TF Info Page for RFX6 (RFX)

Conclusion

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

Description

Description: regulatory factor X6 [Source:HGNC Symbol;Acc:HGNC:21478]
Entrez Summary The nuclear protein encoded by this gene is a member of the regulatory factor X (RFX) family of transcription factors. Studies in mice suggest that this gene is specifically required for the differentiation of islet cells for the production of insulin, but not for the differentiation of pancreatic polypeptide-producing cells. It regulates the transcription factors involved in beta-cell maturation and function, thus, restricting the expression of the beta-cell differentiation and specification genes. Mutations in this gene are associated with Mitchell-Riley syndrome, which is characterized by neonatal diabetes with pancreatic hypoplasia, duodenal and jejunal atresia, and gall bladder agenesis.[provided by RefSeq, Sep 2010]
Ensembl ID: ENSG00000185002
External Link: CisBP
Interpro IPR003150; ;
Protein Domain: ENSP00000332208
Domain:
Protein: ENSP00000332208DBD: RFXOther:

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. 		x
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
IDA - PMID:20148032
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 		1a2, Orthologous HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
PBMZoo_01Inferred - RFX4 (70% AA Identity, Cavia porcellus)
HT-SELEXYin2017Inferred - RFX4 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX4 (70% AA Identity, Homo sapiens)
PBMBadis09Inferred - Rfx4 (70% AA Identity, Mus musculus)
PBMZoo_01Inferred - PHUM046580 (62% AA Identity, Pediculus humanus)
PBMZoo_01Inferred - G4VLF2_SCHMA (60% AA Identity, Schistosoma mansoni)
PBMZoo_01Inferred - RFX1 (60% AA Identity, Anolis carolinensis)
HT-SELEXYin2017Inferred - RFX1 (60% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX1 (60% AA Identity, Homo sapiens)
PBMZoo_01Inferred - rfx1a (60% AA Identity, Tetraodon nigroviridis)
TransfacTransfacLicense requiredInferred - RFX1 (60% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (60% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (60% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (60% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Rfx1 (60% AA Identity, Mus musculus)
MiscHocoMocoInferred - RFX1 (60% AA Identity, Homo sapiens)
PBMZoo_01Inferred - GB41876 (59% AA Identity, Apis mellifera)
PBMZoo_01Inferred - Sjc_0102030 (59% AA Identity, Schistosoma japonicum)
HT-SELEXNitta2015Inferred - Rfx (58% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (58% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (58% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (58% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (58% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - RFX2 (57% AA Identity, Homo sapiens)
SMiLE-seqIsakova2017Inferred - RFX2 (57% AA Identity, Mus musculus)
PBMZoo_01Inferred - RFX2 (57% AA Identity, Ornithorhynchus anatinus)
PBMBadis09Inferred - Rfx3 (57% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - RFX2 (56% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX2 (56% AA Identity, Homo sapiens)
HT-SELEXJolma2010Inferred - RFX3 (56% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (56% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (56% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (56% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (56% AA Identity, Homo sapiens)
PBMZoo_01Inferred - XP_002157607.1 (56% AA Identity, Hydra magnipapillata)
SELEXJASPARInferred - RFX2 (56% AA Identity, Homo sapiens)
MiscHocoMocoInferred - RFX2 (56% AA Identity, Homo sapiens)
MiscHOMERInferred - RFX2 (56% AA Identity, Homo sapiens)
MiscHocoMocoInferred - RFX3 (56% AA Identity, Homo sapiens)
MiscHOMERInferred - RFX3 (56% AA Identity, Homo sapiens)
PBMCEPDInferred - daf-19 (55% AA Identity, Caenorhabditis elegans)

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