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Aliases for VSIR Gene

Aliases for VSIR Gene

  • V-Set Immunoregulatory Receptor 2 3 5
  • V-Set Domain-Containing Immunoregulatory Receptor 3 4
  • V-Domain Ig Suppressor Of T Cell Activation 2 3
  • Stress-Induced Secreted Protein-1 3 4
  • PDCD1 Homolog 2 3
  • C10orf54 3 4
  • Sisp-1 3 4
  • SISP1 3 4
  • VISTA 3 4
  • V-Type Immunoglobulin Domain-Containing Suppressor Of T-Cell Activation 3
  • Chromosome 10 Open Reading Frame 54 2
  • Stress Induced Secreted Protein 1 2
  • Platelet Receptor GI24 3
  • Platelet Receptor Gi24 4
  • Death Domain1alpha 3
  • DD1alpha 3
  • PP2135 3
  • B7-H5 3
  • PD-1H 3
  • B7H5 3
  • GI24 3

External Ids for VSIR Gene

Previous HGNC Symbols for VSIR Gene

  • C10orf54

Summaries for VSIR Gene

GeneCards Summary for VSIR Gene

VSIR (V-Set Immunoregulatory Receptor) is a Protein Coding gene. Diseases associated with VSIR include Parasagittal Meningioma and Solar Retinopathy. Among its related pathways are T Cell Co-Signaling Pathway: Ligand-Receptor Interactions and NF-kappaB Signaling.

UniProtKB/Swiss-Prot for VSIR Gene

  • Immunoregulatory receptor which inhibits the T-cell response (PubMed:24691993). May promote differentiation of embryonic stem cells, by inhibiting BMP4 signaling (By similarity). May stimulate MMP14-mediated MMP2 activation (PubMed:20666777).

Gene Wiki entry for VSIR Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VSIR Gene

Genomics for VSIR Gene

Regulatory Elements for VSIR Gene

Enhancers for VSIR 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
GH10G071762 1.8 FANTOM5 ENCODE dbSUPER 53.6 +3.6 3590 14.1 HDGF PKNOX1 FOXA2 CREB3L1 SIN3A ARID4B YBX1 ZNF2 ZNF766 ZNF207 VSIR CDH23 C10orf105 PSAP SPOCK2
GH10G071725 1.8 FANTOM5 Ensembl ENCODE dbSUPER 45.7 +46.1 46060 4.6 HDGF PKNOX1 ZNF121 GLIS2 GATA2 ELK1 ZNF143 FOS REST ZNF592 VSIR CDH23 C10orf105 PSAP GC10P071695
GH10G071745 1.9 FANTOM5 Ensembl ENCODE dbSUPER 15.5 +21.1 21105 14.7 HDGF PKNOX1 CREB3L1 ARNT WRNIP1 YY1 ZNF766 CBX5 ZNF143 FOS VSIR CDH23 C10orf105
GH10G071712 1.6 FANTOM5 Ensembl ENCODE dbSUPER 16.8 +58.3 58306 6.9 ATF1 NFRKB EGR2 ZBTB11 ELF4 USF2 ELF1 ZNF592 MEF2D TFDP1 VSIR CDH23 GC10P071695 C10orf105
GH10G071740 1.3 Ensembl ENCODE dbSUPER 18 +31.6 31552 4.5 BCOR HDAC1 CTCF KLF1 PKNOX1 ZMYM3 MAX ZBTB40 FOSL1 ZNF316 VSIR PSAP DNAJB12 C10orf105
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around VSIR on UCSC Golden Path with GeneCards custom track

Promoters for VSIR Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000029602 580 1601 HDGF PKNOX1 ATF1 CREB3L1 SIN3A ZNF48 ZNF766 GLIS2 ZNF207 ZNF143

Genomic Location for VSIR Gene

Chromosome:
10
Start:
71,747,556 bp from pter
End:
71,773,580 bp from pter
Size:
26,025 bases
Orientation:
Minus strand

Genomic View for VSIR Gene

Genes around VSIR on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for VSIR Gene

Proteins for VSIR Gene

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

    Protein Symbol:
    Q9H7M9-VISTA_HUMAN
    Recommended name:
    V-type immunoglobulin domain-containing suppressor of T-cell activation
    Protein Accession:
    Q9H7M9
    Secondary Accessions:
    • A1L0X9
    • A4ZYV1
    • A8MVH5
    • Q6UXF3
    • Q8WUG3
    • Q8WYZ8

    Protein attributes for VSIR Gene

    Size:
    311 amino acids
    Molecular mass:
    33908 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAL55778.1; Type=Erroneous termination; Positions=84; Note=Translated as Ser.; Evidence={ECO:0000305}; Sequence=AAL55778.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Sequence of unknown origin in the N-terminal part.; Evidence={ECO:0000305}; Sequence=BAB15739.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

neXtProt entry for VSIR Gene

Post-translational modifications for VSIR Gene

Other Protein References for VSIR Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for VSIR Gene

Domains & Families for VSIR Gene

Gene Families for VSIR Gene

Protein Domains for VSIR Gene

Suggested Antigen Peptide Sequences for VSIR Gene

Graphical View of Domain Structure for InterPro Entry

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

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

Function for VSIR Gene

Molecular function for VSIR Gene

UniProtKB/Swiss-Prot Function:
Immunoregulatory receptor which inhibits the T-cell response (PubMed:24691993). May promote differentiation of embryonic stem cells, by inhibiting BMP4 signaling (By similarity). May stimulate MMP14-mediated MMP2 activation (PubMed:20666777).
genes like me logo Genes that share phenotypes with VSIR: view

Animal Models for VSIR Gene

MGI Knock Outs for VSIR:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VSIR Gene

Localization for VSIR Gene

Subcellular locations from UniProtKB/Swiss-Prot for VSIR Gene

Cell 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 VSIR gene
Compartment Confidence
plasma membrane 5
nucleus 2
extracellular 1
cytoskeleton 1
endoplasmic reticulum 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for VSIR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with VSIR: view

Pathways & Interactions for VSIR Gene

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

Pathways by source for VSIR Gene

1 Cell Signaling Technology pathway for VSIR Gene
1 R&D Systems pathway for VSIR Gene

Gene Ontology (GO) - Biological Process for VSIR Gene

None

No data available for SIGNOR curated interactions for VSIR Gene

Transcripts for VSIR Gene

mRNA/cDNA for VSIR Gene

(1) REFSEQ mRNAs :
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for VSIR Gene

GeneLoc Exon Structure for
VSIR
ECgene alternative splicing isoforms for
VSIR

Expression for VSIR Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of VSIR Gene:

VSIR

mRNA Expression by UniProt/SwissProt for VSIR Gene:

Q9H7M9-VISTA_HUMAN
Tissue specificity: Expressed in spleen. Detected on a number of myeloid cells including CD11b monocytes, CD66b+ neutrophils, at low levels on CD4+ and CD8+ T-cells, and in a subset of NK cells. Not detected on B cells (at protein level). Expressed at high levels in placenta, spleen, plasma blood leukocytes, and lung. Expressed at moderate levels in lymph node, bone marrow, fat, uterus, and trachea. Has low expression levels in other tissues.

Evidence on tissue expression from TISSUES for VSIR Gene

  • Liver(4.7)
  • Nervous system(4.6)
  • Blood(4.5)
  • Spleen(4.4)
genes like me logo Genes that share expression patterns with VSIR: view

Primer Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for VSIR Gene

Orthologs for VSIR Gene

This gene was present in the common ancestor of chordates.

Orthologs for VSIR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia C10H10orf54 34
  • 99.36 (n)
C10orf54 35
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia C28H10orf54 34
  • 86.99 (n)
MGC151567 35
  • 82 (a)
OneToOne
dog
(Canis familiaris)
Mammalia C10orf54 35
  • 80 (a)
OneToOne
mouse
(Mus musculus)
Mammalia 4632428N05Rik 35 34
  • 79.65 (n)
OneToOne
Vsir 16
rat
(Rattus norvegicus)
Mammalia MGC112715 34
  • 77.35 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia C10orf54 35
  • 62 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia C10orf54 35
  • 54 (a)
OneToOne
chicken
(Gallus gallus)
Aves C10ORF54 34
  • 64.81 (n)
C10orf54 35
  • 56 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia C10orf54 35
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia c10orf54 34
  • 57.5 (n)
zebrafish
(Danio rerio)
Actinopterygii zgc:153073 34
  • 52.12 (n)
C13H10orf54 35
  • 38 (a)
OneToOne
Species where no ortholog for VSIR 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for VSIR Gene

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

Paralogs for VSIR Gene

No data available for Paralogs for VSIR Gene

Variants for VSIR Gene

Sequence variations from dbSNP and Humsavar for VSIR Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1000365134 -- 71,767,466(+) CTAGA(C/T)GCAAA intron-variant
rs1000491513 -- 71,772,674(+) GCTCA(C/T)AGCTG intron-variant, upstream-variant-2KB
rs1000696419 -- 71,768,664(+) ATGGG(A/G)TCTCG intron-variant
rs1000711085 -- 71,774,277(+) GACAC(C/T)CTGAT intron-variant, upstream-variant-2KB
rs1000748766 -- 71,769,027(+) GCCCC(A/C)CCTCC intron-variant

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

Variant ID Type Subtype PubMed ID
esv1096295 CNV deletion 17803354
nsv1127122 CNV deletion 24896259
nsv1137935 CNV deletion 24896259
nsv1147297 CNV deletion 26484159
nsv470963 CNV loss 18288195
nsv831910 CNV loss 17160897

Variation tolerance for VSIR Gene

Residual Variation Intolerance Score: 77.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.55; 86.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VSIR Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VSIR

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

Disorders for VSIR Gene

MalaCards: The human disease database

(7) MalaCards diseases for VSIR Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
parasagittal meningioma
solar retinopathy
  • solar retinitis
acute laryngitis
cerebral convexity meningioma
  • cerebral hemispheric convexity meningioma
carrion's disease
  • carrion disease
- elite association - COSMIC cancer census association via MalaCards
Search VSIR in MalaCards View complete list of genes associated with diseases

Relevant External Links for VSIR

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VSIR
genes like me logo Genes that share disorders with VSIR: view

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

Publications for VSIR Gene

  1. VISTA is an immune checkpoint molecule for human T cells. (PMID: 24691993) Lines J.L. … Noelle R. (Cancer Res. 2014) 2 3 4 64
  2. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 2 3 4 64
  3. Characterization of programmed death-1 homologue-1 (PD-1H) expression and function in normal and HIV infected individuals. (PMID: 25279955) Bharaj P. … Shankar P. (PLoS ONE 2014) 2 3 64
  4. GI24 enhances tumor invasiveness by regulating cell surface membrane-type 1 matrix metalloproteinase. (PMID: 20666777) Sakr M.A. … Sato H. (Cancer Sci. 2010) 3 4 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for VSIR Gene

Sources for VSIR Gene

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