Atlas of Genetics and Cytogenetics in Oncology and Haematology


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PCDHB5 (protocadherin beta 5)

Identity

Alias_symbol (synonym)DKFZp586B0217
PCDH-BETA5
Other alias
HGNC (Hugo) PCDHB5
LocusID (NCBI) 26167
Atlas_Id 71733
Location 5q31.3  [Link to chromosome band 5q31]
Location_base_pair Starts at 141135206 and ends at 141138127 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)
HSP90AA1 (14q32.31) / PCDHB5 (5q31.3)

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)PCDHB5   8690
Cards
Entrez_Gene (NCBI)PCDHB5  26167  protocadherin beta 5
AliasesPCDH-BETA5
GeneCards (Weizmann)PCDHB5
Ensembl hg19 (Hinxton)ENSG00000113209 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000113209 [Gene_View]  chr5:141135206-141138127 [Contig_View]  PCDHB5 [Vega]
ICGC DataPortalENSG00000113209
TCGA cBioPortalPCDHB5
AceView (NCBI)PCDHB5
Genatlas (Paris)PCDHB5
WikiGenes26167
SOURCE (Princeton)PCDHB5
Genetics Home Reference (NIH)PCDHB5
Genomic and cartography
GoldenPath hg38 (UCSC)PCDHB5  -     chr5:141135206-141138127 +  5q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PCDHB5  -     5q31.3   [Description]    (hg19-Feb_2009)
EnsemblPCDHB5 - 5q31.3 [CytoView hg19]  PCDHB5 - 5q31.3 [CytoView hg38]
Mapping of homologs : NCBIPCDHB5 [Mapview hg19]  PCDHB5 [Mapview hg38]
OMIM606331   
Gene and transcription
Genbank (Entrez)AA481828 AB209393 AF134474 AF152498 AF217753
RefSeq transcript (Entrez)NM_015669
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PCDHB5
Cluster EST : UnigeneHs.119693 [ NCBI ]
CGAP (NCI)Hs.119693
Alternative Splicing GalleryENSG00000113209
Gene ExpressionPCDHB5 [ NCBI-GEO ]   PCDHB5 [ EBI - ARRAY_EXPRESS ]   PCDHB5 [ SEEK ]   PCDHB5 [ MEM ]
Gene Expression Viewer (FireBrowse)PCDHB5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)26167
GTEX Portal (Tissue expression)PCDHB5
Human Protein AtlasENSG00000113209-PCDHB5 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y5E4   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y5E4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y5E4
Splice isoforms : SwissVarQ9Y5E4
PhosPhoSitePlusQ9Y5E4
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_C    Cadherin_CS    Cadherin_N    PCDHB5   
Domain families : Pfam (Sanger)Cadherin (PF00028)    Cadherin_2 (PF08266)    Cadherin_C_2 (PF16492)   
Domain families : Pfam (NCBI)pfam00028    pfam08266    pfam16492   
Domain families : Smart (EMBL)CA (SM00112)  
Conserved Domain (NCBI)PCDHB5
DMDM Disease mutations26167
Blocks (Seattle)PCDHB5
SuperfamilyQ9Y5E4
Human Protein Atlas [tissue]ENSG00000113209-PCDHB5 [tissue]
Peptide AtlasQ9Y5E4
HPRD07560
IPIIPI00001428   IPI01010859   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y5E4
IntAct (EBI)Q9Y5E4
FunCoupENSG00000113209
BioGRIDPCDHB5
STRING (EMBL)PCDHB5
ZODIACPCDHB5
Ontologies - Pathways
QuickGOQ9Y5E4
Ontology : AmiGOcalcium ion binding  integral component of plasma membrane  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  chemical synaptic transmission  synapse assembly  integral component of membrane  calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules  
Ontology : EGO-EBIcalcium ion binding  integral component of plasma membrane  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  chemical synaptic transmission  synapse assembly  integral component of membrane  calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules  
NDEx NetworkPCDHB5
Atlas of Cancer Signalling NetworkPCDHB5
Wikipedia pathwaysPCDHB5
Orthology - Evolution
OrthoDB26167
GeneTree (enSembl)ENSG00000113209
Phylogenetic Trees/Animal Genes : TreeFamPCDHB5
HOVERGENQ9Y5E4
HOGENOMQ9Y5E4
Homologs : HomoloGenePCDHB5
Homology/Alignments : Family Browser (UCSC)PCDHB5
Gene fusions - Rearrangements
Tumor Fusion PortalPCDHB5
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPCDHB5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PCDHB5
dbVarPCDHB5
ClinVarPCDHB5
1000_GenomesPCDHB5 
Exome Variant ServerPCDHB5
ExAC (Exome Aggregation Consortium)ENSG00000113209
GNOMAD BrowserENSG00000113209
Genetic variants : HAPMAP26167
Genomic Variants (DGV)PCDHB5 [DGVbeta]
DECIPHERPCDHB5 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPCDHB5 
Mutations
ICGC Data PortalPCDHB5 
TCGA Data PortalPCDHB5 
Broad Tumor PortalPCDHB5
OASIS PortalPCDHB5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPCDHB5  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPCDHB5
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 PCDHB5
DgiDB (Drug Gene Interaction Database)PCDHB5
DoCM (Curated mutations)PCDHB5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PCDHB5 (select a term)
intoGenPCDHB5
Cancer3DPCDHB5(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606331   
Orphanet
DisGeNETPCDHB5
MedgenPCDHB5
Genetic Testing Registry PCDHB5
NextProtQ9Y5E4 [Medical]
TSGene26167
GENETestsPCDHB5
Target ValidationPCDHB5
Huge Navigator PCDHB5 [HugePedia]
snp3D : Map Gene to Disease26167
BioCentury BCIQPCDHB5
ClinGenPCDHB5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD26167
Chemical/Pharm GKB GenePA33039
Clinical trialPCDHB5
Miscellaneous
canSAR (ICR)PCDHB5 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePCDHB5
EVEXPCDHB5
GoPubMedPCDHB5
iHOPPCDHB5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:12:45 CET 2017

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