Atlas of Genetics and Cytogenetics in Oncology and Haematology

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PDE3B (phosphodiesterase 3B)

Identity

Alias_namesphosphodiesterase 3B
Alias_symbol (synonym)HcGIP1
Other aliascGIPDE1
HGNC (Hugo) PDE3B
LocusID (NCBI) 5140
Atlas_Id 45572
Location 11p15.2  [Link to chromosome band 11p15]
Location_base_pair Starts at 14643723 and ends at 14872058 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)
PDE3B (11p15.2) / ATP11B (3q26.33)SBF2 (11p15.4) / PDE3B (11p15.2)SPATA8 (15q26.2) / PDE3B (11p15.2)
SBF2 11p15.4 / PDE3B 11p15.2

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) [ 3 ]
  Lung: Translocations in Squamous Cell Carcinoma
t(3;11)(q26;p15) PDE3B/ATP11B
SBF2/PDE3B (11p15)

External links

Nomenclature
HGNC (Hugo)PDE3B   8779
Cards
Entrez_Gene (NCBI)PDE3B  5140  phosphodiesterase 3B
AliasesHcGIP1; cGIPDE1
GeneCards (Weizmann)PDE3B
Ensembl hg19 (Hinxton)ENSG00000152270 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000152270 [Gene_View]  ENSG00000152270 [Sequence]  chr11:14643723-14872058 [Contig_View]  PDE3B [Vega]
ICGC DataPortalENSG00000152270
TCGA cBioPortalPDE3B
AceView (NCBI)PDE3B
Genatlas (Paris)PDE3B
WikiGenes5140
SOURCE (Princeton)PDE3B
Genetics Home Reference (NIH)PDE3B
Genomic and cartography
GoldenPath hg38 (UCSC)PDE3B  -     chr11:14643723-14872058 +  11p15.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PDE3B  -     11p15.2   [Description]    (hg19-Feb_2009)
EnsemblPDE3B - 11p15.2 [CytoView hg19]  PDE3B - 11p15.2 [CytoView hg38]
Mapping of homologs : NCBIPDE3B [Mapview hg19]  PDE3B [Mapview hg38]
OMIM602047   
Gene and transcription
Genbank (Entrez)AB209326 AY459346 BC136565 BC136566 BC144248
RefSeq transcript (Entrez)NM_000922 NM_001363569 NM_001363570
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PDE3B
Cluster EST : UnigeneHs.445711 [ NCBI ]
CGAP (NCI)Hs.445711
Alternative Splicing GalleryENSG00000152270
Gene ExpressionPDE3B [ NCBI-GEO ]   PDE3B [ EBI - ARRAY_EXPRESS ]   PDE3B [ SEEK ]   PDE3B [ MEM ]
Gene Expression Viewer (FireBrowse)PDE3B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5140
GTEX Portal (Tissue expression)PDE3B
Human Protein AtlasENSG00000152270-PDE3B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ13370   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ13370  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ13370
Splice isoforms : SwissVarQ13370
Catalytic activity : Enzyme3.1.4.17 [ Enzyme-Expasy ]   3.1.4.173.1.4.17 [ IntEnz-EBI ]   3.1.4.17 [ BRENDA ]   3.1.4.17 [ KEGG ]   
PhosPhoSitePlusQ13370
Domaine pattern : Prosite (Expaxy)PDEASE_I_1 (PS00126)    PDEASE_I_2 (PS51845)   
Domains : Interpro (EBI)HD/PDEase_dom    PDEase_catalytic_dom    PDEase_catalytic_dom_sf    PDEase_CS   
Domain families : Pfam (Sanger)PDEase_I (PF00233)   
Domain families : Pfam (NCBI)pfam00233   
Domain families : Smart (EMBL)HDc (SM00471)  
Conserved Domain (NCBI)PDE3B
DMDM Disease mutations5140
Blocks (Seattle)PDE3B
PDB (SRS)1SO2    1SOJ   
PDB (PDBSum)1SO2    1SOJ   
PDB (IMB)1SO2    1SOJ   
PDB (RSDB)1SO2    1SOJ   
Structural Biology KnowledgeBase1SO2    1SOJ   
SCOP (Structural Classification of Proteins)1SO2    1SOJ   
CATH (Classification of proteins structures)1SO2    1SOJ   
SuperfamilyQ13370
Human Protein Atlas [tissue]ENSG00000152270-PDE3B [tissue]
Peptide AtlasQ13370
HPRD03626
IPIIPI00012843   IPI00556146   IPI00974124   
Protein Interaction databases
DIP (DOE-UCLA)Q13370
IntAct (EBI)Q13370
FunCoupENSG00000152270
BioGRIDPDE3B
STRING (EMBL)PDE3B
ZODIACPDE3B
Ontologies - Pathways
QuickGOQ13370
Ontology : AmiGOangiogenesis  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  cGMP-inhibited cyclic-nucleotide phosphodiesterase activity  protein binding  endoplasmic reticulum  Golgi apparatus  cytosol  negative regulation of cell adhesion  G protein-coupled receptor signaling pathway  membrane  membrane  membrane  integral component of membrane  negative regulation of angiogenesis  guanyl-nucleotide exchange factor complex  cellular response to insulin stimulus  negative regulation of cell adhesion mediated by integrin  protein kinase B binding  protein kinase B binding  negative regulation of cAMP-mediated signaling  negative regulation of cAMP-mediated signaling  metal ion binding  3',5'-cyclic-GMP phosphodiesterase activity  negative regulation of lipid catabolic process  
Ontology : EGO-EBIangiogenesis  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  cGMP-inhibited cyclic-nucleotide phosphodiesterase activity  protein binding  endoplasmic reticulum  Golgi apparatus  cytosol  negative regulation of cell adhesion  G protein-coupled receptor signaling pathway  membrane  membrane  membrane  integral component of membrane  negative regulation of angiogenesis  guanyl-nucleotide exchange factor complex  cellular response to insulin stimulus  negative regulation of cell adhesion mediated by integrin  protein kinase B binding  protein kinase B binding  negative regulation of cAMP-mediated signaling  negative regulation of cAMP-mediated signaling  metal ion binding  3',5'-cyclic-GMP phosphodiesterase activity  negative regulation of lipid catabolic process  
Pathways : KEGGPurine metabolism    Insulin signaling pathway    Progesterone-mediated oocyte maturation    Morphine addiction   
NDEx NetworkPDE3B
Atlas of Cancer Signalling NetworkPDE3B
Wikipedia pathwaysPDE3B
Orthology - Evolution
OrthoDB5140
GeneTree (enSembl)ENSG00000152270
Phylogenetic Trees/Animal Genes : TreeFamPDE3B
HOGENOMQ13370
Homologs : HomoloGenePDE3B
Homology/Alignments : Family Browser (UCSC)PDE3B
Gene fusions - Rearrangements
Fusion : MitelmanPDE3B/ATP11B [11p15.2/3q26.33]  
Fusion : MitelmanSBF2/PDE3B [11p15.4/11p15.2]  [t(11;11)(p15;p15)]  
Fusion PortalSBF2 11p15.4 PDE3B 11p15.2 LUAD
Fusion : QuiverPDE3B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDE3B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDE3B
dbVarPDE3B
ClinVarPDE3B
1000_GenomesPDE3B 
Exome Variant ServerPDE3B
ExAC (Exome Aggregation Consortium)ENSG00000152270
GNOMAD BrowserENSG00000152270
Varsome BrowserPDE3B
Genetic variants : HAPMAP5140
Genomic Variants (DGV)PDE3B [DGVbeta]
DECIPHERPDE3B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPDE3B 
Mutations
ICGC Data PortalPDE3B 
TCGA Data PortalPDE3B 
Broad Tumor PortalPDE3B
OASIS PortalPDE3B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDE3B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDE3B
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 PDE3B
DgiDB (Drug Gene Interaction Database)PDE3B
DoCM (Curated mutations)PDE3B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDE3B (select a term)
intoGenPDE3B
Cancer3DPDE3B(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602047   
Orphanet
DisGeNETPDE3B
MedgenPDE3B
Genetic Testing Registry PDE3B
NextProtQ13370 [Medical]
TSGene5140
GENETestsPDE3B
Target ValidationPDE3B
Huge Navigator PDE3B [HugePedia]
snp3D : Map Gene to Disease5140
BioCentury BCIQPDE3B
ClinGenPDE3B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5140
Chemical/Pharm GKB GenePA33127
Clinical trialPDE3B
Miscellaneous
canSAR (ICR)PDE3B (select the gene name)
Probes
Litterature
PubMed43 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDE3B
EVEXPDE3B
GoPubMedPDE3B
iHOPPDE3B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Dec 21 15:41:48 CET 2018
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