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CDH4 (cadherin 4)

Identity

Alias_namescadherin 4
Other aliasCAD4
R-CAD
RCAD
HGNC (Hugo) CDH4
LocusID (NCBI) 1002
Atlas_Id 40026
Location 20q13.33  [Link to chromosome band 20q13]
Location_base_pair Starts at 60074477 and ends at 60515673 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
CDH4 (20q13.33) / NLRP9 (19q13.42)CDH4 (20q13.33) / NME2 (17q21.33)CDH4 (20q13.33) / SET (9q34.11)
CDH4 (20q13.33) / SLA2 (20q11.23)NCOA5 (20q13.12) / CDH4 (20q13.33)OSBPL2 (20q13.33) / CDH4 (20q13.33)
SS18L1 (20q13.33) / CDH4 (20q13.33)TAF4 (20q13.33) / CDH4 (20q13.33)TOP1 (20q12) / CDH4 (20q13.33)
USP15 (12q14.1) / CDH4 (20q13.33)ZFC3H1 (12q21.1) / CDH4 (20q13.33)CDH4 20q13.33 / NLRP9 19q13.42
CDH4 20q13.33 / SLA2 20q11.23NCOA5 20q13.12 / CDH4 20q13.33OSBPL2 20q13.33 / CDH4 20q13.33
SS18L1 20q13.33 / CDH4 20q13.33TAF4 20q13.33 / CDH4 20q13.33TOP1 20q12 / CDH4 20q13.33
ZFC3H1 12q21.1 / CDH4 20q13.33

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)CDH4   1763
Cards
Entrez_Gene (NCBI)CDH4  1002  cadherin 4
AliasesCAD4; R-CAD; RCAD
GeneCards (Weizmann)CDH4
Ensembl hg19 (Hinxton)ENSG00000179242 [Gene_View]  chr20:60074477-60515673 [Contig_View]  CDH4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000179242 [Gene_View]  chr20:60074477-60515673 [Contig_View]  CDH4 [Vega]
ICGC DataPortalENSG00000179242
TCGA cBioPortalCDH4
AceView (NCBI)CDH4
Genatlas (Paris)CDH4
WikiGenes1002
SOURCE (Princeton)CDH4
Genetics Home Reference (NIH)CDH4
Genomic and cartography
GoldenPath hg19 (UCSC)CDH4  -     chr20:60074477-60515673 +  20q13.33   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CDH4  -     20q13.33   [Description]    (hg38-Dec_2013)
EnsemblCDH4 - 20q13.33 [CytoView hg19]  CDH4 - 20q13.33 [CytoView hg38]
Mapping of homologs : NCBICDH4 [Mapview hg19]  CDH4 [Mapview hg38]
OMIM603006   
Gene and transcription
Genbank (Entrez)AA213385 AI422259 AK025855 AK091496 AK092092
RefSeq transcript (Entrez)NM_001252338 NM_001252339 NM_001794
RefSeq genomic (Entrez)NC_000020 NC_018931 NT_011362 NT_187623 NW_004929418
Consensus coding sequences : CCDS (NCBI)CDH4
Cluster EST : UnigeneHs.473231 [ NCBI ]
CGAP (NCI)Hs.473231
Alternative Splicing GalleryENSG00000179242
Gene ExpressionCDH4 [ NCBI-GEO ]   CDH4 [ EBI - ARRAY_EXPRESS ]   CDH4 [ SEEK ]   CDH4 [ MEM ]
Gene Expression Viewer (FireBrowse)CDH4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1002
GTEX Portal (Tissue expression)CDH4
Protein : pattern, domain, 3D structure
UniProt/SwissProtP55283   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP55283  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP55283
Splice isoforms : SwissVarP55283
PhosPhoSitePlusP55283
Domaine pattern : Prosite (Expaxy)CADHERIN_1 (PS00232)    CADHERIN_2 (PS50268)   
Domains : Interpro (EBI)Cadherin    Cadherin-like    Cadherin_CS    Cadherin_cytoplasmic-dom    Cadherin_pro_dom    Catenin_binding_dom   
Domain families : Pfam (Sanger)Cadherin (PF00028)    Cadherin_C (PF01049)    Cadherin_pro (PF08758)   
Domain families : Pfam (NCBI)pfam00028    pfam01049    pfam08758   
Domain families : Smart (EMBL)CA (SM00112)  Cadherin_pro (SM01055)  
Conserved Domain (NCBI)CDH4
DMDM Disease mutations1002
Blocks (Seattle)CDH4
SuperfamilyP55283
Human Protein AtlasENSG00000179242
Peptide AtlasP55283
HPRD04304
IPIIPI00024034   IPI01012271   IPI00016436   IPI01011966   
Protein Interaction databases
DIP (DOE-UCLA)P55283
IntAct (EBI)P55283
FunCoupENSG00000179242
BioGRIDCDH4
STRING (EMBL)CDH4
ZODIACCDH4
Ontologies - Pathways
QuickGOP55283
Ontology : AmiGOcalcium ion binding  plasma membrane  plasma membrane  integral component of plasma membrane  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  axon guidance  adherens junction organization  positive regulation of axon extension  
Ontology : EGO-EBIcalcium ion binding  plasma membrane  plasma membrane  integral component of plasma membrane  cell adhesion  homophilic cell adhesion via plasma membrane adhesion molecules  heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  axon guidance  adherens junction organization  positive regulation of axon extension  
Pathways : KEGGCell adhesion molecules (CAMs)   
NDEx NetworkCDH4
Atlas of Cancer Signalling NetworkCDH4
Wikipedia pathwaysCDH4
Orthology - Evolution
OrthoDB1002
GeneTree (enSembl)ENSG00000179242
Phylogenetic Trees/Animal Genes : TreeFamCDH4
HOVERGENP55283
HOGENOMP55283
Homologs : HomoloGeneCDH4
Homology/Alignments : Family Browser (UCSC)CDH4
Gene fusions - Rearrangements
Fusion : MitelmanCDH4/NLRP9 [20q13.33/19q13.42]  
Fusion : MitelmanCDH4/SLA2 [20q13.33/20q11.23]  [t(20;20)(q11;q13)]  
Fusion : MitelmanNCOA5/CDH4 [20q13.12/20q13.33]  [t(20;20)(q13;q13)]  
Fusion : MitelmanOSBPL2/CDH4 [20q13.33/20q13.33]  [t(20;20)(q13;q13)]  
Fusion : MitelmanSS18L1/CDH4 [20q13.33/20q13.33]  [t(20;20)(q13;q13)]  
Fusion : MitelmanTAF4/CDH4 [20q13.33/20q13.33]  [t(20;20)(q13;q13)]  
Fusion : MitelmanTOP1/CDH4 [20q12/20q13.33]  [t(20;20)(q12;q13)]  
Fusion : MitelmanUSP15/CDH4 [12q14.1/20q13.33]  [t(12;20)(q14;q13)]  
Fusion : MitelmanZFC3H1/CDH4 [12q21.1/20q13.33]  [t(12;20)(q21;q13)]  
Fusion: TCGACDH4 20q13.33 NLRP9 19q13.42 BRCA
Fusion: TCGACDH4 20q13.33 SLA2 20q11.23 BRCA
Fusion: TCGANCOA5 20q13.12 CDH4 20q13.33 BRCA
Fusion: TCGAOSBPL2 20q13.33 CDH4 20q13.33 BLCA
Fusion: TCGASS18L1 20q13.33 CDH4 20q13.33 BRCA
Fusion: TCGATAF4 20q13.33 CDH4 20q13.33 BRCA
Fusion: TCGATOP1 20q12 CDH4 20q13.33 LUAD
Fusion: TCGAZFC3H1 12q21.1 CDH4 20q13.33 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCDH4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CDH4
dbVarCDH4
ClinVarCDH4
1000_GenomesCDH4 
Exome Variant ServerCDH4
ExAC (Exome Aggregation Consortium)CDH4 (select the gene name)
Genetic variants : HAPMAP1002
Genomic Variants (DGV)CDH4 [DGVbeta]
DECIPHER (Syndromes)20:60074477-60515673  ENSG00000179242
CONAN: Copy Number AnalysisCDH4 
Mutations
ICGC Data PortalCDH4 
TCGA Data PortalCDH4 
Broad Tumor PortalCDH4
OASIS PortalCDH4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCDH4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCDH4
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 CDH4
DgiDB (Drug Gene Interaction Database)CDH4
DoCM (Curated mutations)CDH4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CDH4 (select a term)
intoGenCDH4
Cancer3DCDH4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM603006   
Orphanet
MedgenCDH4
Genetic Testing Registry CDH4
NextProtP55283 [Medical]
TSGene1002
GENETestsCDH4
Huge Navigator CDH4 [HugePedia]
snp3D : Map Gene to Disease1002
BioCentury BCIQCDH4
ClinGenCDH4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1002
Chemical/Pharm GKB GenePA26300
Clinical trialCDH4
Miscellaneous
canSAR (ICR)CDH4 (select the gene name)
Probes
Litterature
PubMed40 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCDH4
EVEXCDH4
GoPubMedCDH4
iHOPCDH4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Mar 30 14:55:53 CEST 2017

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