Free for academic non-profit institutions. Other users need a Commercial license

Aliases for VSIG4 Gene

Aliases for VSIG4 Gene

  • V-Set And Immunoglobulin Domain Containing 4 2 3 5
  • Protein Z39Ig 3 4
  • Z39IG 3 4
  • CRIg 3 4
  • Complement Receptor Of The Immunoglobulin Superfamily 3
  • V-Set And Immunoglobulin Domain-Containing Protein 4 3
  • Ig Superfamily Protein 3

External Ids for VSIG4 Gene

Previous GeneCards Identifiers for VSIG4 Gene

  • GC0XM065024
  • GC0XM065158
  • GC0XM065241
  • GC0XM059068

Summaries for VSIG4 Gene

Entrez Gene Summary for VSIG4 Gene

  • 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]

GeneCards Summary for VSIG4 Gene

VSIG4 (V-Set And Immunoglobulin Domain Containing 4) is a Protein Coding gene. Diseases associated with VSIG4 include T-Cell/Histiocyte Rich Large B Cell Lymphoma and Langerhans Cell Sarcoma. Among its related pathways are Complement and coagulation cascades.

UniProtKB/Swiss-Prot for VSIG4 Gene

  • Phagocytic receptor, strong negative regulator of T-cell proliferation and IL2 production. Potent inhibitor of the alternative complement pathway convertases.

Additional gene information for VSIG4 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VSIG4 Gene

Genomics for VSIG4 Gene

GeneHancer (GH) Regulatory Elements for VSIG4 Gene

Promoters and enhancers for VSIG4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH0XI066040 Promoter 0.5 EPDnew 550.8 +0.0 25 0.1 VSIG4 MIR223 GC0XM065963 GC0XM065545
GH0XI066006 Promoter/Enhancer 2.2 FANTOM5 Ensembl ENCODE dbSUPER 11.3 +25.0 24971 16.4 PKNOX1 SMAD1 ARNT POLR2B ZNF766 CBX5 E2F8 JUNB REST ZNF592 ENSG00000274536 GC0XP066014 VSIG4 MSN HEPH MIR223 GC0XM065963 GC0XM065545
GH0XI066074 Enhancer 1 FANTOM5 Ensembl ENCODE 12.9 -35.0 -34991 1.3 FOSL1 POLR2A IKZF1 GABPB1 ZBTB40 IKZF2 GABPA EIF4BP9 VSIG4 HEPH MSN LOC392485 GC0XM065963 GC0XM065545
GH0XI066045 Enhancer 1.3 FANTOM5 Ensembl ENCODE 0.4 -6.7 -6694 2.6 PKNOX1 BMI1 BATF IRF4 EGR1 ZNF207 ATF7 ETV6 BCLAF1 IKZF2 MIR223 MSN LOC392485 VSIG4 GC0XM065963 GC0XM065545
GH0XI066030 Enhancer 0.8 dbSUPER 0.4 +9.1 9056 1.6 ARNT NFRKB ZBTB40 RAD21 TCF12 ZNF143 ETV6 SMARCA5 NCOA1 REST VSIG4 MIR223 GC0XM065963 GC0XM065545
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around VSIG4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the VSIG4 gene promoter:

Genomic Locations for VSIG4 Gene

Genomic Locations for VSIG4 Gene
chrX:66,021,738-66,040,125
(GRCh38/hg38)
Size:
18,388 bases
Orientation:
Minus strand
chrX:65,241,580-65,259,967
(GRCh37/hg19)

Genomic View for VSIG4 Gene

Genes around VSIG4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VSIG4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VSIG4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VSIG4 Gene

Proteins for VSIG4 Gene

  • Protein details for VSIG4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y279-VSIG4_HUMAN
    Recommended name:
    V-set and immunoglobulin domain-containing protein 4
    Protein Accession:
    Q9Y279
    Secondary Accessions:
    • Q6UXI4

    Protein attributes for VSIG4 Gene

    Size:
    399 amino acids
    Molecular mass:
    43987 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for VSIG4 Gene

    Alternative splice isoforms for VSIG4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VSIG4 Gene

Post-translational modifications for VSIG4 Gene

No Post-translational modifications

Antibody Products

  • Abcam antibodies for VSIG4
  • Santa Cruz Biotechnology (SCBT) Antibodies for VSIG4

No data available for DME Specific Peptides for VSIG4 Gene

Domains & Families for VSIG4 Gene

Gene Families for VSIG4 Gene

Suggested Antigen Peptide Sequences for VSIG4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with VSIG4: view

No data available for UniProtKB/Swiss-Prot for VSIG4 Gene

Function for VSIG4 Gene

Molecular function for VSIG4 Gene

UniProtKB/Swiss-Prot Function:
Phagocytic receptor, strong negative regulator of T-cell proliferation and IL2 production. Potent inhibitor of the alternative complement pathway convertases.
genes like me logo Genes that share phenotypes with VSIG4: view

Animal Models for VSIG4 Gene

MGI Knock Outs for VSIG4:

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for VSIG4 Gene

Localization for VSIG4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VSIG4 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VSIG4 gene
Compartment Confidence
extracellular 5
plasma membrane 4
nucleus 2
cytosol 2
peroxisome 1
endoplasmic reticulum 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (1)
  • Nucleoli (1)
  • Plasma membrane (1)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for VSIG4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0070062 extracellular exosome HDA,IDA 23376485
genes like me logo Genes that share ontologies with VSIG4: view

Pathways & Interactions for VSIG4 Gene

genes like me logo Genes that share pathways with VSIG4: view

Pathways by source for VSIG4 Gene

1 KEGG pathway for VSIG4 Gene

Gene Ontology (GO) - Biological Process for VSIG4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006957 complement activation, alternative pathway IEA --
GO:0045087 innate immune response IEA --
genes like me logo Genes that share ontologies with VSIG4: view

No data available for SIGNOR curated interactions for VSIG4 Gene

Drugs & Compounds for VSIG4 Gene

No Compound Related Data Available

Transcripts for VSIG4 Gene

Unigene Clusters for VSIG4 Gene

V-set and immunoglobulin domain containing 4:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for VSIG4 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7
SP1:
SP2: - -
SP3: - -

Relevant External Links for VSIG4 Gene

GeneLoc Exon Structure for
VSIG4
ECgene alternative splicing isoforms for
VSIG4

Expression for VSIG4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for VSIG4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for VSIG4 Gene

This gene is overexpressed in Adipose - Visceral (Omentum) (x5.2) and Whole Blood (x4.4).

Protein differential expression in normal tissues from HIPED for VSIG4 Gene

This gene is overexpressed in Cerebrospinal fluid (19.5), Plasma (10.7), Pancreas (7.5), and Gallbladder (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for VSIG4 Gene



NURSA nuclear receptor signaling pathways regulating expression of VSIG4 Gene:

VSIG4

SOURCE GeneReport for Unigene cluster for VSIG4 Gene:

Hs.8904

mRNA Expression by UniProt/SwissProt for VSIG4 Gene:

Q9Y279-VSIG4_HUMAN
Tissue specificity: Abundantly expressed in several fetal tissues. In adult tissues, highest expression in lung and placenta. Expressed in resting macrophages.

Evidence on tissue expression from TISSUES for VSIG4 Gene

  • Nervous system(4.5)
  • Spleen(2.1)
  • Liver(2)
  • Lymph node(2)
genes like me logo Genes that share expression patterns with VSIG4: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for VSIG4 Gene

Orthologs for VSIG4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for VSIG4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VSIG4 33 34
  • 99.58 (n)
dog
(Canis familiaris)
Mammalia VSIG4 33 34
  • 83.33 (n)
cow
(Bos Taurus)
Mammalia VSIG4 34
  • 78 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vsig4 33 16 34
  • 76.89 (n)
rat
(Rattus norvegicus)
Mammalia Vsig4 33
  • 74.12 (n)
oppossum
(Monodelphis domestica)
Mammalia VSIG4 34
  • 49 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia VSIG4 34
  • 47 (a)
OneToOne
chicken
(Gallus gallus)
Aves VSIG4 34
  • 35 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VSIG4 34
  • 28 (a)
OneToOne
Species where no ortholog for VSIG4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for VSIG4 Gene

ENSEMBL:
Gene Tree for VSIG4 (if available)
TreeFam:
Gene Tree for VSIG4 (if available)

Paralogs for VSIG4 Gene

No data available for Paralogs for VSIG4 Gene

Variants for VSIG4 Gene

Sequence variations from dbSNP and Humsavar for VSIG4 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000121815 -- 66,023,546(-) C/T intron_variant
rs1000192838 -- 66,025,146(-) G/T intron_variant
rs1000304210 -- 66,032,377(-) C/T intron_variant
rs1000362041 -- 66,041,508(-) C/T upstream_transcript_variant
rs1000455936 -- 66,031,953(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for VSIG4 Gene

Variant ID Type Subtype PubMed ID
nsv6934 CNV insertion 18451855
nsv6933 CNV insertion 18451855
nsv513609 CNV insertion 21212237
esv3576919 CNV gain 25503493
esv3574013 CNV loss 25503493
esv1584074 OTHER inversion 17803354

Variation tolerance for VSIG4 Gene

Residual Variation Intolerance Score: 82% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.50; 43.82% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VSIG4 Gene

Human Gene Mutation Database (HGMD)
VSIG4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
VSIG4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VSIG4 Gene

Disorders for VSIG4 Gene

MalaCards: The human disease database

(3) MalaCards diseases for VSIG4 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
t-cell/histiocyte rich large b cell lymphoma
  • thrlbcl
langerhans cell sarcoma
  • malignant langerhans cell sarcoma
keratoconjunctivitis sicca
  • kcs
- elite association - COSMIC cancer census association via MalaCards
Search VSIG4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for VSIG4

genes like me logo Genes that share disorders with VSIG4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VSIG4 Gene

Publications for VSIG4 Gene

  1. VSIG4, a B7 family-related protein, is a negative regulator of T cell activation. (PMID: 17016562) Vogt L … Bachmann MF (The Journal of clinical investigation 2006) 2 3 4 58
  2. Cloning of Z39Ig, a novel gene with immunoglobulin-like domains located on human chromosome X. (PMID: 11004523) Langnaese K … Wieacker P (Biochimica et biophysica acta 2000) 2 3 4 58
  3. To be or not to be B7. (PMID: 17016555) Zang X … Allison JP (The Journal of clinical investigation 2006) 2 3 58
  4. Structure of C3b in complex with CRIg gives insights into regulation of complement activation. (PMID: 17051150) Wiesmann C … van Lookeren Campagne M (Nature 2006) 3 4 58
  5. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z … Henzel WJ (Protein science : a publication of the Protein Society 2004) 3 4 58

Products for VSIG4 Gene

Sources for VSIG4 Gene

Content
Loading form....