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Aliases for SCIMP Gene

Aliases for SCIMP Gene

  • SLP Adaptor And CSK Interacting Membrane Protein 2 3 5
  • SLP65/SLP76, Csk-Interacting Membrane Protein 2 3 4
  • C17orf87 3 4
  • SLP Adapter And CSK-Interacting Membrane Protein 3
  • Chromosome 17 Open Reading Frame 87 2
  • Transmembrane Protein C17orf87 3
  • DTFT5783 3
  • UNQ5783 3

External Ids for SCIMP Gene

Previous HGNC Symbols for SCIMP Gene

  • C17orf87

Previous GeneCards Identifiers for SCIMP Gene

  • GC17M005113

Summaries for SCIMP Gene

Entrez Gene Summary for SCIMP Gene

  • This gene encodes a transmembrane adaptor protein that is expressed in antigen-presenting cells and is localized in the immunologic synapse. The encoded protein is involved in major histocompatibility complex class II signal transduction and immune synapse formation. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2012]

GeneCards Summary for SCIMP Gene

SCIMP (SLP Adaptor And CSK Interacting Membrane Protein) is a Protein Coding gene.

UniProtKB/Swiss-Prot for SCIMP Gene

  • Lipid tetraspanin-associated transmembrane adapter/mediator involved in major histocompatibility complex (MHC) class II signaling transduction. Required in generating the calcium response and enhancing ERK activity upon MHC-II stimulation.

Additional gene information for SCIMP Gene

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

Genomics for SCIMP Gene

Regulatory Elements for SCIMP Gene

Enhancers for SCIMP 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
GH17H005220 1.6 Ensembl ENCODE dbSUPER 13.3 +6.4 6386 15.8 HDGF PKNOX1 FOXA2 ATF1 MLX ARID4B YBX1 ZNF143 ZNF207 ATF7 RABEP1 ENSG00000263164 LOC101928000 SCIMP USP6 CAMTA2 NUP88 ENSG00000262165 ZFP3 NLRP1
GH17H005110 1.1 ENCODE 9.9 +122.9 122887 2.1 HDGF MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 ANKFY1 LOC101928000 LOC100130950 RPAIN DHX33 ZNF232 DERL2 ENSG00000263272 ZNF594 ENSG00000263220
GH17H005209 1.2 Ensembl ENCODE dbSUPER 8.7 +23.9 23902 2.9 ZNF687 MAX NSD2 EBF1 ZNF592 POLR2A TARDBP IKZF1 ZNF24 CUX1 RABEP1 ENSG00000263164 USP6 PELP1 CAMTA2 SCIMP RPS12P29 PIR60028 LOC100130950
GH17H005199 1 ENCODE dbSUPER 8.3 +34.4 34371 2.1 MAZ TBL1XR1 NR2F1 MNT EBF1 RELA ZNF217 GATA3 NBN CUX1 CAMTA2 USP6 SCIMP ENSG00000263164 CHRNE KIF1C LOC100130950 PIR60028
GH17H004747 1.1 FANTOM5 Ensembl ENCODE 7.3 +486.7 486732 1.3 PKNOX1 ZSCAN26 ZNF341 EED HLF PRDM10 ETV6 RUNX3 ZNF594 CXCL16 LOC100130950 ZMYND15 RNU6-955P PELP1 ENO3 PFN1 ARRB2 SCIMP
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SCIMP on UCSC Golden Path with GeneCards custom track

Genomic Locations for SCIMP Gene

Genomic Locations for SCIMP Gene
chr17:5,208,920-5,234,860
(GRCh38/hg38)
Size:
25,941 bases
Orientation:
Minus strand
chr17:5,112,256-5,138,155
(GRCh37/hg19)

Genomic View for SCIMP Gene

Genes around SCIMP on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SCIMP Gene

Proteins for SCIMP Gene

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

    Protein Symbol:
    Q6UWF3-SCIMP_HUMAN
    Recommended name:
    SLP adapter and CSK-interacting membrane protein
    Protein Accession:
    Q6UWF3
    Secondary Accessions:
    • A6XGL4
    • B4DLK1
    • Q96MD0

    Protein attributes for SCIMP Gene

    Size:
    145 amino acids
    Molecular mass:
    16618 Da
    Quaternary structure:
    • Interacts with CD37, CD53 and CD81. Interacts with BLNK and GRB2 isoform 1. Interacts (via prolin-rich region) with LYN (via SH3 domain). Interacts with CSK (via SH2 domain).

    Alternative splice isoforms for SCIMP Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCIMP Gene

Post-translational modifications for SCIMP Gene

  • Palmitoylated.
  • Phosphorylated. Phosphorylation occurs on tyrosine residues by tyrosine-protein kinases LYN and SRC upon MHC-II stimulation.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SCIMP Gene

No data available for DME Specific Peptides for SCIMP Gene

Domains & Families for SCIMP Gene

Gene Families for SCIMP Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SCIMP Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SCIMP Gene

Graphical View of Domain Structure for InterPro Entry

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

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

Function for SCIMP Gene

Molecular function for SCIMP Gene

UniProtKB/Swiss-Prot Function:
Lipid tetraspanin-associated transmembrane adapter/mediator involved in major histocompatibility complex (MHC) class II signaling transduction. Required in generating the calcium response and enhancing ERK activity upon MHC-II stimulation.

Phenotypes From GWAS Catalog for SCIMP Gene

Gene Ontology (GO) - Molecular Function for SCIMP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21930792
genes like me logo Genes that share ontologies with SCIMP: view
genes like me logo Genes that share phenotypes with SCIMP: view

Animal Models for SCIMP Gene

MGI Knock Outs for SCIMP:

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SCIMP Gene

Localization for SCIMP Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCIMP Gene

Membrane; Single-pass membrane protein. Membrane; Lipid-anchor. Note=Together with MHC-II, associates with lipid-enriched microdomains called tetraspanin-enriched microdomains (TEMs). Rapidly translocates into immunological synapse (IS) at cell-cell contacts between antigen-presenting cells (APCs) and T-cells. Colocalized with tetraspanins CD37, CD53, and CD81 at the uropod. Present at regions of cell-cell contacts but also at the leading edge of migrating cells.

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 SCIMP gene
Compartment Confidence
plasma membrane 5
extracellular 3
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for SCIMP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001772 immunological synapse IDA 21930792
GO:0016020 membrane IEA,IDA 21930792
GO:0016021 integral component of membrane IEA --
GO:0031256 leading edge membrane IDA 21930792
GO:0031259 uropod membrane IDA 21930792
genes like me logo Genes that share ontologies with SCIMP: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SCIMP Gene

Pathways & Interactions for SCIMP Gene

SuperPathways for SCIMP Gene

No Data Available

Interacting Proteins for SCIMP Gene

Selected Interacting proteins: Q6UWF3-SCIMP_HUMAN for SCIMP Gene via IID

Symbol External ID(s) Details
LYN

Gene Ontology (GO) - Biological Process for SCIMP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007127 NOT meiosis I IBA --
GO:0070374 positive regulation of ERK1 and ERK2 cascade IDA 21930792
genes like me logo Genes that share ontologies with SCIMP: view

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

Drugs & Compounds for SCIMP Gene

No Compound Related Data Available

Transcripts for SCIMP Gene

Unigene Clusters for SCIMP Gene

SLP adaptor and CSK interacting membrane protein:
Representative Sequences:

Clone Products

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

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b
SP1: -
SP2:

Relevant External Links for SCIMP Gene

GeneLoc Exon Structure for
SCIMP
ECgene alternative splicing isoforms for
SCIMP

Expression for SCIMP Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SCIMP Gene

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

This gene is overexpressed in Whole Blood (x9.4) and Spleen (x8.1).

NURSA nuclear receptor signaling pathways regulating expression of SCIMP Gene:

SCIMP

SOURCE GeneReport for Unigene cluster for SCIMP Gene:

Hs.462080

mRNA Expression by UniProt/SwissProt for SCIMP Gene:

Q6UWF3-SCIMP_HUMAN
Tissue specificity: Expressed in antigen-presenting cells, like peripheral blood leukocytes and monocyte-derived dendritic cells (MDDC) (at protein level). Highly expressed in lymph nodes and spleen. Expressed in antigen-presenting cells. Faintly expressed in the majority of nonimmune system tissues.

Evidence on tissue expression from TISSUES for SCIMP Gene

  • Spleen(4.4)
  • Blood(4.2)
  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with SCIMP: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , 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 SCIMP Gene

Orthologs for SCIMP Gene

This gene was present in the common ancestor of mammals.

Orthologs for SCIMP Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCIMP 33 34
  • 97.24 (n)
cow
(Bos Taurus)
Mammalia SCIMP 33 34
  • 78.81 (n)
dog
(Canis familiaris)
Mammalia SCIMP 33 34
  • 77.24 (n)
mouse
(Mus musculus)
Mammalia Scimp 33 16 34
  • 76.92 (n)
rat
(Rattus norvegicus)
Mammalia Scimp 33
  • 76.67 (n)
oppossum
(Monodelphis domestica)
Mammalia SCIMP 34
  • 48 (a)
OneToOne
Species where no ortholog for SCIMP 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)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SCIMP Gene

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

Paralogs for SCIMP Gene

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

No data available for Paralogs for SCIMP Gene

Variants for SCIMP Gene

Sequence variations from dbSNP and Humsavar for SCIMP Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1000372428 -- 5,210,262(+) CAAAC(A/T)CGCGA intron-variant, utr-variant-3-prime
rs1000374401 -- 5,232,037(+) GGCGA(A/C)AGAGC intron-variant
rs1000481513 -- 5,210,049(+) CCTAT(A/T)GCAAA intron-variant, utr-variant-3-prime
rs1000572549 -- 5,228,431(+) TGAAG(G/T)CCAGG intron-variant
rs1000583727 -- 5,216,250(+) GAATG(C/T)TCTAT intron-variant

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

Variant ID Type Subtype PubMed ID
nsv952114 CNV deletion 24416366
nsv574273 CNV gain 21841781
nsv1142211 CNV tandem duplication 24896259
nsv1111145 CNV tandem duplication 24896259
esv6556 CNV gain 19470904
esv3302906 CNV tandem duplication 20981092
esv1669585 CNV insertion 17803354
dgv3089n100 CNV gain 25217958

Variation tolerance for SCIMP Gene

Residual Variation Intolerance Score: 64.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.37; 8.15% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SCIMP Gene

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

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

Disorders for SCIMP Gene

Relevant External Links for SCIMP

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCIMP

No disorders were found for SCIMP Gene.

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

Publications for SCIMP Gene

  1. SCIMP, a transmembrane adaptor protein involved in major histocompatibility complex class II signaling. (PMID: 21930792) Draber P … Brdicka T (Molecular and cellular biology 2011) 2 3 4 60
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  3. 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) 3 4 60
  4. Protein interaction discovery using parallel analysis of translated ORFs (PLATO). (PMID: 23503679) Zhu J … Elledge SJ (Nature biotechnology 2013) 3 60
  5. Meta-analysis of 74,046 individuals identifies 11 new susceptibility loci for Alzheimer's disease. (PMID: 24162737) Lambert JC … Amouyel P (Nature genetics 2013) 3 60

Products for SCIMP Gene

Sources for SCIMP Gene

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