U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    VSIG4 V-set and immunoglobulin domain containing 4 [ Homo sapiens (human) ]

    Gene ID: 11326, updated on 10-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    VSIG4provided by HGNC
    Official Full Name
    V-set and immunoglobulin domain containing 4provided by HGNC
    Primary source
    HGNC:HGNC:17032
    See related
    Ensembl:ENSG00000155659 MIM:300353; AllianceGenome:HGNC:17032
    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
    CRIg; Z39IG
    Summary
    This gene encodes a v-set and immunoglobulin-domain containing protein that is structurally related to the B7 family of immune regulatory proteins. The encoded protein may be a negative regulator of T-cell responses. This protein is also a receptor for the complement component 3 fragments C3b and iC3b. Alternate splicing results in multiple transcript variants. [provided by RefSeq, May 2010]
    Expression
    Broad expression in placenta (RPKM 50.4), lung (RPKM 39.9) and 19 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See VSIG4 in Genome Data Viewer
    Location:
    Xq12
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (66021738..66040080, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (64448234..64467291, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (65241580..65259922, complement)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene RBMX pseudogene 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:65190667-65191168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:65191169-65191668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29719 Neighboring gene Sharpr-MPRA regulatory region 12317 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29720 Neighboring gene MIR223 host gene Neighboring gene microRNA 223 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chrX:65252367-65253566 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29721 Neighboring gene ATXN7L3 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 4431 Neighboring gene eukaryotic translation initiation factor 4B pseudogene 9

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. VSIG4 ameliorates intestinal inflammation through inhibiting macrophages NLRP3 inflammasome and pyroptosis. Liao Y, et al. Tissue Cell, 2024 Feb. PMID 38113649
    2. Cloning of Z39Ig, a novel gene with immunoglobulin-like domains located on human chromosome X. Langnaese K, et al. Biochim Biophys Acta, 2000 Jul 24. PMID 11004523
    3. Z39Ig is co-expressed with activated macrophage genes. Walker MG. Biochim Biophys Acta, 2002 Apr 12. PMID 11997108
    4. Characterization of monoclonal antibody specific to the Z39Ig protein, a member of immunoglobulin superfamily. Kim JK, et al. Immunol Lett, 2005 Jul 15. PMID 16009265
    5. Z39Ig is expressed on macrophages and may mediate inflammatory reactions in arthritis and atherosclerosis. Lee MY, et al. J Leukoc Biol, 2006 Oct. PMID 16882875

    See all (50) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The immunomodulatory role of paracrine signalling factor VSIG4 in peritoneal metastases.
      Title: The immunomodulatory role of paracrine signalling factor VSIG4 in peritoneal metastases.
    2. VSIG4 ameliorates intestinal inflammation through inhibiting macrophages NLRP3 inflammasome and pyroptosis.
      Title: VSIG4 ameliorates intestinal inflammation through inhibiting macrophages NLRP3 inflammasome and pyroptosis.
    3. V-Set Immunoglobulin Domain-Containing Protein 4 as a Novel Serum Biomarker of Lupus Nephritis and Renal Pathology Activity.
      Title: V-Set Immunoglobulin Domain-Containing Protein 4 as a Novel Serum Biomarker of Lupus Nephritis and Renal Pathology Activity.
    4. CRIg on liver macrophages clears pathobionts and protects against alcoholic liver disease.
      Title: CRIg on liver macrophages clears pathobionts and protects against alcoholic liver disease.
    5. Rab18 interacted with V-set and immunoglobulin domain-containing 4 (VSIG4) to involve in the apoptosis of glioma and the sensitivity to temozolomide.
      Title: Rab18 interacted with V-set and immunoglobulin domain-containing 4 (VSIG4) to involve in the apoptosis of glioma and the sensitivity to temozolomide.
    6. Impact of VSIG4 gene polymorphisms on susceptibility and functional status of rheumatoid arthritis.
      Title: Impact of VSIG4 gene polymorphisms on susceptibility and functional status of rheumatoid arthritis.
    7. The results indicated that Vsig4 expression was markedly down-regulated in fatty livers of nonalcoholic fatty liver disease patients and obese mice.
      Title: Expression of Vsig4 attenuates macrophage-mediated hepatic inflammation and fibrosis in high fat diet (HFD)-induced mice.
    8. this study shows that CRIg/FH ameliorates renal ischemia reperfusion injury via activation of PI3K/AKT signaling
      Title: Complement Inhibitor CRIg/FH Ameliorates Renal Ischemia Reperfusion Injury via Activation of PI3K/AKT Signaling.
    9. CRIg is a novel interacting partner of TRIM72 in the lung.
      Title: Inhibition of Macrophage Complement Receptor CRIg by TRIM72 Polarizes Innate Immunity of the Lung.
    10. Soluble VSIG4 levels are associated with the progression and recurrence of ovarian cancer, indicating that soluble VSIG4 may be used as a potential biomarker for predicting tumor prognosis.
      Title: The Significance of VSIG4 Expression in Ovarian Cancer.
    Submit: New GeneRIF Correction See all GeneRIFs (25)

    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

    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
    Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of V-set and immunoglobulin domain containing 4 (VSIG4) in peptide-treated PBMCs PubMed
    Nef nef The yeast two-hybrid screen identifies the HIV-1 Nef interacting human protein V-set and immunoglobulin domain containing 4 (VSIG4) in cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Go to the top of the page

    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

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables complement component C3b binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables complement component C3b binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in complement activation, alternative pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of T cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of complement activation, alternative pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of complement activation, alternative pathway IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    involved_in negative regulation of interleukin-2 production IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of macrophage activation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    V-set and immunoglobulin domain-containing protein 4
    Names
    Ig superfamily protein
    complement receptor of the immunoglobulin superfamily
    protein Z39Ig

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_021306.1 RefSeqGene

      Range
      5046..23388
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001100431.2 → NP_001093901.1  V-set and immunoglobulin domain-containing protein 4 isoform 2 precursor

      See identical proteins and their annotated locations for NP_001093901.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2), also known as CRIg(S), lacks an alternate in-frame segment compared to variant 1, resulting in a shorter isoform (2), compared to isoform 1.
      Source sequence(s)
      AL552873, BX482258, CA310184, CA405669
      Consensus CDS
      CCDS48132.1
      UniProtKB/Swiss-Prot
      Q9Y279
      Related
      ENSP00000394143.2, ENST00000412866.2
      Conserved Domains (2) summary
      smart00410
      Location:26 → 116
      IG_like; Immunoglobulin like
      cl11960
      Location:35 → 136
      Ig; Immunoglobulin domain

    2. NM_001184830.2 → NP_001171759.1  V-set and immunoglobulin domain-containing protein 4 isoform 4 precursor

      See identical proteins and their annotated locations for NP_001171759.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 3' UTR and 3' coding region, compared to variant 1. The encoded isoform (4) has a shorter C-terminus, compared to isoform 4.
      Source sequence(s)
      AJ132502, AY358341, BX482258
      Consensus CDS
      CCDS55435.1
      UniProtKB/TrEMBL
      A0A494C0F5
      Related
      ENSP00000411581.2, ENST00000455586.6
      Conserved Domains (3) summary
      cd00096
      Location:161 → 223
      Ig; Immunoglobulin domain
      smart00410
      Location:154 → 223
      IG_like; Immunoglobulin like
      cl11960
      Location:35 → 136
      Ig; Immunoglobulin domain

    3. NM_001184831.2 → NP_001171760.1  V-set and immunoglobulin domain-containing protein 4 isoform 3 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has multiple differences, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AJ132502, AK298389, AY358341, BX482258
      UniProtKB/Swiss-Prot
      Q9Y279
      Conserved Domains (2) summary
      smart00410
      Location:26 → 116
      IG_like; Immunoglobulin like
      cl11960
      Location:35 → 136
      Ig; Immunoglobulin domain

    4. NM_001257403.2 → NP_001244332.1  V-set and immunoglobulin domain-containing protein 4 isoform 5 precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) uses an alternate splice junction at the 5' end of a coding exon compared to variant 1. The resulting isoform (5) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AJ132502, AL542949, AL553835
      UniProtKB/TrEMBL
      A0A494C0F5
      Conserved Domains (3) summary
      cd00096
      Location:161 → 223
      Ig; Immunoglobulin domain
      smart00410
      Location:154 → 223
      IG_like; Immunoglobulin like
      cl11960
      Location:35 → 136
      Ig; Immunoglobulin domain

    5. NM_007268.3 → NP_009199.1  V-set and immunoglobulin domain-containing protein 4 isoform 1 precursor

      See identical proteins and their annotated locations for NP_009199.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) is also called CRIg(L). It encodes the longest isoform (1).
      Source sequence(s)
      AJ132502, BP292528, BX482258
      Consensus CDS
      CCDS14383.1
      UniProtKB/Swiss-Prot
      Q6UXI4, Q9Y279
      Related
      ENSP00000363869.4, ENST00000374737.9
      Conserved Domains (2) summary
      cd16082
      Location:146 → 231
      IgC_CRIg; Immunoglobulin (Ig) constant domain in complement receptor of the immunoglobulin superfamily (CRIg)
      cd16089
      Location:26 → 137
      IgV_CRIg; Immunoglobulin variable (IgV)-like domain in complement receptor of the immunoglobulin superfamily (CRIg)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      66021738..66040080 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      64448234..64467291 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9Y279.1 GenPept UniProtKB/Swiss-Prot:Q9Y279

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools