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    Irf4 interferon regulatory factor 4 [ Mus musculus (house mouse) ]

    Gene ID: 16364, updated on 9-Dec-2024

    Summary

    Official Symbol
    Irf4provided by MGI
    Official Full Name
    interferon regulatory factor 4provided by MGI
    Primary source
    MGI:MGI:1096873
    See related
    Ensembl:ENSMUSG00000021356 AllianceGenome:MGI:1096873
    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
    Spip; IRF-4; LSIRF; NF-EM5
    Summary
    Enables DNA-binding transcription factor activity; cis-regulatory region sequence-specific DNA binding activity; and transcription coactivator activity. Involved in several processes, including defense response to protozoan; mononuclear cell differentiation; and positive regulation of cold-induced thermogenesis. Acts upstream of or within chromatin remodeling; negative regulation of toll-like receptor signaling pathway; and positive regulation of transcription by RNA polymerase II. Part of nucleosome. Is expressed in several structures, including eye; hemolymphoid system; liver; mandible; and testis. Human ortholog(s) of this gene implicated in hematologic cancer (multiple) and pigmentation disease. Orthologous to human IRF4 (interferon regulatory factor 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in spleen adult (RPKM 8.0), mammary gland adult (RPKM 5.2) and 12 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Irf4 in Genome Data Viewer
    Location:
    13 A3.2; 13 13.28 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (30933191..30950965)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (30749233..30766981)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E5386 Neighboring gene predicted gene, 35158 Neighboring gene dual specificity phosphatase 22 Neighboring gene STARR-seq mESC enhancer starr_34069 Neighboring gene STARR-positive B cell enhancer ABC_E10787 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:30853140-30853323 Neighboring gene exocyst complex component 2 Neighboring gene HUS1 checkpoint clamp component B Neighboring gene STARR-positive B cell enhancer ABC_E11781 Neighboring gene predicted gene, 35302

    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

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in T-helper 17 cell lineage commitment IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromatin remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in defense response to protozoan 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 myeloid dendritic cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in myeloid dendritic cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of toll-like receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of cold-induced thermogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of interleukin-10 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-10 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of interleukin-13 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-13 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of interleukin-2 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-2 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of interleukin-4 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-4 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    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 cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    part_of nucleosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    interferon regulatory factor 4
    Names
    PU.1 interaction partner
    Sfpi1/PU.1 interaction partner
    lymphocyte-specific interferon regulatory factor
    transcriptional activator PIP

    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_001347508.1NP_001334437.1  interferon regulatory factor 4 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1, resulting in an isoform (b) that is 1 aa shorter than isoform a.
      Source sequence(s)
      AK089319, AL645745
      Consensus CDS
      CCDS84017.1
      UniProtKB/TrEMBL
      Q5SUZ5
      Related
      ENSMUSP00000105936.2, ENSMUST00000110307.3
    2. NM_013674.2NP_038702.1  interferon regulatory factor 4 isoform a

      See identical proteins and their annotated locations for NP_038702.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AL645745, BC137714
      Consensus CDS
      CCDS26419.1
      UniProtKB/Swiss-Prot
      Q60802, Q64287
      UniProtKB/TrEMBL
      Q5SUZ4
      Related
      ENSMUSP00000021784.3, ENSMUST00000021784.10
      Conserved Domains (2) summary
      pfam00605
      Location:23128
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:250418
      IRF-3; Interferon-regulatory factor 3

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      30933191..30950965
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157859.1XP_036013752.1  interferon regulatory factor 4 isoform X1

      Conserved Domains (2) summary
      pfam00605
      Location:23128
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:214382
      IRF-3; Interferon-regulatory factor 3
    2. XM_036157860.1XP_036013753.1  interferon regulatory factor 4 isoform X2

      Conserved Domains (2) summary
      pfam00605
      Location:23128
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:250379
      IRF-3; Interferon-regulatory factor 3