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CDH13 Gene

protein-coding   GIFtS: 64
GCID: GC16P082660

Cadherin 13

  See CDH13-related disease
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
Cadherin 131 2     T-cad2 3
T-cadherin1 2 3     Cadherin 13, H-Cadherin (Heart)2
CDHH2 3 5     cadherin-132
H-Cadherin (Heart)1 2     H-cadherin3
Heart Cadherin2 3     Truncated Cadherin3
P1052 3     

External Ids:    HGNC: 17531   Entrez Gene: 10122   Ensembl: ENSG000001409457   OMIM: 6013645   UniProtKB: P552903   

Export aliases for CDH13 gene to outside databases

Previous GC identifers: GC16P073743 GC16P083625 GC16P082399 GC16P082440 GC16P081218 GC16P068413


(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 CDH13 Gene:
This gene encodes a member of the cadherin superfamily. The encoded protein is localized to the surface of the
cell membrane and is anchored by a GPI moiety, rather than by a transmembrane domain. The protein lacks the
cytoplasmic domain characteristic of other cadherins, and so is not thought to be a cell-cell adhesion
glycoprotein. This protein acts as a negative regulator of axon growth during neural differentiation. It also
protects vascular endothelial cells from apoptosis due to oxidative stress, and is associated with resistance to
atherosclerosis. The gene is hypermethylated in many types of cancer. Alternative splicing results in multiple
transcript variants encoding different isoforms. (provided by RefSeq, May 2011)

GeneCards Summary for CDH13 Gene:
CDH13 (cadherin 13) is a protein-coding gene. Diseases associated with CDH13 include atherosclerosis. GO annotations related to this gene include cadherin binding and calcium ion binding. An important paralog of this gene is DSC1.

UniProtKB/Swiss-Prot: CAD13_HUMAN, P55290
Function: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in
a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell
types. May act as a negative regulator of neural cell growth

Gene Wiki entry for CDH13 (T-cadherin) 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 at NCBI GenBank:
NC_000016.9  NT_010498.16  NC_018927.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CDH13 gene promoter:
         GR   p53   AP-1   GR-beta   ATF-2   IRF-7A   GR-alpha   c-Jun   ATF   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCDH13 promoter sequence
   Search Chromatin IP Primers for CDH13

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CDH13


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

Entrez Gene cytogenetic band: 16q23.3   Ensembl cytogenetic band:  16q23.3   HGNC cytogenetic band: 16q23.3

CDH13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDH13 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P082660:  view genomic region     (about GC identifiers)

Start:
82,660,399 bp from pter      End:
83,830,215 bp from pter
Size:
1,169,817 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: CAD13_HUMAN, P55290 (See protein sequence)
Recommended Name: Cadherin-13 precursor  
Size: 713 amino acids; 78287 Da
Subunit: By contrast to classical cadherins, homodimerization in trans is not mediated by cadherin EC1 domain
strand-swapping, but instead through a homophilic adhesive interface which joins two elongated EC1-EC2 domains
through a region near their Ca2+-binding sites to form a tetrahedral, X-like shape (By similarity)
Developmental stage: Expressed at higher levels in adult brain than in developing brain
1 PDB 3D structure from and Proteopedia for CDH13:
2V37 (3D)    
Secondary accessions: A8W476 A8W477 B7Z590 C9JRI6 J3KN62 Q6GTW4 Q8TBX3
Alternative splicing: 5 isoforms:  P55290-1   P55290-2   P55290-3   P55290-4   P55290-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CDH13: NX_P55290

Explore proteomics data for CDH13 at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn52, Asn86, Thr200, Asn382, Asn500, Asn530, Asn598, Asn638, Asn671
  • Modification sites at PhosphoSitePlus

  • See CDH13 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (6 alternative transcripts): 
    NP_001207417.1  NP_001207418.1  NP_001207419.1  NP_001207420.1  NP_001207421.1  NP_001248.1  

    ENSEMBL proteins: 
     ENSP00000454435   ENSP00000268613   ENSP00000457914   ENSP00000455781   ENSP00000457149  
     ENSP00000456491   ENSP00000408632   ENSP00000394557   ENSP00000442225   ENSP00000456297  
     ENSP00000388804  
    Reactome Protein details: P55290

    CDH13 Human Recombinant Protein Products:

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    Novus Biologicals CDH13 Protein
    Novus Biologicals CDH13 Lysates
    Sino Biological Recombinant Protein for CDH13
    Sino Biological Cell Lysate for CDH13
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp.

     
    Search eBioscience for Proteins for CDH13 

     
    antibodies-online proteins for CDH13 (3 products) 

     
    antibodies-online peptides for CDH13

    CDH13 Antibody Products:

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    antibodies-online antibodies for CDH13 (86 products) 

    CDH13 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse ELISAs at Cloud-Clone Corp.
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    antibodies-online kits for CDH13 (12 products) 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    MCDH: Cadherins / Major cadherins

    4 InterPro protein domains:
     IPR015919 Cadherin-like
     IPR014868 Cadherin_pro_dom
     IPR020894 Cadherin_CS
     IPR002126 Cadherin

    Graphical View of Domain Structure for InterPro Entry P55290

    ProtoNet protein and cluster: P55290

    1 Blocks protein domain: IPB002126 Cadherin

    UniProtKB/Swiss-Prot: CAD13_HUMAN, P55290
    Domain: Three calcium ions are usually bound at the interface of each cadherin domain and rigidify the
    connections, imparting a strong curvature to the full-length ectodomain (By similarity)
    Similarity: Contains 5 cadherin domains


    Find genes that share domains with CDH13           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CAD13_HUMAN, P55290
    Function: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in
    a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell
    types. May act as a negative regulator of neural cell growth

         Genatlas biochemistry entry for CDH13:
    cadherin 13,H-cadherin,transmembrane glycoprotein component of adherens junction,expressed in the heart,deleted in
    lung carcinoma (see TSG16H),hypermethylated or deleted in ovarian tumors (see TSG16A)

         Gene Ontology (GO): Selected molecular function terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005509calcium ion binding IEA--
    GO:0005515protein binding ----
    GO:0030169low-density lipoprotein particle binding IDA16013438
    GO:0042803protein homodimerization activity IEA--
    GO:0045296cadherin binding IDA10601632
         
    Find genes that share ontologies with CDH13           About GenesLikeMe


    Phenotypes:
         7 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Cdh13):
     cardiovascular system  homeostasis/metabolism  mortality/aging  reproductive system  skeleton 
     tumorigenesis  vision/eye 

    Find genes that share phenotypes with CDH13           About GenesLikeMe

    Animal Models:
         MGI mouse knock-outs for CDH13: Cdh13tm1.1Kry Cdh13tm1Brns

       genOway: Develop your customized and physiologically relevant rodent model for CDH13

    miRNA
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    miRTarBase miRNAs that target CDH13:
    hsa-mir-1 (MIRT024070), hsa-mir-155-5p (MIRT021007)

    Block miRNA regulation of human, mouse, rat CDH13 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CDH13 (see all 34):
    hsa-miR-3607-3p hsa-miR-485-3p hsa-miR-30d hsa-miR-1304 hsa-miR-30a hsa-miR-3148 hsa-miR-181b hsa-miR-3688-3p
    SwitchGear 3'UTR luciferase reporter plasmidCDH13 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CDH13

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    GenScript: all cDNA clones in your preferred vector: CDH13 (NM_001257)
    Sino Biological Human cDNA Clone for CDH13
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDH13

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDH13


    (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
    CAD13_HUMAN, P55290: Cell membrane; Lipid-anchor, GPI-anchor
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5
    extracellular4
    endoplasmic reticulum3
    cytoskeleton1
    nucleus1

    Gene Ontology (GO): Selected cellular component terms (see all 9):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IDA16873731
    GO:0005737cytoplasm IDA10737605
    GO:0005886plasma membrane TAS--
    GO:0005901caveola IDA9650591
    GO:0009897external side of plasma membrane IEA--

    Find genes that share ontologies with CDH13           About GenesLikeMe


    (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 CDH13 About   (see all 8)  
    See pathways by source

    SuperPathContained pathways About
    1Cell junction organization
    Cell junction organization0.70
    Cell-Cell communication0.64
    Cell-cell junction organization0.70
    Adherens junctions interactions0.49
    2ERK Signaling
    Rho Family GTPases0.61
    ILK Signaling0.49
    3Nanog in Mammalian ESC Pluripotency
    GSK3 Signaling0.61
    4Non-Canonical Wnt Pathway
    Canonical Wnt Pathway0.53
    5WNT Signaling
    WNT Signaling


    Find genes that share SuperPaths with CDH13           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CDH13 (see all 7)
        S-1P Stimulated Signaling
    ILK Signaling
    GSK3 Signaling
    G12-G13 in Cellular Signaling
    Presenilin-Mediated Signaling

    1 Sino Biological Pathway for CDH13
        Canonical Wnt Pathway

    1 Reactome Pathway for CDH13
        Adherens junctions interactions


        Pathway & Disease-focused RT2 Profiler PCR Arrays including CDH13 (see all 6): 
              Lung Cancer in human mouse rat
              Leukemia in human mouse rat
              Breast Cancer in human mouse rat
              Lymphoma in human mouse rat
              Lipoprotein Signaling & Cholesterol Metabolism in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CDH13

    STRING Interaction Network Preview (showing 5 interactants - click image to see 16)

    Selected Interacting proteins for CDH13 (P552902, 3 ENSP000002686134) via UniProtKB, MINT, STRING, and/or I2D (see all 17)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MAPK6Q166592, 3MINT-8260856 I2D: score=2 
    ADIPOQQ158483, ENSP000003207094I2D: score=1 STRING: ENSP00000320709
    CDH10ENSP000002644634STRING: ENSP00000264463
    CDH11ENSP000002686034STRING: ENSP00000268603
    CDH15ENSP000002897464STRING: ENSP00000289746
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 27):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000278mitotic cell cycle IEA--
    GO:0001558regulation of cell growth IEA--
    GO:0001938positive regulation of endothelial cell proliferation IMP15364621
    GO:0001954positive regulation of cell-matrix adhesion IMP17573778
    GO:0002040sprouting angiogenesis IDA16873731

    Find genes that share ontologies with CDH13           About GenesLikeMe



    (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 CDH13 (CAD13)

    1 HMDB Compound for CDH13    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--

    8 Novoseek inferred chemical compound relationships for CDH13 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    5-aza-2'deoxycytidine 67.6 11 12177241 (1), 18553387 (1), 18425332 (1), 15245595 (1) (see all 7)
    retinoic acid 19.6 7 12467239 (1), 15197197 (1), 14520700 (1), 15042681 (1) (see all 5)
    matrigel 6.16 1 17486418 (2), 17077306 (1)
    paraffin 4.17 1 16888795 (1)
    progesterone 1.58 5 16516410 (1), 16603640 (1), 16397211 (1)
    lipid 0 2 11171368 (1), 15552364 (1)
    calcium 0 5 20190754 (1), 1400585 (1), 9610389 (1), 15821437 (1)
    tyrosine 0 5 17631504 (3)



    Find genes that share compounds with CDH13           About GenesLikeMe



    (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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CDH13 gene (6 alternative transcripts): 
    NM_001220488.1  NM_001220489.1  NM_001220490.1  NM_001220491.1  NM_001220492.1  NM_001257.4  

    Unigene Cluster for CDH13:

    Cadherin 13, H-cadherin (heart)
    Hs.654386  [show with all ESTs]
    Unigene Representative Sequence: NM_001220488
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000566620(uc010chh.3 uc010vns.2 uc002fgx.3 uc010vnt.2 uc010vnu.2)
    ENST00000268613 ENST00000569144 ENST00000562601 ENST00000568770 ENST00000565636(uc021tlw.1)
    ENST00000431540 ENST00000428848 ENST00000539548 ENST00000566333 ENST00000569455
    ENST00000567445 ENST00000569454 ENST00000562307 ENST00000446376
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    hsa-miR-3607-3p hsa-miR-485-3p hsa-miR-30d hsa-miR-1304 hsa-miR-30a hsa-miR-3148 hsa-miR-181b hsa-miR-3688-3p
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    Primer
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      QuantiTect SYBR Green Assays in human, mouse, rat CDH13
      QuantiFast Probe-based Assays in human, mouse, rat CDH13

    Additional mRNA sequence: 

    AK294277.1 AK295886.1 AK298612.1 AK304592.1 AK304733.1 AK307862.1 BC012615.1 BC028624.2 
    BC030653.2 EU190357.1 EU190358.1 L34058.1 U59288.1 

    10 DOTS entries:

    DT.214971  DT.120686349  DT.92425049  DT.100791986  DT.75175565  DT.95091153  DT.120686309  DT.100791980 
    DT.120686344  DT.99999594 

    Selected AceView cDNA sequences (see all 25):

    BX281335 AL708705 CA433353 BX281642 BC012615 AU132542 AL048601 BF432251 
    BF105192 AI359109 BX500121 AU123178 BG212777 BI829166 AU280768 AI493289 
    BP336793 BP336568 NM_001257 L34058 BC030653 BC028624 BP337622 BE503706 

    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)
    About This Section

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    CDH13 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TACAGACATA
    CDH13 Expression
    About this image


    CDH13 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 12) fully expand
     
     Neural Tube (Nervous System)    fully expand to see all 5 entries
             Metencephalon
     
     Brain (Nervous System)    fully expand to see all 5 entries
             Cerebral Cortex
     
     Bone (Muscoskeletal System)    fully expand to see all 3 entries
             Zeugopod Long Bone
     
     Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 2 entries
             Line H9 (Naive)
     
     Gut Tube (Gastrointestinal Tract)
             Foregut
    CDH13 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CDH13 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.654386

    UniProtKB/Swiss-Prot: CAD13_HUMAN, P55290
    Tissue specificity: Highly expressed in heart. In the CNS, expressed in cerebral cortex, medulla, hippocampus,
    amygdala, thalamus and substantia nigra. No expression detected in cerebellum or spinal cord

        Pathway & Disease-focused RT2 Profiler PCR Arrays including CDH13 (see all 6): 
              Lung Cancer in human mouse rat
              Leukemia in human mouse rat
              Breast Cancer in human mouse rat
              Lymphoma in human mouse rat
              Lipoprotein Signaling & Cholesterol Metabolism in human mouse rat

    Primer
    Products:
    OriGene qPCR primer pairs and template standards for CDH13
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CDH13
    QuantiTect SYBR Green Assays in human, mouse, rat CDH13
    QuantiFast Probe-based Assays in human, mouse, rat CDH13
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDH13

    (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 CDH13 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdh131 , 5 cadherin 131, 5 87.99(n)1
    94.58(a)1
      8 (65.97 cM)5
    125541  NM_019707.41  NP_062681.21 
     1182837335 
    chicken
    (Gallus gallus)
    Aves CDH131 cadherin 13, H-cadherin (heart) 73.79(n)
    75.99(a)
      414849  NM_001001760.1  NP_001001760.1 
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia cdh131 cadherin 13 69.85(n)
    72.94(a)
      100125193  NM_001103078.1  NP_001096548.1 
    zebrafish
    (Danio rerio)
    Actinopterygii cdh131 cadherin 13, H-cadherin (heart) 64.34(n)
    61.65(a)
      558732  XM_681990.6  XP_687082.6 


    ENSEMBL Gene Tree for CDH13 (if available)
    TreeFam Gene Tree for CDH13 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CDH13 gene
    DSC12  CDH42  DSG42  DSG12  CDH32  DSG22  CDH12  CDH262  
    DSC32  CDH22  DSC22  CDH152  DSG32  
    12 SIMAP similar genes for CDH13 using alignment to 6 protein entries:     CAD13_HUMAN (see all proteins):
    CDH2    CDH15    CDH4    CDH26    CDH3    CDH1
    CDH24    CDH7    DKFZp686P18250    DSC3    DSC2    DSG4

    Find genes that share paralogs with CDH13           About GenesLikeMe



    (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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    Selected SNPs for CDH13 (see all 38086)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs346473281,2
    C--69338444(+) AAAAA-/AGTGAC 4 -- int11Minor allele frequency- A:0.50NA 2
    rs1424575731,2
    --82658463(+) ACCACA/TGAAGG 6 -- us2k10--------
    rs720906241,2
    C--82658616(+) CTCAC-/TGTGGTT 6 -- us2k10--------
    rs616766791,2
    C--82658618(+) CACTG-/TGGTTTA 6 -- us2k10--------
    rs571660251,2
    F--82658679(+) AGCCAT/CGGACT 6 -- us2k11Minor allele frequency- C:0.03WA 118
    rs65650511,2
    C,F,A,H--82658728(+) CTGGAA/GTGGAG 6 -- us2k128Minor allele frequency- G:0.32NS EA NA WA CSA 2770
    rs1834739311,2
    --82658741(+) AAGTCC/TGGATA 6 -- us2k10--------
    rs1884023671,2
    --82658799(+) GTTTAC/TTCCCA 6 -- us2k10--------
    rs781556921,2
    C,F--82658823(+) TGAGGC/TTAGAT 6 -- us2k11Minor allele frequency- T:0.01NA 120
    rs774973791,2
    C--82658877(+) TCTGTC/TGGACC 6 -- us2k10--------

    HapMap Linkage Disequilibrium report for CDH13 (82660399 - 82910399 bp, first 250kb of CDH13)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for CDH13 (see all 93):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2714803CNV Deletion23290073
    esv2675891CNV Deletion23128226
    dgv511e199CNV Deletion23128226
    esv2664269CNV Deletion23128226
    esv1003403CNV Deletion20482838
    esv2660028CNV Deletion23128226
    esv2714802CNV Deletion23290073
    esv2112702CNV Deletion18987734
    esv1768316CNV Deletion17803354
    esv2714812CNV Deletion23290073

    Human Gene Mutation Database (HGMD): CDH13
    Site Specific Mutation Identification with PCR Assays
    1 Copy Number PCR Panel containing CDH13:
    WNT Signaling
    SeqTarget long-range PCR primers for resequencing CDH13
    DNA2.0 Custom Variant and Variant Library Synthesis for CDH13

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 601364    OMIM disorders: --

    1 disease for CDH13:    
    About MalaCards
    atherosclerosis


    Find genes that share disorders with CDH13           About GenesLikeMe

    Selected Novoseek inferred disease relationships for CDH13 gene (see all 35)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    nsclc 55.4 30 11410507 (4), 15197197 (3), 17606310 (2), 15201980 (2) (see all 12)
    nsclc stage i 51.6 1 18337602 (1)
    tumors 46.9 103 10493953 (5), 19799609 (4), 11410507 (3), 16222700 (3) (see all 43)
    cancer 46.8 35 12489108 (3), 15292927 (2), 15704093 (2), 15245595 (2) (see all 20)
    cancer lung 46.5 19 9737784 (3), 11389090 (2), 11355171 (1), 17960794 (1) (see all 10)
    allelic loss 37.6 5 12489108 (2), 9737784 (1)
    carcinoma squamous cell 37.4 16 12177241 (3), 15816843 (2), 12932231 (1), 12455028 (1) (see all 7)
    familial adenomatous polyposis 35.1 7 17873900 (1), 12467239 (1), 15042681 (1)
    adenocarcinoma 30.9 4 16598760 (1), 17967182 (1), 12455028 (1), 18729198 (1)
    endometrial cancer 30.5 7 18519763 (3), 16928264 (2), 15159323 (1)

    Genetic Association Database (GAD): CDH13
    Human Genome Epidemiology (HuGE) Navigator: CDH13 (21 documents)

    Export disorders for CDH13 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 CDH13 gene, integrated from 10 sources (see all 266):
    (articles sorted by number of sources associating them with CDH13)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of an atypical lipoprotein-binding protein from human aortic smooth muscle as T-cadherin. (PubMed id 9468307)1, 2, 3, 9 Tkachuk V.A....Resink T.J. (FEBS Lett. 1998)
    2. H-cadherin, a novel cadherin with growth inhibitory functions and diminished expression in human breast cancer. (PubMed id 8673923)1, 2, 3, 9 Lee S.W. (Nat. Med. 1996)
    3. Expression of T-cadherin (CDH13, H-Cadherin) in human brain and its characteristics as a negative growth regulator of epidermal growth factor in neuroblastoma cells. (PubMed id 10737605)1, 2, 9 Takeuchi T.... Ohtsuki Y. (J. Neurochem. 2000)
    4. The glycosyl phosphatidylinositol anchor of human T-cadherin binds lipoproteins. (PubMed id 11027617)1, 2, 9 Niermann T.... Resink T. (Biochem. Biophys. Res. Commun. 2000)
    5. The H-cadherin (CDH13) gene is inactivated in human lung cancer. (PubMed id 9737784)1, 2, 9 Sato M.... Horii A. (Hum. Genet. 1998)
    6. Cloning of five human cadherins clarifies characteristic features of cadherin extracellular domain and provides further evidence for two structurally different types of cadherin. (PubMed id 7982033)1, 2, 9 Tanihara H.... Suzuki S. (Cell Adhes. Commun. 1994)
    7. Genome-wide linkage and association analyses to identify genes influencing adiponectin levels: the GEMS Study. (PubMed id 19165155)1, 4, 9 Ling H....Mitchell B.D. (Obesity (Silver Spring) 2009)
    8. Genome-wide scan identifies CDH13 as a novel susceptibility locus contributing to blood pressure determination in two European populations. (PubMed id 19304780)1, 4, 9 Org E....Laan M. (Hum. Mol. Genet. 2009)
    9. CDH13 gene coding T-cadherin influences variations in plasma adiponectin levels in the Japanese population. (PubMed id 22065538)1, 4 Morisaki H....Morisaki T. (Hum. Mutat. 2012)
    10. Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals. (PubMed id 22479202)1, 4 Dastani Z....Kathiresan S. (PLoS Genet. 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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: 1012 HGNC: 1753 AceView: CDH13 Ensembl:ENSG00000140945 euGenes: HUgn1012
    ECgene: CDH13 H-InvDB: CDH13

    (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 CDH13 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for CDH13 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for CDH13 gene:
    Search GeneIP for patents involving CDH13

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



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