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PCDH9 (protocadherin 9)

Identity

Other alias-
HGNC (Hugo) PCDH9
LocusID (NCBI) 5101
Atlas_Id 52752
Location 13q21.32  [Link to chromosome band 13q21]
Location_base_pair Starts at 66876966 and ends at 67804468 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
DGKG (3q27.2) / PCDH9 (13q21.32)KIAA1033 (12q23.3) / PCDH9 (13q21.32)PCDH9 (13q21.32) / CCDC91 (12p11.22)
PCDH9 (13q21.32) / CNOT2 (12q15)PCDH9 (13q21.32) / PCDH9 (13q21.32)RNF121 (11q13.4) / PCDH9 (13q21.32)
KIAA1033 12q23.3 / PCDH9 13q21.32RNF121 11q13.4 / PCDH9 13q21.32

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)PCDH9   8661
Cards
Entrez_Gene (NCBI)PCDH9  5101  protocadherin 9
Aliases
GeneCards (Weizmann)PCDH9
Ensembl hg19 (Hinxton)ENSG00000184226 [Gene_View]  chr13:66876966-67804468 [Contig_View]  PCDH9 [Vega]
Ensembl hg38 (Hinxton)ENSG00000184226 [Gene_View]  chr13:66876966-67804468 [Contig_View]  PCDH9 [Vega]
ICGC DataPortalENSG00000184226
TCGA cBioPortalPCDH9
AceView (NCBI)PCDH9
Genatlas (Paris)PCDH9
WikiGenes5101
SOURCE (Princeton)PCDH9
Genetics Home Reference (NIH)PCDH9
Genomic and cartography
GoldenPath hg19 (UCSC)PCDH9  -     chr13:66876966-67804468 -  13q21.32   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)PCDH9  -     13q21.32   [Description]    (hg38-Dec_2013)
EnsemblPCDH9 - 13q21.32 [CytoView hg19]  PCDH9 - 13q21.32 [CytoView hg38]
Mapping of homologs : NCBIPCDH9 [Mapview hg19]  PCDH9 [Mapview hg38]
OMIM603581   
Gene and transcription
Genbank (Entrez)AB114416 AF169692 AI300218 AK054661 AK057768
RefSeq transcript (Entrez)NM_001318372 NM_001318373 NM_001318374 NM_020403 NM_203487
RefSeq genomic (Entrez)NC_000013 NC_018924 NG_011876 NT_024524 NW_004929388
Consensus coding sequences : CCDS (NCBI)PCDH9
Cluster EST : UnigeneHs.654709 [ NCBI ]
CGAP (NCI)Hs.654709
Alternative Splicing GalleryENSG00000184226
Gene ExpressionPCDH9 [ NCBI-GEO ]   PCDH9 [ EBI - ARRAY_EXPRESS ]   PCDH9 [ SEEK ]   PCDH9 [ MEM ]
Gene Expression Viewer (FireBrowse)PCDH9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5101
GTEX Portal (Tissue expression)PCDH9
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9HC56   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9HC56  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9HC56
Splice isoforms : SwissVarQ9HC56
PhosPhoSitePlusQ9HC56
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_CS    Cadherin_N    Protocadherin   
Domain families : Pfam (Sanger)Cadherin (PF00028)    Cadherin_2 (PF08266)    Protocadherin (PF08374)   
Domain families : Pfam (NCBI)pfam00028    pfam08266    pfam08374   
Domain families : Smart (EMBL)CA (SM00112)  
Conserved Domain (NCBI)PCDH9
DMDM Disease mutations5101
Blocks (Seattle)PCDH9
PDB (SRS)2EE0   
PDB (PDBSum)2EE0   
PDB (IMB)2EE0   
PDB (RSDB)2EE0   
Structural Biology KnowledgeBase2EE0   
SCOP (Structural Classification of Proteins)2EE0   
CATH (Classification of proteins structures)2EE0   
SuperfamilyQ9HC56
Human Protein AtlasENSG00000184226
Peptide AtlasQ9HC56
HPRD04661
IPIIPI00409626   IPI00006967   IPI00641940   
Protein Interaction databases
DIP (DOE-UCLA)Q9HC56
IntAct (EBI)Q9HC56
FunCoupENSG00000184226
BioGRIDPCDH9
STRING (EMBL)PCDH9
ZODIACPCDH9
Ontologies - Pathways
QuickGOQ9HC56
Ontology : AmiGOcalcium ion binding  plasma membrane  homophilic cell adhesion via plasma membrane adhesion molecules  integral component of membrane  growth cone  forebrain development  cell-cell contact zone  
Ontology : EGO-EBIcalcium ion binding  plasma membrane  homophilic cell adhesion via plasma membrane adhesion molecules  integral component of membrane  growth cone  forebrain development  cell-cell contact zone  
NDEx NetworkPCDH9
Atlas of Cancer Signalling NetworkPCDH9
Wikipedia pathwaysPCDH9
Orthology - Evolution
OrthoDB5101
GeneTree (enSembl)ENSG00000184226
Phylogenetic Trees/Animal Genes : TreeFamPCDH9
HOVERGENQ9HC56
HOGENOMQ9HC56
Homologs : HomoloGenePCDH9
Homology/Alignments : Family Browser (UCSC)PCDH9
Gene fusions - Rearrangements
Fusion : MitelmanKIAA1033/PCDH9 [12q23.3/13q21.32]  [t(12;13)(q23;q21)]  
Fusion : MitelmanRNF121/PCDH9 [11q13.4/13q21.32]  [t(11;13)(q13;q21)]  
Fusion: TCGAKIAA1033 12q23.3 PCDH9 13q21.32 LUSC
Fusion: TCGARNF121 11q13.4 PCDH9 13q21.32 LUSC
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerPCDH9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)PCDH9
dbVarPCDH9
ClinVarPCDH9
1000_GenomesPCDH9 
Exome Variant ServerPCDH9
ExAC (Exome Aggregation Consortium)PCDH9 (select the gene name)
Genetic variants : HAPMAP5101
Genomic Variants (DGV)PCDH9 [DGVbeta]
DECIPHER (Syndromes)13:66876966-67804468  ENSG00000184226
CONAN: Copy Number AnalysisPCDH9 
Mutations
ICGC Data PortalPCDH9 
TCGA Data PortalPCDH9 
Broad Tumor PortalPCDH9
OASIS PortalPCDH9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICPCDH9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDPCDH9
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
BioMutasearch PCDH9
DgiDB (Drug Gene Interaction Database)PCDH9
DoCM (Curated mutations)PCDH9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)PCDH9 (select a term)
intoGenPCDH9
Cancer3DPCDH9(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603581   
Orphanet
MedgenPCDH9
Genetic Testing Registry PCDH9
NextProtQ9HC56 [Medical]
TSGene5101
GENETestsPCDH9
Huge Navigator PCDH9 [HugePedia]
snp3D : Map Gene to Disease5101
BioCentury BCIQPCDH9
ClinGenPCDH9 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5101
Chemical/Pharm GKB GenePA33008
Clinical trialPCDH9
Miscellaneous
canSAR (ICR)PCDH9 (select the gene name)
Probes
Litterature
PubMed24 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMinePCDH9
EVEXPCDH9
GoPubMedPCDH9
iHOPPCDH9
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 15:13:43 CEST 2017

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