Aliases for VSIR Gene

Aliases for VSIR Gene

  • V-Set Immunoregulatory Receptor 2 3 4 5
  • SISP1 2 3 4
  • VISTA 2 3 4
  • V-Type Immunoglobulin Domain-Containing Suppressor Of T-Cell Activation 3 4
  • 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
  • B7-H5 2 3
  • Dies1 2 3
  • PD-1H 2 3
  • B7H5 2 3
  • GI24 2 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
  • VSIR 5

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 Hard Palate Cancer and Retinitis Pigmentosa. Among its related pathways are NF-kappaB Signaling and Cell adhesion molecules. An important paralog of this gene is CXADR.

UniProtKB/Swiss-Prot Summary 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 , Rfam classification and piRNA Summary for VSIR Gene

Genomics for VSIR Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for VSIR Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around VSIR on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for VSIR

Genomic Locations for VSIR Gene

Latest Assembly
chr10:71,747,556-71,773,520
(GRCh38/hg38)
Size:
25,965 bases
Orientation:
Minus strand

Previous Assembly
chr10:73,507,313-73,533,277
(GRCh37/hg19 by Entrez Gene)
Size:
25,965 bases
Orientation:
Minus strand

chr10:73,507,316-73,533,255
(GRCh37/hg19 by Ensembl)
Size:
25,940 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; Note=Truncated C-terminus.; 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=Extended N-terminus.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for VSIR Gene

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

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for VSIR Gene

InterPro:
Blocks:
  • Immunoglobulin V-set

Suggested Antigen Peptide Sequences for VSIR Gene

GenScript: Design optimal peptide antigens:
  • C10orf54 protein (A1L0X9_HUMAN)
  • Stress induced secreted protein 1 (A4ZYV1_HUMAN)
  • Platelet receptor Gi24 (GI24_HUMAN)
  • C10orf54 protein (Q2TA85_HUMAN)
genes like me logo Genes that share domains with VSIR: view

No data available for Graphical View of Domain Structure and 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).

Phenotypes From GWAS Catalog for VSIR Gene

Gene Ontology (GO) - Molecular Function for VSIR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 32296183
GO:0019899 enzyme binding IPI 20666777
GO:0042802 identical protein binding IPI 26228159
GO:0061133 endopeptidase activator activity IDA 20666777
genes like me logo Genes that share ontologies with VSIR: view
genes like me logo Genes that share phenotypes with VSIR: view

Animal Models for VSIR Gene

MGI Knock Outs for VSIR:
  • Vsir Vsir<tm1.1(KOMP)Vlcg>
  • Vsir Vsir<tm1Lex>

Animal Models for research

  • Taconic Biosciences Mouse Models for VSIR

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VSIR

No data available for Enzyme Numbers (IUBMB) , 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 3
extracellular 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
cytosol 1
lysosome 0

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for VSIR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA,IDA 20666777
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

PathCards logo

SuperPathways for VSIR Gene

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

Pathways by source for VSIR Gene

1 KEGG pathway for VSIR Gene
1 Cell Signaling Technology pathway for VSIR Gene

Gene Ontology (GO) - Biological Process for VSIR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010628 positive regulation of gene expression IMP 20666777
GO:0010950 positive regulation of endopeptidase activity IDA 20666777
GO:0030335 positive regulation of cell migration IDA 20666777
GO:0031638 zymogen activation IDA 20666777
GO:0032689 negative regulation of interferon-gamma production IDA 24691993
genes like me logo Genes that share ontologies with VSIR: view

No data available for SIGNOR curated interactions for VSIR Gene

Transcripts for VSIR Gene

mRNA/cDNA for VSIR Gene

1 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VSIR

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

No ASD Table

Relevant External Links for VSIR Gene

GeneLoc Exon Structure for
VSIR

Expression for VSIR Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for 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(4.8)
  • Nervous system(4.6)
  • Spleen(4.5)
  • Blood(4.5)
  • Intestine(2.6)
  • Lymph node(2.6)
  • Bone marrow(2.5)
  • Lung(2.2)
  • Skin(2.1)
  • Heart(2.1)
  • Kidney(2)
genes like me logo Genes that share expression patterns with VSIR: view

Primer products for research

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 29
  • 99.36 (n)
C10orf54 30
  • 99 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia C28H10orf54 29
  • 86.99 (n)
MGC151567 30
  • 82 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia C10orf54 30
  • 80 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia 4632428N05Rik 29 30
  • 79.65 (n)
OneToOne
Vsir 16
Rat
(Rattus norvegicus)
Mammalia MGC112715 29
  • 77.35 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia C10orf54 30
  • 62 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia C10orf54 30
  • 54 (a)
OneToOne
Chicken
(Gallus gallus)
Aves C10ORF54 29
  • 64.81 (n)
C10orf54 30
  • 56 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia C10orf54 30
  • 57 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia c10orf54 29
  • 57.5 (n)
Zebrafish
(Danio rerio)
Actinopterygii zgc:153073 29
  • 52.12 (n)
C13H10orf54 30
  • 38 (a)
OneToOne
Species where no ortholog for VSIR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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 Vase (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)
Alliance of Genome Resources:
Additional Orthologs for VSIR

Paralogs for VSIR Gene

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

Variants for VSIR Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for VSIR Gene

SNP ID Clinical significance and condition Chr 10 pos Variation AA Info Type
931440 Uncertain Significance: See cases 71,752,985(-) G/A
NM_022153.2(VSIR):c.694C>T (p.Arg232Trp)
MISSENSE_VARIANT,INTRON
rs3747862 Benign: Retinitis pigmentosa-deafness syndrome 71,773,420(-) A/G
NM_022124.6(CDH23):c.4846-4260A>G
MISSENSE_VARIANT,INTRON
rs3747869 Benign: Retinitis pigmentosa-deafness syndrome 71,760,875(-) A/Cp.Asp187Glu
NM_022124.6(CDH23):c.4846-16805A>C
MISSENSE_VARIANT,INTRON

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for VSIR Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

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)

Additional Variant Information for VSIR Gene

Human Gene Mutation Database (HGMD)
VSIR
SNPedia medical, phenotypic, and genealogical associations of SNPs for
VSIR
Leiden Open Variation Database (LOVD)
VSIR

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

Disorders for VSIR Gene

MalaCards: The human disease database

(2) MalaCards diseases for VSIR Gene - From: COP and GCD

Disorder Aliases PubMed IDs
hard palate cancer
  • malignant neoplasm of hard palate
retinitis pigmentosa
  • rp
- elite association - COSMIC cancer census association via MalaCards
Search VSIR in MalaCards View complete list of genes associated with diseases

Additional Disease Information for 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 JL … Noelle R (Cancer research 2014) 2 3 4
  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 HF … Gray A (Genome research 2003) 2 3 4
  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
  4. GI24 enhances tumor invasiveness by regulating cell surface membrane-type 1 matrix metalloproteinase. (PMID: 20666777) Sakr MA … Sato H (Cancer science 2010) 3 4
  5. Large-scale cDNA transfection screening for genes related to cancer development and progression. (PMID: 15498874) Wan D … Gu J (Proceedings of the National Academy of Sciences of the United States of America 2004) 3 4

Products for VSIR Gene

Sources for VSIR Gene