Atlas of Genetics and Cytogenetics in Oncology and Haematology


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CLDN16 (claudin 16)

Identity

Alias_symbol (synonym)PCLN1
HOMG3
Other alias
HGNC (Hugo) CLDN16
LocusID (NCBI) 10686
Atlas_Id 50472
Location 3q28  [Link to chromosome band 3q28]
Location_base_pair Starts at 190105661 and ends at 190129932 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
PTP4A2 (1p35.2) / CLDN16 (3q28)

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)CLDN16   2037
Cards
Entrez_Gene (NCBI)CLDN16  10686  claudin 16
AliasesHOMG3; PCLN1
GeneCards (Weizmann)CLDN16
Ensembl hg19 (Hinxton)ENSG00000113946 [Gene_View]  chr3:190105661-190129932 [Contig_View]  CLDN16 [Vega]
Ensembl hg38 (Hinxton)ENSG00000113946 [Gene_View]  chr3:190105661-190129932 [Contig_View]  CLDN16 [Vega]
ICGC DataPortalENSG00000113946
TCGA cBioPortalCLDN16
AceView (NCBI)CLDN16
Genatlas (Paris)CLDN16
WikiGenes10686
SOURCE (Princeton)CLDN16
Genetics Home Reference (NIH)CLDN16
Genomic and cartography
GoldenPath hg19 (UCSC)CLDN16  -     chr3:190105661-190129932 +  3q28   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)CLDN16  -     3q28   [Description]    (hg38-Dec_2013)
EnsemblCLDN16 - 3q28 [CytoView hg19]  CLDN16 - 3q28 [CytoView hg38]
Mapping of homologs : NCBICLDN16 [Mapview hg19]  CLDN16 [Mapview hg38]
OMIM248250   603959   
Gene and transcription
Genbank (Entrez)AF152101 AK314955 BC069662 BC069682 BC069759
RefSeq transcript (Entrez)NM_006580
RefSeq genomic (Entrez)NC_000003 NC_018914 NG_008149 NT_005612 NW_004929311
Consensus coding sequences : CCDS (NCBI)CLDN16
Cluster EST : UnigeneHs.251391 [ NCBI ]
CGAP (NCI)Hs.251391
Alternative Splicing GalleryENSG00000113946
Gene ExpressionCLDN16 [ NCBI-GEO ]   CLDN16 [ EBI - ARRAY_EXPRESS ]   CLDN16 [ SEEK ]   CLDN16 [ MEM ]
Gene Expression Viewer (FireBrowse)CLDN16 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10686
GTEX Portal (Tissue expression)CLDN16
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9Y5I7   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9Y5I7  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9Y5I7
Splice isoforms : SwissVarQ9Y5I7
PhosPhoSitePlusQ9Y5I7
Domaine pattern : Prosite (Expaxy)CLAUDIN (PS01346)   
Domains : Interpro (EBI)Claudin    Claudin16    Claudin_CS    PMP22/EMP/MP20/Claudin   
Domain families : Pfam (Sanger)PMP22_Claudin (PF00822)   
Domain families : Pfam (NCBI)pfam00822   
Conserved Domain (NCBI)CLDN16
DMDM Disease mutations10686
Blocks (Seattle)CLDN16
SuperfamilyQ9Y5I7
Human Protein AtlasENSG00000113946
Peptide AtlasQ9Y5I7
HPRD04906
IPIIPI00001521   IPI00816319   
Protein Interaction databases
DIP (DOE-UCLA)Q9Y5I7
IntAct (EBI)Q9Y5I7
FunCoupENSG00000113946
BioGRIDCLDN16
STRING (EMBL)CLDN16
ZODIACCLDN16
Ontologies - Pathways
QuickGOQ9Y5I7
Ontology : AmiGOstructural molecule activity  protein binding  plasma membrane  bicellular tight junction  ion transport  cellular metal ion homeostasis  excretion  magnesium ion transmembrane transporter activity  integral component of membrane  calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules  identical protein binding  positive regulation of calcium ion transport  transepithelial transport  magnesium ion transmembrane transport  
Ontology : EGO-EBIstructural molecule activity  protein binding  plasma membrane  bicellular tight junction  ion transport  cellular metal ion homeostasis  excretion  magnesium ion transmembrane transporter activity  integral component of membrane  calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules  identical protein binding  positive regulation of calcium ion transport  transepithelial transport  magnesium ion transmembrane transport  
Pathways : KEGGCell adhesion molecules (CAMs)    Tight junction    Leukocyte transendothelial migration    Hepatitis C   
NDEx NetworkCLDN16
Atlas of Cancer Signalling NetworkCLDN16
Wikipedia pathwaysCLDN16
Orthology - Evolution
OrthoDB10686
GeneTree (enSembl)ENSG00000113946
Phylogenetic Trees/Animal Genes : TreeFamCLDN16
HOVERGENQ9Y5I7
HOGENOMQ9Y5I7
Homologs : HomoloGeneCLDN16
Homology/Alignments : Family Browser (UCSC)CLDN16
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCLDN16 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)CLDN16
dbVarCLDN16
ClinVarCLDN16
1000_GenomesCLDN16 
Exome Variant ServerCLDN16
ExAC (Exome Aggregation Consortium)CLDN16 (select the gene name)
Genetic variants : HAPMAP10686
Genomic Variants (DGV)CLDN16 [DGVbeta]
DECIPHER (Syndromes)3:190105661-190129932  ENSG00000113946
CONAN: Copy Number AnalysisCLDN16 
Mutations
ICGC Data PortalCLDN16 
TCGA Data PortalCLDN16 
Broad Tumor PortalCLDN16
OASIS PortalCLDN16 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCLDN16  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCLDN16
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch CLDN16
DgiDB (Drug Gene Interaction Database)CLDN16
DoCM (Curated mutations)CLDN16 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)CLDN16 (select a term)
intoGenCLDN16
Cancer3DCLDN16(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM248250    603959   
Orphanet9284   
MedgenCLDN16
Genetic Testing Registry CLDN16
NextProtQ9Y5I7 [Medical]
TSGene10686
GENETestsCLDN16
Huge Navigator CLDN16 [HugePedia]
snp3D : Map Gene to Disease10686
BioCentury BCIQCLDN16
ClinGenCLDN16
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10686
Chemical/Pharm GKB GenePA26563
Clinical trialCLDN16
Miscellaneous
canSAR (ICR)CLDN16 (select the gene name)
Probes
Litterature
PubMed39 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCLDN16
EVEXCLDN16
GoPubMedCLDN16
iHOPCLDN16
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 14:56:46 CEST 2017

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