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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CDHR3 Gene

protein-coding   GIFtS: 42
GCID: GC07P105517

Cadherin-Related Family Member 3

  Search for CDHR3
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Cadherin-Related Family Member 31 2
Cadherin-Like Protein 282 3
CDH282 3

External Ids:    HGNC: 263081   Entrez Gene: 2222562   Ensembl: ENSG000001285367   UniProtKB: Q6ZTQ43   

Export aliases for CDHR3 gene to outside databases

Previous GC identifer: GC07P099964


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

GeneCards Summary for CDHR3 Gene: 
CDHR3 (cadherin-related family member 3) is a protein-coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is CDHR4.

UniProtKB/Swiss-Prot: CDHR3_HUMAN, Q6ZTQ4
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




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NT_007933.15  NC_018918.2  NT_079596.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for CDHR3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for CDHR3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CDHR3


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

Entrez Gene cytogenetic band: 7q22.3   Ensembl cytogenetic band:  7q22.3   HGNC cytogenetic band: 7q22.2

CDHR3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CDHR3 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P105517:  view genomic region     (about GC identifiers)

Start:
105,517,242 bp from pter      End:
105,676,877 bp from pter
Size:
159,636 bases      Orientation:
plus strand

1 alternative location:
Chr7+,CRA_TCAG 104,964,683-105,037,907     

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: CDHR3_HUMAN, Q6ZTQ4 (See protein sequence)
Recommended Name: Cadherin-related family member 3 precursor  
Size: 885 amino acids; 97977 Da
Subcellular location: Cell membrane; Single-pass type I membrane protein (By similarity)
Secondary accessions: Q8TCI7
Alternative splicing: 2 isoforms:  Q6ZTQ4-1   Q6ZTQ4-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for CDHR3: NX_Q6ZTQ4

Explore proteomics data for CDHR3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q6ZTQ4

  • CDHR3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    CDHR3 Protein Expression
    REFSEQ proteins: NP_689963.2  
    ENSEMBL proteins: 
     ENSP00000419593   ENSP00000325954   ENSP00000417771   ENSP00000417198   ENSP00000419017  
     ENSP00000418958   ENSP00000439766   ENSP00000443733   ENSP00000341510  

    Human Recombinant Protein Products for CDHR3: 
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    Novus Biologicals CDHR3 Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CDHR3 

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005886plasma membrane IEA--
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--

    CDHR3 for ontologies           About GeneDecksing



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    Abcam antibodies for CDHR3
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    Cloud-Clone Corp. ELISAs for CDHR3 
    Cloud-Clone Corp. CLIAs for CDHR3


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    CDHR: Cadherins / Cadherin-related

    2 InterPro protein domains:
     IPR015919 Cadherin-like
     IPR002126 Cadherin

    Graphical View of Domain Structure for InterPro Entry Q6ZTQ4

    ProtoNet protein and cluster: Q6ZTQ4

    1 Blocks protein domain: IPB002126 Cadherin

    UniProtKB/Swiss-Prot: CDHR3_HUMAN, Q6ZTQ4
    Similarity: Contains 6 cadherin domains


    CDHR3 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CDHR3_HUMAN, Q6ZTQ4
    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

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005509calcium ion binding IEA--
         
    CDHR3 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for CDHR3:
     Decreased nuclei size in G2M  Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for CDHR3 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for CDHR3

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDHR3


    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CDHR3

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007156homophilic cell adhesion IEA--

    CDHR3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CDHR3

    1 HMDB Compound for CDHR3    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--

    Search CenterWatch for drugs/clinical trials and news about CDHR3

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CDHR3 gene: 
    NM_152750.4  

    Unigene Cluster for CDHR3:

    Cadherin-related family member 3
    Hs.150120  [show with all ESTs]
    Unigene Representative Sequence: NM_152750
    17 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000487084 ENST00000474330 ENST00000470188 ENST00000488386 ENST00000472116
    ENST00000317716 ENST00000478080 ENST00000461766 ENST00000496633 ENST00000466045
    ENST00000471910 ENST00000466351 ENST00000468477 ENST00000468143 ENST00000542731(uc003vdl.4 uc003vdm.4 uc011klt.2)
    ENST00000541203 ENST00000343407(uc003vdk.3 uc011kls.1 uc003vdn.3)

    miRNA
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    8/20 QIAGEN miScript miRNA Assays for microRNAs that regulate CDHR3 (see all 20):
    hsa-miR-642a hsa-miR-539 hsa-miR-522 hsa-miR-507 hsa-miR-132 hsa-miR-3142 hsa-miR-212 hsa-miR-33b
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
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    Clone
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    OriGene ORF clones in mouse, rat for CDHR3
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CDHR3
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CDHR3

    Additional mRNA sequence: 

    AK074414.1 AK125261.1 AK126338.1 AK131293.1 AK304118.1 AK304352.1 BC111696.1 BC111738.1 

    11 DOTS entries:

    DT.101957894  DT.75100706  DT.436794  DT.102829709  DT.100768339  DT.100751666  DT.107457  DT.121093143 
    DT.40127428  DT.40190683  DT.100013068 

    24/60 AceView cDNA sequences (see all 60):

    AA292873 BE857564 AI299366 Z38217 CB850790 CR604543 AI583205 AI272975 
    AI924018 CR607992 BP341691 BQ670922 BX115477 BF195172 BQ668694 CN479975 
    AI821990 AI793167 AA974855 AI299610 BQ669362 Z41922 BI768220 AK125261 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for CDHR3 (see all 6)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14
    SP1:                                                                                                      
    SP2:        -                 -     -                                                                     
    SP3:                                                                                                      
    SP4:                                                                                                      
    SP5:                                                                                                      


    ECgene alternative splicing isoforms for CDHR3

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CDHR3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAAATGAAGT
    CDHR3 Expression
    About this image


    See CDHR3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CDHR3

    SOURCE GeneReport for Unigene cluster: Hs.150120
        SABiosciences Custom PCR Arrays for CDHR3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CDHR3

    (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)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for CDHR3 gene from 3/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cdhr31 , 5 cadherin-related family member 31, 5 82(n)1
    77.01(a)1
      12 (13.95 cM)5
    687641  NM_001024478.11  NP_001019649.11 
     330337965 
    chicken
    (Gallus gallus)
    Aves CDHR31 cadherin-related family member 3 58.1(n)
    47.16(a)
      427846  XM_425420.2  XP_425420.2 
    lizard
    (Anolis carolinensis)
    Reptilia CDHR36
    cadherin-related family member 3
    45(a)
    1 ↔ 1
    5(96824196-96872625)


    ENSEMBL Gene Tree for CDHR3 (if available)
    TreeFam Gene Tree for CDHR3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CDHR3 gene
    CDHR42  

    CDHR3 for paralogs           About GeneDecksing



    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1624 SNPs in CDHR3 are shown (see all 1624)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1156219681,2
    F--105601741(+) GCAACA/TTAGGG 1 -- us2k11Minor allele frequency- T:0.02WA 118
    rs1174861121,2
    C--105601742(+) CAACAT/CAGGGA 1 -- us2k11Minor allele frequency- C:0.01EA 120
    rs25288911,2
    C,F,A,H--105601751(-) GAGGAG/CGTCTC 1 -- us2k13Minor allele frequency- C:0.50NA 6
    rs570328311,2
    C--105601760(+) TCTCT-/AAAAAA 1 -- us2k12Minor allele frequency- A:0.00NA CSA 4
    rs1997745281,2
    --105601770(+) AAAAA-/TTTTTT 1 -- us2k10--------
    rs711554911,2
    C--105601935(-) AAATAT/-CTTTT 1 -- us2k11Minor allele frequency- -:0.00NA 2
    rs1416534141,2
    --105602016(+) TGTATC/GGCTTG 1 -- us2k10--------
    rs1888829171,2
    --105602152(+) GTTACC/TATCTA 1 -- us2k10--------
    rs1463546711,2
    --105602186(+) GACTAA/GCTTTC 1 -- us2k10--------
    rs1813888211,2
    --105602205(+) ACTACA/CTTTCC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for CDHR3 (105517242 - 105676877 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for CDHR3:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv269437CNV Insertion20981092
    nsv5891CNV Loss18451855
    nsv820197CNV Loss19587683

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CDHR3 for disorders           About MalaCards

    CDHR3 for disorders           About GeneDecksing

    Genetic Association Database (GAD): CDHR3

    Export disorders for CDHR3 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)
    About This Section

    PubMed articles for CDHR3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with CDHR3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genome-wide association study identifies genetic dete rminants of warfarin responsiveness for Japanese. (PubMed id 20833655)1, 4 Cha P.C....Nakamura Y. (2010)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Human chromosome 7: DNA sequence and biology. (PubMed id 12690205)1, 2 Scherer S.W.... Tsui L.-C. (2003)
    4. Genome-wide association study identifies variants in the MHC class I, IL10, and IL23R-IL12RB2 regions associated with BehAset's disea se. (PubMed id 20622878)4 Remmers E.F....GA1l A. (2010)
    5. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    6. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    8. Toward a complete human genome sequence. (PubMed id 9847074)1 Wilson R. (1998)

    (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, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 222256 HGNC: 26308 AceView: FLJ23834 Ensembl:ENSG00000128536 euGenes: HUgn222256
    ECgene: CDHR3 H-InvDB: CDHR3

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CDHR3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CDHR3 gene:
    Search GeneIP for patents involving CDHR3

    GeneCards and IP:
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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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