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PDPN (podoplanin)

Identity

Alias_symbol (synonym)T1A-2
Gp38
aggrus
GP40
PA2.26
Other aliasAGGRUS
GP36
HT1A-1
OTS8
T1A
T1A2
TI1A
HGNC (Hugo) PDPN
LocusID (NCBI) 10630
Atlas_Id 42455
Location 16p13.3  [Link to chromosome band 16p13]
Location_base_pair Starts at 13583757 and ends at 13617957 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)
PDPN (1p36.21) / PRKCB (16p12.2)PDPN (1p36.21) / VEZT (12q22)

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(1;16)(p36;p12) PDPN/PRKCB


External links

Nomenclature
HGNC (Hugo)PDPN   29602
Cards
Entrez_Gene (NCBI)PDPN  10630  podoplanin
AliasesAGGRUS; GP36; GP40; Gp38; 
HT1A-1; OTS8; PA2.26; T1A; T1A-2; T1A2; TI1A
GeneCards (Weizmann)PDPN
Ensembl hg19 (Hinxton)ENSG00000162493 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000162493 [Gene_View]  ENSG00000162493 [Sequence]  chr1:13583757-13617957 [Contig_View]  PDPN [Vega]
ICGC DataPortalENSG00000162493
TCGA cBioPortalPDPN
AceView (NCBI)PDPN
Genatlas (Paris)PDPN
WikiGenes10630
SOURCE (Princeton)PDPN
Genetics Home Reference (NIH)PDPN
Genomic and cartography
GoldenPath hg38 (UCSC)PDPN  -     chr1:13583757-13617957 +  16p13.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDPN  -     16p13.3   [Description]    (hg19-Feb_2009)
EnsemblPDPN - 16p13.3 [CytoView hg19]  PDPN - 16p13.3 [CytoView hg38]
Mapping of homologs : NCBIPDPN [Mapview hg19]  PDPN [Mapview hg38]
OMIM608863   
Gene and transcription
Genbank (Entrez)AB127958 AF030427 AF030428 AF390106 AJ225022
RefSeq transcript (Entrez)NM_001006624 NM_001006625 NM_006474 NM_198389
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PDPN
Cluster EST : UnigeneHs.468675 [ NCBI ]
CGAP (NCI)Hs.468675
Alternative Splicing GalleryENSG00000162493
Gene ExpressionPDPN [ NCBI-GEO ]   PDPN [ EBI - ARRAY_EXPRESS ]   PDPN [ SEEK ]   PDPN [ MEM ]
Gene Expression Viewer (FireBrowse)PDPN [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10630
GTEX Portal (Tissue expression)PDPN
Human Protein AtlasENSG00000162493-PDPN [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86YL7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86YL7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86YL7
Splice isoforms : SwissVarQ86YL7
PhosPhoSitePlusQ86YL7
Domains : Interpro (EBI)Podoplanin   
Domain families : Pfam (Sanger)Podoplanin (PF05808)   
Domain families : Pfam (NCBI)pfam05808   
Conserved Domain (NCBI)PDPN
DMDM Disease mutations10630
Blocks (Seattle)PDPN
PDB (SRS)3WSR    4YO0    5XCV   
PDB (PDBSum)3WSR    4YO0    5XCV   
PDB (IMB)3WSR    4YO0    5XCV   
PDB (RSDB)3WSR    4YO0    5XCV   
Structural Biology KnowledgeBase3WSR    4YO0    5XCV   
SCOP (Structural Classification of Proteins)3WSR    4YO0    5XCV   
CATH (Classification of proteins structures)3WSR    4YO0    5XCV   
SuperfamilyQ86YL7
Human Protein Atlas [tissue]ENSG00000162493-PDPN [tissue]
Peptide AtlasQ86YL7
HPRD16398
IPIIPI00744200   IPI00002438   IPI00007959   IPI00383612   IPI00965792   IPI00966629   IPI00967001   IPI00966129   IPI00828024   
Protein Interaction databases
DIP (DOE-UCLA)Q86YL7
IntAct (EBI)Q86YL7
FunCoupENSG00000162493
BioGRIDPDPN
STRING (EMBL)PDPN
ZODIACPDPN
Ontologies - Pathways
QuickGOQ86YL7
Ontology : AmiGOcell morphogenesis  ruffle  lymphangiogenesis  signaling receptor binding  water transmembrane transporter activity  protein binding  cytosol  plasma membrane  plasma membrane  plasma membrane  integral component of plasma membrane  water transport  amino acid transport  Rho protein signal transduction  negative regulation of cell proliferation  regulation of cell shape  folic acid transmembrane transporter activity  positive regulation of epithelial to mesenchymal transition  amino acid transmembrane transporter activity  water channel activity  folic acid transport  membrane  basolateral plasma membrane  apical plasma membrane  chemokine binding  lamellipodium  cell junction  platelet activation  filopodium  lung development  positive regulation of cell migration  lamellipodium membrane  cytoplasmic vesicle  filopodium membrane  microvillus membrane  ruffle membrane  cell projection  negative regulation of apoptotic process  wound healing, spreading of cells  membrane raft  lymph node development  chaperone binding  positive regulation of cellular component movement  lymphatic endothelial cell fate commitment  leading edge of lamellipodium  actin-mediated cell contraction  invadopodium  positive regulation of extracellular matrix disassembly  tetraspanin-enriched microdomain  regulation of substrate adhesion-dependent cell spreading  positive regulation of platelet aggregation  positive regulation of platelet aggregation  regulation of myofibroblast contraction  invadopodium organization  regulation of lamellipodium morphogenesis  
Ontology : EGO-EBIcell morphogenesis  ruffle  lymphangiogenesis  signaling receptor binding  water transmembrane transporter activity  protein binding  cytosol  plasma membrane  plasma membrane  plasma membrane  integral component of plasma membrane  water transport  amino acid transport  Rho protein signal transduction  negative regulation of cell proliferation  regulation of cell shape  folic acid transmembrane transporter activity  positive regulation of epithelial to mesenchymal transition  amino acid transmembrane transporter activity  water channel activity  folic acid transport  membrane  basolateral plasma membrane  apical plasma membrane  chemokine binding  lamellipodium  cell junction  platelet activation  filopodium  lung development  positive regulation of cell migration  lamellipodium membrane  cytoplasmic vesicle  filopodium membrane  microvillus membrane  ruffle membrane  cell projection  negative regulation of apoptotic process  wound healing, spreading of cells  membrane raft  lymph node development  chaperone binding  positive regulation of cellular component movement  lymphatic endothelial cell fate commitment  leading edge of lamellipodium  actin-mediated cell contraction  invadopodium  positive regulation of extracellular matrix disassembly  tetraspanin-enriched microdomain  regulation of substrate adhesion-dependent cell spreading  positive regulation of platelet aggregation  positive regulation of platelet aggregation  regulation of myofibroblast contraction  invadopodium organization  regulation of lamellipodium morphogenesis  
NDEx NetworkPDPN
Atlas of Cancer Signalling NetworkPDPN
Wikipedia pathwaysPDPN
Orthology - Evolution
OrthoDB10630
GeneTree (enSembl)ENSG00000162493
Phylogenetic Trees/Animal Genes : TreeFamPDPN
HOVERGENQ86YL7
HOGENOMQ86YL7
Homologs : HomoloGenePDPN
Homology/Alignments : Family Browser (UCSC)PDPN
Gene fusions - Rearrangements
Fusion : MitelmanPDPN/PRKCB [1p36.21/16p12.2]  
Fusion : QuiverPDPN
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDPN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDPN
dbVarPDPN
ClinVarPDPN
1000_GenomesPDPN 
Exome Variant ServerPDPN
ExAC (Exome Aggregation Consortium)ENSG00000162493
GNOMAD BrowserENSG00000162493
Varsome BrowserPDPN
Genetic variants : HAPMAP10630
Genomic Variants (DGV)PDPN [DGVbeta]
DECIPHERPDPN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDPN 
Mutations
ICGC Data PortalPDPN 
TCGA Data PortalPDPN 
Broad Tumor PortalPDPN
OASIS PortalPDPN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDPN  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDPN
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 PDPN
DgiDB (Drug Gene Interaction Database)PDPN
DoCM (Curated mutations)PDPN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDPN (select a term)
intoGenPDPN
Cancer3DPDPN(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608863   
Orphanet
DisGeNETPDPN
MedgenPDPN
Genetic Testing Registry PDPN
NextProtQ86YL7 [Medical]
TSGene10630
GENETestsPDPN
Target ValidationPDPN
Huge Navigator PDPN [HugePedia]
snp3D : Map Gene to Disease10630
BioCentury BCIQPDPN
ClinGenPDPN
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10630
Chemical/Pharm GKB GenePA142671187
Clinical trialPDPN
Miscellaneous
canSAR (ICR)PDPN (select the gene name)
Probes
Litterature
PubMed203 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDPN
EVEXPDPN
GoPubMedPDPN
iHOPPDPN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Thu Aug 16 11:22:38 CEST 2018

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