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    irf1b interferon regulatory factor 1b [ Danio rerio (zebrafish) ]

    Gene ID: 792160, updated on 4-Jan-2025

    Summary

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    Official Symbol
    irf1bprovided by ZNC
    Official Full Name
    interferon regulatory factor 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041114-13
    See related
    Ensembl:ENSDARG00000043249 AllianceGenome:ZFIN:ZDB-GENE-041114-13
    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
    IRF1; irf11; sb:eu922; zgc:103566
    Summary
    Enables transcription cis-regulatory region binding activity. Acts upstream of or within regulation of defense response to virus and response to virus. Located in nucleus. Is expressed in several structures, including cardiovascular system; eye; liver; pleuroperitoneal region; and thymus. Human ortholog(s) of this gene implicated in asthma; lung cancer (multiple); primary immunodeficiency disease; smallpox; and stomach cancer (multiple). Orthologous to human IRF1 (interferon regulatory factor 1). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See irf1b in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (45626879..45633022)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (45674662..45680791, complement)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene Rap guanine nucleotide exchange factor (GEF) 6-like Neighboring gene acyl-CoA synthetase long chain family member 6 Neighboring gene uncharacterized LOC110438250 Neighboring gene solute carrier family 22 member 5

    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. Identification and functional characterization of an interferon regulatory factor 7-like (IRF7-like) gene from orange-spotted grouper, Epinephelus coioides. Cui H, et al. Dev Comp Immunol, 2011 Jun. PMID 21295068
    2. Interferon-gamma directly mediates developmental biliary defects. Cui S, et al. Zebrafish, 2013 Jun. PMID 23448251, Free PMC Article
    3. Cloning, Exogenous Expression and Function Analysis of Interferon-γ from Gadus macrocephalus. Jiang J, et al. Viruses, 2022 Oct 20. PMID 36298859, Free PMC Article
    4. Two type II IFN members, IFN-γ and IFN-γ related (rel), regulate differentially IRF1 and IRF11 in zebrafish. Ruan BY, et al. Fish Shellfish Immunol, 2017 Jun. PMID 28373105
    5. DNA hypomethylation causes bile duct defects in zebrafish and is a distinguishing feature of infantile biliary atresia. Matthews RP, et al. Hepatology, 2011 Mar. PMID 21319190, Free PMC Article

    See all (45) 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

    • MGC103566, MGC192360

    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 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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription cis-regulatory region binding IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in immune system process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of defense response to virus IDA
    Inferred from Direct Assay
    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 response to virus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    interferon regulatory factor 1b
    Names
    interferon regulatory factor 11

    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_205747.2 → NP_991310.2  interferon regulatory factor 1b

      Status: VALIDATED

      Source sequence(s)
      CU302316
      UniProtKB/TrEMBL
      Q6TGZ2
      Related
      ENSDARP00000140878.1, ENSDART00000158742.2

    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_007132.7 Reference GRCz11 Primary Assembly

      Range
      45626879..45633022
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068215932.1 → XP_068072033.1  interferon regulatory factor 1b isoform X1

      UniProtKB/TrEMBL
      Q6TGZ2

    2. XM_068215933.1 → XP_068072034.1  interferon regulatory factor 1b isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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