TF Info Page for FOXD4 (Forkhead)

Conclusion

Description

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.	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"	Yes
GO-Info	GO:0000981 sequence-specific DNA binding RNA polymerase II transcription factor activity IBA - GO_REF:0000033 GO:0003700 sequence-specific DNA binding transcription factor activity TAS - PMID:9325056
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
Transfac	Transfac	License required	Inferred - ENSG00000204828 (95% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - FOXD4L4 (95% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - FOXD2 (88% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - FOXD2 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - FOXD2 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - FOXD2 (88% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - FOXD3 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - FOXD3 (88% AA Identity, Homo sapiens)
SELEX	JASPAR		Inferred - FOXD1 (88% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - FOXD1 (88% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - Foxd1 (88% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - FOXD3 (88% AA Identity, Homo sapiens)
SELEX	JASPAR		Inferred - Foxd3 (88% AA Identity, Rattus norvegicus)
Misc	HocoMoco		Inferred - FOXD1 (88% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - FOXD3 (88% AA Identity, Homo sapiens)
HT-SELEX	Nitta2015		Inferred - fd59A (83% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - fd59A (83% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - fd59A (83% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - fd59A (83% AA Identity, Drosophila melanogaster)
PBM	TF_Evolution	Unpublished Data	Inferred - foxe3 (74% AA Identity, Xenopus tropicalis)
HT-SELEX	Yin2017		Inferred - FOXE1 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - FOXE1 (70% AA Identity, Homo sapiens)

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

Name

Email

Comment

Reference

Save Reset