Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LCP2 (lymphocyte cytosolic protein 2)

Identity

Alias_namesSLP76
lymphocyte cytosolic protein 2 (SH2 domain-containing leukocyte protein of 76kD)
lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa)
Alias_symbol (synonym)SLP-76
Other alias
HGNC (Hugo) LCP2
LocusID (NCBI) 3937
Atlas_Id 45540
Location 5q35.1  [Link to chromosome band 5q35]
Location_base_pair Starts at 170246233 and ends at 170297842 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
SGCD (5q33.3) / LCP2 (5q35.1)SGCD 5q33.3 / LCP2 5q35.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(5;5)(q33;q35) SGCD/LCP2

External links

Nomenclature
HGNC (Hugo)LCP2   6529
Cards
Entrez_Gene (NCBI)LCP2  3937  lymphocyte cytosolic protein 2
AliasesSLP-76; SLP76
GeneCards (Weizmann)LCP2
Ensembl hg19 (Hinxton)ENSG00000043462 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000043462 [Gene_View]  ENSG00000043462 [Sequence]  chr5:170246233-170297842 [Contig_View]  LCP2 [Vega]
ICGC DataPortalENSG00000043462
TCGA cBioPortalLCP2
AceView (NCBI)LCP2
Genatlas (Paris)LCP2
WikiGenes3937
SOURCE (Princeton)LCP2
Genetics Home Reference (NIH)LCP2
Genomic and cartography
GoldenPath hg38 (UCSC)LCP2  -     chr5:170246233-170297842 -  5q35.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LCP2  -     5q35.1   [Description]    (hg19-Feb_2009)
EnsemblLCP2 - 5q35.1 [CytoView hg19]  LCP2 - 5q35.1 [CytoView hg38]
Mapping of homologs : NCBILCP2 [Mapview hg19]  LCP2 [Mapview hg38]
OMIM601603   
Gene and transcription
Genbank (Entrez)AF086367 AK122637 AK292890 AK296098 AK300000
RefSeq transcript (Entrez)NM_005565
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LCP2
Cluster EST : UnigeneHs.660173 [ NCBI ]
CGAP (NCI)Hs.660173
Alternative Splicing GalleryENSG00000043462
Gene ExpressionLCP2 [ NCBI-GEO ]   LCP2 [ EBI - ARRAY_EXPRESS ]   LCP2 [ SEEK ]   LCP2 [ MEM ]
Gene Expression Viewer (FireBrowse)LCP2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3937
GTEX Portal (Tissue expression)LCP2
Human Protein AtlasENSG00000043462-LCP2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13094   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13094  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13094
Splice isoforms : SwissVarQ13094
PhosPhoSitePlusQ13094
Domaine pattern : Prosite (Expaxy)SH2 (PS50001)   
Domains : Interpro (EBI)SAM    SAM/pointed_sf    SH2    SH2_dom_sf   
Domain families : Pfam (Sanger)SAM_2 (PF07647)    SH2 (PF00017)   
Domain families : Pfam (NCBI)pfam07647    pfam00017   
Domain families : Smart (EMBL)SAM (SM00454)  SH2 (SM00252)  
Conserved Domain (NCBI)LCP2
DMDM Disease mutations3937
Blocks (Seattle)LCP2
PDB (SRS)1H3H    1YWO    2EAP    2ROR   
PDB (PDBSum)1H3H    1YWO    2EAP    2ROR   
PDB (IMB)1H3H    1YWO    2EAP    2ROR   
PDB (RSDB)1H3H    1YWO    2EAP    2ROR   
Structural Biology KnowledgeBase1H3H    1YWO    2EAP    2ROR   
SCOP (Structural Classification of Proteins)1H3H    1YWO    2EAP    2ROR   
CATH (Classification of proteins structures)1H3H    1YWO    2EAP    2ROR   
SuperfamilyQ13094
Human Protein Atlas [tissue]ENSG00000043462-LCP2 [tissue]
Peptide AtlasQ13094
HPRD03362
IPIIPI00297169   IPI00944531   IPI00984411   IPI00973735   
Protein Interaction databases
DIP (DOE-UCLA)Q13094
IntAct (EBI)Q13094
FunCoupENSG00000043462
BioGRIDLCP2
STRING (EMBL)LCP2
ZODIACLCP2
Ontologies - Pathways
QuickGOQ13094
Ontology : AmiGOprotein binding  cytosol  cytosol  cell-cell junction  immune response  transmembrane receptor protein tyrosine kinase signaling pathway  transmembrane receptor protein tyrosine kinase signaling pathway  platelet activation  intracellular signal transduction  TCR signalosome  Fc-epsilon receptor signaling pathway  plasma membrane raft  mast cell activation  positive regulation of protein kinase activity  cytokine secretion  T cell receptor signaling pathway  T cell receptor signaling pathway  
Ontology : EGO-EBIprotein binding  cytosol  cytosol  cell-cell junction  immune response  transmembrane receptor protein tyrosine kinase signaling pathway  transmembrane receptor protein tyrosine kinase signaling pathway  platelet activation  intracellular signal transduction  TCR signalosome  Fc-epsilon receptor signaling pathway  plasma membrane raft  mast cell activation  positive regulation of protein kinase activity  cytokine secretion  T cell receptor signaling pathway  T cell receptor signaling pathway  
Pathways : KEGGRap1 signaling pathway    Osteoclast differentiation    Natural killer cell mediated cytotoxicity    T cell receptor signaling pathway    Fc epsilon RI signaling pathway   
NDEx NetworkLCP2
Atlas of Cancer Signalling NetworkLCP2
Wikipedia pathwaysLCP2
Orthology - Evolution
OrthoDB3937
GeneTree (enSembl)ENSG00000043462
Phylogenetic Trees/Animal Genes : TreeFamLCP2
HOVERGENQ13094
HOGENOMQ13094
Homologs : HomoloGeneLCP2
Homology/Alignments : Family Browser (UCSC)LCP2
Gene fusions - Rearrangements
Fusion : MitelmanSGCD/LCP2 [5q33.3/5q35.1]  [t(5;5)(q33;q35)]  
Fusion PortalSGCD 5q33.3 LCP2 5q35.1 HNSC
Fusion : QuiverLCP2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLCP2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LCP2
dbVarLCP2
ClinVarLCP2
1000_GenomesLCP2 
Exome Variant ServerLCP2
ExAC (Exome Aggregation Consortium)ENSG00000043462
GNOMAD BrowserENSG00000043462
Varsome BrowserLCP2
Genetic variants : HAPMAP3937
Genomic Variants (DGV)LCP2 [DGVbeta]
DECIPHERLCP2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLCP2 
Mutations
ICGC Data PortalLCP2 
TCGA Data PortalLCP2 
Broad Tumor PortalLCP2
OASIS PortalLCP2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLCP2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLCP2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LCP2
DgiDB (Drug Gene Interaction Database)LCP2
DoCM (Curated mutations)LCP2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LCP2 (select a term)
intoGenLCP2
Cancer3DLCP2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601603   
Orphanet
DisGeNETLCP2
MedgenLCP2
Genetic Testing Registry LCP2
NextProtQ13094 [Medical]
TSGene3937
GENETestsLCP2
Target ValidationLCP2
Huge Navigator LCP2 [HugePedia]
snp3D : Map Gene to Disease3937
BioCentury BCIQLCP2
ClinGenLCP2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3937
Chemical/Pharm GKB GenePA30313
Clinical trialLCP2
Miscellaneous
canSAR (ICR)LCP2 (select the gene name)
Probes
Litterature
PubMed152 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLCP2
EVEXLCP2
GoPubMedLCP2
iHOPLCP2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Aug 27 11:31:37 CEST 2018
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