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PCDHB1 (protocadherin beta 1)

Identity

Alias_symbol (synonym)PCDH-BETA1
Other alias
HGNC (Hugo) PCDHB1
LocusID (NCBI) 29930
Atlas_Id 71719
Location 5q31.3  [Link to chromosome band 5q31]
Location_base_pair Starts at 141051376 and ends at 141053962 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)

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)PCDHB1   8680
Cards
Entrez_Gene (NCBI)PCDHB1  29930  protocadherin beta 1
AliasesPCDH-BETA1
GeneCards (Weizmann)PCDHB1
Ensembl hg19 (Hinxton) [Gene_View]
Ensembl hg38 (Hinxton) [Gene_View]  chr5:141051376-141053962 [Contig_View]  PCDHB1 [Vega]
TCGA cBioPortalPCDHB1
AceView (NCBI)PCDHB1
Genatlas (Paris)PCDHB1
WikiGenes29930
SOURCE (Princeton)PCDHB1
Genetics Home Reference (NIH)PCDHB1
Genomic and cartography
GoldenPath hg38 (UCSC)PCDHB1  -     chr5:141051376-141053962 +  5q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PCDHB1  -     5q31.3   [Description]    (hg19-Feb_2009)
EnsemblPCDHB1 - 5q31.3 [CytoView hg19]  PCDHB1 - 5q31.3 [CytoView hg38]
Mapping of homologs : NCBIPCDHB1 [Mapview hg19]  PCDHB1 [Mapview hg38]
OMIM606327   
Gene and transcription
Genbank (Entrez)AA448114 AF152488 BC112096 BC112098
RefSeq transcript (Entrez)NM_013340
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PCDHB1
Cluster EST : UnigeneHs.278950 [ NCBI ]
CGAP (NCI)Hs.278950
Gene ExpressionPCDHB1 [ NCBI-GEO ]   PCDHB1 [ EBI - ARRAY_EXPRESS ]   PCDHB1 [ SEEK ]   PCDHB1 [ MEM ]
Gene Expression Viewer (FireBrowse)PCDHB1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)29930
GTEX Portal (Tissue expression)PCDHB1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y5F3   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y5F3  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y5F3
Splice isoforms : SwissVarQ9Y5F3
PhosPhoSitePlusQ9Y5F3
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_C    Cadherin_CS    Cadherin_N    PCDHB1   
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)PCDHB1
DMDM Disease mutations29930
Blocks (Seattle)PCDHB1
SuperfamilyQ9Y5F3
Peptide AtlasQ9Y5F3
HPRD08397
IPIIPI00295031   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y5F3
IntAct (EBI)Q9Y5F3
BioGRIDPCDHB1
STRING (EMBL)PCDHB1
ZODIACPCDHB1
Ontologies - Pathways
QuickGOQ9Y5F3
Ontology : AmiGOcalcium ion binding  integral component of plasma membrane  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  chemical synaptic transmission  synapse assembly  
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  
NDEx NetworkPCDHB1
Atlas of Cancer Signalling NetworkPCDHB1
Wikipedia pathwaysPCDHB1
Orthology - Evolution
OrthoDB29930
Phylogenetic Trees/Animal Genes : TreeFamPCDHB1
HOVERGENQ9Y5F3
HOGENOMQ9Y5F3
Homologs : HomoloGenePCDHB1
Homology/Alignments : Family Browser (UCSC)PCDHB1
Gene fusions - Rearrangements
Tumor Fusion PortalPCDHB1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPCDHB1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PCDHB1
dbVarPCDHB1
ClinVarPCDHB1
1000_GenomesPCDHB1 
Exome Variant ServerPCDHB1
ExAC (Exome Aggregation Consortium)
Genetic variants : HAPMAP29930
Genomic Variants (DGV)PCDHB1 [DGVbeta]
DECIPHERPCDHB1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPCDHB1 
Mutations
ICGC Data PortalPCDHB1 
TCGA Data PortalPCDHB1 
Broad Tumor PortalPCDHB1
OASIS PortalPCDHB1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPCDHB1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPCDHB1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch PCDHB1
DgiDB (Drug Gene Interaction Database)PCDHB1
DoCM (Curated mutations)PCDHB1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PCDHB1 (select a term)
intoGenPCDHB1
Cancer3DPCDHB1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606327   
Orphanet
DisGeNETPCDHB1
MedgenPCDHB1
Genetic Testing Registry PCDHB1
NextProtQ9Y5F3 [Medical]
TSGene29930
GENETestsPCDHB1
Target ValidationPCDHB1
Huge Navigator PCDHB1 [HugePedia]
snp3D : Map Gene to Disease29930
BioCentury BCIQPCDHB1
ClinGenPCDHB1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD29930
Chemical/Pharm GKB GenePA33025
Clinical trialPCDHB1
Miscellaneous
canSAR (ICR)PCDHB1 (select the gene name)
Probes
Litterature
PubMed7 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePCDHB1
EVEXPCDHB1
GoPubMedPCDHB1
iHOPPCDHB1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Nov 20 20:06:27 CET 2017

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