foxi3b forkhead box I3b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: foxi3bprovided by ZNC
Official Full Name: forkhead box I3bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-031126-4
See related: Ensembl:ENSDARG00000009550 AllianceGenome:ZFIN:ZDB-GENE-031126-4
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within epidermal cell fate specification and ionocyte differentiation. Predicted to be active in nucleus. Is expressed in several structures, including ectoderm; integument; ionocyte; ionocyte progenitor cell; and yolk. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness 4. Orthologous to several human genes including FOXI1 (forkhead box I1). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 14

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2025_04	current	GRCz12tu (GCF_049306965.1)	14	NC_133189.1 (39122810..39124523)
RS_2024_08	previous assembly	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (34514414..34516100)

Chromosome 14 - NC_133189.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

an extensive phylogenetic analysis of the FoxI class that includes these new sequences together with those previously reported
Title: Expression and phylogenetic analyses of three zebrafish FoxI class genes.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
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 DNA-binding transcription factor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in animal gross anatomical part developmental process	IEA Inferred from Electronic Annotation more info
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epidermal cell fate specification	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within epidermal cell fate specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within epidermal cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ionocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in 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
involved_in tissue development	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: forkhead box protein I3-B

Names: forkhead box protein I3b

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.