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

    Gene ID: 405811, updated on 9-Dec-2024

    Summary

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    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 regulation of DNA-templated transcription. Located in cytoplasm. Is expressed in several structures, including digestive system; gill; heart; nervous system; and pleuroperitoneal region. 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, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See irf5 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 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_007115.7Genomic Context describing neighboring genes Neighboring gene microRNA 729 Neighboring gene transportin 3 Neighboring gene coiled-coil domain containing 87 Neighboring gene si:dkeyp-81f3.4 Neighboring gene patatin-like phospholipase domain containing 8

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Characteristics of the interferon regulatory factor pairs zfIRF5/7 and their stimulation expression by ISKNV Infection in zebrafish (Danio rerio). Xiang Z, et al. Dev Comp Immunol, 2010 Dec. PMID 20637800
    2. Functional characterization of interferon regulatory factor 5 and its role in the innate antiviral immune response. Ai K, et al. Fish Shellfish Immunol, 2018 Jan. PMID 29080685
    3. In vitro characterization of grass carp (Ctenopharyngodon idella) IL-26 in regulating inflammatory factors. Qiu X, et al. Fish Shellfish Immunol, 2017 Jul. PMID 28495510
    4. The gene and virus-induced expression of IRF-5 in grass carp Ctenopharyngodon idella. Xu QQ, et al. Vet Immunol Immunopathol, 2010 Apr 15. PMID 19896215
    5. Expression pattern analysis of IRF4 and its related genes revealed the functional differentiation of IRF4 paralogues in teleost. Ai K, et al. Fish Shellfish Immunol, 2017 Jan. PMID 27856326

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Homology

    Clone Names

    • MGC76986

    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)

    1. 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: 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

    1. NC_007115.7 Reference GRCz11 Primary Assembly

      Range
      13605600..13614936 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068219572.1 → XP_068075673.1  interferon regulatory factor 5 isoform X1

      UniProtKB/TrEMBL
      A0A0R4IKF1, A0A8M1P9C5, B0S682
      Related
      ENSDARP00000067163.4, ENSDART00000067164.6

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. 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.
    Nucleotide Protein
    Heading Accession and Version

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