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; AllianceGenome:HGNC:5395
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
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Genomic context

Location:: 1q23.1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (158999976..159055151)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (158137044..158192189)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (158969766..159024941)

Chromosome 1 - NC_000001.11 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: 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 Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

IFI16 Positively Regulates RIG-I-Mediated Type I Interferon Production in a STING-Independent Manner.
Title: IFI16 Positively Regulates RIG-I-Mediated Type I Interferon Production in a STING-Independent Manner.
IFI16 Is Indispensable for Promoting HIF-1alpha-Mediated APOL1 Expression in Human Podocytes under Hypoxic Conditions.
Title: IFI16 Is Indispensable for Promoting HIF-1α-Mediated APOL1 Expression in Human Podocytes under Hypoxic Conditions.
Association of salivary levels of DNA sensing inflammasomes AIM2, IFI16, and cytokine IL18 with periodontitis and diabetes.
Title: Association of salivary levels of DNA sensing inflammasomes AIM2, IFI16, and cytokine IL18 with periodontitis and diabetes.
IFI16 Induced by Direct Interaction between Esophageal Squamous Cell Carcinomas and Macrophages Promotes Tumor Progression via Secretion of IL-1alpha.
Title: IFI16 Induced by Direct Interaction between Esophageal Squamous Cell Carcinomas and Macrophages Promotes Tumor Progression via Secretion of IL-1α.
Effects of AIM2 and IFI16 on Infectious Diseases and Inflammation.
Title: Effects of AIM2 and IFI16 on Infectious Diseases and Inflammation.
IFI16 phase separation via multi-phosphorylation drives innate immune signaling.
Title: IFI16 phase separation via multi-phosphorylation drives innate immune signaling.
IFI16/Ifi202 released from breast cancer induces secretion of inflammatory cytokines from macrophages and promotes tumor growth.
Title: IFI16/Ifi202 released from breast cancer induces secretion of inflammatory cytokines from macrophages and promotes tumor growth.
Filament assembly underpins the double-stranded DNA specificity of AIM2-like receptors.
Title: Filament assembly underpins the double-stranded DNA specificity of AIM2-like receptors.
Inflammasome genes polymorphisms are associated with progression to mechanical ventilation and death in a cohort of hospitalized COVID-19 patients in a reference hospital in Rio de Janeiro, Brazil.
Title: Inflammasome genes polymorphisms are associated with progression to mechanical ventilation and death in a cohort of hospitalized COVID-19 patients in a reference hospital in Rio de Janeiro, Brazil.
Sirt1 Negatively Regulates Cellular Antiviral Responses by Preventing the Cytoplasmic Translocation of Interferon-Inducible Protein 16 in Human Cells.
Title: Sirt1 Negatively Regulates Cellular Antiviral Responses by Preventing the Cytoplasmic Translocation of Interferon-Inducible Protein 16 in Human Cells.

Submit: New GeneRIF Correction See all GeneRIFs (149)

Phenotypes

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

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables double-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription factor binding	IDA Inferred from Direct Assay more info	PubMed

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

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

General protein information

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Preferred Names: gamma-interferon-inducible protein 16

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

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.

Genomic

NG_029141.2 RefSeqGene

Range

14938..60182

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001206567.2 → 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

Related

ENSP00000352740.3, ENST00000359709.7

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_001364867.2 → 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

Consensus CDS

CCDS91079.1

UniProtKB/Swiss-Prot

A0A346JEQ3, B4DJT8, H3BLV7, Q16666, Q59GX0, Q5T3W7, Q5T3W8, Q5T3X0, Q5T3X1, Q5T3X2, Q8N9E5, Q8NEQ7, Q96AJ5, Q9UH78

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_001376587.1 → NP_001363516.1 gamma-interferon-inducible protein 16 isoform 3

Status: REVIEWED

Source sequence(s)

AL359753

Consensus CDS

CCDS91079.1

UniProtKB/Swiss-Prot

A0A346JEQ3, B4DJT8, H3BLV7, Q16666, Q59GX0, Q5T3W7, Q5T3W8, Q5T3X0, Q5T3X1, Q5T3X2, Q8N9E5, Q8NEQ7, Q96AJ5, Q9UH78

Related

ENSP00000295809.7, ENST00000295809.12

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_001376588.1 → NP_001363517.1 gamma-interferon-inducible protein 16 isoform 2

Status: REVIEWED

Source sequence(s)

AL359753

Consensus CDS

CCDS1180.3

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_001376589.1 → NP_001363518.1 gamma-interferon-inducible protein 16 isoform 2

Status: REVIEWED

Source sequence(s)

AL359753

Consensus CDS

CCDS1180.3

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_001376591.1 → NP_001363520.1 gamma-interferon-inducible protein 16 isoform 4

Status: REVIEWED

Source sequence(s)

AL359753

Consensus CDS

CCDS91080.1

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_001376592.1 → NP_001363521.1 gamma-interferon-inducible protein 16 isoform 4

Status: REVIEWED

Source sequence(s)

AL359753

Consensus CDS

CCDS91080.1

Related

ENSP00000404325.2, ENST00000448393.6

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain
NM_005531.3 → 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, DA990524, M63838

Consensus CDS

CCDS1180.3

Related

ENSP00000357113.4, ENST00000368131.8

Conserved Domains (3) summary

PTZ00449
Location:100 → 215

PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional

cd08305
Location:10 → 83

Pyrin; a protein-protein interaction domain

pfam02760
Location:201 → 369

HIN; HIN-200/IF120x domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000001.11 Reference GRCh38.p14 Primary Assembly

Range

158999976..159055151

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047419411.1 → XP_047275367.1 gamma-interferon-inducible protein 16 isoform X2
XM_047419406.1 → XP_047275362.1 gamma-interferon-inducible protein 16 isoform X1
XM_047419399.1 → XP_047275355.1 gamma-interferon-inducible protein 16 isoform X1
XM_047419413.1 → XP_047275369.1 gamma-interferon-inducible protein 16 isoform X2

RNA

XR_007059344.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

NC_060925.1 Alternate T2T-CHM13v2.0

Range

158137044..158192189

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054336307.1 → XP_054192282.1 gamma-interferon-inducible protein 16 isoform X1
XM_054336310.1 → XP_054192285.1 gamma-interferon-inducible protein 16 isoform X2
XM_054336308.1 → XP_054192283.1 gamma-interferon-inducible protein 16 isoform X1
XM_054336306.1 → XP_054192281.1 gamma-interferon-inducible protein 16 isoform X1
XM_054336309.1 → XP_054192284.1 gamma-interferon-inducible protein 16 isoform X2