irf5 interferon regulatory factor 5 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: irf5provided by ZNC
Official Full Name: interferon regulatory factor 5provided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-2587
See related: Ensembl:ENSDARG00000045681 AllianceGenome:ZFIN:ZDB-GENE-040426-2587
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: zgc:76986; im:7155364
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. Predicted to be involved in immune system process and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cytokine-mediated signaling pathway; defense response to virus; and regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including gill; heart; immune system; liver; and muscle. Human ortholog(s) of this gene implicated in herpes simplex; inflammatory bowel disease 14; multiple sclerosis; rheumatoid arthritis; and systemic lupus erythematosus. Orthologous to human IRF5 (interferon regulatory factor 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 4

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (13605600..13614936, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (13606751..13616087, complement)

Chromosome 4 - NC_007115.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription cis-regulatory region binding	IEA Inferred from Electronic Annotation more info
enables transcription regulator activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in immune system process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation 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 cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: interferon regulatory factor 5

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_001327817.1 → NP_001314746.1 interferon regulatory factor 5

Status: VALIDATED

Source sequence(s)

BX465210

UniProtKB/TrEMBL

A0A0R4IKF1, A0A8M1P9C5, B0S682

Related

ENSDARP00000135859.2, ENSDART00000165212.2

Conserved Domains (2) summary

pfam00605
Location:9 → 114

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:288 → 470

IRF-3; Interferon-regulatory factor 3

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007115.7 Reference GRCz11 Primary Assembly

Range

13605600..13614936 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_212875.1: Suppressed sequence

Description

NM_212875.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.