Atlas of Genetics and Cytogenetics in Oncology and Haematology

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GDPD1 (glycerophosphodiester phosphodiesterase domain containing 1)

Identity

Alias_symbol (synonym)FLJ37451
GDE4
Other alias
HGNC (Hugo) GDPD1
LocusID (NCBI) 284161
Atlas_Id 63746
Location 17q22  [Link to chromosome band 17q22]
Location_base_pair Starts at 59220467 and ends at 59275969 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)
GDPD1 (17q22) / SMG8 (17q22)LOC144571 () / GDPD1 (17q22)MED1 (17q12) / GDPD1 (17q22)
TEX2 (17q23.3) / GDPD1 (17q22)VPS13B (8q22.2) / GDPD1 (17q22)MED1 GDPD1
TEX2 GDPD1

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(17;17)(q22;q23) TEX2/GDPD1

External links

Nomenclature
HGNC (Hugo)GDPD1   20883
Cards
Entrez_Gene (NCBI)GDPD1  284161  glycerophosphodiester phosphodiesterase domain containing 1
AliasesGDE4
GeneCards (Weizmann)GDPD1
Ensembl hg19 (Hinxton)ENSG00000153982 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000153982 [Gene_View]  ENSG00000153982 [Sequence]  chr17:59220467-59275969 [Contig_View]  GDPD1 [Vega]
ICGC DataPortalENSG00000153982
TCGA cBioPortalGDPD1
AceView (NCBI)GDPD1
Genatlas (Paris)GDPD1
WikiGenes284161
SOURCE (Princeton)GDPD1
Genetics Home Reference (NIH)GDPD1
Genomic and cartography
GoldenPath hg38 (UCSC)GDPD1  -     chr17:59220467-59275969 +  17q22   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)GDPD1  -     17q22   [Description]    (hg19-Feb_2009)
GoldenPathGDPD1 - 17q22 [CytoView hg19]  GDPD1 - 17q22 [CytoView hg38]
ImmunoBaseENSG00000153982
Mapping of homologs : NCBIGDPD1 [Mapview hg19]  GDPD1 [Mapview hg38]
OMIM616317   
Gene and transcription
Genbank (Entrez)AI478202 AK094770 AK131013 AY271346 BC034432
RefSeq transcript (Entrez)NM_001165993 NM_001165994 NM_182569
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)GDPD1
Alternative Splicing GalleryENSG00000153982
Gene ExpressionGDPD1 [ NCBI-GEO ]   GDPD1 [ EBI - ARRAY_EXPRESS ]   GDPD1 [ SEEK ]   GDPD1 [ MEM ]
Gene Expression Viewer (FireBrowse)GDPD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)284161
GTEX Portal (Tissue expression)GDPD1
Human Protein AtlasENSG00000153982-GDPD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8N9F7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8N9F7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8N9F7
Splice isoforms : SwissVarQ8N9F7
PhosPhoSitePlusQ8N9F7
Domaine pattern : Prosite (Expaxy)GP_PDE (PS51704)   
Domains : Interpro (EBI)GP_PDE_dom    PLC-like_Pdiesterase_TIM-brl   
Domain families : Pfam (Sanger)GDPD (PF03009)   
Domain families : Pfam (NCBI)pfam03009   
Conserved Domain (NCBI)GDPD1
DMDM Disease mutations284161
Blocks (Seattle)GDPD1
SuperfamilyQ8N9F7
Human Protein Atlas [tissue]ENSG00000153982-GDPD1 [tissue]
Peptide AtlasQ8N9F7
HPRD08223
IPIIPI00298535   IPI00788175   IPI00555788   
Protein Interaction databases
DIP (DOE-UCLA)Q8N9F7
IntAct (EBI)Q8N9F7
FunCoupENSG00000153982
BioGRIDGDPD1
STRING (EMBL)GDPD1
ZODIACGDPD1
Ontologies - Pathways
QuickGOQ8N9F7
Ontology : AmiGOlysophospholipase activity  lysophospholipase activity  endoplasmic reticulum membrane  phospholipid metabolic process  phosphoric diester hydrolase activity  membrane  integral component of membrane  glycerophospholipid catabolic process  metal ion binding  alkylglycerophosphoethanolamine phosphodiesterase activity  perinuclear region of cytoplasm  N-acylethanolamine metabolic process  N-acylethanolamine metabolic process  
Ontology : EGO-EBIlysophospholipase activity  lysophospholipase activity  endoplasmic reticulum membrane  phospholipid metabolic process  phosphoric diester hydrolase activity  membrane  integral component of membrane  glycerophospholipid catabolic process  metal ion binding  alkylglycerophosphoethanolamine phosphodiesterase activity  perinuclear region of cytoplasm  N-acylethanolamine metabolic process  N-acylethanolamine metabolic process  
NDEx NetworkGDPD1
Atlas of Cancer Signalling NetworkGDPD1
Wikipedia pathwaysGDPD1
Orthology - Evolution
OrthoDB284161
GeneTree (enSembl)ENSG00000153982
Phylogenetic Trees/Animal Genes : TreeFamGDPD1
HOGENOMQ8N9F7
Homologs : HomoloGeneGDPD1
Homology/Alignments : Family Browser (UCSC)GDPD1
Gene fusions - Rearrangements
Fusion PortalMED1 GDPD1
Fusion PortalTEX2 GDPD1
Fusion : QuiverGDPD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerGDPD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)GDPD1
dbVarGDPD1
ClinVarGDPD1
1000_GenomesGDPD1 
Exome Variant ServerGDPD1
ExAC (Exome Aggregation Consortium)ENSG00000153982
GNOMAD BrowserENSG00000153982
Varsome BrowserGDPD1
Genetic variants : HAPMAP284161
Genomic Variants (DGV)GDPD1 [DGVbeta]
DECIPHERGDPD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisGDPD1 
Mutations
ICGC Data PortalGDPD1 
TCGA Data PortalGDPD1 
Broad Tumor PortalGDPD1
OASIS PortalGDPD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICGDPD1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DGDPD1
Mutations and Diseases : HGMDGDPD1
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 GDPD1
DgiDB (Drug Gene Interaction Database)GDPD1
DoCM (Curated mutations)GDPD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)GDPD1 (select a term)
intoGenGDPD1
Cancer3DGDPD1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM616317   
Orphanet
DisGeNETGDPD1
MedgenGDPD1
Genetic Testing Registry GDPD1
NextProtQ8N9F7 [Medical]
TSGene284161
GENETestsGDPD1
Target ValidationGDPD1
Huge Navigator GDPD1 [HugePedia]
snp3D : Map Gene to Disease284161
BioCentury BCIQGDPD1
ClinGenGDPD1
Clinical trials, drugs, therapy
Protein Interactions : CTD284161
Pharm GKB GenePA134879258
Clinical trialGDPD1
Miscellaneous
canSAR (ICR)GDPD1 (select the gene name)
HarmonizomeGDPD1
DataMed IndexGDPD1
Probes
Litterature
PubMed12 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineGDPD1
EVEXGDPD1
GoPubMedGDPD1
iHOPGDPD1
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 : Tue Jun 30 19:40:55 CEST 2020
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