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Aliases for VSTM2L Gene

Aliases for VSTM2L Gene

  • V-Set And Transmembrane Domain Containing 2 Like 2 3 5
  • V-Set And Transmembrane Domain-Containing Protein 2-Like Protein 3 4
  • C20orf102 3 4
  • 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 BSG.

Additional gene information for VSTM2L Gene

No data available for Entrez Gene Summary , CIViC 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

GeneHancer (GH) Regulatory Elements for VSTM2L Gene

Promoters and enhancers for VSTM2L 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
GH20J037903 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 609.5 +1.1 1133 3.9 CC2D1A CTCF ZNF121 ZNF384 ZSCAN21 ZNF644 EGR1 RAD21 PKNOX1 ARID2 VSTM2L RALGAPB SNHG17 RN7SKP173 TTI1 ACTR5 SNORA71C RPN2 RPS3P2 RBL1
GH20J037904 Promoter 1.1 Ensembl 600.7 -1.0 -996 0.2 CC2D1A ZNF121 ZSCAN21 ZNF644 EGR1 ARID2 IKZF1 ZBTB33 ZNF600 ZNF143 VSTM2L GC20M037873
GH20J037840 Promoter 0.5 EPDnew 611 -63.0 -62967 0.1 VSTM2L GC20P037869 CTNNBL1
GH20J038031 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 15.7 +130.7 130663 3.7 SP1 CC2D1A ZFX ELF3 MNT SIX5 ZNF148 NKRF POLR2A CEBPG TTI1 RPRD1B SNHG17 VSTM2L SNORA71C SNORA71A RN7SKP173 RALGAPB ACTR5 RBL1
GH20J038072 Enhancer 1.3 Ensembl ENCODE dbSUPER 25.4 +172.7 172731 6.3 CTCF CEBPG SP1 PPARG ZNF384 RAD21 KAT8 POLR2A RXRA ZNF600 VSTM2L TTI1 RPRD1B TGM2 SNORA71A ENSG00000224635 SNORA71B SNHG17 GC20P038089 GC20M038052
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around VSTM2L on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the VSTM2L gene promoter:
  • AhR
  • AML1a
  • CUTL1
  • NRF-2
  • p53
  • Spz1
  • STAT1
  • STAT1alpha
  • STAT1beta
  • TGIF

Genomic Locations for VSTM2L Gene

Genomic Locations for VSTM2L Gene
chr20:37,903,097-37,945,350
(GRCh38/hg38)
Size:
42,254 bases
Orientation:
Plus strand
chr20:36,531,499-36,573,752
(GRCh37/hg19)
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

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

Protein Domains for VSTM2L Gene

Suggested Antigen Peptide Sequences for VSTM2L Gene

GenScript: Design optimal peptide antigens:
  • V-set and transmembrane domain-containing protein 2-like protein (VTM2L_HUMAN)

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot for VSTM2L Gene

Function for VSTM2L Gene

Phenotypes From GWAS Catalog 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
GO:0098632 cell-cell adhesion mediator activity IBA 21873635
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

CRISPR Products

miRNA for VSTM2L Gene

miRTarBase miRNAs that target VSTM2L

Clone Products

  • Applied Biological Materials (abm): Clones for VSTM2L - Now 50% OFF >
  • * VSTM2L as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * VSTM2L tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

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
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 VSTM2L gene
Compartment Confidence
extracellular 5
plasma membrane 3
nucleus 2
cytoskeleton 1
lysosome 0

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
GO:0005886 plasma membrane IBA 21873635
GO:0030424 axon IBA 21873635
genes like me logo Genes that share ontologies with VSTM2L: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for VSTM2L Gene

Pathways & Interactions for VSTM2L Gene

PathCards logo

SuperPathways for VSTM2L Gene

No Data Available

Interacting Proteins for VSTM2L Gene

STRING Interaction Network Preview (showing top 4 STRING interactants - click image to see details)
https://version11.string-db.org/api/image/network?species=9606&limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000362560%0d9606.ENSP00000242140%0d9606.ENSP00000215781%0d9606.ENSP00000370503%0d9606.ENSP00000244769%0d
Selected Interacting proteins: Q96N03-VTM2L_HUMAN ENSP00000362560 for VSTM2L Gene via UniProtKB STRING IID

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:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IBA 21873635
GO:0007411 axon guidance IBA 21873635
GO:0043524 negative regulation of neuron apoptotic process IDA 21393573
GO:0070593 dendrite self-avoidance IBA 21873635
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

Drugs & Compounds for VSTM2L Gene

No Compound Related Data Available

Transcripts for VSTM2L Gene

mRNA/cDNA for VSTM2L Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(108) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Unigene Clusters for VSTM2L Gene

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

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for VSTM2L - Now 50% OFF >
  • * VSTM2L as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * VSTM2L tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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, 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

Evidence on tissue expression from TISSUES for VSTM2L Gene

  • Nervous system(4.7)
genes like me logo Genes that share expression patterns with VSTM2L: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 35 34
  • 99.18 (n)
OneToOne
cow
(Bos Taurus)
Mammalia VSTM2L 35 34
  • 95.42 (n)
OneToOne
dog
(Canis familiaris)
Mammalia VSTM2L 35 34
  • 95.26 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia RGD1305725 34
  • 89.27 (n)
mouse
(Mus musculus)
Mammalia Vstm2l 17 35 34
  • 88.45 (n)
oppossum
(Monodelphis domestica)
Mammalia VSTM2L 35
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves VSTM2L 35 34
  • 84.75 (n)
OneToOne
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 35 34
  • 65.53 (n)
OneToOne
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)
Aminode:
Evolutionary constrained regions (ECRs) for VSTM2L: view image

Paralogs for VSTM2L Gene

Paralogs for VSTM2L Gene

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

  • VTM2L_HUMAN
  • F2Z3I3_HUMAN
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 Variation AA Info Type
rs1000021314 -- 37,930,179(+) T/G intron_variant
rs1000069252 -- 37,925,238(+) C/T intron_variant
rs1000069386 -- 37,924,918(+) G/A intron_variant
rs1000113197 -- 37,902,669(+) C/G upstream_transcript_variant
rs1000166926 -- 37,902,313(+) A/G upstream_transcript_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)

Additional Variant Information 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

Additional Disease Information for 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 (Nature genetics 2004) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P … Rogers J (Nature 2001) 3 4 58
  4. Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing. (PMID: 28611215) Fei T … Brown M (Proceedings of the National Academy of Sciences of the United States of America 2017) 3 58
  5. Phospho-tyrosine dependent protein-protein interaction network. (PMID: 25814554) Grossmann A … Stelzl U (Molecular systems biology 2015) 3 58

Products for VSTM2L Gene

Sources for VSTM2L Gene

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