foxa1 forkhead box A1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: foxa1provided by ZNC
Official Full Name: forkhead box A1provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-78
See related: Ensembl:ENSDARG00000102138 AllianceGenome:ZFIN:ZDB-GENE-990415-78
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fkd7; forkhead-7
Summary: Enables transcription cis-regulatory region binding activity. Acts upstream of or within axial mesoderm morphogenesis. Predicted to be located in nucleus. Is expressed in several structures, including central nervous system; chordo neural hinge; digestive system; endoderm; and liver primordium. Human ortholog(s) of this gene implicated in breast cancer; gastrointestinal system cancer (multiple); and lung cancer (multiple). Orthologous to human FOXA1 (forkhead box A1). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 17

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (10318044..10320932)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (10162010..10164898)

Chromosome 17 - NC_007128.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fkd7 (e-PCR)
- UniSTS:205630

fc16e08 (e-PCR)
- UniSTS:204699

fc24e02.y1 (e-PCR)
- UniSTS:193202

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein domain specific binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axial mesoderm morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: hepatocyte nuclear factor 3-alpha

Names: fork head domain protein 7

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_131284.2 → NP_571359.2 hepatocyte nuclear factor 3-alpha

Status: VALIDATED

Source sequence(s)

BC056569, CR753895

UniProtKB/TrEMBL

A0A0R4IS00, Q6P0C9, Q6PHF7

Related

ENSDARP00000137654.1, ENSDART00000161844.2

Conserved Domains (3) summary

smart00339
Location:157 → 245

FH; FORKHEAD

pfam08430
Location:17 → 156

Forkhead_N; Forkhead N-terminal region

pfam09354
Location:357 → 416

HNF_C; HNF3 C-terminal domain