irx7 iroquois homeobox 7 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: irx7provided by ZNC
Official Full Name: iroquois homeobox 7provided by ZNC
Primary source: ZFIN:ZDB-GENE-020103-1
See related: Ensembl:ENSDARG00000002601 AllianceGenome:ZFIN:ZDB-GENE-020103-1
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: iro7; cb263; ziro7; zgc:109841
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 several processes, including embryonic skeletal joint development; nervous system development; and retina morphogenesis in camera-type eye. Predicted to be active in nucleus. Is expressed in several structures, including head; interhyal-hyosymplectic joint; nervous system; neural keel; and neural plate. [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 23

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (37815650..37816969)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (37884213..37885532)

Chromosome 23 - NC_007134.7 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?

These observations suggest a different regulatory mechanism on bhlhe22 expression by smarca4 and irx7.
Title: Irx7, a Smarca4-regulated gene for retinal differentiation, regulates other genes controlled by Smarca4 in zebrafish retinas.
The retinal lamination issue in the Irx7-deficient retinas is likely caused by the attenuation of the neurite outgrowth
Title: The expression of irx7 in the inner nuclear layer of zebrafish retina is essential for a proper retinal development and lamination.
Data show that Irx7 and Irx1b are required for the proper formation and specification of rhombomeres 1 to 4, and that Irx7 functionally interacts with Meis1.1 to activate the expression of anterior hindbrain markers, such as krox20.
Title: A functional interaction between Irx and Meis patterns the anterior hindbrain and activates krox20 expression in rhombomere 3.
iro7 has a dual function in the hindbrain of the zebrafish embryo: it is required for the proper positioning of the prospective r4/r5 boundary and it promotes neurogenesis in the anterior hindbrain
Title: The zebrafish Iroquois gene iro7 positions the r4/r5 boundary and controls neurogenesis in the rostral hindbrain.

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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	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic retina morphogenesis in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic skeletal joint development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic skeletal joint development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hindbrain morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within neuron 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
acts_upstream_of_or_within regulation of chondrocyte differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of chondrocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retina layer formation	IMP Inferred from Mutant Phenotype more info	PubMed

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

General protein information

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Preferred Names: iroquois homeobox 7

Names: iroquois homeobox 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_131881.1 → NP_571956.1 iroquois homeobox 7

See identical proteins and their annotated locations for NP_571956.1

Status: PROVISIONAL

Source sequence(s)

AF398433

UniProtKB/TrEMBL

Q78BI2, Q90YX8

Related

ENSDARP00000025947.7, ENSDART00000011627.8

Conserved Domains (2) summary

smart00548
Location:255 → 269

IRO; Motif in Iroquois-class homeodomain proteins (only). Unknown function

pfam05920
Location:122 → 161

Homeobox_KN; Homeobox KN domain