/Misc source | Only known motifs are from Transfac or HocoMoco - origin is uncertain |
Description
| Description: | high mobility group AT-hook 1 [Source:HGNC Symbol;Acc:HGNC:5010] | |||||||||||||||
| Entrez Summary | This gene encodes a chromatin-associated protein involved in the regulation of gene transcription, integration of retroviruses into chromosomes, and the metastatic progression of cancer cells. The encoded protein preferentially binds to the minor groove of AT-rich regions in double-stranded DNA. Multiple transcript variants encoding different isoforms have been found for this gene. Pseudogenes of this gene have been identified on multiple chromosomes. [provided by RefSeq, Jan 2016] | |||||||||||||||
| Ensembl ID: | ENSG00000137309 | |||||||||||||||
| External Link: | CisBP | |||||||||||||||
| Interpro | IPR000116; IPR000637; IPR017956; IPR020478; | |||||||||||||||
| Protein Domain: | ENSP00000308227 | |||||||||||||||
| Protein Domain: | ENSP00000288245 | |||||||||||||||
| Protein Domain: | ENSP00000363230 | |||||||||||||||
| Protein Domain: | ENSP00000385693 | |||||||||||||||
| Protein Domain: | ENSP00000399888 | |||||||||||||||
| Domain: |
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Previous Annotations
| Source | Annotation |
| TF-CAT classification |
TF Gene_DNA-Binding non-sequence-specific Transcription Factor Binding tf co-factor binding_DNA Binding_ PMIDS:9199299 12907668 |
| 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. |
c |
| 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:0001205 RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involv ISS - GO_REF:0000024 GO:0003700 sequence-specific DNA binding transcription factor activity IBA - GO_REF:0000033 |
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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 |
3a, decent circumstantial evidence for its role as |
| TF has conditional DNA-binding requirements |