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

Aliases for CLDN3 Gene

Aliases for CLDN3 Gene

  • Claudin 3 2 3
  • Clostridium Perfringens Enterotoxin Receptor 2 2 3 4
  • CPE-Receptor 2 2 3 4
  • CPETR2 3 4 6
  • Ventral Prostate.1-Like Protein 2 3
  • Claudin-3 2 3
  • CPE-R 2 3 4
  • C7orf1 3 4
  • HRVP1 3 4
  • Rat Ventral Prostate.1 Protein Homolog 4
  • Ventral Prostate.1 Protein Homolog 3
  • CPE-R2 3
  • RVP1 3

External Ids for CLDN3 Gene

Previous HGNC Symbols for CLDN3 Gene

  • C7orf1
  • CPETR2

Previous GeneCards Identifiers for CLDN3 Gene

  • GC07M071823
  • GC07M072581
  • GC07M072595
  • GC07M072627
  • GC07M072821
  • GC07M073183
  • GC07M069065

Summaries for CLDN3 Gene

Entrez Gene Summary for CLDN3 Gene

  • Tight junctions represent one mode of cell-to-cell adhesion in epithelial or endothelial cell sheets, forming continuous seals around cells and serving as a physical barrier to prevent solutes and water from passing freely through the paracellular space. These junctions are comprised of sets of continuous networking strands in the outwardly facing cytoplasmic leaflet, with complementary grooves in the inwardly facing extracytoplasmic leaflet. The protein encoded by this intronless gene, a member of the claudin family, is an integral membrane protein and a component of tight junction strands. It is also a low-affinity receptor for Clostridium perfringens enterotoxin, and shares aa sequence similarity with a putative apoptosis-related protein found in rat. [provided by RefSeq, Jul 2008]

GeneCards Summary for CLDN3 Gene

CLDN3 (Claudin 3) is a Protein Coding gene. Diseases associated with CLDN3 include pancreatoblastoma and mucoepidermoid carcinoma. Among its related pathways are Integrin Pathway and Cell junction organization. GO annotations related to this gene include identical protein binding and transmembrane signaling receptor activity. An important paralog of this gene is CLDN9.

UniProtKB/Swiss-Prot for CLDN3 Gene

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

Gene Wiki entry for CLDN3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLDN3 Gene

Genomics for CLDN3 Gene

Regulatory Elements for CLDN3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for CLDN3 Gene

73,768,997 bp from pter
73,770,270 bp from pter
1,274 bases
Minus strand

Genomic View for CLDN3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for CLDN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLDN3 Gene

Proteins for CLDN3 Gene

  • Protein details for CLDN3 Gene (UniProtKB/Swiss-Prot)

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

    Protein attributes for CLDN3 Gene

    220 amino acids
    Molecular mass:
    23319 Da
    Quaternary structure:
    • Can form homo- and heteropolymers with other CLDN. Homopolymers interact with CLDN1 and CLDN2 homopolymers. Directly interacts with TJP1/ZO-1, TJP2/ZO-2 and TJP3/ZO-3 (By similarity).

neXtProt entry for CLDN3 Gene

Proteomics data for CLDN3 Gene at MOPED

Post-translational modifications for CLDN3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CLDN3 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for CLDN3 Gene

Domains for CLDN3 Gene

Gene Families for CLDN3 Gene

Protein Domains for CLDN3 Gene

Suggested Antigen Peptide Sequences for CLDN3 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 CLDN3: view

Function for CLDN3 Gene

Molecular function for CLDN3 Gene

GENATLAS Biochemistry:
claudin 3,clostridium perfringens enterotoxin receptor 2,low affinity,integral membrane protein,claudin family of major structural components of tight junction (TJ) strands,mainly expressed in lung and liver,also in kidney and testis
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 CLDN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004888 transmembrane signaling receptor activity TAS 9334247
GO:0005198 structural molecule activity IEA --
GO:0005515 protein binding --
GO:0042802 identical protein binding IEA --
genes like me logo Genes that share ontologies with CLDN3: view

Phenotypes for CLDN3 Gene

GenomeRNAi human phenotypes for CLDN3:
genes like me logo Genes that share phenotypes with CLDN3: view

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLDN3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for CLDN3 Gene

Localization for CLDN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLDN3 Gene

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

Subcellular locations from

Jensen Localization Image for CLDN3 Gene COMPARTMENTS Subcellular localization image for CLDN3 gene
Compartment Confidence
plasma membrane 5
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for CLDN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane TAS 9334247
GO:0005923 bicellular tight junction ISS --
GO:0016021 integral component of membrane TAS 9441748
GO:0016328 lateral plasma membrane IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with CLDN3: view

Pathways for CLDN3 Gene

genes like me logo Genes that share pathways with CLDN3: view

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for CLDN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001666 response to hypoxia IEP 15174142
GO:0003382 epithelial cell morphogenesis ISS --
GO:0007165 signal transduction TAS 9334247
GO:0016338 calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules IEA --
genes like me logo Genes that share ontologies with CLDN3: view

Drugs for CLDN3 Gene

(1) HMDB Compounds for CLDN3 Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca

(5) Novoseek inferred chemical compound relationships for CLDN3 Gene

Compound -log(P) Hits PubMed IDs
enterotoxin 72.2 5
ochratoxin a 33.5 1
vegf 0 2
calcium 0 1
cholesterol 0 3
genes like me logo Genes that share compounds with CLDN3: view

Transcripts for CLDN3 Gene

mRNA/cDNA for CLDN3 Gene

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

Unigene Clusters for CLDN3 Gene

Claudin 3:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for CLDN3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLDN3 Gene

No ASD Table

Relevant External Links for CLDN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CLDN3 Gene

mRNA expression in normal human tissues for CLDN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLDN3 Gene

This gene is overexpressed in Colon - Transverse (19.7), Small Intestine - Terminal Ileum (6.9), and Pancreas (4.7).

Protein differential expression in normal tissues for CLDN3 Gene

This gene is overexpressed in Nasal epithelium (43.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for CLDN3 Gene

SOURCE GeneReport for Unigene cluster for CLDN3 Gene Hs.647023

genes like me logo Genes that share expressions with CLDN3: view

Expression partners for CLDN3 Gene

* - Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for CLDN3 Gene

Orthologs for CLDN3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLDN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia CLDN3 35
  • 91.02 (n)
  • 89.95 (a)
CLDN3 36
  • 90 (a)
(Canis familiaris)
Mammalia CLDN3 35
  • 92.81 (n)
  • 91.74 (a)
CLDN3 36
  • 91 (a)
(Mus musculus)
Mammalia Cldn3 35
  • 87.37 (n)
  • 91.32 (a)
Cldn3 16
Cldn3 36
  • 91 (a)
(Pan troglodytes)
Mammalia CLDN3 35
  • 99.39 (n)
  • 100 (a)
CLDN3 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Cldn3 35
  • 86 (n)
  • 90.87 (a)
(Ornithorhynchus anatinus)
Mammalia CLDN3 36
  • 76 (a)
(Gallus gallus)
Aves CLDN3 35
  • 80.37 (n)
  • 75.7 (a)
CLDN3 36
  • 75 (a)
(Anolis carolinensis)
Reptilia CLDN3 36
  • 72 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cldn3 35
  • 67.61 (n)
  • 72.77 (a)
(Danio rerio)
Actinopterygii cldne 35
LOC792492 35
  • 68.22 (n)
  • 69.3 (a)
cldnc 36
  • 60 (a)
cldnh 36
  • 64 (a)
Species with no ortholog for CLDN3:
  • 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)
  • oppossum (Monodelphis domestica)
  • 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 CLDN3 Gene

Gene Tree for CLDN3 (if available)
Gene Tree for CLDN3 (if available)

Paralogs for CLDN3 Gene

(19) SIMAP similar genes for CLDN3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with CLDN3: view

Variants for CLDN3 Gene

Sequence variations from dbSNP and Humsavar for CLDN3 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type MAF
rs7084 -- 73,770,105(-) CCGGC(C/G)CCTCG utr-variant-5-prime
rs9133 -- 73,769,716(-) ACACG(G/T)CCAAG reference, missense
rs1129965 -- 73,769,142(-) CCCTT(C/T)TGGAG utr-variant-3-prime
rs6460054 -- 73,770,204(+) CTCCA(C/T)ACGCT utr-variant-5-prime
rs7798722 -- 73,771,232(+) aaaaa(A/C)ttaaa upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CLDN3 Gene

Variant ID Type Subtype PubMed ID
nsv831028 CNV Loss 17160897
nsv469841 CNV Complex 16826518
nsv831029 CNV Loss 17160897
nsv5791 CNV Insertion 18451855

Relevant External Links for CLDN3 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLDN3 Gene

Disorders for CLDN3 Gene


  • Note=CLDN3 is located in the Williams-Beuren syndrome (WBS) critical region. WBS results from a hemizygous deletion of several genes on chromosome 7q11.23, thought to arise as a consequence of unequal crossing over between highly homologous low-copy repeat sequences flanking the deleted region.

(2) University of Copenhagen DISEASES for CLDN3 Gene

(28) Novoseek inferred disease relationships for CLDN3 Gene

Disease -log(P) Hits PubMed IDs
ovarian carcinoma 58.6 8
ovarian cancer 55.1 21
carcinoma papillary 51.3 3
endometrial cancer 43.1 6
adenocarcinoma 42.6 13
genes like me logo Genes that share disorders with CLDN3: view

No data available for OMIM , Genatlas and External Links for CLDN3 Gene

Publications for CLDN3 Gene

  1. Analysis of a human gene homologous to rat ventral prostate.1 protein. (PMID: 9441748) Peacock R.E. … Inglehearn C.F. (Genomics 1997) 2 3 4 23
  2. Clostridium perfringens enterotoxin utilizes two structurally related membrane proteins as functional receptors in vivo. (PMID: 9334247) Katahira J. … Sugimoto N. (J. Biol. Chem. 1997) 3 4 23
  3. Modulation of gene expression by hypoxia in human umbilical cord vein endothelial cells: A transcriptomic and proteomic study. (PMID: 15174142) Scheurer S.B. … Elia G. (Proteomics 2004) 3 23
  4. Claudin promotes activation of pro-matrix metalloproteinase-2 mediated by membrane-type matrix metalloproteinases. (PMID: 11382769) Miyamori H. … Sato H. (J. Biol. Chem. 2001) 3 23
  5. Expression of Clostridium perfringens enterotoxin receptors claudin-3 and claudin-4 in prostate cancer epithelium. (PMID: 11691807) Long H. … Gabig T.G. (Cancer Res. 2001) 3 23

Products for CLDN3 Gene

Sources for CLDN3 Gene

Back to Top