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PTPRM (protein tyrosine phosphatase, receptor type M)

Identity

Alias_namesPTPRL1
Alias_symbol (synonym)RPTPU
hR-PTPu
Other aliasR-PTP-MU
RPTPM
HGNC (Hugo) PTPRM
LocusID (NCBI) 5797
Atlas_Id 41934
Location 18p11.23  [Link to chromosome band 18p11]
Location_base_pair Starts at 7567314 and ends at 8406859 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
ANKRD12 (18p11.22) / PTPRM (18p11.23)GABRE (Xq28) / PTPRM (18p11.23)GIMAP1 (7q36.1) / PTPRM (18p11.23)
LDOC1L (22q13.31) / PTPRM (18p11.23)PHACTR3 (20q13.32) / PTPRM (18p11.23)PTPRM (18p11.23) / KCTD1 (18q11.2)
PTPRM (18p11.23) / KIAA1468 (18q21.33)PTPRM (18p11.23) / PSG3 (19q13.2)PTPRM (18p11.23) / PTPRM (18p11.23)
PTPRM (18p11.23) / TET3 (2p13.1)ANKRD12 18p11.22 / PTPRM 18p11.23PTPRM 18p11.23 / KCTD1 18q11.2
PTPRM 18p11.23 / KIAA1468 18q21.33

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 Adenocarcinoma


External links

Nomenclature
HGNC (Hugo)PTPRM   9675
Cards
Entrez_Gene (NCBI)PTPRM  5797  protein tyrosine phosphatase, receptor type M
AliasesPTPRL1; R-PTP-MU; RPTPM; RPTPU; 
hR-PTPu
GeneCards (Weizmann)PTPRM
Ensembl hg19 (Hinxton)ENSG00000173482 [Gene_View]  chr18:7567314-8406859 [Contig_View]  PTPRM [Vega]
Ensembl hg38 (Hinxton)ENSG00000173482 [Gene_View]  chr18:7567314-8406859 [Contig_View]  PTPRM [Vega]
ICGC DataPortalENSG00000173482
TCGA cBioPortalPTPRM
AceView (NCBI)PTPRM
Genatlas (Paris)PTPRM
WikiGenes5797
SOURCE (Princeton)PTPRM
Genetics Home Reference (NIH)PTPRM
Genomic and cartography
GoldenPath hg19 (UCSC)PTPRM  -     chr18:7567314-8406859 +  18p11.23   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PTPRM  -     18p11.23   [Description]    (hg38-Dec_2013)
EnsemblPTPRM - 18p11.23 [CytoView hg19]  PTPRM - 18p11.23 [CytoView hg38]
Mapping of homologs : NCBIPTPRM [Mapview hg19]  PTPRM [Mapview hg38]
OMIM176888   
Gene and transcription
Genbank (Entrez)AA281524 AK294492 AK303652 BC040543 BC051651
RefSeq transcript (Entrez)NM_001105244 NM_002845
RefSeq genomic (Entrez)NC_000018 NC_018929 NT_010859 NW_004929409
Consensus coding sequences : CCDS (NCBI)PTPRM
Cluster EST : UnigeneHs.49774 [ NCBI ]
CGAP (NCI)Hs.49774
Alternative Splicing GalleryENSG00000173482
Gene ExpressionPTPRM [ NCBI-GEO ]   PTPRM [ EBI - ARRAY_EXPRESS ]   PTPRM [ SEEK ]   PTPRM [ MEM ]
Gene Expression Viewer (FireBrowse)PTPRM [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5797
GTEX Portal (Tissue expression)PTPRM
Protein : pattern, domain, 3D structure
UniProt/SwissProtP28827   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP28827  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP28827
Splice isoforms : SwissVarP28827
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 ]   
PhosPhoSitePlusP28827
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    Ig_sub    Immunoglobulin    MAM_dom    Prot-tyrosine_phosphatase-like    PTPase_domain    Tyr_Pase_AS    TYR_PHOSPHATASE_dom   
Domain families : Pfam (Sanger)fn3 (PF00041)    ig (PF00047)    MAM (PF00629)    Y_phosphatase (PF00102)   
Domain families : Pfam (NCBI)pfam00041    pfam00047    pfam00629    pfam00102   
Domain families : Smart (EMBL)FN3 (SM00060)  IG (SM00409)  MAM (SM00137)  PTPc (SM00194)  
Conserved Domain (NCBI)PTPRM
DMDM Disease mutations5797
Blocks (Seattle)PTPRM
PDB (SRS)1RPM    2C9A    2V5Y   
PDB (PDBSum)1RPM    2C9A    2V5Y   
PDB (IMB)1RPM    2C9A    2V5Y   
PDB (RSDB)1RPM    2C9A    2V5Y   
Structural Biology KnowledgeBase1RPM    2C9A    2V5Y   
SCOP (Structural Classification of Proteins)1RPM    2C9A    2V5Y   
CATH (Classification of proteins structures)1RPM    2C9A    2V5Y   
SuperfamilyP28827
Human Protein AtlasENSG00000173482
Peptide AtlasP28827
HPRD01479
IPIIPI00293849   IPI00642099   IPI00830140   IPI01009419   
Protein Interaction databases
DIP (DOE-UCLA)P28827
IntAct (EBI)P28827
FunCoupENSG00000173482
BioGRIDPTPRM
STRING (EMBL)PTPRM
ZODIACPTPRM
Ontologies - Pathways
QuickGOP28827
Ontology : AmiGOnegative regulation of endothelial cell proliferation  protein tyrosine phosphatase activity  transmembrane receptor protein tyrosine phosphatase activity  protein binding  cytoplasm  integral component of plasma membrane  cell-cell junction  cell-cell adherens junction  protein dephosphorylation  homophilic cell adhesion via plasma membrane adhesion molecules  signal transduction  negative regulation of endothelial cell migration  retina layer formation  negative regulation of angiogenesis  lamellipodium  neuron projection development  neuron projection development  retinal ganglion cell axon guidance  peptidyl-tyrosine dephosphorylation  peptidyl-tyrosine dephosphorylation  response to drug  identical protein binding  cadherin binding  positive regulation of vasodilation  perinuclear region of cytoplasm  
Ontology : EGO-EBInegative regulation of endothelial cell proliferation  protein tyrosine phosphatase activity  transmembrane receptor protein tyrosine phosphatase activity  protein binding  cytoplasm  integral component of plasma membrane  cell-cell junction  cell-cell adherens junction  protein dephosphorylation  homophilic cell adhesion via plasma membrane adhesion molecules  signal transduction  negative regulation of endothelial cell migration  retina layer formation  negative regulation of angiogenesis  lamellipodium  neuron projection development  neuron projection development  retinal ganglion cell axon guidance  peptidyl-tyrosine dephosphorylation  peptidyl-tyrosine dephosphorylation  response to drug  identical protein binding  cadherin binding  positive regulation of vasodilation  perinuclear region of cytoplasm  
Pathways : KEGGCell adhesion molecules (CAMs)    Adherens junction   
NDEx NetworkPTPRM
Atlas of Cancer Signalling NetworkPTPRM
Wikipedia pathwaysPTPRM
Orthology - Evolution
OrthoDB5797
GeneTree (enSembl)ENSG00000173482
Phylogenetic Trees/Animal Genes : TreeFamPTPRM
HOVERGENP28827
HOGENOMP28827
Homologs : HomoloGenePTPRM
Homology/Alignments : Family Browser (UCSC)PTPRM
Gene fusions - Rearrangements
Fusion : MitelmanANKRD12/PTPRM [18p11.22/18p11.23]  [t(18;18)(p11;p11)]  
Fusion : MitelmanPHACTR3/PTPRM [20q13.32/18p11.23]  [t(18;20)(p11;q13)]  
Fusion : MitelmanPTPRM/KCTD1 [18p11.23/18q11.2]  [t(18;18)(p11;q11)]  
Fusion : MitelmanPTPRM/KIAA1468 [18p11.23/18q21.33]  [t(18;18)(p11;q21)]  
Fusion: TCGAANKRD12 18p11.22 PTPRM 18p11.23 LUAD
Fusion: TCGAPTPRM 18p11.23 KCTD1 18q11.2 BRCA
Fusion: TCGAPTPRM 18p11.23 KIAA1468 18q21.33 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPTPRM [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PTPRM
dbVarPTPRM
ClinVarPTPRM
1000_GenomesPTPRM 
Exome Variant ServerPTPRM
ExAC (Exome Aggregation Consortium)PTPRM (select the gene name)
Genetic variants : HAPMAP5797
Genomic Variants (DGV)PTPRM [DGVbeta]
DECIPHER (Syndromes)18:7567314-8406859  ENSG00000173482
CONAN: Copy Number AnalysisPTPRM 
Mutations
ICGC Data PortalPTPRM 
TCGA Data PortalPTPRM 
Broad Tumor PortalPTPRM
OASIS PortalPTPRM [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPTPRM  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPTPRM
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 PTPRM
DgiDB (Drug Gene Interaction Database)PTPRM
DoCM (Curated mutations)PTPRM (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PTPRM (select a term)
intoGenPTPRM
Cancer3DPTPRM(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM176888   
Orphanet
MedgenPTPRM
Genetic Testing Registry PTPRM
NextProtP28827 [Medical]
TSGene5797
GENETestsPTPRM
Huge Navigator PTPRM [HugePedia]
snp3D : Map Gene to Disease5797
BioCentury BCIQPTPRM
ClinGenPTPRM
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5797
Chemical/Pharm GKB GenePA34020
Clinical trialPTPRM
Miscellaneous
canSAR (ICR)PTPRM (select the gene name)
Probes
Litterature
PubMed48 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePTPRM
EVEXPTPRM
GoPubMedPTPRM
iHOPPTPRM
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Mar 30 15:16:15 CEST 2017

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