irx4a iroquois homeobox 4a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: irx4aprovided by ZNC
Official Full Name: iroquois homeobox 4aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-1825
See related: Ensembl:ENSDARG00000035648 AllianceGenome:ZFIN:ZDB-GENE-040426-1825
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
Also known as: ziro4a; zgc:77362
Summary: Predicted to enable DNA binding activity and DNA-binding transcription factor activity, RNA polymerase II-specific. Acts upstream of or within photoreceptor cell development; posterior lateral line neuromast hair cell differentiation; and posterior lateral line neuromast mantle cell differentiation. Predicted to be located in nucleus. Is expressed in several structures, including midbrain neural keel; nervous system; neural plate; pericardial region; and presumptive neural retina. Orthologous to human IRX4 (iroquois homeobox 4). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 16

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	16	NC_007127.7 (378766..383683, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	16	NC_007127.6 (287438..292336, complement)

Chromosome 16 - NC_007127.7 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
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?

Results point to irx4a as a critical gene for numerous developmental processes and highlight its role in the formation of placodal derivatives in vertebrates.
Title: Formation of posterior cranial placode derivatives requires the Iroquois transcription factor irx4a.

Submit: New GeneRIF Correction

General gene information

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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, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within photoreceptor cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast hair cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast mantle cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation 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: iroquois-class homeodomain protein IRX-4a

Names: Iroquois 4a protein; iroquois homeobox protein 4a

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_205698.1 → NP_991261.1 iroquois-class homeodomain protein IRX-4a

See identical proteins and their annotated locations for NP_991261.1

Status: PROVISIONAL

Source sequence(s)

BC065966

UniProtKB/TrEMBL

A0A8M1PH35, Q6NZU4

Related

ENSDARP00000051692.3, ENSDART00000051693.4

Conserved Domains (1) summary

pfam05920
Location:155 → 194

Homeobox_KN; Homeobox KN domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007127.7 Reference GRCz11 Primary Assembly

Range

378766..383683 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021466666.2 → XP_021322341.1 iroquois-class homeodomain protein IRX-4a isoform X1

UniProtKB/TrEMBL

A0A8M9PJE4

Conserved Domains (2) summary

pfam05920
Location:155 → 194

Homeobox_KN; Homeobox KN domain

cl27820
Location:140 → 245

Abdominal-A; Homeobox protein