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Aliases for CLDN2 Gene

Aliases for CLDN2 Gene

  • Claudin 2 2 3 5
  • SP82 3 4
  • Claudin-2 3

External Ids for CLDN2 Gene

Previous GeneCards Identifiers for CLDN2 Gene

  • GC0XP101455
  • GC0XP103062
  • GC0XP104176
  • GC0XP104915
  • GC0XP105949
  • GC0XP106050
  • GC0XP106163
  • GC0XP095771

Summaries for CLDN2 Gene

Entrez Gene Summary for CLDN2 Gene

  • This gene product belongs to the claudin protein family whose members have been identified as major integral membrane proteins localized exclusively at tight junctions. Claudins are expressed in an organ-specific manner and regulate tissue-specific physiologic properties of tight junctions. This protein is expressed in the intestine. Alternatively spliced transcript variants with different 5' untranslated region have been found for this gene.[provided by RefSeq, Jan 2010]

GeneCards Summary for CLDN2 Gene

CLDN2 (Claudin 2) is a Protein Coding gene. Diseases associated with CLDN2 include Osmotic Diarrhea and Inflammatory Bowel Disease. 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 CLDN14.

UniProtKB/Swiss-Prot for CLDN2 Gene

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

Gene Wiki entry for CLDN2 Gene

Additional gene information for CLDN2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLDN2 Gene

Genomics for CLDN2 Gene

GeneHancer (GH) Regulatory Elements for CLDN2 Gene

Promoters and enhancers for CLDN2 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
GH0XI106927 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 550.3 +30.7 30702 7.7 ELF3 FOXA2 RAD21 YY1 FOS CREM EGR2 RXRA CEBPB ELF1 PIR48891 CLDN2 RIPPLY1 MYCLP1 TBC1D8B GC0XM106980 MORC4
GH0XI106917 Promoter/Enhancer 1 EPDnew ENCODE 550.4 +18.2 18194 0.9 SP1 JUND POLR2A REST FOSL2 EP300 TCF7L2 CLDN2 PIR48891 RIPPLY1 MORC4
GH0XI106900 Promoter 0.9 EPDnew 550.8 0.0 -6 0.1 NFIA RXRA MAX REST YY1 JUND ATF3 CEBPA HNF4G ZBTB33 CLDN2 RIPPLY1 TBC1D8B MORC4
GH0XI106898 Enhancer 0.7 ENCODE 550.8 -1.4 -1438 0.2 CTCF ESRRA CHD4 MAX RAD21 YY1 ZNF143 SMC3 NR2F6 MIXL1 CLDN2 TBC1D8B MORC4
GH0XI106921 Promoter 0.5 EPDnew 550.3 +20.2 20219 0.1 CLDN2 PIR48891 RIPPLY1 MORC4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CLDN2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CLDN2 gene promoter:

Genomic Locations for CLDN2 Gene

Genomic Locations for CLDN2 Gene
30,698 bases
Plus strand

Genomic View for CLDN2 Gene

Genes around CLDN2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLDN2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLDN2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLDN2 Gene

Proteins for CLDN2 Gene

  • Protein details for CLDN2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B2R6B9

    Protein attributes for CLDN2 Gene

    230 amino acids
    Molecular mass:
    24549 Da
    Quaternary structure:
    • Can form homo- and heteropolymers with other CLDN. Homopolymers interact with CLDN3, but not CLDN1, homopolymers. Directly interacts with TJP1/ZO-1, TJP2/ZO-2 and TJP3/ZO-3 (By similarity).

    Three dimensional structures from OCA and Proteopedia for CLDN2 Gene

neXtProt entry for CLDN2 Gene

Post-translational modifications for CLDN2 Gene

  • The disulfide bond is necessary for pore formation, but is not required for correct protein trafficking.

Other Protein References for CLDN2 Gene

No data available for DME Specific Peptides for CLDN2 Gene

Domains & Families for CLDN2 Gene

Gene Families for CLDN2 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for CLDN2 Gene

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 CLDN2: view

Function for CLDN2 Gene

Molecular function for CLDN2 Gene

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

Phenotypes From GWAS Catalog for CLDN2 Gene

Gene Ontology (GO) - Molecular Function for CLDN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0005515 protein binding IPI 25416956
GO:0042802 identical protein binding ISS --
genes like me logo Genes that share ontologies with CLDN2: view

Phenotypes for CLDN2 Gene

genes like me logo Genes that share phenotypes with CLDN2: view

Animal Models for CLDN2 Gene

MGI Knock Outs for CLDN2:

Animal Model Products

CRISPR Products

miRNA for CLDN2 Gene

miRTarBase miRNAs that target CLDN2

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CLDN2 Gene

Localization for CLDN2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLDN2 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 CLDN2 gene
Compartment Confidence
plasma membrane 5
extracellular 5
nucleus 3
cytoskeleton 2
cytosol 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cell Junctions (3)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CLDN2 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 CLDN2: view

Pathways & Interactions for CLDN2 Gene

genes like me logo Genes that share pathways with CLDN2: view

Gene Ontology (GO) - Biological Process for CLDN2 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 CLDN2: view

No data available for SIGNOR curated interactions for CLDN2 Gene

Drugs & Compounds for CLDN2 Gene

(1) Drugs for CLDN2 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
genes like me logo Genes that share compounds with CLDN2: view

Transcripts for CLDN2 Gene

Unigene Clusters for CLDN2 Gene

Claudin 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLDN2 Gene

No ASD Table

Relevant External Links for CLDN2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLDN2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLDN2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLDN2 Gene

This gene is overexpressed in Kidney - Cortex (x22.7), Liver (x17.0), Small Intestine - Terminal Ileum (x5.7), and Pancreas (x4.3).

Protein differential expression in normal tissues from HIPED for CLDN2 Gene

This gene is overexpressed in Islet of Langerhans (30.2), Kidney (21.0), and Fetal gut (17.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CLDN2 Gene

Protein tissue co-expression partners for CLDN2 Gene

NURSA nuclear receptor signaling pathways regulating expression of CLDN2 Gene:


SOURCE GeneReport for Unigene cluster for CLDN2 Gene:


Evidence on tissue expression from TISSUES for CLDN2 Gene

  • Intestine(4.7)
  • Nervous system(4.2)
  • Skin(4.1)
  • Kidney(3.7)
  • Liver(2)
genes like me logo Genes that share expression patterns with CLDN2: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLDN2 Gene

Orthologs for CLDN2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLDN2 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CLDN2 33 34
  • 91.3 (n)
(Canis familiaris)
Mammalia CLDN2 33 34
  • 88.41 (n)
(Rattus norvegicus)
Mammalia Cldn2 33
  • 88.26 (n)
(Mus musculus)
Mammalia Cldn2 33 16 34
  • 87.1 (n)
(Monodelphis domestica)
Mammalia CLDN2 34
  • 86 (a)
(Ornithorhynchus anatinus)
Mammalia CLDN2 34
  • 75 (a)
(Gallus gallus)
Aves CLDN2 33 34
  • 71.26 (n)
(Anolis carolinensis)
Reptilia CLDN2 34
  • 66 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100489170 33
  • 63.77 (n)
(Danio rerio)
Actinopterygii cldn2 34
  • 41 (a)
Species where no ortholog for CLDN2 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLDN2 Gene

Gene Tree for CLDN2 (if available)
Gene Tree for CLDN2 (if available)

Paralogs for CLDN2 Gene

Paralogs for CLDN2 Gene

(18) SIMAP similar genes for CLDN2 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with CLDN2: view

Variants for CLDN2 Gene

Sequence variations from dbSNP and Humsavar for CLDN2 Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs387907422 uncertain-significance, not provided 106,928,750(+) C/T coding_sequence_variant, synonymous_variant
rs387907423 uncertain-significance, not provided 106,928,421(+) G/C coding_sequence_variant, missense_variant
rs1000070618 -- 106,904,302(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000444978 -- 106,930,948(+) G/A downstream_transcript_variant
rs1000505782 -- 106,903,857(+) G/T genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CLDN2 Gene

Variant ID Type Subtype PubMed ID
esv2752312 CNV gain 17911159

Variation tolerance for CLDN2 Gene

Residual Variation Intolerance Score: 64.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.95; 49.25% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CLDN2 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLDN2 Gene

Disorders for CLDN2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CLDN2 Gene - From: HGMD, DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
osmotic diarrhea
inflammatory bowel disease
  • inflammatory bowel diseases
- elite association - COSMIC cancer census association via MalaCards
Search CLDN2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CLDN2

genes like me logo Genes that share disorders with CLDN2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLDN2 Gene

Publications for CLDN2 Gene

  1. SUMOylation of claudin-2. (PMID: 22731716) Van Itallie CM … Anderson JM (Annals of the New York Academy of Sciences 2012) 3 4 58
  2. Claudin expression profiles in Epstein-Barr virus-associated nasopharyngeal carcinoma. (PMID: 20204275) Kojima F … Okabe H (Oncology reports 2010) 3 22 58
  3. Mucosal expression of claudins 2, 3 and 4 in proximal and distal part of duodenum in children with coeliac disease. (PMID: 20143085) Szakál DN … Veres G (Virchows Archiv : an international journal of pathology 2010) 3 22 58
  4. Symplekin promotes tumorigenicity by up-regulating claudin-2 expression. (PMID: 20133805) Buchert M … Hollande F (Proceedings of the National Academy of Sciences of the United States of America 2010) 3 22 58
  5. TNFalpha up-regulates claudin-2 expression in epithelial HT-29/B6 cells via phosphatidylinositol-3-kinase signaling. (PMID: 19214581) Mankertz J … Schulzke JD (Cell and tissue research 2009) 3 22 58

Products for CLDN2 Gene

Sources for CLDN2 Gene

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