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CDH5 (cadherin 5)

Identity

Other names7B4
CD144
HGNC (Hugo) CDH5
LocusID (NCBI) 1003
Atlas_Id 52671
Location 16q21
Location_base_pair Starts at 66400510 and ends at 66438689 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
CDH5 (16q21) / EML1 (14q32.2)CDH5 (16q21) / TUBB4B (9q34.3)MMP15 (16q21) / CDH5 (16q21)
MMP15 16q21 / CDH5 16q21

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)CDH5   1764
Cards
Entrez_Gene (NCBI)CDH5  1003  cadherin 5
GeneCards (Weizmann)CDH5
Ensembl hg19 (Hinxton)ENSG00000179776 [Gene_View]  chr16:66400510-66438689 [Contig_View]  CDH5 [Vega]
Ensembl hg38 (Hinxton)ENSG00000179776 [Gene_View]  chr16:66400510-66438689 [Contig_View]  CDH5 [Vega]
ICGC DataPortalENSG00000179776
TCGA cBioPortalCDH5
AceView (NCBI)CDH5
Genatlas (Paris)CDH5
WikiGenes1003
SOURCE (Princeton)CDH5
Genomic and cartography
GoldenPath hg19 (UCSC)CDH5  -     chr16:66400510-66438689 +  16q21   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CDH5  -     16q21   [Description]    (hg38-Dec_2013)
EnsemblCDH5 - 16q21 [CytoView hg19]  CDH5 - 16q21 [CytoView hg38]
Mapping of homologs : NCBICDH5 [Mapview hg19]  CDH5 [Mapview hg38]
OMIM601120   
Gene and transcription
Genbank (Entrez)AB035304 AB209908 AK300299 AK300322 AK300461
RefSeq transcript (Entrez)NM_001114117 NM_001795
RefSeq genomic (Entrez)NC_000016 NC_018927 NT_010498 NW_004929402
Consensus coding sequences : CCDS (NCBI)CDH5
Cluster EST : UnigeneHs.76206 [ NCBI ]
CGAP (NCI)Hs.76206
Alternative Splicing : Fast-db (Paris)GSHG0011255
Alternative Splicing GalleryENSG00000179776
Gene ExpressionCDH5 [ NCBI-GEO ]   CDH5 [ EBI - ARRAY_EXPRESS ]   CDH5 [ SEEK ]   CDH5 [ MEM ]
Gene Expression Viewer (FireBrowse)CDH5 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)1003
Protein : pattern, domain, 3D structure
UniProt/SwissProtP33151 (Uniprot)
NextProtP33151  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP33151
Splice isoforms : SwissVarP33151 (Swissvar)
PhosPhoSitePlusP33151
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_CS    Cadherin_cytoplasmic-dom    Catenin_binding_dom    CDH5   
Domain families : Pfam (Sanger)Cadherin (PF00028)    Cadherin_C (PF01049)   
Domain families : Pfam (NCBI)pfam00028    pfam01049   
Domain families : Smart (EMBL)CA (SM00112)  
DMDM Disease mutations1003
Blocks (Seattle)CDH5
SuperfamilyP33151
Human Protein AtlasENSG00000179776
Peptide AtlasP33151
HPRD03075
IPIIPI00012792   IPI01011095   IPI01011586   IPI00607725   
Protein Interaction databases
DIP (DOE-UCLA)P33151
IntAct (EBI)P33151
FunCoupENSG00000179776
BioGRIDCDH5
STRING (EMBL)CDH5
ZODIACCDH5
Ontologies - Pathways
QuickGOP33151
Ontology : AmiGOblood vessel maturation  receptor binding  calcium ion binding  protein binding  plasma membrane  cell-cell junction  adherens junction  bicellular tight junction  cell-cell junction assembly  homophilic cell adhesion via plasma membrane adhesion molecules  transforming growth factor beta receptor signaling pathway  beta-catenin binding  negative regulation of cell proliferation  external side of plasma membrane  cell surface  membrane  integral component of membrane  single organismal cell-cell adhesion  protein phosphatase binding  cell junction  adherens junction organization  ion channel binding  positive regulation of establishment of endothelial barrier  regulation of establishment of cell polarity  
Ontology : EGO-EBIblood vessel maturation  receptor binding  calcium ion binding  protein binding  plasma membrane  cell-cell junction  adherens junction  bicellular tight junction  cell-cell junction assembly  homophilic cell adhesion via plasma membrane adhesion molecules  transforming growth factor beta receptor signaling pathway  beta-catenin binding  negative regulation of cell proliferation  external side of plasma membrane  cell surface  membrane  integral component of membrane  single organismal cell-cell adhesion  protein phosphatase binding  cell junction  adherens junction organization  ion channel binding  positive regulation of establishment of endothelial barrier  regulation of establishment of cell polarity  
Pathways : KEGGCell adhesion molecules (CAMs)    Leukocyte transendothelial migration   
NDEx Network
Atlas of Cancer Signalling NetworkCDH5
Wikipedia pathwaysCDH5
Orthology - Evolution
OrthoDB1003
GeneTree (enSembl)ENSG00000179776
Phylogenetic Trees/Animal Genes : TreeFamCDH5
Homologs : HomoloGeneCDH5
Homology/Alignments : Family Browser (UCSC)CDH5
Gene fusions - Rearrangements
Fusion: TCGAMMP15 16q21 CDH5 16q21 BLCA
Polymorphisms : SNP, variants
NCBI Variation ViewerCDH5 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CDH5
dbVarCDH5
ClinVarCDH5
1000_GenomesCDH5 
Exome Variant ServerCDH5
ExAC (Exome Aggregation Consortium)CDH5 (select the gene name)
SNP (GeneSNP Utah)CDH5
SNP : HGBaseCDH5
Genetic variants : HAPMAPCDH5
Genomic Variants (DGV)CDH5 [DGVbeta]
Mutations
ICGC Data PortalCDH5 
TCGA Data PortalCDH5 
Broad Tumor PortalCDH5
OASIS PortalCDH5 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCDH5 
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 CDH5
DgiDB (Drug Gene Interaction Database)CDH5
DoCM (Curated mutations)CDH5 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CDH5 (select a term)
intoGenCDH5
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)16:66400510-66438689
CONAN: Copy Number AnalysisCDH5 
Mutations and Diseases : HGMDCDH5
OMIM601120   
MedgenCDH5
Genetic Testing Registry CDH5
NextProtP33151 [Medical]
TSGene1003
GENETestsCDH5
Huge Navigator CDH5 [HugePedia]  CDH5 [HugeCancerGEM]
snp3D : Map Gene to Disease1003
BioCentury BCIQCDH5
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1003
Chemical/Pharm GKB GenePA26301
Clinical trialCDH5
Miscellaneous
canSAR (ICR)CDH5 (select the gene name)
Probes
Litterature
PubMed182 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCDH5
GoPubMedCDH5
iHOPCDH5
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Apr 16 17:39:29 CEST 2016

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