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

CPNE3 Gene

protein-coding   GIFtS: 56
GCID: GC08P087497

copine III

 Explore 4 diseases affiliated with
CPNE3 via our new
 Human Malady Compendium 
Biological research products
for CPNE3
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Copine III1 2 3
CPN32 3 5
PRO10712
Copine-31
KIAA06363

External Ids:    HGNC: 23161   Entrez Gene: 88952   Ensembl: ENSG000000857197   OMIM: 6042075   UniProtKB: O751313   

Export aliases for CPNE3 gene to outside databases

Previous GC identifers: GC08P086047 GC08P087258 GC08P087483 GC08P087566 GC08P082736


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

Entrez Gene summary for CPNE3:
Calcium-dependent membrane-binding proteins may regulate molecular events at the interface of the cell membrane and
cytoplasm. This gene encodes a protein which contains two type II C2 domains in the amino-terminus and an A
domain-like sequence in the carboxy-terminus. The A domain mediates interactions between integrins and extracellular
ligands. (provided by RefSeq, Aug 2008)

UniProtKB/Swiss-Prot: CPNE3_HUMAN, O75131
Function: May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties (By
similarity)




(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000008.10  NC_018919.1  NT_008046.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CPNE3 gene promoter:
         HFH-3   HOXA3   AML1a   FOXD1   Lmo2   GATA-1   FOXI1   IRF-2   HSF2   En-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCPNE3 promoter sequence
   Search SABiosciences Chromatin IP Primers for CPNE3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CPNE3


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

Entrez Gene cytogenetic band: 8q21.3   Ensembl cytogenetic band:  8q21.3   HGNC cytogenetic band: 8q21

CPNE3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CPNE3 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P087497:  view genomic region     (about GC identifiers)

Start:
87,497,059 bp from pter      End:
87,573,726 bp from pter
Size:
76,668 bases      Orientation:
plus strand

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

UniProtKB/Swiss-Prot: CPNE3_HUMAN, O75131 (See protein sequence)
Recommended Name: Copine-3  
Size: 537 amino acids; 60131 Da
Caution: Was reported (PubMed:11041869) to have a protein kinase activity
Sequence caution: Sequence=BAA31611.2; Type=Erroneous initiation;
Secondary accessions: A8KA47 Q8IYA1

Explore the universe of human proteins at neXtProt for CPNE3: NX_O75131

Post-translational modifications:

  • Phosphorylated on serine and threonine residues1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_O75131

  • CPNE3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_003900.1  
    ENSEMBL proteins: 
     ENSP00000430934   ENSP00000427791   ENSP00000428808   ENSP00000429420   ENSP00000429194  
     ENSP00000429561   ENSP00000427966   ENSP00000428561   ENSP00000198765  

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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for CPNE3

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm NAS11041869
    GO:0005829cytosol IDA12949241


    CPNE3 for ontologies           About GeneDecksing



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

    CPNE3 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR018029 C2_membr_targeting
     IPR008973 C2_Ca/lipid-bd_dom_CaLB
     IPR010734 Copine
     IPR000008 C2_Ca-dep
     IPR002035 VWF_A

    Graphical View of Domain Structure for InterPro Entry O75131

    ProtoNet protein and cluster: O75131

    2 Blocks protein families:
    IPB000008 C2 domain
    IPB010734 Copine


    UniProtKB/Swiss-Prot: CPNE3_HUMAN, O75131
    Similarity: Belongs to the copine family
    Similarity: Contains 2 C2 domains
    Similarity: Contains 1 VWFA domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: CPNE3_HUMAN, O75131
    Function: May function in membrane trafficking. Exhibits calcium-dependent phospholipid binding properties (By
    similarity)

         Genatlas biochemistry entry for CPNE3:
    copine 3,calcium-dependent,phospholipid binding protein,potentially involved in regulating membrane
    trafficking,expressed in brain

    miRNA
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    miRTarBase miRNAs that target CPNE3:
    hsa-mir-124 (MIRT002575)

    OriGene 3'-UTR Clone: CPNE3
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CPNE3
    8/27 QIAGEN miScript miRNA Assays for microRNAs that regulate CPNE3 (see all 27):
    hsa-miR-16-2* hsa-miR-1271 hsa-miR-548s hsa-miR-3653 hsa-miR-570 hsa-miR-508-3p hsa-miR-124 hsa-miR-1323
    Browse SwitchGear 3'UTR luciferase reporter plasmids
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CPNE3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004674protein serine/threonine kinase activity IDA11041869
    GO:0005215transporter activity TAS9430674
    GO:0005544calcium-dependent phospholipid binding TAS11041869


    CPNE3 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for CPNE3:
     G0/1 arrest  Increased G1 DNA content 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CPNE3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

    5/568 Interacting proteins for CPNE3 (O751312, 3 ENSP000001987654) via UniProtKB, MINT, STRING, and/or I2D (see all 568)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    USP42Q9H9J43, ENSP000003019624I2D: score=2 STRING: ENSP00000301962
    QARSP478973, ENSP000003075674I2D: score=4 STRING: ENSP00000307567
    ELAVL1Q157172, ENSP000003852694MINT-7945693 STRING: ENSP00000385269
    SNW1Q135732, ENSP000002615314MINT-7945693 STRING: ENSP00000261531
    DDA1Q9BW613I2D: score=1 
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006629lipid metabolic process TAS9430674
    GO:0016192vesicle-mediated transport TAS9430674


    CPNE3 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 CPNE3

    1 HMDB Compound for CPNE3    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--
    Search CenterWatch for drugs/clinical trials and news about CPNE3 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CPNE3 gene: 
    NM_003909.3  

    Unigene Cluster for CPNE3:

    Copine III
    Hs.191219  [show with all ESTs]
    Unigene Representative Sequence: NM_003909
    14 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000521271(uc003ydv.2) ENST00000523072 ENST00000523001 ENST00000520814
    ENST00000523489 ENST00000517771 ENST00000523469 ENST00000522240 ENST00000517391
    ENST00000517862 ENST00000517354 ENST00000517490(uc003ydw.1) ENST00000523588
    ENST00000198765

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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CPNE3
    8/27 QIAGEN miScript miRNA Assays for microRNAs that regulate CPNE3 (see all 27):
    hsa-miR-16-2* hsa-miR-1271 hsa-miR-548s hsa-miR-3653 hsa-miR-570 hsa-miR-508-3p hsa-miR-124 hsa-miR-1323
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    Clone
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CPNE3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CPNE3

    Additional cDNA sequence: 

    AB014536.1 AF077226.2 AF116654.1 AK025275.1 AK292912.1 BC007017.1 BC008385.1 BC015734.1 
    BC036242.1 BC066597.1 

    7 DOTS entries:

    DT.449453  DT.100677688  DT.100827051  DT.100827050  DT.121486717  DT.102829342  DT.92436892 

    24/321 AceView cDNA sequences (see all 321):

    BE670546 BU629296 BU689371 AW026680 AA866189 Z38754 W32758 AA923241 
    CA433525 CB153171 CA436101 BU619531 CB242400 BM564540 AI619979 BX480823 
    CA415581 BM786481 Z42575 BQ641778 BF515741 AA505111 AI609932 NM_003909 

    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™, 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

    CPNE3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TGTAAGTTAC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See CPNE3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CPNE3

    SOURCE GeneReport for Unigene cluster: Hs.191219

    UniProtKB/Swiss-Prot: CPNE3_HUMAN, O75131
    Tissue specificity: Ubiquitous

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CPNE3

    (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 eukaryotes.

    Orthologs for CPNE3 gene from 8/22 species (see all 22)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cpne31 , 5 copine III1, 5 89.99(n)1
    94.37(a)1
      4 (7.53 cM)5
    705681  NM_027769.21  NP_082045.11 
     195192545 
    chicken
    (Gallus gallus)
    Aves CPNE31 copine III 79.75(n)
    85.98(a)
      420214  XM_418324.3  XP_418324.2 
    lizard
    (Anolis carolinensis)
    Reptilia CPNE36
    --
    84(a)
    1 ↔ 1
    4(22764523-22789465)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.31162 Transcribed sequence with moderate similarity to protein more 76.34(n)    CF264329.1 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc556222 similar to copine III 74.42(n)   393136  BC045408.1 
    worm
    (Caenorhabditis elegans)
    Secernentea T12A7.13 C2 domain (2 domains) 43(a)
    (best of 2)
      IV(11745848-11748760)   --
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons BON31 protein BONZAI 3 50.13(n)
    42.47(a)
      837408  NM_100759.3  NP_172362.3 
    rice
    (Oryza sativa)
    Liliopsida Os05g03733001 hypothetical protein 52.52(n)
    47.92(a)
      9266651  NM_001187464.1  NP_001174393.1 


    ENSEMBL Gene Tree for CPNE3 (if available)
    TreeFam Gene Tree for CPNE3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CPNE3 gene
    CPNE92  CPNE22  CPNE62  CPNE52  CPNE82  CPNE42  CPNE72  CPNE12  
    8 SIMAP similar genes for CPNE3 using alignment to 8 protein entries:     CPNE3_HUMAN (see all proteins):
    CPNE1    CPNE2    CPNE8    CPNE9    CPNE7    CPNE4
    CPNE5    CPNE6

    CPNE3 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/829 NCBI SNPs in CPNE3 are shown (see all 829    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2004479101,2
    C--87524667(+) TCTTTG/TCCCCT 1 -- us2k10--------
    rs1481521481,2
    --87524806(+) TCCCTC/GTATCA 1 -- us2k10--------
    rs1849418461,2
    --87524893(+) ATTCAA/GCCGTC 1 -- us2k10--------
    rs713034051,2
    C,--87524953(+) ACATAGTAGGCAA
    TCAGGAT
    /-
    GTGTT
    1 -- us2k11Minor allele frequency- -:0.50NA 2
    rs61506871,2
    C--87524955(+) ATAGTAGGCAATC
    AGGATGT
    /-
    GTTTG
    1 -- us2k11Minor allele frequency- -:0.00NA 2
    rs351547641,2
    C,F,--87525008(+) AAAAAT/CGTTTA 1 -- us2k15Minor allele frequency- C:0.06NA WA 244
    rs1418865871,2
    --87525031(+) GGCACA/GGTGGC 1 -- us2k10--------
    rs1892706831,2
    --87525199(+) TTTTAA/CTTAAG 1 -- us2k10--------
    rs119864231,2
    C,F,H,--87525268(+) TTCACC/TCATTT 1 -- us2k117Minor allele frequency- T:0.10NS EA NA WA CSA 1503
    rs1817416501,2
    --87525352(+) TAATCC/TCAGCA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for CPNE3 (87497059 - 87573726 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for CPNE3
         1 CNV: 5257

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

    CPNE3 for disorders           About GeneDecksing

    OMIM gene information: 604207    OMIM disorders: --

    4 diseases for CPNE3:    About MalaCards
    hermaphroditism    infertility    prostate cancer    prostatitis

    Human Genome Epidemiology (HuGE) Navigator: CPNE3 (2 documents)

    Export disorders for CPNE3 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 CPNE3 gene, integrated from 9 sources (see all 21):
    (articles sorted by number of sources associating them with CPNE3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. Characterization of human copine III as a phosphoprotein with associated kinase activity. (PubMed id 11041869)1, 2 Caudell E.G....Grimm E.A. (2000)
    4. The copines, a novel class of C2 domain-containing, calcium- dependent, phospholipid-binding proteins conserved from Paramecium to humans. (PubMed id 9430674)1, 3 Creutz C.E.... Cohen J. (1998)
    5. Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PubMed id 9734811)1, 2 Ishikawa K.... Ohara O. (1998)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    7. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    8. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    9. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    10. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 8895 HGNC: 2316 AceView: CPNE3 Ensembl:ENSG00000085719 euGenes: HUgn8895
    ECgene: CPNE3 H-InvDB: CPNE3

    (According to HUGE)
    About This Section
    HUGE: KIAA0636

    (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 CPNE3 Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for CPNE3 Genetics and Cytogenetics in Oncology and Haematology

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CPNE3 gene:
    Search GeneIP for patents involving CPNE3

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



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