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PCDHB16 (protocadherin beta 16)

Identity

Alias_symbol (synonym)PCDHB8a
PCDH3X
KIAA1621
PCDH-BETA16
ME▒
Other alias
HGNC (Hugo) PCDHB16
LocusID (NCBI) 57717
Atlas_Id 71726
Location 5q31.3  [Link to chromosome band 5q31]
Location_base_pair Starts at 141181690 and ends at 141186221 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)PCDHB16   14546
Cards
Entrez_Gene (NCBI)PCDHB16  57717  protocadherin beta 16
AliasesME1; PCDH-BETA16; PCDH3X; PCDHB8a
GeneCards (Weizmann)PCDHB16
Ensembl hg19 (Hinxton)ENSG00000272674 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000272674 [Gene_View]  chr5:141181690-141186221 [Contig_View]  PCDHB16 [Vega]
ICGC DataPortalENSG00000272674
TCGA cBioPortalPCDHB16
AceView (NCBI)PCDHB16
Genatlas (Paris)PCDHB16
WikiGenes57717
SOURCE (Princeton)PCDHB16
Genetics Home Reference (NIH)PCDHB16
Genomic and cartography
GoldenPath hg38 (UCSC)PCDHB16  -     chr5:141181690-141186221 +  5q31.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)PCDHB16  -     5q31.3   [Description]    (hg19-Feb_2009)
EnsemblPCDHB16 - 5q31.3 [CytoView hg19]  PCDHB16 - 5q31.3 [CytoView hg38]
Mapping of homologs : NCBIPCDHB16 [Mapview hg19]  PCDHB16 [Mapview hg38]
OMIM606345   
Gene and transcription
Genbank (Entrez)AB046841 AF217757 AI684744 AI926355 AK056460
RefSeq transcript (Entrez)NM_020957
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)PCDHB16
Cluster EST : UnigeneHs.582172 [ NCBI ]
CGAP (NCI)Hs.582172
Alternative Splicing GalleryENSG00000272674
Gene ExpressionPCDHB16 [ NCBI-GEO ]   PCDHB16 [ EBI - ARRAY_EXPRESS ]   PCDHB16 [ SEEK ]   PCDHB16 [ MEM ]
Gene Expression Viewer (FireBrowse)PCDHB16 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57717
GTEX Portal (Tissue expression)PCDHB16
Human Protein AtlasENSG00000272674-PCDHB16 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NRJ7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NRJ7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NRJ7
Splice isoforms : SwissVarQ9NRJ7
PhosPhoSitePlusQ9NRJ7
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_C    Cadherin_CS    Cadherin_N   
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)PCDHB16
DMDM Disease mutations57717
Blocks (Seattle)PCDHB16
SuperfamilyQ9NRJ7
Human Protein Atlas [tissue]ENSG00000272674-PCDHB16 [tissue]
Peptide AtlasQ9NRJ7
HPRD06961
IPIIPI00299853   
Protein Interaction databases
DIP (DOE-UCLA)Q9NRJ7
IntAct (EBI)Q9NRJ7
FunCoupENSG00000272674
BioGRIDPCDHB16
STRING (EMBL)PCDHB16
ZODIACPCDHB16
Ontologies - Pathways
QuickGOQ9NRJ7
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 NetworkPCDHB16
Atlas of Cancer Signalling NetworkPCDHB16
Wikipedia pathwaysPCDHB16
Orthology - Evolution
OrthoDB57717
GeneTree (enSembl)ENSG00000272674
Phylogenetic Trees/Animal Genes : TreeFamPCDHB16
HOVERGENQ9NRJ7
HOGENOMQ9NRJ7
Homologs : HomoloGenePCDHB16
Homology/Alignments : Family Browser (UCSC)PCDHB16
Gene fusions - Rearrangements
Tumor Fusion PortalPCDHB16
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPCDHB16 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PCDHB16
dbVarPCDHB16
ClinVarPCDHB16
1000_GenomesPCDHB16 
Exome Variant ServerPCDHB16
ExAC (Exome Aggregation Consortium)ENSG00000272674
GNOMAD BrowserENSG00000272674
Genetic variants : HAPMAP57717
Genomic Variants (DGV)PCDHB16 [DGVbeta]
DECIPHERPCDHB16 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisPCDHB16 
Mutations
ICGC Data PortalPCDHB16 
TCGA Data PortalPCDHB16 
Broad Tumor PortalPCDHB16
OASIS PortalPCDHB16 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPCDHB16  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPCDHB16
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 PCDHB16
DgiDB (Drug Gene Interaction Database)PCDHB16
DoCM (Curated mutations)PCDHB16 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PCDHB16 (select a term)
intoGenPCDHB16
Cancer3DPCDHB16(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606345   
Orphanet
DisGeNETPCDHB16
MedgenPCDHB16
Genetic Testing Registry PCDHB16
NextProtQ9NRJ7 [Medical]
TSGene57717
GENETestsPCDHB16
Target ValidationPCDHB16
Huge Navigator PCDHB16 [HugePedia]
snp3D : Map Gene to Disease57717
BioCentury BCIQPCDHB16
ClinGenPCDHB16
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57717
Chemical/Pharm GKB GenePA33032
Clinical trialPCDHB16
Miscellaneous
canSAR (ICR)PCDHB16 (select the gene name)
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePCDHB16
EVEXPCDHB16
GoPubMedPCDHB16
iHOPPCDHB16
Genes in titlequ˘omatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 13:12:43 CET 2017

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