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Aliases for VSTM2L Gene

Aliases for VSTM2L Gene

  • V-Set And Transmembrane Domain Containing 2 Like 2 3 5
  • C20orf102 3 4
  • V-Set And Transmembrane Domain-Containing Protein 2-Like Protein 3
  • Chromosome 20 Open Reading Frame 102 2
  • DJ1118M15.2 3

External Ids for VSTM2L Gene

Previous HGNC Symbols for VSTM2L Gene

  • C20orf102

Previous GeneCards Identifiers for VSTM2L Gene

  • GC20P035965
  • GC20P036531
  • GC20P033266

Summaries for VSTM2L Gene

GeneCards Summary for VSTM2L Gene

VSTM2L (V-Set And Transmembrane Domain Containing 2 Like) is a Protein Coding gene. An important paralog of this gene is VSTM2B.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VSTM2L Gene

Genomics for VSTM2L Gene

Regulatory Elements for VSTM2L Gene

Enhancers for VSTM2L 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
GH20F038000 0.7 ENCODE 25.8 +98.3 98256 2.6 SOX13 CTCF ATF1 JUN CEBPG ZBTB40 ZKSCAN1 GATA3 SCRT2 NFE2 TTI1 VSTM2L RPRD1B GC20M037959 GC20M037976 RN7SKP185
GH20F038072 0.9 Ensembl ENCODE 25.4 +171.6 171632 4.1 ATF1 ARID4B ZSCAN9 RAD21 RARA ZNF121 ZNF143 MIXL1 ZNF654 MXD4 VSTM2L TTI1 RPRD1B TGM2 ENSG00000224635 SNORA71A SNORA71B SNHG17 GC20P038089 GC20M038052
GH20F037981 0.6 ENCODE 17.6 +78.0 77977 0.1 CTCF VSTM2L RPRD1B TTI1 RN7SKP185 GC20M037976 GC20M037959
GH20F037985 1.6 FANTOM5 Ensembl ENCODE 17.2 +86.6 86635 8.1 HDGF PKNOX1 WRNIP1 ARID4B YY1 GATA2 JUNB REST TBX21 MEF2D TGM2 VSTM2L RPRD1B TTI1 RALGAPB NNAT RN7SKP185 GC20M037976 GC20M037959
GH20F038031 0.7 ENCODE 15.7 +130.6 130585 3.5 PKNOX1 CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ENSG00000201811 LINC00489 VSTM2L SNHG17 ACTR5 LOC100419562 MANBAL RPRD1B SNORA71A LOC100287792
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around VSTM2L on UCSC Golden Path with GeneCards custom track

Promoters for VSTM2L Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001837216 403 1800 BCOR CTCF PKNOX1 CBX3 CHD4 ZMYM3 NFXL1 ZNF2 ZEB1 ZNF121

Genomic Location for VSTM2L Gene

Chromosome:
20
Start:
37,903,097 bp from pter
End:
37,945,350 bp from pter
Size:
42,254 bases
Orientation:
Plus strand

Genomic View for VSTM2L Gene

Genes around VSTM2L on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VSTM2L Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VSTM2L Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VSTM2L Gene

Proteins for VSTM2L Gene

  • Protein details for VSTM2L Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96N03-VTM2L_HUMAN
    Recommended name:
    V-set and transmembrane domain-containing protein 2-like protein
    Protein Accession:
    Q96N03
    Secondary Accessions:
    • E1P5V7
    • Q5JWZ4
    • Q5JWZ5
    • Q8ND45
    • Q9BR37

    Protein attributes for VSTM2L Gene

    Size:
    204 amino acids
    Molecular mass:
    22349 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for VSTM2L Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VSTM2L Gene

Post-translational modifications for VSTM2L Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for VSTM2L Gene

No data available for DME Specific Peptides for VSTM2L Gene

Domains & Families for VSTM2L Gene

Gene Families for VSTM2L Gene

Protein Domains for VSTM2L Gene

Suggested Antigen Peptide Sequences for VSTM2L Gene

Graphical View of Domain Structure for InterPro Entry

Q96N03

UniProtKB/Swiss-Prot:

VTM2L_HUMAN :
  • Contains 1 Ig-like (immunoglobulin-like) domain.
Domain:
  • Contains 1 Ig-like (immunoglobulin-like) domain.
genes like me logo Genes that share domains with VSTM2L: view

Function for VSTM2L Gene

Gene Ontology (GO) - Molecular Function for VSTM2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16713569
genes like me logo Genes that share ontologies with VSTM2L: view
genes like me logo Genes that share phenotypes with VSTM2L: view

Animal Model Products

  • Taconic Biosciences Mouse Models for VSTM2L

miRNA for VSTM2L Gene

miRTarBase miRNAs that target VSTM2L

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VSTM2L Gene

Localization for VSTM2L Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VSTM2L Gene COMPARTMENTS Subcellular localization image for VSTM2L gene
Compartment Confidence
extracellular 5
cytoskeleton 2
nucleus 2
lysosome 1
plasma membrane 1
vacuole 1

Gene Ontology (GO) - Cellular Components for VSTM2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IDA 21393573
GO:0005737 cytoplasm IDA 21393573
genes like me logo Genes that share ontologies with VSTM2L: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for VSTM2L Gene

Pathways & Interactions for VSTM2L Gene

SuperPathways for VSTM2L Gene

No Data Available

Interacting Proteins for VSTM2L Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000362560%0d%0a9606.ENSP00000386878%0d%0a9606.ENSP00000244769%0d%0a
Selected Interacting proteins: Q96N03-VTM2L_HUMAN ENSP00000362560 for VSTM2L Gene via IID UniProtKB STRING

Symbol External ID(s) Details
HLA-B
HLA-A
HLA-DRB1
ATXN1
CCM2

Gene Ontology (GO) - Biological Process for VSTM2L Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043524 negative regulation of neuron apoptotic process IDA 21393573
genes like me logo Genes that share ontologies with VSTM2L: view

No data available for Pathways by source and SIGNOR curated interactions for VSTM2L Gene

Transcripts for VSTM2L Gene

mRNA/cDNA for VSTM2L Gene

Unigene Clusters for VSTM2L Gene

V-set and transmembrane domain containing 2 like:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VSTM2L Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c
SP1: -
SP2: - -
SP3:
SP4: - -
SP5: - - - - -

Relevant External Links for VSTM2L Gene

GeneLoc Exon Structure for
VSTM2L
ECgene alternative splicing isoforms for
VSTM2L

Expression for VSTM2L Gene

mRNA expression in normal human tissues for VSTM2L Gene

mRNA differential expression in normal tissues according to GTEx for VSTM2L Gene

This gene is overexpressed in Brain - Cortex (x6.6), Brain - Frontal Cortex (BA9) (x5.4), Heart - Atrial Appendage (x5.0), Brain - Hippocampus (x5.0), Brain - Anterior cingulate cortex (BA24) (x4.6), and Brain - Amygdala (x4.4).

Protein differential expression in normal tissues from HIPED for VSTM2L Gene

This gene is overexpressed in Liver (68.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for VSTM2L Gene



Protein tissue co-expression partners for VSTM2L Gene

NURSA nuclear receptor signaling pathways regulating expression of VSTM2L Gene:

VSTM2L

SOURCE GeneReport for Unigene cluster for VSTM2L Gene:

Hs.517029
genes like me logo Genes that share expression patterns with VSTM2L: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for VSTM2L Gene

Orthologs for VSTM2L Gene

This gene was present in the common ancestor of chordates.

Orthologs for VSTM2L Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VSTM2L 34 35
  • 99.18 (n)
cow
(Bos Taurus)
Mammalia VSTM2L 34 35
  • 95.42 (n)
dog
(Canis familiaris)
Mammalia VSTM2L 34 35
  • 95.26 (n)
rat
(Rattus norvegicus)
Mammalia RGD1305725 34
  • 89.27 (n)
mouse
(Mus musculus)
Mammalia Vstm2l 34 16 35
  • 88.45 (n)
oppossum
(Monodelphis domestica)
Mammalia VSTM2L 35
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves VSTM2L 34 35
  • 84.75 (n)
lizard
(Anolis carolinensis)
Reptilia VSTM2L 35
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia vstm2l 34
  • 68.12 (n)
Str.19138 34
zebrafish
(Danio rerio)
Actinopterygii vstm2l 34 35
  • 65.53 (n)
zgc66133 34
Species where no ortholog for VSTM2L 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 VSTM2L Gene

ENSEMBL:
Gene Tree for VSTM2L (if available)
TreeFam:
Gene Tree for VSTM2L (if available)

Paralogs for VSTM2L Gene

Paralogs for VSTM2L Gene

(2) SIMAP similar genes for VSTM2L Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with VSTM2L: view

Variants for VSTM2L Gene

Sequence variations from dbSNP and Humsavar for VSTM2L Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type
rs10470028 -- 37,937,005(+) catcc(A/G)aggtc intron-variant
rs11086373 -- 37,902,641(+) ACAGC(A/G)AGCCG upstream-variant-2KB
rs11086387 -- 37,935,885(+) ACAGA(-/T)TTTTT intron-variant
rs111262642 -- 37,934,225(+) GCAGG(C/G)CAGTG intron-variant
rs111286173 -- 37,917,797(+) CTTTG(A/G)ACTGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VSTM2L Gene

Variant ID Type Subtype PubMed ID
esv2633566 CNV insertion 19546169
nsv1057334 CNV loss 25217958
nsv1066778 CNV gain 25217958
nsv833970 CNV gain 17160897
nsv833971 CNV gain 17160897

Variation tolerance for VSTM2L Gene

Residual Variation Intolerance Score: 81.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.57; 65.05% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VSTM2L Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
VSTM2L

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VSTM2L Gene

Disorders for VSTM2L Gene

Relevant External Links for VSTM2L

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VSTM2L

No disorders were found for VSTM2L Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for VSTM2L Gene

Publications for VSTM2L Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64
  3. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4 64
  4. Phospho-tyrosine dependent protein-protein interaction network. (PMID: 25814554) Grossmann A. … Stelzl U. (Mol. Syst. Biol. 2015) 3 64
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp J.J. … Guthrie C. (Nat. Struct. Mol. Biol. 2015) 3 64

Products for VSTM2L Gene

Sources for VSTM2L Gene

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