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    Irf3 interferon regulatory factor 3 [ Mus musculus (house mouse) ]

    Gene ID: 54131, updated on 9-Dec-2024

    Summary

    Official Symbol
    Irf3provided by MGI
    Official Full Name
    interferon regulatory factor 3provided by MGI
    Primary source
    MGI:MGI:1859179
    See related
    Ensembl:ENSMUSG00000003184 AllianceGenome:MGI:1859179
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    IRF-3; C920001K05Rik
    Summary
    Enables DNA-binding transcription factor activity, RNA polymerase II-specific; identical protein binding activity; and promoter-specific chromatin binding activity. Involved in positive regulation of macromolecule biosynthetic process; response to virus; and type I interferon-mediated signaling pathway. Acts upstream of or within several processes, including lipopolysaccharide-mediated signaling pathway; regulation of defense response; and response to exogenous dsRNA. Located in nucleus. Is expressed in several structures, including central nervous system; early conceptus; eye; and genitourinary system. Human ortholog(s) of this gene implicated in brain disease. Orthologous to human IRF3 (interferon regulatory factor 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 26.3), spleen adult (RPKM 21.3) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Irf3 in Genome Data Viewer
    Location:
    7 B3; 7 29.07 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (44647072..44652272)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (44997648..45002848)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene protein arginine N-methyltransferase 1 Neighboring gene predicted gene 15545 Neighboring gene BCL2 like 12 Neighboring gene SR-related CTD-associated factor 1 Neighboring gene microRNA 7054 Neighboring gene STARR-positive B cell enhancer ABC_E130 Neighboring gene STARR-positive B cell enhancer ABC_E871 Neighboring gene related RAS viral (r-ras) oncogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC91046

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    enables promoter-specific chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein domain specific binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein homodimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in TRIF-dependent toll-like receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in TRIF-dependent toll-like receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in antiviral innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to lipopolysaccharide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to virus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in cellular response to virus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to virus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cytoplasmic pattern recognition receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cytoplasmic pattern recognition receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in immune system process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within lipopolysaccharide-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in mRNA transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cytokine production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interferon-alpha production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of interferon-beta production IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of interferon-beta production ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in positive regulation of interferon-beta production TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of type I interferon production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of type I interferon production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of type I interferon production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within positive regulation of type I interferon-mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within programmed necrotic cell death IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of apoptotic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within regulation of inflammatory response IGI
    Inferred from Genetic Interaction
    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 bacterium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within response to exogenous dsRNA IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within response to lipopolysaccharide IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in toll-like receptor 4 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in toll-like receptor 4 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within type I interferon production IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in type I interferon-mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in chromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrion ISS
    Inferred from Sequence or Structural Similarity
    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 
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    interferon regulatory factor 3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_016849.4NP_058545.1  interferon regulatory factor 3

      See identical proteins and their annotated locations for NP_058545.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the protein-coding transcript.
      Source sequence(s)
      AK013944, AK151750, BC050882, BY089035
      Consensus CDS
      CCDS21224.1
      UniProtKB/Swiss-Prot
      P70671
      UniProtKB/TrEMBL
      Q3U9K6, Q3UJM9
      Related
      ENSMUSP00000003284.9, ENSMUST00000003284.16
      Conserved Domains (2) summary
      pfam00605
      Location:7110
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:196373
      IRF-3; Interferon-regulatory factor 3

    RNA

    1. NR_045611.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different splice site in the 5' end, compared to variant 1. The transcript is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK013944, AK145977, BC050882, BY089035

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      44647072..44652272
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006540996.4XP_006541059.1  interferon regulatory factor 3 isoform X1

      See identical proteins and their annotated locations for XP_006541059.1

      UniProtKB/Swiss-Prot
      P70671
      UniProtKB/TrEMBL
      Q3U9K6, Q3UJM9
      Related
      ENSMUSP00000146773.2, ENSMUST00000209066.2
      Conserved Domains (2) summary
      pfam00605
      Location:7110
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:196373
      IRF-3; Interferon-regulatory factor 3
    2. XM_006540995.5XP_006541058.1  interferon regulatory factor 3 isoform X1

      See identical proteins and their annotated locations for XP_006541058.1

      UniProtKB/Swiss-Prot
      P70671
      UniProtKB/TrEMBL
      Q3U9K6, Q3UJM9
      Related
      ENSMUST00000207555.2
      Conserved Domains (2) summary
      pfam00605
      Location:7110
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:196373
      IRF-3; Interferon-regulatory factor 3