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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.

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

Genomics for VSIG4 Gene

Regulatory Elements for VSIG4 Gene

Enhancers for VSIG4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XF066074 1.6 FANTOM5 Ensembl ENCODE 12.9 -34.9 -34850 1.5 JUND ATF3 IKZF1 ZNF175 ZBTB40 GABPA VSIG4 HEPH MSN EIF4BP9 LOC392485
GH0XF065996 1.6 FANTOM5 Ensembl ENCODE 11.3 +30.5 30453 27.3 PKNOX1 ARNT SP5 JUNB REST TBX21 MEF2D SMARCA4 RCOR2 NBN VSIG4 MSN HEPH ENSG00000237311 GC0XP066014
GH0XF066039 0.8 Ensembl 0.8 +0.2 225 0.2 VSIG4 MIR223
GH0XF066045 1.2 FANTOM5 Ensembl ENCODE 0.4 -6.8 -6843 2.9 PKNOX1 CBX3 TBL1XR1 BMI1 EGR1 CBX5 ETV6 RCOR1 CREM CBFB MIR223 MSN VSIG4 LOC392485
GH0XF066030 0.2 Ensembl 0.4 +9.2 9225 0.2 CTCF ARNT TBL1XR1 NFRKB RAD21 FOXK2 NCOR1 SMC3 TRIM24 ETV6 VSIG4 MIR223
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around VSIG4 on UCSC Golden Path with GeneCards custom track

Genomic Location for VSIG4 Gene

Chromosome:
X
Start:
66,021,738 bp from pter
End:
66,040,125 bp from pter
Size:
18,388 bases
Orientation:
Minus strand

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

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Santa Cruz Biotechnology (SCBT) Antibodies for VSIG4

No data available for DME Specific Peptides for VSIG4 Gene

Domains & Families for VSIG4 Gene

Suggested Antigen Peptide Sequences for VSIG4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y279

UniProtKB/Swiss-Prot:

VSIG4_HUMAN :
  • Contains 2 Ig-like (immunoglobulin-like) domains.
Domain:
  • Contains 2 Ig-like (immunoglobulin-like) domains.
genes like me logo Genes that share domains with VSIG4: view

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

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , 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
Jensen Localization Image for VSIG4 Gene COMPARTMENTS Subcellular localization image for VSIG4 gene
Compartment Confidence
extracellular 5
plasma membrane 4
cytosol 2
nucleus 2
endoplasmic reticulum 1
lysosome 1
peroxisome 1
vacuole 1

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 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:0032703 negative regulation of interleukin-2 production IEA --
GO:0042130 negative regulation of T cell proliferation 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

Transcripts for VSIG4 Gene

Unigene Clusters for VSIG4 Gene

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

Flow Cytometry 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 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.
genes like me logo Genes that share expression patterns with VSIG4: view

Primer Products

No data available for Protein tissue co-expression partners 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 34 35
  • 99.58 (n)
dog
(Canis familiaris)
Mammalia VSIG4 34 35
  • 83.33 (n)
cow
(Bos Taurus)
Mammalia VSIG4 35
  • 78 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vsig4 34 16 35
  • 76.89 (n)
rat
(Rattus norvegicus)
Mammalia Vsig4 34
  • 74.12 (n)
oppossum
(Monodelphis domestica)
Mammalia VSIG4 35
  • 49 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia VSIG4 35
  • 47 (a)
OneToOne
chicken
(Gallus gallus)
Aves VSIG4 35
  • 35 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VSIG4 35
  • 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 Sequence Context AA Info Type
rs1044165 -- 66,021,884(-) TATAT(C/T)CAGGA utr-variant-3-prime
rs10555185 -- 66,038,482(+) TCTCT(-/CA)CACAC intron-variant
rs111221104 -- 66,037,466(+) TATAA(G/T)ATATA intron-variant
rs111221155 -- 66,037,374(+) TATAA(C/T)ATAAT intron-variant
rs111536853 -- 66,032,891(+) AAATA(A/G)GAAGG intron-variant

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

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

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)

Relevant External Links 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

(4) MalaCards diseases for VSIG4 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
t-cell/histiocyte rich large b cell lymphoma
  • thrlbcl
langerhans cell sarcoma
  • malignant langerhans cell sarcoma
kenny-caffey syndrome, type 1
  • xerophthalmia
lacrimal apparatus disease
  • lacrimal apparatus diseases
- elite association - COSMIC cancer census association via MalaCards
Search VSIG4 in MalaCards View complete list of genes associated with diseases

Relevant External Links for VSIG4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 M.F. (J. Clin. Invest. 2006) 2 3 4 64
  2. Cloning of Z39Ig, a novel gene with immunoglobulin-like domains located on human chromosome X. (PMID: 11004523) Langnaese K. … Wieacker P. (Biochim. Biophys. Acta 2000) 2 3 4 64
  3. To be or not to be B7. (PMID: 17016555) Zang X. … Allison J.P. (J. Clin. Invest. 2006) 2 3 64
  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 64
  5. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z. … Henzel W.J. (Protein Sci. 2004) 3 4 64

Products for VSIG4 Gene

Sources for VSIG4 Gene

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