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PDE4D (phosphodiesterase 4D)

Identity

Alias_namesDPDE3
phosphodiesterase 4D, cAMP-specific (dunce (Drosophila)-homolog phosphodiesterase E3)
phosphodiesterase 4D, cAMP-specific
Other aliasACRDYS2
HSPDE4D
PDE43
PDE4DN2
STRK1
HGNC (Hugo) PDE4D
LocusID (NCBI) 5144
Atlas_Id 43832
Location 5q11.2  [Link to chromosome band 5q11]
Location_base_pair Starts at 58264866 and ends at 59189621 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
DEPDC1B (5q12.1) / PDE4D (5q11.2)PDE4D (5q11.2) / AGPAT4 (6q26)PDE4D (5q11.2) / C5orf47 (5q35.2)
PDE4D (5q11.2) / CRABP1 (15q25.1)PDE4D (5q11.2) / DEPDC1B (5q12.1)PDE4D (5q11.2) / ELOVL7 (5q12.1)
PDE4D (5q11.2) / ERCC8 (5q12.1)PDE4D (5q11.2) / INTS10 (8p21.3)PDE4D (5q11.2) / KCTD2 (17q25.1)
PDE4D (5q11.2) / KIAA1217 (10p12.2)PDE4D (5q11.2) / MCTP1 (5q15)PDE4D (5q11.2) / PDE4D (5q11.2)
PDE4D (5q11.2) / PLPP1 (5q11.2)PDE4D (5q11.2) / RAB24 (5q35.3)PDE4D (5q11.2) / RGS7BP (5q12.3)
PDE4D (5q11.2) / RP11-325I22.2 ()PDE4D (5q11.2) / SLC16A9 (10q21.2)RAB37 (17q25.1) / PDE4D (5q11.2)
REPS1 (6q24.1) / PDE4D (5q11.2)TAB2 (6q25.1) / PDE4D (5q11.2)PDE4D 5q11.2 / CRABP1 15q25.1
PDE4D 5q11.2 / DEPDC1B 5q12.1PDE4D 5q11.2 / ELOVL7 5q12.1PDE4D 5q11.2 / ERCC8 5q12.1
PDE4D 5q11.2 / INTS10 8p21.3PDE4D 5q11.2 / MCTP1 5q15PDE4D 5q11.2 / PPAP2A 5q11.2
PDE4D 5q11.2 / RAB24 5q35.3PDE4D 5q11.2 / RGS7BP 5q12.3PDE4D 5q11.2 RP11-325I22.2

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

 


External links

Nomenclature
HGNC (Hugo)PDE4D   8783
Cards
Entrez_Gene (NCBI)PDE4D  5144  phosphodiesterase 4D
AliasesACRDYS2; DPDE3; HSPDE4D; PDE43; 
PDE4DN2; STRK1
GeneCards (Weizmann)PDE4D
Ensembl hg19 (Hinxton)ENSG00000113448 [Gene_View]  chr5:58264866-59189621 [Contig_View]  PDE4D [Vega]
Ensembl hg38 (Hinxton)ENSG00000113448 [Gene_View]  chr5:58264866-59189621 [Contig_View]  PDE4D [Vega]
ICGC DataPortalENSG00000113448
TCGA cBioPortalPDE4D
AceView (NCBI)PDE4D
Genatlas (Paris)PDE4D
WikiGenes5144
SOURCE (Princeton)PDE4D
Genetics Home Reference (NIH)PDE4D
Genomic and cartography
GoldenPath hg19 (UCSC)PDE4D  -     chr5:58264866-59189621 -  5q11.2   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PDE4D  -     5q11.2   [Description]    (hg38-Dec_2013)
EnsemblPDE4D - 5q11.2 [CytoView hg19]  PDE4D - 5q11.2 [CytoView hg38]
Mapping of homologs : NCBIPDE4D [Mapview hg19]  PDE4D [Mapview hg38]
OMIM600129   606799   614613   
Gene and transcription
Genbank (Entrez)AF012073 AF012074 AF536975 AF536976 AF536977
RefSeq transcript (Entrez)NM_001104631 NM_001165899 NM_001197218 NM_001197219 NM_001197220 NM_001197221 NM_001197222 NM_001197223 NM_006203
RefSeq genomic (Entrez)NC_000005 NC_018916 NG_027957 NT_034772 NW_004929322
Consensus coding sequences : CCDS (NCBI)PDE4D
Cluster EST : UnigeneHs.117545 [ NCBI ]
CGAP (NCI)Hs.117545
Alternative Splicing GalleryENSG00000113448
Gene ExpressionPDE4D [ NCBI-GEO ]   PDE4D [ EBI - ARRAY_EXPRESS ]   PDE4D [ SEEK ]   PDE4D [ MEM ]
Gene Expression Viewer (FireBrowse)PDE4D [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5144
GTEX Portal (Tissue expression)PDE4D
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ08499   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ08499  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ08499
Splice isoforms : SwissVarQ08499
Catalytic activity : Enzyme3.1.4.53 [ Enzyme-Expasy ]   3.1.4.533.1.4.53 [ IntEnz-EBI ]   3.1.4.53 [ BRENDA ]   3.1.4.53 [ KEGG ]   
PhosPhoSitePlusQ08499
Domaine pattern : Prosite (Expaxy)PDEASE_I (PS00126)   
Domains : Interpro (EBI)HD/PDEase_dom    PDEase    PDEase_catalytic_dom    PDEase_CS   
Domain families : Pfam (Sanger)PDEase_I (PF00233)   
Domain families : Pfam (NCBI)pfam00233   
Domain families : Smart (EMBL)HDc (SM00471)  
Conserved Domain (NCBI)PDE4D
DMDM Disease mutations5144
Blocks (Seattle)PDE4D
PDB (SRS)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
PDB (PDBSum)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
PDB (IMB)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
PDB (RSDB)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
Structural Biology KnowledgeBase1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
SCOP (Structural Classification of Proteins)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
CATH (Classification of proteins structures)1E9K    1MKD    1OYN    1PTW    1Q9M    1TB7    1TBB    1XOM    1XON    1XOQ    1XOR    1Y2B    1Y2C    1Y2D    1Y2E    1Y2K    1ZKN    2FM0    2FM5    2PW3    2QYN    3G4G    3G4I    3G4K    3G4L    3G58    3IAD    3IAK    3K4S    3SL3    3SL4    3SL5    3SL6    3SL8    3V9B    4OGB    4W1O    4WCU   
SuperfamilyQ08499
Human Protein AtlasENSG00000113448
Peptide AtlasQ08499
HPRD02530
IPIIPI00002449   IPI00514643   IPI00514112   IPI00828158   IPI00375235   IPI00375236   IPI00386765   IPI00478370   IPI00514183   IPI00963973   IPI00382487   IPI00217567   IPI00964951   IPI00968108   IPI00967438   IPI00217565   IPI00964273   
Protein Interaction databases
DIP (DOE-UCLA)Q08499
IntAct (EBI)Q08499
FunCoupENSG00000113448
BioGRIDPDE4D
STRING (EMBL)PDE4D
ZODIACPDE4D
Ontologies - Pathways
QuickGOQ08499
Ontology : AmiGOregulation of heart rate  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  protein binding  centrosome  cytosol  cytosol  voltage-gated calcium channel complex  cAMP catabolic process  cAMP catabolic process  cAMP catabolic process  cAMP catabolic process  smooth muscle contraction  aging  drug binding  regulation of receptor activity  regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum  membrane  membrane  apical plasma membrane  enzyme binding  cAMP-mediated signaling  cAMP binding  neutrophil chemotaxis  regulation of cAMP metabolic process  ubiquitin protein ligase binding  beta-2 adrenergic receptor binding  positive regulation of interferon-gamma production  positive regulation of interleukin-2 production  positive regulation of interleukin-5 production  negative regulation of peptidyl-serine phosphorylation  calcium channel complex  multicellular organism growth  ion channel binding  ion channel binding  negative regulation of heart contraction  metal ion binding  T cell receptor signaling pathway  ATPase binding  regulation of ryanodine-sensitive calcium-release channel activity  establishment of endothelial barrier  cellular response to lipopolysaccharide  cellular response to cAMP  cellular response to epinephrine stimulus  cellular response to epinephrine stimulus  adrenergic receptor signaling pathway  regulation of cardiac muscle cell contraction  adrenergic receptor signaling pathway involved in positive regulation of heart rate  scaffold protein binding  regulation of cell communication by electrical coupling involved in cardiac conduction  negative regulation of relaxation of cardiac muscle  
Ontology : EGO-EBIregulation of heart rate  3',5'-cyclic-nucleotide phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  3',5'-cyclic-AMP phosphodiesterase activity  protein binding  centrosome  cytosol  cytosol  voltage-gated calcium channel complex  cAMP catabolic process  cAMP catabolic process  cAMP catabolic process  cAMP catabolic process  smooth muscle contraction  aging  drug binding  regulation of receptor activity  regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum  membrane  membrane  apical plasma membrane  enzyme binding  cAMP-mediated signaling  cAMP binding  neutrophil chemotaxis  regulation of cAMP metabolic process  ubiquitin protein ligase binding  beta-2 adrenergic receptor binding  positive regulation of interferon-gamma production  positive regulation of interleukin-2 production  positive regulation of interleukin-5 production  negative regulation of peptidyl-serine phosphorylation  calcium channel complex  multicellular organism growth  ion channel binding  ion channel binding  negative regulation of heart contraction  metal ion binding  T cell receptor signaling pathway  ATPase binding  regulation of ryanodine-sensitive calcium-release channel activity  establishment of endothelial barrier  cellular response to lipopolysaccharide  cellular response to cAMP  cellular response to epinephrine stimulus  cellular response to epinephrine stimulus  adrenergic receptor signaling pathway  regulation of cardiac muscle cell contraction  adrenergic receptor signaling pathway involved in positive regulation of heart rate  scaffold protein binding  regulation of cell communication by electrical coupling involved in cardiac conduction  negative regulation of relaxation of cardiac muscle  
Pathways : KEGGPurine metabolism    Morphine addiction   
NDEx NetworkPDE4D
Atlas of Cancer Signalling NetworkPDE4D
Wikipedia pathwaysPDE4D
Orthology - Evolution
OrthoDB5144
GeneTree (enSembl)ENSG00000113448
Phylogenetic Trees/Animal Genes : TreeFamPDE4D
HOVERGENQ08499
HOGENOMQ08499
Homologs : HomoloGenePDE4D
Homology/Alignments : Family Browser (UCSC)PDE4D
Gene fusions - Rearrangements
Fusion : MitelmanPDE4D/C5orf47 [5q11.2/5q35.2]  
Fusion : MitelmanPDE4D/CRABP1 [5q11.2/15q25.1]  [t(5;15)(q12;q25)]  
Fusion : MitelmanPDE4D/DEPDC1B [5q11.2/5q12.1]  [t(5;5)(q12;q12)]  
Fusion : MitelmanPDE4D/ELOVL7 [5q11.2/5q12.1]  [t(5;5)(q12;q12)]  
Fusion : MitelmanPDE4D/ERCC8 [5q11.2/5q12.1]  [t(5;5)(q12;q12)]  
Fusion : MitelmanPDE4D/INTS10 [5q11.2/8p21.3]  [t(5;8)(q12;p21)]  
Fusion : MitelmanPDE4D/PPAP2A [5q11.2/5q11.2]  [t(5;5)(q11;q12)]  
Fusion : MitelmanPDE4D/RAB24 [5q11.2/5q35.3]  [t(5;5)(q12;q35)]  
Fusion : MitelmanPDE4D/RGS7BP [5q11.2/5q12.3]  [t(5;5)(q12;q12)]  
Fusion: TCGAPDE4D 5q11.2 CRABP1 15q25.1 LUAD
Fusion: TCGAPDE4D 5q11.2 DEPDC1B 5q12.1 BRCA LUAD LUSC PRAD
Fusion: TCGAPDE4D 5q11.2 ELOVL7 5q12.1 LUAD PRAD
Fusion: TCGAPDE4D 5q11.2 ERCC8 5q12.1 BRCA
Fusion: TCGAPDE4D 5q11.2 INTS10 8p21.3 PRAD
Fusion: TCGAPDE4D 5q11.2 MCTP1 5q15 LUSC
Fusion: TCGAPDE4D 5q11.2 PPAP2A 5q11.2 PRAD
Fusion: TCGAPDE4D 5q11.2 RAB24 5q35.3 PRAD
Fusion: TCGAPDE4D 5q11.2 RGS7BP 5q12.3 LUSC
Fusion: TCGAPDE4D 5q11.2 RP11-325I22.2 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPDE4D [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PDE4D
dbVarPDE4D
ClinVarPDE4D
1000_GenomesPDE4D 
Exome Variant ServerPDE4D
ExAC (Exome Aggregation Consortium)PDE4D (select the gene name)
Genetic variants : HAPMAP5144
Genomic Variants (DGV)PDE4D [DGVbeta]
DECIPHER (Syndromes)5:58264866-59189621  ENSG00000113448
CONAN: Copy Number AnalysisPDE4D 
Mutations
ICGC Data PortalPDE4D 
TCGA Data PortalPDE4D 
Broad Tumor PortalPDE4D
OASIS PortalPDE4D [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPDE4D  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPDE4D
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
LOVD (Leiden Open Variation Database)Mendelian genes
BioMutasearch PDE4D
DgiDB (Drug Gene Interaction Database)PDE4D
DoCM (Curated mutations)PDE4D (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PDE4D (select a term)
intoGenPDE4D
Cancer3DPDE4D(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600129    606799    614613   
Orphanet1269    20490    23391   
MedgenPDE4D
Genetic Testing Registry PDE4D
NextProtQ08499 [Medical]
TSGene5144
GENETestsPDE4D
Huge Navigator PDE4D [HugePedia]
snp3D : Map Gene to Disease5144
BioCentury BCIQPDE4D
ClinGenPDE4D (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5144
Chemical/Pharm GKB GenePA33130
Clinical trialPDE4D
Miscellaneous
canSAR (ICR)PDE4D (select the gene name)
Probes
Litterature
PubMed183 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePDE4D
EVEXPDE4D
GoPubMedPDE4D
iHOPPDE4D
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 15:13:52 CEST 2017

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