Free for academic non-profit institutions. Other users need a Commercial license

Aliases for CLDN20 Gene

Aliases for CLDN20 Gene

  • Claudin 20 2 3 5
  • Testis Secretory Sperm-Binding Protein Li 229n 3
  • Claudin-20 3

External Ids for CLDN20 Gene

Previous GeneCards Identifiers for CLDN20 Gene

  • GC06P155146
  • GC06M155480
  • GC06P155540
  • GC06P155616
  • GC06P155627
  • GC06P155677
  • GC06P153147

Summaries for CLDN20 Gene

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. Among its related pathways are Blood-Brain Barrier and Immune Cell Transmigration: VCAM-1/CD106 Signaling Pathways and Blood-Brain Barrier Pathway: Anatomy. Gene Ontology (GO) annotations related to this gene include identical protein binding and structural molecule activity. An important paralog of this gene is CLDN10.

UniProtKB/Swiss-Prot for CLDN20 Gene

  • Plays a major role in tight junction-specific obliteration of the intercellular space, through calcium-independent cell-adhesion activity.

Gene Wiki entry for CLDN20 Gene

Additional gene information for CLDN20 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLDN20 Gene

Genomics for CLDN20 Gene

GeneHancer (GH) Regulatory Elements for CLDN20 Gene

Promoters and enhancers for CLDN20 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I155264 Enhancer 0.6 ENCODE dbSUPER 550.8 +1.2 1164 0.4 RCOR1 CHD2 CLDN20 ENSG00000235381 TIAM2 TFB1M GC06P154934
GH06I155417 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 1.7 +154.6 154602 2.4 MEIS2 PKNOX1 EBF1 BMI1 BATF RELA NFATC1 VEZF1 ZNF143 ZNF207 NOX3 CLDN20 GC06P155399
GH06I155267 Enhancer 0.6 ENCODE 0.8 +4.2 4189 0.8 CTCF TRIM22 CBFA2T3 RAD21 TCF12 ZNF143 RCOR1 CBFA2T2 RUNX3 CLDN20 TFB1M GC06P154934
GH06I155258 Enhancer 0.5 dbSUPER 0.8 -4.5 -4453 2.4 POLR2A SCRT2 ATF7 EBF1 ENSG00000235381 TIAM2 CLDN20 TFB1M GC06P154934
GH06I155261 Enhancer 0.5 ENCODE 0.8 -2.3 -2302 0.4 CTCF SP1 POLR2A ZNF143 TEAD3 TIAM2 CLDN20 ENSG00000235381 TFB1M GC06P154934
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLDN20 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLDN20 gene promoter:

Genomic Locations for CLDN20 Gene

Genomic Locations for CLDN20 Gene
12,536 bases
Plus strand

Genomic View for CLDN20 Gene

Genes around CLDN20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLDN20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLDN20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLDN20 Gene

Proteins for CLDN20 Gene

  • Protein details for CLDN20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:

    Protein attributes for CLDN20 Gene

    219 amino acids
    Molecular mass:
    23515 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CLDN20 Gene

Post-translational modifications for CLDN20 Gene

No Post-translational modifications

Other Protein References for CLDN20 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CLDN20 Gene

Domains & Families for CLDN20 Gene

Gene Families for CLDN20 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for CLDN20 Gene

Suggested Antigen Peptide Sequences for CLDN20 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the claudin family.
  • Belongs to the claudin family.
genes like me logo Genes that share domains with CLDN20: view

Function for CLDN20 Gene

Molecular function for CLDN20 Gene

UniProtKB/Swiss-Prot Function:
Plays a major role in tight junction-specific obliteration of the intercellular space, through calcium-independent cell-adhesion activity.

Gene Ontology (GO) - Molecular Function for CLDN20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0042802 identical protein binding ISS --
genes like me logo Genes that share ontologies with CLDN20: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CLDN20 Gene

Localization for CLDN20 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLDN20 Gene

Cell junction, tight junction. Cell membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLDN20 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for CLDN20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005923 bicellular tight junction ISS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
genes like me logo Genes that share ontologies with CLDN20: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CLDN20 Gene

Pathways & Interactions for CLDN20 Gene

genes like me logo Genes that share pathways with CLDN20: view

Interacting Proteins for CLDN20 Gene

Gene Ontology (GO) - Biological Process for CLDN20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016338 calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules ISS --
genes like me logo Genes that share ontologies with CLDN20: view

No data available for SIGNOR curated interactions for CLDN20 Gene

Drugs & Compounds for CLDN20 Gene

(1) Drugs for CLDN20 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
genes like me logo Genes that share compounds with CLDN20: view

Transcripts for CLDN20 Gene

mRNA/cDNA for CLDN20 Gene

(2) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(5) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLDN20 Gene

Claudin 20:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLDN20 Gene

No ASD Table

Relevant External Links for CLDN20 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLDN20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLDN20 Gene

mRNA differential expression in normal tissues according to GTEx for CLDN20 Gene

This gene is overexpressed in Nerve - Tibial (x4.0).

NURSA nuclear receptor signaling pathways regulating expression of CLDN20 Gene:


SOURCE GeneReport for Unigene cluster for CLDN20 Gene:


Evidence on tissue expression from TISSUES for CLDN20 Gene

  • Skin(4)
genes like me logo Genes that share expression patterns with CLDN20: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLDN20 Gene

Orthologs for CLDN20 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLDN20 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CLDN20 33 34
  • 99.85 (n)
(Canis familiaris)
Mammalia CLDN20 33 34
  • 88.74 (n)
(Bos Taurus)
Mammalia CLDN20 33 34
  • 81.58 (n)
(Rattus norvegicus)
Mammalia Cldn20 33
  • 80.52 (n)
(Mus musculus)
Mammalia Cldn20 33 16 34
  • 79.91 (n)
(Monodelphis domestica)
Mammalia CLDN20 34
  • 75 (a)
(Gallus gallus)
Aves CLDN20 33 34
  • 73.06 (n)
(Anolis carolinensis)
Reptilia CLDN20 34
  • 68 (a)
(Danio rerio)
Actinopterygii LOC101886267 33
  • 59.67 (n)
CU695076.1 34
  • 55 (a)
CLDN20 (1 of 2) 34
  • 49 (a)
Species where no ortholog for CLDN20 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLDN20 Gene

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

Paralogs for CLDN20 Gene

Paralogs for CLDN20 Gene

(17) SIMAP similar genes for CLDN20 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CLDN20: view

Variants for CLDN20 Gene

Sequence variations from dbSNP and Humsavar for CLDN20 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000377841 -- 155,276,812(+) T/G downstream_transcript_variant
rs1000567928 -- 155,265,084(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000632714 -- 155,263,517(+) C/A upstream_transcript_variant
rs1000671858 -- 155,271,790(+) A/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000707015 -- 155,272,065(+) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CLDN20 Gene

Variant ID Type Subtype PubMed ID
esv3611344 CNV loss 21293372
nsv1025003 CNV gain 25217958

Variation tolerance for CLDN20 Gene

Residual Variation Intolerance Score: 71.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.50; 43.79% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLDN20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLDN20 Gene

Disorders for CLDN20 Gene

Additional Disease Information for CLDN20

No disorders were found for CLDN20 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CLDN20 Gene

Publications for CLDN20 Gene

  1. Analysis of the RPE transcriptome reveals dynamic changes during the development of the outer blood-retinal barrier. (PMID: 17679949) Rizzolo LJ … Zhang H (Molecular vision 2007) 3 22 58
  2. The claudin gene family: expression in normal and neoplastic tissues. (PMID: 16836752) Hewitt KJ … Morin PJ (BMC cancer 2006) 2 3 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall AJ … Beck S (Nature 2003) 3 4 58
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58

Products for CLDN20 Gene

Sources for CLDN20 Gene

Loading form....