Irf9 interferon regulatory factor 9 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Irf9provided by MGI
Official Full Name: interferon regulatory factor 9provided by MGI
Primary source: MGI:MGI:107587
See related: Ensembl:ENSMUSG00000002325 AllianceGenome:MGI:107587
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: p48; Irf-9; Isgf3g
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in immune system process and positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol. Predicted to be part of ISGF3 complex. Predicted to be active in nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; hemolymphoid system gland; and sensory organ. Human ortholog(s) of this gene implicated in immunodeficiency 65. Orthologous to human IRF9 (interferon regulatory factor 9). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in spleen adult (RPKM 24.9), thymus adult (RPKM 20.8) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 14 C3; 14 28.19 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (55841442..55847487)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (55603985..55610030)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Suppression of IRF9 Promotes Osteoclast Differentiation by Decreased Ferroptosis via STAT3 Activation.
Title: Suppression of IRF9 Promotes Osteoclast Differentiation by Decreased Ferroptosis via STAT3 Activation.
Long non-coding RNA TTTY15 sponges miR-520a-3p to exacerbate neural apoptosis induced by cerebral ischemia/reperfusion via targeting IRF9 both in vivo and in vitro.
Title: Long non-coding RNA TTTY15 sponges miR-520a-3p to exacerbate neural apoptosis induced by cerebral ischemia/reperfusion via targeting IRF9 both in vivo and in vitro.
An MRTF-A-ZEB1-IRF9 axis contributes to fibroblast-myofibroblast transition and renal fibrosis.
Title: An MRTF-A-ZEB1-IRF9 axis contributes to fibroblast-myofibroblast transition and renal fibrosis.
MiR-17 Knockdown Promotes Vascular Smooth Muscle Cell Phenotypic Modulation Through Upregulated Interferon Regulator Factor 9 Expression.
Title: MiR-17 Knockdown Promotes Vascular Smooth Muscle Cell Phenotypic Modulation Through Upregulated Interferon Regulator Factor 9 Expression.
We found that IRF5-dominant regions differed fundamentally from the IRF3- and IRF9-dominant regions: ISREs were rare, while the NFKB motif and special ISRE half-sites, such as 5'-GAGA-3' and 5'-GACA-3', were enriched
Title: Specific enhancer selection by IRF3, IRF5 and IRF9 is determined by ISRE half-sites, 5' and 3' flanking bases, collaborating transcription factors and the chromatin environment in a combinatorial fashion.
Both type I IFN and IFN-gamma cause promoter binding of a complete ISGF3 complex containing STAT1, STAT2 and IRF9.
Title: A molecular switch from STAT2-IRF9 to ISGF3 underlies interferon-induced gene transcription.
Surface features in the interacting domains of IRF9 and STAT2 have diverged to enable specific interaction between these family members and to enable the antiviral response.
Title: Structural basis of STAT2 recognition by IRF9 reveals molecular insights into ISGF3 function.
findings illustrate an essential role for IRF9, as a mediator downstream of IFNAR, in preventing overwhelming antigen exposure causing CD8(+) T cell exhaustion and leading to chronic viral infection.
Title: IRF9 Prevents CD8(+) T Cell Exhaustion in an Extrinsic Manner during Acute Lymphocytic Choriomeningitis Virus Infection.
We found that STAT-1(-/-) MRL lpr m, but not IRF-9(-/-) or IFNAR-2(-/-) mice, developed interstitial nephritis characterized by infiltration with RORgammat-positive lymphocytes, macrophages, and eosinophils.
Title: Development of Th17-Associated Interstitial Kidney Inflammation in Lupus-Prone Mice Lacking the Gene Encoding STAT-1.
IFN-I can mediate ISG expression inmixed glial cell cultures (MGCs) via ISGF3-independent signaling pathways but with reduced efficiency, with delayed and prolonged kinetics, and is more dependent on STAT1 and STAT2 than IRF9; and 2) signaling pathways not involving STAT1, STAT2, or IRF9 play a minor role only in mediating IFN-alpha-stimulated genes expression in MGCs.
Title: Type I interferon-regulated gene expression and signaling in murine mixed glial cells lacking signal transducers and activators of transcription 1 or 2 or interferon regulatory factor 9.

Submit: New GeneRIF Correction See all GeneRIFs (28)

Variation

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Alleles

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

Chemically induced (ENU) (1)
Endonuclease-mediated (2)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Isgf3g (e-PCR), detects polymorphism
- UniSTS:143606

Isgf3g (e-PCR), detects polymorphism
- UniSTS:143607

RH124195 (e-PCR)
- UniSTS:161017

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor 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	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in immune system process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	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 regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within type I interferon production	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of ISGF3 complex	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: interferon regulatory factor 9

Names: IFN-alpha-responsive transcription factor subunit; ISGF-3 gamma; ISGF3 p48 subunit; interferon dependent positive acting transcription factor 3 gamma; interferon-stimulated gene factor 3 gamma; transcriptional regulator ISGF3 subunit gamma

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_001159417.1 → NP_001152889.1 interferon regulatory factor 9 isoform 1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC174678, BB860586, BY761438, CK788642, CN531811, U51992

Consensus CDS

CCDS49496.1

UniProtKB/TrEMBL

E9PZJ2

Related

ENSMUSP00000120525.2, ENSMUST00000134863.8

Conserved Domains (2) summary

pfam00605
Location:77 → 181

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:277 → 443

IRF-3; Interferon-regulatory factor 3
NM_001159418.1 → NP_001152890.1 interferon regulatory factor 9 isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region, compared to variant 1, resulting in an isoform (2) with a distinct and shorter N-terminus, compared to isoform 1.

Source sequence(s)

AC174678, BY761438, U51992

Consensus CDS

CCDS49497.1

UniProtKB/TrEMBL

E9Q8M6

Related

ENSMUSP00000119477.2, ENSMUST00000138037.2

Conserved Domains (2) summary

pfam00605
Location:29 → 133

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:229 → 395

IRF-3; Interferon-regulatory factor 3
NM_008394.3 → NP_032420.1 interferon regulatory factor 9 isoform 3

See identical proteins and their annotated locations for NP_032420.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate exon in the 5' coding region and uses a downstream translational start codon, compared to variant 1. The resulting isoform (3) is shorter at the N-terminus, compared to isoform 1.

Source sequence(s)

AC174678, BY761438, CN531811, U51992

Consensus CDS

CCDS27119.1

UniProtKB/Swiss-Prot

Q61179

UniProtKB/TrEMBL

Q3UKQ7

Related

ENSMUSP00000120359.2, ENSMUST00000130697.8

Conserved Domains (2) summary

pfam00605
Location:11 → 115

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:212 → 375

IRF-3; Interferon-regulatory factor 3