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Irf1 interferon regulatory factor 1 [ Mus musculus (house mouse) ]

Gene ID: 16362, updated on 12-Dec-2022

Summary

Official Symbol
Irf1provided by MGI
Official Full Name
interferon regulatory factor 1provided by MGI
Primary source
MGI:MGI:96590
See related
Ensembl:ENSMUSG00000018899 AllianceGenome:MGI:96590
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-1
Summary
Enables DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific DNA binding activity. Involved in several processes, including defense response to other organism; regulation of T cell activation; and regulation of gene expression. Acts upstream of or within CD8-positive, alpha-beta T cell differentiation; positive regulation of interleukin-12 production; and positive regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. Is expressed in several structures, including early conceptus; eye; genitourinary system; and gut. Human ortholog(s) of this gene implicated in asthma; gastric adenocarcinoma; lung non-small cell carcinoma; and smallpox. Orthologous to human IRF1 (interferon regulatory factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in large intestine adult (RPKM 53.2), colon adult (RPKM 41.6) and 20 other tissues See more
Orthologs
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Genomic context

See Irf1 in Genome Data Viewer
Location:
11 B1.3; 11 32.0 cM
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (53660841..53669200)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (53770014..53778374)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene interleukin 5 Neighboring gene microRNA 7671 Neighboring gene predicted gene 12216 Neighboring gene predicted gene, 30785 Neighboring gene solute carrier family 22 (organic cation transporter), member 5

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)
  • Targeted (4)  1 citation
  • Chemically induced (ENU) (3) 
  • Endonuclease-mediated (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within CD8-positive, alpha-beta T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in I-kappaB kinase/NF-kappaB signaling ISO
Inferred from Sequence Orthology
more info
 
involved_in apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to interferon-beta ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to interleukin-1 ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to peptide hormone stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to tumor necrosis factor ISO
Inferred from Sequence Orthology
more info
 
involved_in defense response to virus IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in defense response to virus ISO
Inferred from Sequence Orthology
more info
 
involved_in immune system process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of T-helper 2 cell differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in negative regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of regulatory T cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of tyrosine phosphorylation of STAT protein ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of T-helper 1 cell differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in positive regulation of cell death ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interferon-beta production ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of interleukin-12 production IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of interleukin-12 production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of natural killer cell differentiation TAS
Traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in 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 positive regulation of type I interferon production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of CD8-positive, alpha-beta T cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of MyD88-dependent toll-like receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of adaptive immune response TAS
Traceable Author Statement
more info
PubMed 
involved_in regulation of cell cycle ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of immune response IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of innate immune response TAS
Traceable Author Statement
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in response to growth hormone ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in type II interferon-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IC
Inferred by Curator
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
interferon regulatory factor 1

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_001159393.1NP_001152865.1  interferon regulatory factor 1 isoform b

    See identical proteins and their annotated locations for NP_001152865.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 3' coding region, compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK152193, BY266109
    Consensus CDS
    CCDS48796.1
    UniProtKB/TrEMBL
    Q3U5M1
    Related
    ENSMUSP00000104550.2, ENSMUST00000108922.9
    Conserved Domains (1) summary
    pfam00605
    Location:7112
    IRF; Interferon regulatory factor transcription factor
  2. NM_001159396.1NP_001152868.1  interferon regulatory factor 1 isoform a

    See identical proteins and their annotated locations for NP_001152868.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents use of an alternate promoter and 5' non-coding exon, compared to variant 1, and encodes the longer isoform (a). Both variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AK152005, BE950981, BY328342
    Consensus CDS
    CCDS24686.1
    UniProtKB/Swiss-Prot
    P15314
    UniProtKB/TrEMBL
    A0A8C6HFR8, Q5SX13
    Related
    ENSMUSP00000019043.7, ENSMUST00000019043.13
    Conserved Domains (1) summary
    pfam00605
    Location:7112
    IRF; Interferon regulatory factor transcription factor
  3. NM_008390.2NP_032416.1  interferon regulatory factor 1 isoform a

    See identical proteins and their annotated locations for NP_032416.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Both variants 1 and 2 encode the same isoform.
    Source sequence(s)
    AK152005, BE950981, BY266109
    Consensus CDS
    CCDS24686.1
    UniProtKB/Swiss-Prot
    P15314
    UniProtKB/TrEMBL
    A0A8C6HFR8, Q5SX13
    Related
    ENSMUSP00000104548.3, ENSMUST00000108920.10
    Conserved Domains (1) summary
    pfam00605
    Location:7112
    IRF; Interferon regulatory factor transcription factor

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    53660841..53669200
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036156347.1XP_036012240.1  interferon regulatory factor 1 isoform X1