IFI16 interferon gamma inducible protein 16 [Homo sapiens (human)] - Gene

Summary

Official Symbol: IFI16provided by HGNC
Official Full Name: interferon gamma inducible protein 16provided by HGNC
Primary source: HGNC:HGNC:5395
See related: Ensembl:ENSG00000163565 MIM:147586; Vega:OTTHUMG00000037108
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: PYHIN2; IFNGIP1
Summary: This gene encodes a member of the HIN-200 (hematopoietic interferon-inducible nuclear antigens with 200 amino acid repeats) family of cytokines. The encoded protein contains domains involved in DNA binding, transcriptional regulation, and protein-protein interactions. The protein localizes to the nucleoplasm and nucleoli, and interacts with p53 and retinoblastoma-1. It modulates p53 function, and inhibits cell growth in the Ras/Raf signaling pathway. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2011]
Expression: Ubiquitous expression in lymph node (RPKM 45.3), appendix (RPKM 41.3) and 24 other tissues See more
Orthologs: all

Genomic context

Location:: 1q23.1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
109	current	GRCh38.p12 (GCF_000001405.38)	1	NC_000001.11 (158999970..159055155)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (158979682..159024945)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Interferon-gamma induced protein IFI16 is a unique host factor protein involved in the EBV lifecycle. Reduction of IFI16 protein levels following lytic cycle induction, as well as reactivation from latency after IFI16 mRNA knockdown suggests that IFI16 is crucial for the maintenance of EBV latency.
Title: Interferon-γ-inducible protein 16 (IFI16) is required for the maintenance of Epstein-Barr virus latency.
This study found IFI16 and AIM2 SNPs associated with higher levels of periodontal microorganisms and an increased percentage of periodontal disease clinical parameters.
Title: Common Polymorphisms in IFI16 and AIM2 Genes Are Associated With Periodontal Disease.
Importantly, knocking down p204, which is reported as the mouse orthologous of human IFI16, inhibited epidermal hyperplasia in mice with imiquimod-induced psoriasiform dermatitis. These findings indicate that IFI16 plays a critical role in the pathogenesis of psoriasis and may be a potential therapeutic target
Title: Up-regulation of Interferon-inducible protein 16 contributes to psoriasis by modulating chemokine production in keratinocytes.
IFI16 is a tumour suppressor in HCC via activation of p53 signals and inflammasome
Title: IFI16 restoration in hepatocellular carcinoma induces tumour inhibition via activation of p53 signals and inflammasome.
in a cohort of patients with genital herpes and healthy controls, the minor G allele of the IFI16 single nucleotide polymorphism rs2276404 was associated with resistance to infection
Title: Cutting Edge: Genetic Association between IFI16 Single Nucleotide Polymorphisms and Resistance to Genital Herpes Correlates with IFI16 Expression Levels and HSV-2-Induced IFN-β Expression.
study identifies the AIM2 inflammasome and cGAS/IFI16-STING-type I IFN pathway as a novel mechanism for host innate immunity to the ALVAC vaccine vector.
Title: Priming and Activation of Inflammasome by Canarypox Virus Vector ALVAC via the cGAS/IFI16-STING-Type I IFN Pathway and AIM2 Sensor.
this study shows that IFI16 is not essential for the IFN response to human cytomegalovirus infection
Title: The AIM2-like Receptors Are Dispensable for the Interferon Response to Intracellular DNA.
findings show that IFI16 rapidly oligomerizes at incoming herpesvirus genomes at the nuclear periphery to transcriptionally repress viral gene expression and limit viral replicative capacity; further demonstrate that IFI16 does not initiate upstream activation of the canonical STING/TBK-1/IRF3 signaling pathway but is required for downstream antiviral cytokine expression.
Title: Viral DNA Sensors IFI16 and Cyclic GMP-AMP Synthase Possess Distinct Functions in Regulating Viral Gene Expression, Immune Defenses, and Apoptotic Responses during Herpesvirus Infection.
The authors observed that a reduced IFI16 expression was associated with a very poor survival in chronic lymphocytic leukemia, but only in cases with ZAP70/CD38 expression.
Title: IFI16 reduced expression is correlated with unfavorable outcome in chronic lymphocytic leukemia.
Findings indicate that expression of the scleroderma autoantigens IFI-16 and CENPs, which are associated with severe vascular disease, is increased in vascular progenitors and mature endothelial cells. High level, lineage-enriched expression of autoantigens may explain the striking association between clinical phenotypes and the immune targeting of specific autoantigens.
Title: Enrichment of Scleroderma Vascular Disease-Associated Autoantigens in Endothelial Lineage Cells.

Submit: New GeneRIF Correction See all GeneRIFs (100)

Phenotypes

Go to the top of the page Help

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

NHGRI GWAS Catalog

Description
Genome-wide association and population genetic analysis of C-reactive protein in African American and Hispanic American women. NHGRI GWA Catalog NHGRI GWA CatalogPubMed
GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children. NHGRI GWA Catalog NHGRI GWA CatalogPubMed
Meta-analysis of genome-wide association studies in celiac disease and rheumatoid arthritis identifies fourteen non-HLA shared loci. NHGRI GWA Catalog NHGRI GWA CatalogPubMed
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. NHGRI GWA Catalog NHGRI GWA CatalogPubMed

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

Go to the top of the page Help

Protein interactions

Protein	Gene	Interaction	Pubs
Nef	nef	Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Nef may antagonize restriction activity of IFI16 against production of infectious wild-type HIV-1	PubMed
Pr55(Gag)	gag	HIV-1 Gag interacts with IfI16 as demonstrated by proximity dependent biotinylation proteomics	PubMed
Tat	tat	Microarray analysis indicates HIV-1 Tat upregulates the interferon-responsive gene expression of many proteins, including IFI16, in immature dendritic cells, an effect that likely facilitates the expansion of HIV-1 infection	PubMed
Vpr	vpr	Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Vpr may antagonize restriction activity of IFI16 against production of infectious wild-type HIV-1	PubMed
Vpu	vpu	Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Vpu may antagonize restriction activity of IFI16 against production of infectious wild-type HIV-1	PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Go to the top of the page Help

Cytosolic sensors of pathogen-associated DNA, organism-specific biosystem (from REACTOME)
Cytosolic sensors of pathogen-associated DNA, organism-specific biosystemPresence of pathogen-associated DNA in cytosol induces type I IFN production. Several intracellular receptors have been implicated to some degree. These include DNA-dependent activator of interferon ...
IRF3-mediated induction of type I IFN, organism-specific biosystem (from REACTOME)
IRF3-mediated induction of type I IFN, organism-specific biosystemTANK-binding kinase 1 (TBK1) and interferon regulatory factor 3 (IRF3) are central regulators of type-I interferon induction during bacterial or viral infection. TBK1 was found to form complexes with...
Immune System, organism-specific biosystem (from REACTOME)
Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
Innate Immune System, organism-specific biosystem (from REACTOME)
Innate Immune System, organism-specific biosystemInnate immunity encompases the nonspecific part of immunity tha are part of an individual's natural biologic makeup
NOD-like receptor signaling pathway, organism-specific biosystem (from KEGG)
NOD-like receptor signaling pathway, organism-specific biosystemSpecific families of pattern recognition receptors are responsible for detecting various pathogens and generating innate immune responses. The intracellular NOD-like receptor (NLR) family contains mo...
NOD-like receptor signaling pathway, conserved biosystem (from KEGG)
NOD-like receptor signaling pathway, conserved biosystemSpecific families of pattern recognition receptors are responsible for detecting various pathogens and generating innate immune responses. The intracellular NOD-like receptor (NLR) family contains mo...
STING mediated induction of host immune responses, organism-specific biosystem (from REACTOME)
STING mediated induction of host immune responses, organism-specific biosystemSTING (stimulator of IFN genes; also known as MITA/ERIS/MPYS/TMEM173) is an endoplasmic reticulum (ER) resident, which is required for effective type I IFN production in response to nucleic acids. In...
Senescence and Autophagy in Cancer, organism-specific biosystem (from WikiPathways)
Senescence and Autophagy in Cancer, organism-specific biosystemSenescense and Autophagy Pathways in Cancer

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

G60217 (e-PCR)
- UniSTS:137474

SHGC-83418 (e-PCR)
- UniSTS:101918

D1S3285 (e-PCR)
- UniSTS:67710

RH48430 (e-PCR)
- UniSTS:27793

SHGC-35795 (e-PCR)
- UniSTS:20127

D1S1562 (e-PCR)
- UniSTS:43935

AL009415 (e-PCR)
- UniSTS:40878

SHGC-52731 (e-PCR)
- UniSTS:67281

RH103 (e-PCR)
- UniSTS:2007

AL009999 (e-PCR)
- UniSTS:5870

Homology

Homologs of the IFI16 gene: The IFI16 gene is conserved in chimpanzee, Rhesus monkey, mouse, and rat.
Orthologs from Annotation Pipeline: 37 organisms have orthologs with human gene IFI16
The Hierarchical Catalog of Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
DNA-binding transcription repressor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
RNA binding	HDA more info	PubMed
RNA polymerase II proximal promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
protein binding	IPI Inferred from Physical Interaction more info	PubMed
transcription factor binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
activation of cysteine-type endopeptidase activity	IMP Inferred from Mutant Phenotype more info	PubMed
activation of innate immune response	IDA Inferred from Direct Assay more info	PubMed
autophagy	IEA Inferred from Electronic Annotation more info
cell proliferation	NAS Non-traceable Author Statement more info	PubMed
cellular response to glucose starvation	IDA Inferred from Direct Assay more info	PubMed
cellular response to interferon-beta	IEA Inferred from Electronic Annotation more info
cellular response to ionizing radiation	IDA Inferred from Direct Assay more info	PubMed
defense response to virus	IDA Inferred from Direct Assay more info	PubMed
defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
hemopoiesis	NAS Non-traceable Author Statement more info	PubMed
inflammatory response	IEA Inferred from Electronic Annotation more info
innate immune response	IEA Inferred from Electronic Annotation more info
intrinsic apoptotic signaling pathway by p53 class mediator	IMP Inferred from Mutant Phenotype more info	PubMed
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator	IDA Inferred from Direct Assay more info	PubMed
monocyte differentiation	IDA Inferred from Direct Assay more info	PubMed
myeloid cell differentiation	NAS Non-traceable Author Statement more info	PubMed
negative regulation of DNA binding	IDA Inferred from Direct Assay more info	PubMed
negative regulation of cysteine-type endopeptidase activity	IDA Inferred from Direct Assay more info	PubMed
negative regulation of innate immune response	IDA Inferred from Direct Assay more info	PubMed
negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of transcription, DNA-templated	IDA Inferred from Direct Assay more info	PubMed
negative regulation of viral genome replication	IDA Inferred from Direct Assay more info	PubMed
positive regulation of cytokine production	TAS Traceable Author Statement more info	PubMed
positive regulation of interleukin-1 beta production	IDA Inferred from Direct Assay more info	PubMed
positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of type I interferon production	TAS Traceable Author Statement more info
regulation of autophagy	IEP Inferred from Expression Pattern more info	PubMed
regulation of gene expression, epigenetic	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
cytosol	IDA Inferred from Direct Assay more info
colocalizes_with cytosol	IPI Inferred from Physical Interaction more info	PubMed
cytosol	TAS Traceable Author Statement more info
membrane	HDA more info	PubMed
nuclear speck	IDA Inferred from Direct Assay more info	PubMed
nucleolus	IDA Inferred from Direct Assay more info	PubMed
nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: gamma-interferon-inducible protein 16

Names: IFI16 beta isoform; interferon-gamma induced protein IFI 16; interferon-inducible myeloid differentiation transcriptional activator

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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.

Genomic

NG_029141.2 RefSeqGene

Range

14923..60186

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001206567.1 → NP_001193496.1 gamma-interferon-inducible protein 16 isoform 1

Status: REVIEWED

Description

Transcript Variant: This variant (1) lacks an in-frame exon in the 5' coding region and has an additional in-frame exon in the 3' coding region, compared to variant 2. The additional exon is described as exon 7a in PMID:9718316. The resulting isoform (1) is of the same size but lacks a segment in the N-terminal region and has an additional segment in the C-terminal region, compared to isoform 2. Note the CDS was annotated to initiate translation from an in-frame downstream AUG, as it is flanked by a strong Kozak signal, and is better conserved than the upstream AUG located 4 codons upstream.

Source sequence(s)

AK296228, BM806453, DA945454, DB273519, M63838

Consensus CDS

CCDS58039.1

UniProtKB/Swiss-Prot

Q16666

Related

ENSP00000352740.3, OTTHUMP00000249915, ENST00000359709.7, OTTHUMT00000421721

Conserved Domains (3) summary

cd08305
Location:10 → 83

Pyrin; Pyrin: a protein-protein interaction domain

pfam02760
Location:145 → 313

HIN; HIN-200/IF120x domain

pfam06583
Location:343 → 545

Neogenin_C; Neogenin C-terminus
NM_001364867.1 → NP_001351796.1 gamma-interferon-inducible protein 16 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (3) encodes the longest isoform (3, also known as IFI 16A).

Source sequence(s)

AL359753

Conserved Domains (3) summary

cd08305
Location:10 → 83

Pyrin; Pyrin: a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain

cl25751
Location:100 → 215

DUF4045; Domain of unknown function (DUF4045)
NM_005531.2 → NP_005522.2 gamma-interferon-inducible protein 16 isoform 2

See identical proteins and their annotated locations for NP_005522.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) consists of 11 exons and encodes isoform 2 (also known as isoform B, PMIDs:9718316 and 12588705). Note the CDS was annotated to initiate translation from an in-frame downstream AUG, as it is flanked by a strong Kozak signal, and is better conserved than the upstream AUG located 4 codons upstream.

Source sequence(s)

AL359753, BC017059, BM993134, DA990524, M63838

Consensus CDS

CCDS1180.3

UniProtKB/Swiss-Prot

Q16666

Related

ENSP00000357113.4, OTTHUMP00000035192, ENST00000368131.8, OTTHUMT00000090101

Conserved Domains (2) summary

cd08305
Location:10 → 83

Pyrin; Pyrin: a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...

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

Reference GRCh38.p12 Primary Assembly

Genomic

NC_000001.11 Reference GRCh38.p12 Primary Assembly

Range

158999970..159055155

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005245127.4 → XP_005245184.1 gamma-interferon-inducible protein 16 isoform X1

Related

ENSP00000295809.7, OTTHUMP00000249914, ENST00000295809.11
XM_017001149.2 → XP_016856638.1 gamma-interferon-inducible protein 16 isoform X2

Conserved Domains (2) summary

cd08305
Location:14 → 87

Pyrin; Pyrin: a protein-protein interaction domain

pfam02760
Location:205 → 373

HIN; HIN-200/IF120x domain
XM_006711290.2 → XP_006711353.1 gamma-interferon-inducible protein 16 isoform X2

Related

ENSP00000404325.2, OTTHUMP00000035197, ENST00000448393.6

Conserved Domains (2) summary

cd08305
Location:14 → 87

Pyrin; Pyrin: a protein-protein interaction domain

pfam02760
Location:205 → 373

HIN; HIN-200/IF120x domain
XM_017001150.2 → XP_016856639.1 gamma-interferon-inducible protein 16 isoform X3