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    irf9 interferon regulatory factor 9 [ Danio rerio (zebrafish) ]

    Gene ID: 403013, updated on 9-Dec-2024

    Summary

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    Official Symbol
    irf9provided by ZNC
    Official Full Name
    interferon regulatory factor 9provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040912-165
    See related
    Ensembl:ENSDARG00000016457 AllianceGenome:ZFIN:ZDB-GENE-040912-165
    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
    ISGF3G; zgc:92097
    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. Predicted to be active in nucleus. Is expressed in brain; kidney; and retina. Human ortholog(s) of this gene implicated in immunodeficiency 65. Orthologous to human IRF9 (interferon regulatory factor 9). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See irf9 in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (13282763..13306886)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (13244441..13268585)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1, catalytic subunit, alpha isozyme b Neighboring gene ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 1, like Neighboring gene ER membrane protein complex subunit 9 Neighboring gene proteasome activator subunit 2 Neighboring gene LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated

    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. Molecular cloning and expression analysis of interferon regulatory factor 10 (IRF10) in Japanese flounder, Paralichthys olivaceus. Suzuki Y, et al. Fish Shellfish Immunol, 2011 Jan. PMID 20883793
    2. Color-Flu Fluorescent Reporter Influenza A Viruses Allow for In Vivo Studies of Innate Immune Function in Zebrafish. Soos BL, et al. Viruses, 2024 Jan 20. PMID 38275965, Free PMC Article
    3. IRF9-Stat2 Fusion Protein as an Innate Immune Inducer to Activate Mx and Interferon-Stimulated Gene Expression in Zebrafish Larvae. Huang CJ, et al. Mar Biotechnol (NY), 2017 Jun. PMID 28500614
    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 regulation of zebrafish interferon regulatory factor 9 by promoter analysis. Shi J, et al. Dev Comp Immunol, 2013 Dec. PMID 23916490

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Much more significant induction of zebrafish IRF9 by zebrafish IFNgamma2.
      Title: Expression regulation of zebrafish interferon regulatory factor 9 by promoter analysis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Clone Names

    • MGC92097

    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
    		  
    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
    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 9

    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_205710.2 → NP_991273.2  interferon regulatory factor 9

      See identical proteins and their annotated locations for NP_991273.2

      Status: VALIDATED

      Source sequence(s)
      BX571950, EH433167, EH459171, EH462679, EH504444
      UniProtKB/TrEMBL
      A0A8M2B248, F1Q573
      Related
      ENSDARP00000123550.1, ENSDART00000137757.3
      Conserved Domains (2) summary
      pfam00605
      Location:11 → 115
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:216 → 398
      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_007123.7 Reference GRCz11 Primary Assembly

      Range
      13282763..13306886
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005156059.5 → XP_005156116.1  interferon regulatory factor 9 isoform X1

      See identical proteins and their annotated locations for XP_005156116.1

      UniProtKB/TrEMBL
      A0A8M2B248, F1Q573
      Conserved Domains (2) summary
      pfam00605
      Location:11 → 115
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:216 → 398
      IRF-3; Interferon-regulatory factor 3
    Nucleotide Protein Strain
    Heading Accession and Version

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