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CLDN20 Gene

protein-coding   GIFtS: 48
GCID: GC06P155677

Claudin 20

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Claudin 201 2
claudin-202

External Ids:    HGNC: 20421   Entrez Gene: 498612   Ensembl: ENSG000001712177   UniProtKB: P568803   

Export aliases for CLDN20 gene to outside databases

Previous GC identifers: GC06P155146 GC06M155480 GC06P155540 GC06P155616 GC06P155627 GC06P153147


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CLDN20 Gene:
This gene encodes a member of the claudin family. Claudins are integral membrane proteins and components of tight
junction strands. Tight junction strands serve as a physical barrier to prevent solutes and water from passing
freely through the paracellular space between epithelial or endothelial cell sheets, and also play critical roles
in maintaining cell polarity and signal transductions. (provided by RefSeq, Jun 2010)

GeneCards Summary for CLDN20 Gene:
CLDN20 (claudin 20) is a protein-coding gene. Diseases associated with CLDN20 include endotheliitis, and hepatitis c. GO annotations related to this gene include structural molecule activity and identical protein binding. An important paralog of this gene is CLDN4.

UniProtKB/Swiss-Prot: CLD20_HUMAN, P56880
Function: Plays a major role in tight junction-specific obliteration of the intercellular space, through
calcium-independent cell-adhesion activity (By similarity)

Gene Wiki entry for CLDN20 Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000006.12  NC_018917.2  NT_025741.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the CLDN20 gene promoter:
         Pbx1a   Brachyury   YY1   PPAR-gamma1   CBF-A   CBF-B   CP1A   PPAR-gamma2   NF-Y   CBF(2)   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCLDN20 promoter sequence
   Search Chromatin IP Primers for CLDN20

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CLDN20


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6q25   Ensembl cytogenetic band:  6q25.3   HGNC cytogenetic band: 6q25

CLDN20 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CLDN20 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P155677:  view genomic region     (about GC identifiers)

Start:
155,585,147 bp from pter      End:
155,597,682 bp from pter
Size:
12,536 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
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UniProtKB/Swiss-Prot: CLD20_HUMAN, P56880 (See protein sequence)
Recommended Name: Claudin-20  
Size: 219 amino acids; 23515 Da

Explore the universe of human proteins at neXtProt for CLDN20: NX_P56880

Explore proteomics data for CLDN20 at MOPED


See CLDN20 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_001001346.1  
ENSEMBL proteins: 
 ENSP00000356133  
Reactome Protein details: P56880

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
CLDN: Claudins

3 InterPro protein domains:
 IPR017974 Claudin_CS
 IPR006187 Claudin
 IPR004031 PMP22/EMP/MP20/Claudin

Graphical View of Domain Structure for InterPro Entry P56880

ProtoNet protein and cluster: P56880

1 Blocks protein domain: IPB006187 Claudin family signature

UniProtKB/Swiss-Prot: CLD20_HUMAN, P56880
Similarity: Belongs to the claudin family


CLDN20 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: CLD20_HUMAN, P56880
Function: Plays a major role in tight junction-specific obliteration of the intercellular space, through
calcium-independent cell-adhesion activity (By similarity)

     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005198structural molecule activity IEA--
GO:0042802identical protein binding ISS--
     
CLDN20 for ontologies           About GeneDecksing


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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
CLD20_HUMAN, P56880: Cell junction, tight junction. Cell membrane; Multi-pass membrane protein
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
plasma membrane5

Gene Ontology (GO): 3 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005886plasma membrane IEA--
GO:0005923tight junction ISS--
GO:0016021integral component of membrane IEA--

CLDN20 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for CLDN20 About   (see all 7)  
See pathways by source

SuperPathContained pathways About
1Cell junction organization
Cell junction organization0.70
Cell-Cell communication0.64
Cell-cell junction organization0.70
Tight junction interactions0.51
2Sertoli-Sertoli Cell Junction Dynamics
Sertoli-Sertoli Cell Junction Dynamics0.38
Epithelial Tight Junctions0.36
3Integrin Pathway
Transendothelial Migration of Leukocytes0.38
4Tight junction
Tight junction
5Leukocyte transendothelial migration
Leukocyte transendothelial migration

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways

3 Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CLDN20
    Sertoli-Sertoli Cell Junction Dynamics
Epithelial Tight Junctions
Transendothelial Migration of Leukocytes

1 Reactome Pathway for CLDN20
    Tight junction interactions


4 Kegg Pathways  (Kegg details for CLDN20):
    Cell adhesion molecules (CAMs)
Tight junction
Leukocyte transendothelial migration
Hepatitis C


CLDN20 for pathways           About GeneDecksing

    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CLDN20
Interactions:

    Search GeneGlobe Interaction Network for CLDN20

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

Selected Interacting proteins for CLDN20 (ENSP000003561334) via UniProtKB, MINT, STRING, and/or I2D (see all 26)
InteractantInteraction Details
GeneCardExternal ID(s)
CLDN12ENSP000002879164STRING: ENSP00000287916
CLDN14ENSP000003392924STRING: ENSP00000339292
CLDN15ENSP000003088704STRING: ENSP00000308870
CLDN17ENSP000002868084STRING: ENSP00000286808
CLDN18ENSP000001836054STRING: ENSP00000183605
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Gene Ontology (GO): 4 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016338calcium-independent cell-cell adhesion ISS--
GO:0034329cell junction assembly TAS--
GO:0045216cell-cell junction organization TAS--
GO:0070830tight junction assembly TAS--

CLDN20 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for CLDN20 (CLD20)

1 HMDB Compound for CLDN20    About this table
CompoundSynonyms CAS #PubMed Ids
CalciumCa (see all 2)7440-70-2--



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for CLDN20 gene: 
NM_001001346.3  

Unigene Cluster for CLDN20:

Claudin 20
Hs.567491  [show with all ESTs]
Unigene Representative Sequence: BC020838
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000367165(uc003qql.2)
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Additional mRNA sequence: BC020838.1 

1 DOTS entry:

DT.95099967 

5 AceView cDNA sequences:

BC020838 BX283198 NM_001001346 BF571834 BG980450 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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CLDN20 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AACCTGGAGG
CLDN20 Expression
About this image

CLDN20 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

CLDN20 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.567491
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In Situ
Assay Products:
 

 
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of chordates.

Orthologs for CLDN20 gene from Selected species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Cldn201 , 5 claudin 201, 5 79.91(n)1
74.43(a)1
  17 (2.01 cM)5
6216281  NM_001101560.11  NP_001095030.11 
 35325545 
chicken
(Gallus gallus)
Aves CLDN201 claudin 20 73.06(n)
67.12(a)
  769340  XM_004935643.1  XP_004935700.1 
lizard
(Anolis carolinensis)
Reptilia CLDN206
claudin 20
68(a)
1 ↔ 1
1(214601671-214602333)
zebrafish
(Danio rerio)
Actinopterygii LOC1018862671 claudin-20-like 59.67(n)
57.53(a)
  101886267  XM_005169881.1  XP_005169938.1 


ENSEMBL Gene Tree for CLDN20 (if available)
TreeFam Gene Tree for CLDN20 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for CLDN20 gene
CLDN42  CLDN92  CLDN82  CLDN172  CLDN52  CLDN22  CLDN12  CLDN32  
CLDN142  CLDN62  CLDN72  CLDN192  
17 SIMAP similar genes for CLDN20 using alignment to 1 protein entry:     CLD20_HUMAN:
CLDN7    CLDN2    CLDN4    CLDN6    CLDN1    CLDN14
CLDN19    CLDN3    CLDN18    CLDN10    CLDN9    CLDN15
CLDN5    CLDN8    CLDN17    CLDN24    CLDN22

CLDN20 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Structural Variations
     Database of Genomic Variants (DGV) 2 variations for CLDN20:    About this table    
Variant IDTypeSubtypePubMed ID
nsv886790CNV Loss21882294
nsv886789CNV Gain21882294

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing CLDN20
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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4 diseases for CLDN20:    
About MalaCards
endotheliitis    hepatitis c    retinitis    hepatitis


CLDN20 for disorders           About GeneDecksing

Genetic Association Database (GAD): CLDN20

Export disorders for CLDN20 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for CLDN20 gene, integrated from 10 sources (see all 18):
(articles sorted by number of sources associating them with CLDN20)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The claudin gene family: expression in normal and neoplastic tissues. (PubMed id 16836752)1, 3 Hewitt K.J....Morin P.J. (BMC Cancer 2006)
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  3. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (Nature 2003)
  4. Analysis of the RPE transcriptome reveals dynamic changes during the development of the outer blood-retinal barrier. (PubMed id 17679949)1, 9 Rizzolo L.J....Zhang H. (Mol. Vis. 2007)
  5. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
  6. The claudins. (PubMed id 19706201)1 Lal-Nag M. and Morin P.J. (Genome Biol. 2009)
  7. Biology of claudins. (PubMed id 18480174)1 Angelow S....Yu A.S. (Am. J. Physiol. Renal Physiol. 2008)
  8. Structure and function of claudins. (PubMed id 18036336)1 Krause G....Blasig I.E. (Biochim. Biophys. Acta 2008)
  9. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
  10. Genome-wide association and linkage analyses of hemostatic factors and hematological phenotypes in the Framingham Heart Study. (PubMed id 17903294)4 Yang Q....O'Donnell C.J. (BMC Med. Genet. 2007)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 49861 HGNC: 2042 AceView: CLDN20 Ensembl:ENSG00000171217 euGenes: HUgn49861
ECgene: CLDN20 Kegg: 49861 H-InvDB: CLDN20

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for CLDN20 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for CLDN20 gene:
Search GeneIP for patents involving CLDN20

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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