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CLDN3 Gene

protein-coding   GIFtS: 59

GC07M072821
claudin 3
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: C7orf1, CPETR2)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
C7orf1 2, 3
CPE-R2 1, 2
CPETR2 2, 3, 5
HRVP1 1, 2, 3
OTTHUMP00000025042 2
OTTHUMP00000160506 2
RVP1 1, 2
Descriptions
CPE-R 2 3
CPE-receptor 2 2, 3
Clostridium perfringens enterotoxin receptor 2 2, 3
Ventral prostate.1 protein homolog 3
claudin 3 2
ventral prostate.1-like protein 2
External Ids
HGNC: 20451
Entrez Gene: 13652
UniProtKB: O155513
Ensembl: ENSG000001652157
Search outside databases for aliases for CLDN3 gene

Previous GC identifers: GC07M071823 GC07M072581 GC07M072595 GC07M072627

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for CLDN3:
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]

UniProtKB/Swiss-Prot: CLD3_HUMAN, O15551
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 CLDN3

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the CLDN3 gene  

Entrez Gene cytogenetic band: 7q11.23   Ensembl cytogenetic band:  7q11.23   HGNC cytogenetic band: 7q11

CLDN3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M072821:     (about GC identifiers)

Start:
72,821,263 bp from pter
End:
72,822,536 bp from pter
Size:
1,274 bases
Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 72,516,399-72,517,648     
RefSeq DNA sequence:
NC_000007.12  NT_007758.11  NT_079593.2  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: CLD3_HUMAN, O15551 (See protein sequence)
Recommended Name: Claudin-3  
Size: 220 amino acids; 23319 Da
Subunit: 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)
Subcellular location: Cell junction, tight junction (By similarity). Cell membrane; Multi-pass
membrane protein (By similarity)

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_001297.1  

    ENSEMBL proteins: 
    ENSP00000378577 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (Claudin 3)
    Human Recombinant Proteins from Abnova (CLDN3)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    4 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886 plasma membrane IEA--
    GO:0005887 integral to plasma membrane TAS9334247
    GO:0005923 tight junction ISS--
    GO:0030054 cell junction IEA--
    About this table

    Antibodies for CLDN3: 
    Invitrogen Antibodies for CLDN3
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for CLDN3
    R&D Systems Antibodies for CLDN3 (Claudin-3)
    Antibodies from Abcam (Claudin 3), each with their AbpromiseSM
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Novus Biologicals Antibodies for CLDN3

    Assays for CLDN3: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    4 InterPro domains/families:
     IPR017974 Claudin_CS
     IPR003549 Claudin3
     IPR006187 Claudin
     IPR004031 PMP22/EMP/MP20/Claudin


       GeneDecks  CLDN3 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry O15551

    ProtoNet protein and cluster: O15551

    2 Blocks protein families:
    IPB003549 Claudin-3 signature
    IPB006187 Claudin family signature


    UniProtKB/Swiss-Prot: CLD3_HUMAN, O15551
    Similarity: Belongs to the claudin family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (CLDN3)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (CLDN3)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001306

                  Applied Biosystems Silencer® siRNAs for CLDN3

                  Sigma-Aldrich siRNA and siRNA Panels for CLDN3  
                         Sigma-Aldrich shRNA Panels and shRNA for CLDN3  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for CLDN3
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_001306
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_001306
                                     untagged cDNA clone in CMV expression vector: NM_001306 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_001306

    UniProtKB/Swiss-Prot: CLD3_HUMAN, O15551
    Function: Plays a major role in tight junction-specific obliteration of the intercellular space,
    through calcium-independent cell-adhesion activity (By similarity)

    Genatlas biochemistry entry for CLDN3:
    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

    3 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004888 transmembrane receptor activity TAS9334247
    GO:0005198 structural molecule activity IEA--
    GO:0042802 identical protein binding ISS--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    2 Millipore Pathways for CLDN3
     Cell adhesion Tight junctions
     Cell adhesion Endothelial cell contacts by junctional mechanisms

       GeneDecks  CLDN3 for the pathways selected above  
    About GeneDecksing

    2 Sigma-Aldrich "Your Favorite Gene" Pathways for  CLDN3  (Your Favorite Gene powered by Ingenuity) 
     Tight Junction Signaling
     Leukocyte Extravasation Signaling

       GeneDecks  CLDN3 for the pathways selected above  
    About GeneDecksing

    3 Kegg Pathways  (Kegg details for CLDN3):
     hsa04514 Cell adhesion molecules (CAMs)
     hsa04530 Tight junction
     hsa04670 Leukocyte transendothelial migration

       GeneDecks  CLDN3 for the pathways selected above  
    About GeneDecksing
     Gene Network CentralTM Interacting Genes and Proteins Network for  CLDN3 

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001666 response to hypoxia IEP15174142
    GO:0016338 calcium-independent cell-cell adhesion ISS--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for CLDN3
    3 Novoseek chemical compound relationships for CLDN3 gene
    Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    enterotoxin 71.65 5 18569027 (1), 17326053 (1), 9878248 (1), 15899825 (1)
    cholesterol 0.00 5 17762176 (2), 15500448 (1)
    calcium 0.00 1 15305371 (1)
    About this table


    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (CLDN3)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (CLDN3)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001306

                  Sigma-Aldrich siRNA and siRNA Panels for CLDN3  
                         Sigma-Aldrich shRNA Panels and shRNA for CLDN3  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_001306  

    REFSEQ mRNAs for CLDN3 gene: 

    NM_001306.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_001306  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_001306
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_001306
                                     untagged cDNA clone in CMV expression vector: NM_001306 

    Additional cDNA sequence: 

    AB000714.1 AK313276.1 BC009083.1 BC016056.1 

    6 DOTS entries:

    DT.117534  DT.92428811  DT.100780793  DT.100780801  DT.121098596  DT.97856299 

    24/412 AceView cDNA sequences (see all 412 ):

    AI304635 BM764241 AI318406 BQ632259 BU071674 AI347072 AW015201 AW043573 
    AI271338 BQ271363 AI739523 AW516096 AI348231 CK821121 AI761774 AW139257 
    CB851892 AI077453 BI793298 AA039424 CA842897 NM_001306 BM760760 AW573016 

    highest scoring ESTs for CLDN3:

    AB000714 AA235694 AA292466 AA299806 AA434144 AA434269 AA454509 AA468642 AA468830 AA470827 

    Unigene Cluster for CLDN3:

    Claudin 3
    Hs.647023  [show with all ESTs]
    Unigene Representative Sequence: NM_001306


    GeneLoc Exon Structure

    1 Ensembl transcript including schematic representation:
    ENST00000395145  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    CLDN3 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for CLDN3

    1 / 2 / 3

    5 probe-sets matching CLDN3 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    33904_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AB000714 1.00 1.00 1.00 1

    203954_x_at2, 3 U133-A 1 1.00 1.00 -- -- NM_001306 0.60 1.00 0.82 1

    203953_s_at2, 3 U133-A 1 1.00 1.00 -- -- BE791251 0.20 1.00 0.72 1

    203954_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    203953_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  CLDN3 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CTCGCGCTGG

    SOURCE GeneReport for Unigene cluster: Hs.647023

    Expression variation in blood from EXPOLDB for CLDN3

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for CLDN3 gene from 5/8 species (see all 8 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    CLDN31   -- claudin 3 92.81(n)
    91.74(a)
    403648  NM_001003088.1  NP_001003088.1 
    chimpanzee
    (Pan troglodytes)
    CLDN31   -- claudin 3 99.39(n)
    100(a)
    742734  XM_001147969.1  XP_001147969.1 
    cow
    (Bos taurus)
    CLDN31   -- claudin 3 91.02(n)
    89.95(a)
    404153  NM_205801.2  NP_991370.1 
    rat
    (Rattus norvegicus)
    Cldn31   -- claudin 3 86(n)
    90.87(a)
    65130  NM_031700.2  NP_113888.2 
    mouse
    (Mus musculus)
    Cldn31, 5 5 (75.00 cM)5
    claudin 31, 5 87.37(n)1
    91.32(a)1
    127391  NM_009902.31  NP_034032.11 
     AB0007155  AC0841095  (see all 18)
    About this table        Species with no ortholog for CLDN3

    ENSEMBL Gene Tree for CLDN3
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for CLDN3 gene
    CLDN42  CLDN92  CLDN62  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/26 NCBI SNPs in CLDN3 are shown (see all 26 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 8)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 7 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    --
    rs119798071,2
    A,C72820877(+) TTTTCG/TTTTTT 1 -- ng510--------
    --
    rs70841,2
    A,C72822371(-) CCGGCC/GCCTCG 1 -- ut510--------
    --
    rs64600541,2
    C,F72822470(+) CTCCAT/CACGCT 1 -- ut513Minor allele frequency- C:0.48MN EA 1436
    --
    rs77987221,2
    A,C72823498(+) aaaaaA/Cttaaa 1 -- ng31 tfbs30--------
    --
    rs91331,2
    C72821982(-) ACACGG/TCCAAG 1 A/S mis1 ese31Minor allele frequency- T:0.00MN 184
    --
    rs283844351,2
    F72823053(-) ACCCC-/CACCGC 1 -- ng312Minor allele frequency- C:0.13MN EA 1252
    --
    rs11299651,2
    C72821408(-) CCCTTC/TTGGAG 1 -- ut311Minor allele frequency- T:0.00MN 184
    --
    rs339975271,2
    --72823671(+) AAAAA-/AAAAAA 1 -- ng310--------
    --
    rs132372961,2
    --72822848(+) CCAAAG/TAATTT 1 -- ng310--------
    --
    rs733643791,2
    --72824016(+) GCTCAA/CGCCTG 1 -- ng310--------
    About this table

    HapMap Linkage Disequilibrium images for CLDN3 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 602910

    UniProtKB/Swiss-Prot: CLD3_HUMAN, O15551
  • Haploinsufficiency of CLDN3 may be the cause of certain cardiovascular and
    musculo-skeletal abnormalities observed in Williams-Beuren syndrome (WBS), a rare developmental
    disorder. It is a contiguous gene deletion syndrome involving genes from chromosome band 7q11.23
  • 10/26 Novoseek disease relationships for CLDN3 gene (see all 26 )

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    ovarian cancer 55.14 19 15905176 (4), 17986852 (3), 15899825 (3), 12855632 (2) (see all 9)
    ovarian carcinoma 54.32 6 17647191 (4), 12855632 (1), 17509990 (1)
    carcinoma papillary 49.46 1 17326053 (1)
    adenocarcinoma 42.19 13 16287068 (2), 17647191 (2), 16540726 (2), 17509990 (2) (see all 8)
    tumors 41.52 21 12855632 (2), 19082451 (1), 17647191 (1), 15067357 (1) (see all 16)
    endometrial cancer 41.51 9 18313739 (5), 17326053 (1)
    gastric carcinoma 39.38 2 18251778 (2)
    prostatic adenocarcinoma 38.21 3 11691807 (1), 18097572 (1)
    metaplasia 37.53 2 16540726 (1), 17103306 (1)
    endometrial carcinoma 37.18 1 16797678 (1)
    About this table

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/122 PubMed articles for CLDN3 gene (see all 122 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     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, and/or H-InvDB)
    About This Section

    Entrez Gene: 1365 HGNC: 2045 AceView: CLDN3 Ensembl:ENSG00000165215 euGenes: HUgn1365
    ECgene: CLDN3 H-InvDB: CLDN3
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for CLDN3:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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     Predesigned and custom siRNAs for CLDN3 Antibodies for CLDN3
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for CLDN3 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Antibodies for CLDN3

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