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PTPRT (protein tyrosine phosphatase, receptor type T)

Identity

Alias_symbol (synonym)RPTPrho
KIAA0283
Other alias
HGNC (Hugo) PTPRT
LocusID (NCBI) 11122
Atlas_Id 41939
Location 20q12  [Link to chromosome band 20q12]
Location_base_pair Starts at 42072752 and ends at 43189917 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
PIGU (20q11.22) / PTPRT (20q12)PTPRT (20q12) / EXD2 (14q24.1)PTPRT (20q12) / NCOA3 (20q13.12)
PTPRT (20q12) / PTPRT (20q12)PTPRT (20q12) / ZCCHC8 (12q24.31)WAPL (10q23.2) / PTPRT (20q12)
PIGU 20q11.22 / PTPRT 20q12PTPRT 20q12 / EXD2 14q24.1PTPRT 20q12 / NCOA3 20q13.12

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 ]
  Lung: Translocations in Squamous Cell Carcinoma


External links

Nomenclature
HGNC (Hugo)PTPRT   9682
Cards
Entrez_Gene (NCBI)PTPRT  11122  protein tyrosine phosphatase, receptor type T
AliasesRPTPrho
GeneCards (Weizmann)PTPRT
Ensembl hg19 (Hinxton)ENSG00000196090 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000196090 [Gene_View]  chr20:42072752-43189917 [Contig_View]  PTPRT [Vega]
ICGC DataPortalENSG00000196090
TCGA cBioPortalPTPRT
AceView (NCBI)PTPRT
Genatlas (Paris)PTPRT
WikiGenes11122
SOURCE (Princeton)PTPRT
Genetics Home Reference (NIH)PTPRT
Genomic and cartography
GoldenPath hg38 (UCSC)PTPRT  -     chr20:42072752-43189917 -  20q12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PTPRT  -     20q12   [Description]    (hg19-Feb_2009)
EnsemblPTPRT - 20q12 [CytoView hg19]  PTPRT - 20q12 [CytoView hg38]
Mapping of homologs : NCBIPTPRT [Mapview hg19]  PTPRT [Mapview hg38]
OMIM608712   
Gene and transcription
Genbank (Entrez)AB006621 AF043644 AL707728 BC153300 BC166683
RefSeq transcript (Entrez)NM_007050 NM_133170
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PTPRT
Cluster EST : UnigeneHs.526879 [ NCBI ]
CGAP (NCI)Hs.526879
Alternative Splicing GalleryENSG00000196090
Gene ExpressionPTPRT [ NCBI-GEO ]   PTPRT [ EBI - ARRAY_EXPRESS ]   PTPRT [ SEEK ]   PTPRT [ MEM ]
Gene Expression Viewer (FireBrowse)PTPRT [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)11122
GTEX Portal (Tissue expression)PTPRT
Protein : pattern, domain, 3D structure
UniProt/SwissProtO14522   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO14522  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO14522
Splice isoforms : SwissVarO14522
Catalytic activity : Enzyme3.1.3.48 [ Enzyme-Expasy ]   3.1.3.483.1.3.48 [ IntEnz-EBI ]   3.1.3.48 [ BRENDA ]   3.1.3.48 [ KEGG ]   
PhosPhoSitePlusO14522
Domaine pattern : Prosite (Expaxy)FN3 (PS50853)    IG_LIKE (PS50835)    MAM_1 (PS00740)    MAM_2 (PS50060)    TYR_PHOSPHATASE_1 (PS00383)    TYR_PHOSPHATASE_2 (PS50056)    TYR_PHOSPHATASE_PTP (PS50055)   
Domains : Interpro (EBI)ConA-like_dom    FN3_dom    Ig-like_dom    Ig-like_fold    MAM_dom    Prot-tyrosine_phosphatase-like    PTPase_domain    Tyr_Pase_AS    Tyr_Pase_cat    TYR_PHOSPHATASE_dom   
Domain families : Pfam (Sanger)fn3 (PF00041)    MAM (PF00629)    Y_phosphatase (PF00102)   
Domain families : Pfam (NCBI)pfam00041    pfam00629    pfam00102   
Domain families : Smart (EMBL)FN3 (SM00060)  MAM (SM00137)  PTPc (SM00194)  PTPc_motif (SM00404)  
Conserved Domain (NCBI)PTPRT
DMDM Disease mutations11122
Blocks (Seattle)PTPRT
PDB (SRS)2OOQ   
PDB (PDBSum)2OOQ   
PDB (IMB)2OOQ   
PDB (RSDB)2OOQ   
Structural Biology KnowledgeBase2OOQ   
SCOP (Structural Classification of Proteins)2OOQ   
CATH (Classification of proteins structures)2OOQ   
SuperfamilyO14522
Human Protein AtlasENSG00000196090
Peptide AtlasO14522
HPRD06690
IPIIPI00013096   IPI00655582   IPI00641972   IPI00337350   IPI00642731   IPI00645472   IPI00643073   
Protein Interaction databases
DIP (DOE-UCLA)O14522
IntAct (EBI)O14522
FunCoupENSG00000196090
BioGRIDPTPRT
STRING (EMBL)PTPRT
ZODIACPTPRT
Ontologies - Pathways
QuickGOO14522
Ontology : AmiGOprotein tyrosine phosphatase activity  protein binding  plasma membrane  protein dephosphorylation  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  signal transduction  transmembrane receptor protein tyrosine kinase signaling pathway  beta-catenin binding  cell surface  integral component of membrane  peptidyl-tyrosine dephosphorylation  alpha-catenin binding  gamma-catenin binding  cadherin binding  delta-catenin binding  
Ontology : EGO-EBIprotein tyrosine phosphatase activity  protein binding  plasma membrane  protein dephosphorylation  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  signal transduction  transmembrane receptor protein tyrosine kinase signaling pathway  beta-catenin binding  cell surface  integral component of membrane  peptidyl-tyrosine dephosphorylation  alpha-catenin binding  gamma-catenin binding  cadherin binding  delta-catenin binding  
NDEx NetworkPTPRT
Atlas of Cancer Signalling NetworkPTPRT
Wikipedia pathwaysPTPRT
Orthology - Evolution
OrthoDB11122
GeneTree (enSembl)ENSG00000196090
Phylogenetic Trees/Animal Genes : TreeFamPTPRT
HOVERGENO14522
HOGENOMO14522
Homologs : HomoloGenePTPRT
Homology/Alignments : Family Browser (UCSC)PTPRT
Gene fusions - Rearrangements
Fusion : MitelmanPIGU/PTPRT [20q11.22/20q12]  [t(20;20)(q11;q13)]  
Fusion : MitelmanPTPRT/EXD2 [20q12/14q24.1]  [t(14;20)(q24;q13)]  
Fusion : MitelmanPTPRT/NCOA3 [20q12/20q13.12]  [t(20;20)(q13;q13)]  
Fusion : MitelmanWAPAL/20q12 [PTPRT/t(10;20)(q23;q13)]  
Fusion: TCGAPIGU 20q11.22 PTPRT 20q12 BRCA
Fusion: TCGAPTPRT 20q12 EXD2 14q24.1 LUAD
Fusion: TCGAPTPRT 20q12 NCOA3 20q13.12 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPTPRT [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PTPRT
dbVarPTPRT
ClinVarPTPRT
1000_GenomesPTPRT 
Exome Variant ServerPTPRT
ExAC (Exome Aggregation Consortium)PTPRT (select the gene name)
Genetic variants : HAPMAP11122
Genomic Variants (DGV)PTPRT [DGVbeta]
DECIPHERPTPRT [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPTPRT 
Mutations
ICGC Data PortalPTPRT 
TCGA Data PortalPTPRT 
Broad Tumor PortalPTPRT
OASIS PortalPTPRT [ Somatic mutations - Copy number]
Cancer Gene: CensusPTPRT 
Somatic Mutations in Cancer : COSMICPTPRT  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPTPRT
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 PTPRT
DgiDB (Drug Gene Interaction Database)PTPRT
DoCM (Curated mutations)PTPRT (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PTPRT (select a term)
intoGenPTPRT
Cancer3DPTPRT(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608712   
Orphanet
MedgenPTPRT
Genetic Testing Registry PTPRT
NextProtO14522 [Medical]
TSGene11122
GENETestsPTPRT
Target ValidationPTPRT
Huge Navigator PTPRT [HugePedia]
snp3D : Map Gene to Disease11122
BioCentury BCIQPTPRT
ClinGenPTPRT
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD11122
Chemical/Pharm GKB GenePA34027
Clinical trialPTPRT
Miscellaneous
canSAR (ICR)PTPRT (select the gene name)
Probes
Litterature
PubMed34 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePTPRT
EVEXPTPRT
GoPubMedPTPRT
iHOPPTPRT
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 25 19:27:17 CEST 2017

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