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

    Gene ID: 3428, updated on 17-Jun-2019

    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
    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

    Genomic context

    See IFI16 in Genome Data Viewer
    Location:
    1q23.1
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (158999970..159055155)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (158979682..159024945)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene pyrin and HIN domain family member 5, pseudogene Neighboring gene pyrin and HIN domain family member 1 Neighboring gene pyrin domain containing 5 Neighboring gene uncharacterized LOC105371461 Neighboring gene absent in melanoma 2 Neighboring gene RAD1 pseudogene 2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Phenotypes

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

    HIV-1 interactions

    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

    • 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

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC9466

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    activation of cysteine-type endopeptidase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    activation of innate immune response IBA
    Inferred from Biological aspect of Ancestor
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    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 IBA
    Inferred from Biological aspect of Ancestor
    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 PubMed 
    nuclear speck IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleolus IBA
    Inferred from Biological aspect of Ancestor
    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

    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)

    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

    1. NG_029141.2 RefSeqGene

      Range
      14923..60186
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001206567.2NP_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, ENST00000359709.7
      Conserved Domains (3) summary
      cd08305
      Location:1083
      Pyrin; Pyrin: a protein-protein interaction domain
      pfam02760
      Location:145313
      HIN; HIN-200/IF120x domain
      pfam06583
      Location:343545
      Neogenin_C; Neogenin C-terminus
    2. NM_001364867.2NP_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:1083
      Pyrin; Pyrin: a protein-protein interaction domain
      pfam02760
      Location:201369
      HIN; HIN-200/IF120x domain
      cl25751
      Location:100215
      DUF4045; Domain of unknown function (DUF4045)
    3. NM_005531.3NP_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
      UniProtKB/Swiss-Prot
      Q16666
      Related
      ENSP00000357113.4, ENST00000368131.8
      Conserved Domains (2) summary
      cd08305
      Location:1083
      Pyrin; Pyrin: a protein-protein interaction domain
      pfam02760
      Location:201369
      HIN; HIN-200/IF120x domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

      Range
      158999970..159055155
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017001149.2XP_016856638.1  gamma-interferon-inducible protein 16 isoform X2

      Conserved Domains (2) summary
      cd08305
      Location:1487
      Pyrin; Pyrin: a protein-protein interaction domain
      pfam02760
      Location:205373
      HIN; HIN-200/IF120x domain
    2. XM_006711290.2XP_006711353.1  gamma-interferon-inducible protein 16 isoform X2

      Related
      ENSP00000404325.2, ENST00000448393.6
      Conserved Domains (2) summary
      cd08305
      Location:1487
      Pyrin; Pyrin: a protein-protein interaction domain
      pfam02760
      Location:205373
      HIN; HIN-200/IF120x domain
    3. XM_017001150.2XP_016856639.1  gamma-interferon-inducible protein 16 isoform X3

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