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

Gene ID: 16364, updated on 28-May-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 T-helper 17 cell lineage commitment; defense response to protozoan; and positive regulation of cold-induced thermogenesis. Acts upstream of or within several processes, including histone acetylation; myeloid dendritic cell differentiation; and negative regulation of toll-like receptor signaling pathway. Part of nucleosome. Is expressed in eye; hemolymphoid system; liver; and testis. Human ortholog(s) of this gene implicated in acute lymphoblastic leukemia; anaplastic large cell lymphoma; chronic lymphocytic leukemia; multiple myeloma; and peripheral T-cell lymphoma. Orthologous to human IRF4 (interferon regulatory factor 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in spleen adult (RPKM 8.0), mammary gland adult (RPKM 5.2) and 12 other tissues See more
Orthologs
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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 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-13 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-2 production ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-4 production ISO
Inferred from Sequence Orthology
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 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 cytosol ISO
Inferred from Sequence Orthology
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)

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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_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