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

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, Nov 2024]
Expression: Ubiquitous expression in thymus adult (RPKM 26.3), spleen adult (RPKM 21.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

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_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Activation of the cGAS-STING-IRF3 Axis by Type I and II Interferons Contributes to Host Defense.
Title: Activation of the cGAS-STING-IRF3 Axis by Type I and II Interferons Contributes to Host Defense.
Inflammation causes insulin resistance in mice via interferon regulatory factor 3 (IRF3)-mediated reduction in FAHFA levels.
Title: Inflammation causes insulin resistance in mice via interferon regulatory factor 3 (IRF3)-mediated reduction in FAHFA levels.
IRF3 regulates neuroinflammatory responses and the expression of genes associated with Alzheimer's disease.
Title: IRF3 regulates neuroinflammatory responses and the expression of genes associated with Alzheimer's disease.
AgRP neuron cis-regulatory analysis across hunger states reveals that IRF3 mediates leptin's acute effects.
Title: AgRP neuron cis-regulatory analysis across hunger states reveals that IRF3 mediates leptin's acute effects.
Foot-and-mouth disease virus VP1 degrades YTHDF2 through autophagy to regulate IRF3 activity for viral replication.
Title: Foot-and-mouth disease virus VP1 degrades YTHDF2 through autophagy to regulate IRF3 activity for viral replication.
ATG7/GAPLINC/IRF3 axis plays a critical role in regulating pathogenesis of influenza A virus.
Title: ATG7/GAPLINC/IRF3 axis plays a critical role in regulating pathogenesis of influenza A virus.
Susceptibility to Zika virus in a Collaborative Cross mouse strain is induced by Irf3 deficiency in vitro but requires other variants in vivo.
Title: Susceptibility to Zika virus in a Collaborative Cross mouse strain is induced by Irf3 deficiency in vitro but requires other variants in vivo.
IRF3 Activation in Mast Cells Promotes FcepsilonRI-Mediated Allergic Inflammation.
Title: IRF3 Activation in Mast Cells Promotes FcεRI-Mediated Allergic Inflammation.
p120-catenin promotes innate antiviral immunity through stabilizing TBK1-IRF3 complex.
Title: p120-catenin promotes innate antiviral immunity through stabilizing TBK1-IRF3 complex.
Pim1 promotes IFN-beta production by interacting with IRF3.
Title: Pim1 promotes IFN-β production by interacting with IRF3.

Submit: New GeneRIF Correction See all GeneRIFs (178)

Variation

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Alleles

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

Endonuclease-mediated (7) 1 citation
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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

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Preferred Names: interferon regulatory factor 3

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)

NM_016849.4 → NP_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:7 → 110

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:196 → 373

IRF-3; Interferon-regulatory factor 3

RNA

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

NC_000073.7 Reference GRCm39 C57BL/6J

Range

44647072..44652272

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006540996.4 → XP_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:7 → 110

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:196 → 373

IRF-3; Interferon-regulatory factor 3
XM_006540995.5 → XP_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:7 → 110

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:196 → 373

IRF-3; Interferon-regulatory factor 3