Atlas of Genetics and Cytogenetics in Oncology and Haematology

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GPCPD1 (glycerophosphocholine phosphodiesterase 1)

Identity

Alias (NCBI)EDI3
GDE5
GDPD6
PREI4
HGNC (Hugo) GPCPD1
HGNC Alias symbKIAA1434
GDE5
GDPD6
HGNC Previous nameglycerophosphocholine phosphodiesterase GDE1 homolog (S. cerevisiae)
LocusID (NCBI) 56261
Atlas_Id 55316
Location 20p12.3  [Link to chromosome band 20p12]
Location_base_pair Starts at 5544439 and ends at 5611006 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)
FSTL1 (3q13.33)::GPCPD1 (20p12.3)GPCPD1 (20p12.3)::CLDND1 (3q11.2)GPCPD1 (20p12.3)::FSTL1 (3q13.33)
PLCB1 (20p12.3)::GPCPD1 (20p12.3)SYTL4 (Xq22.1)::GPCPD1 (20p12.3)PLCB1 20p12.3::GPCPD1 20p12.3

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

 

External links

 

Nomenclature
HGNC (Hugo)GPCPD1   26957
Cards
Entrez_Gene (NCBI)GPCPD1    glycerophosphocholine phosphodiesterase 1
AliasesEDI3; GDE5; GDPD6; PREI4
GeneCards (Weizmann)GPCPD1
Ensembl hg19 (Hinxton)ENSG00000125772 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000125772 [Gene_View]  ENSG00000125772 [Sequence]  chr20:5544439-5611006 [Contig_View]  GPCPD1 [Vega]
ICGC DataPortalENSG00000125772
TCGA cBioPortalGPCPD1
AceView (NCBI)GPCPD1
Genatlas (Paris)GPCPD1
SOURCE (Princeton)GPCPD1
Genetics Home Reference (NIH)GPCPD1
Genomic and cartography
GoldenPath hg38 (UCSC)GPCPD1  -     chr20:5544439-5611006 -  20p12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)GPCPD1  -     20p12.3   [Description]    (hg19-Feb_2009)
GoldenPathGPCPD1 - 20p12.3 [CytoView hg19]  GPCPD1 - 20p12.3 [CytoView hg38]
ImmunoBaseENSG00000125772
Genome Data Viewer NCBIGPCPD1 [Mapview hg19]  
OMIM614124   
Gene and transcription
Genbank (Entrez)AB037855 AK001947 AK308111 AL049446 AL833069
RefSeq transcript (Entrez)NM_019593
Consensus coding sequences : CCDS (NCBI)GPCPD1
Gene ExpressionGPCPD1 [ NCBI-GEO ]   GPCPD1 [ EBI - ARRAY_EXPRESS ]   GPCPD1 [ SEEK ]   GPCPD1 [ MEM ]
Gene Expression Viewer (FireBrowse)GPCPD1 [ Firebrowse - Broad ]
GenevisibleExpression of GPCPD1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)56261
GTEX Portal (Tissue expression)GPCPD1
Human Protein AtlasENSG00000125772-GPCPD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NPB8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NPB8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NPB8
Catalytic activity : Enzyme3.1.4.2 [ Enzyme-Expasy ]   3.1.4.23.1.4.2 [ IntEnz-EBI ]   3.1.4.2 [ BRENDA ]   3.1.4.2 [ KEGG ]   [ MEROPS ]
PhosPhoSitePlusQ9NPB8
Domaine pattern : Prosite (Expaxy)CBM20 (PS51166)    GP_PDE (PS51704)   
Domains : Interpro (EBI)Carb-bd-like_fold    CBM20_GPCPD1    CBM_fam20    Gde1    GP_PDE_dom    Ig-like_fold    PLC-like_Pdiesterase_TIM-brl   
Domain families : Pfam (Sanger)CBM_20 (PF00686)    GDPD (PF03009)   
Domain families : Pfam (NCBI)pfam00686    pfam03009   
Domain families : Smart (EMBL)CBM_2 (SM01065)  
Conserved Domain (NCBI)GPCPD1
PDB (RSDB)2Z0B   
PDB Europe2Z0B   
PDB (PDBSum)2Z0B   
PDB (IMB)2Z0B   
Structural Biology KnowledgeBase2Z0B   
SCOP (Structural Classification of Proteins)2Z0B   
CATH (Classification of proteins structures)2Z0B   
SuperfamilyQ9NPB8
AlphaFold pdb e-kbQ9NPB8   
Human Protein Atlas [tissue]ENSG00000125772-GPCPD1 [tissue]
HPRD10025
Protein Interaction databases
DIP (DOE-UCLA)Q9NPB8
IntAct (EBI)Q9NPB8
BioGRIDGPCPD1
STRING (EMBL)GPCPD1
ZODIACGPCPD1
Ontologies - Pathways
QuickGOQ9NPB8
Ontology : AmiGOcytosol  skeletal muscle tissue development  glycerophospholipid catabolic process  glycerophosphocholine phosphodiesterase activity  starch binding  
Ontology : EGO-EBIcytosol  skeletal muscle tissue development  glycerophospholipid catabolic process  glycerophosphocholine phosphodiesterase activity  starch binding  
NDEx NetworkGPCPD1
Atlas of Cancer Signalling NetworkGPCPD1
Wikipedia pathwaysGPCPD1
Orthology - Evolution
OrthoDB56261
GeneTree (enSembl)ENSG00000125772
Phylogenetic Trees/Animal Genes : TreeFamGPCPD1
Homologs : HomoloGeneGPCPD1
Homology/Alignments : Family Browser (UCSC)GPCPD1
Gene fusions - Rearrangements
Fusion : MitelmanPLCB1::GPCPD1 [20p12.3/20p12.3]  
Fusion Cancer (Beijing)GPCPD1 [20p12.3]  -  CLDND1 [3q11.2]  [FUSC000540]
Fusion : QuiverGPCPD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerGPCPD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)GPCPD1
dbVarGPCPD1
ClinVarGPCPD1
MonarchGPCPD1
1000_GenomesGPCPD1 
Exome Variant ServerGPCPD1
GNOMAD BrowserENSG00000125772
Varsome BrowserGPCPD1
ACMGGPCPD1 variants
VarityQ9NPB8
Genomic Variants (DGV)GPCPD1 [DGVbeta]
DECIPHERGPCPD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisGPCPD1 
Mutations
ICGC Data PortalGPCPD1 
TCGA Data PortalGPCPD1 
Broad Tumor PortalGPCPD1
OASIS PortalGPCPD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICGPCPD1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DGPCPD1
Mutations and Diseases : HGMDGPCPD1
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaGPCPD1
DgiDB (Drug Gene Interaction Database)GPCPD1
DoCM (Curated mutations)GPCPD1
CIViC (Clinical Interpretations of Variants in Cancer)GPCPD1
Cancer3DGPCPD1
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM614124   
Orphanet
DisGeNETGPCPD1
MedgenGPCPD1
Genetic Testing Registry GPCPD1
NextProtQ9NPB8 [Medical]
GENETestsGPCPD1
Target ValidationGPCPD1
Huge Navigator GPCPD1 [HugePedia]
ClinGenGPCPD1
Clinical trials, drugs, therapy
MyCancerGenomeGPCPD1
Protein Interactions : CTDGPCPD1
Pharm GKB GenePA165392351
PharosQ9NPB8
Clinical trialGPCPD1
Miscellaneous
canSAR (ICR)GPCPD1
HarmonizomeGPCPD1
ARCHS4GPCPD1
DataMed IndexGPCPD1
Probes
Litterature
PubMed15 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXGPCPD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Jan 20 12:35:38 CET 2022
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