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    CPNE3 copine 3 [ Homo sapiens (human) ]

    Gene ID: 8895, updated on 28-Oct-2024

    Summary

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    Official Symbol
    CPNE3provided by HGNC
    Official Full Name
    copine 3provided by HGNC
    Primary source
    HGNC:HGNC:2316
    See related
    Ensembl:ENSG00000085719 MIM:604207; AllianceGenome:HGNC:2316
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CPN3; PRO1071
    Summary
    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]
    Expression
    Ubiquitous expression in thyroid (RPKM 40.1), esophagus (RPKM 38.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See CPNE3 in Genome Data Viewer
    Location:
    8q21.3
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (86514435..86561498)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (87634662..87681751)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (87526664..87573726)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene regulator of microtubule dynamics 1 Neighboring gene N-terminal asparagine amidase pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27596 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19342 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19343 Neighboring gene solute carrier family 2 member 3 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27598 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:87604292-87604850 Neighboring gene cyclic nucleotide gated channel subunit beta 3 Neighboring gene myo-inositol oxygenase pseudogene 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:87669862-87670033 Neighboring gene GOLGA2 pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Circulating exosomal CPNE3 as a diagnostic and prognostic biomarker for colorectal cancer. Sun B, et al. J Cell Physiol, 2019 Feb. PMID 30078189
    2. High expression of CPNE3 predicts adverse prognosis in acute myeloid leukemia. Fu L, et al. Cancer Sci, 2017 Sep. PMID 28670859, Free PMC Article
    3. Quantitative proteomic analysis identifies CPNE3 as a novel metastasis-promoting gene in NSCLC. Lin HC, et al. J Proteome Res, 2013 Jul 5. PMID 23713811
    4. CPNE3 moderates the association between anxiety and working memory. Chen C, et al. Sci Rep, 2021 Mar 25. PMID 33767297, Free PMC Article
    5. Low CPNE3 expression is associated with risk of acute myocardial infarction: A feasible genetic marker of acute myocardial infarction in patients with stable coronary artery disease. Tan B, et al. Cardiol J, 2019. PMID 29297177, Free PMC Article

    See all (107) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. YAP1-CPNE3 positive feedback pathway promotes gastric cancer cell progression.
      Title: YAP1-CPNE3 positive feedback pathway promotes gastric cancer cell progression.
    2. [High expression of CPNE3 correlates with poor long-term prognosis of gastric cancer by inhibiting cell apoptosis via activating PI3K/AKT signaling].
      Title: [High expression of CPNE3 correlates with poor long-term prognosis of gastric cancer by inhibiting cell apoptosis via activating PI3K/AKT signaling].
    3. Upregulation of CPNE3 suppresses invasion, migration and proliferation of glioblastoma cells through FAK pathway inactivation.
      Title: Upregulation of CPNE3 suppresses invasion, migration and proliferation of glioblastoma cells through FAK pathway inactivation.
    4. CPNE3 moderates the association between anxiety and working memory.
      Title: CPNE3 moderates the association between anxiety and working memory.
    5. Patients who have low CPNE3 expression in peripheral blood are more likely to suffer from AMI than those with stable CAD. Low expression of CPNE3 gene serves as an potential independent risk factor of AMI.
      Title: Low CPNE3 expression is associated with risk of acute myocardial infarction: A feasible genetic marker of acute myocardial infarction in patients with stable coronary artery disease.
    6. Exosomal CPNE3 levels are associated with the tumor extent and may serve as a diagnostic biomarker in colorectal cancer patients.
      Title: Circulating exosomal CPNE3 as a diagnostic and prognostic biomarker for colorectal cancer.
    7. upregulation of EMP1 significantly increases cancer cell migration that leads to tumor metastasis
      Title: Epithelial membrane protein 1 promotes tumor metastasis by enhancing cell migration via copine-III and Rac1.
    8. CPNE3(high) is an adverse prognostic biomarker for acute myeloid leukemia.
      Title: High expression of CPNE3 predicts adverse prognosis in acute myeloid leukemia.
    9. Copine3 binding to ErbB2 increases when Jab1 is overexpressed in SKBr3 breast cancer cells. Copine3 and Jab1 binding regulates the ErbB2 signaling pathway.
      Title: Direct binding of Copine3 with Jab1 activates downstream ErbB2 signaling and motility in SKBr3 breast cancer cells.
    10. our results indicate that CPNE3 could play a critical role in NSCLC metastasis.
      Title: Quantitative proteomic analysis identifies CPNE3 as a novel metastasis-promoting gene in NSCLC.
    Submit: New GeneRIF Correction See all GeneRIFs (14)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify copine III (CPNE3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify copine III (CPNE3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Nef nef Tandem affinity purification and mass spectrometry analysis identify copine III (CPNE3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
    Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify copine III (CPNE3), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0636

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables calcium-dependent phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent phospholipid binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables calcium-dependent phospholipid binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables calcium-dependent protein binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein serine/threonine kinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables receptor tyrosine kinase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables receptor tyrosine kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ERBB2 signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ERBB2 signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to calcium ion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to calcium ion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to growth factor stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of cell migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in azurophil granule membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in cell junction IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular exosome HDA PubMed 
    located_in focal adhesion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    copine-3
    Names
    copine III

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_003909.5 → NP_003900.1  copine-3

      See identical proteins and their annotated locations for NP_003900.1

      Status: REVIEWED

      Source sequence(s)
      AC013751, AC103817, AF077226, AI031907, DB135485
      Consensus CDS
      CCDS6243.1
      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1
      Related
      ENSP00000477590.1, ENST00000517490.6
      Conserved Domains (3) summary
      cd04047
      Location:139 → 251
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:7 → 125
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:310 → 527
      Copine; Copine

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      86514435..86561498
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422393.1 → XP_047278349.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    2. XM_047422394.1 → XP_047278350.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    3. XM_024447322.2 → XP_024303090.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1
      Conserved Domains (3) summary
      cd04047
      Location:139 → 251
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:7 → 125
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:310 → 527
      Copine; Copine

    4. XM_017013945.3 → XP_016869434.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1
      Conserved Domains (3) summary
      cd04047
      Location:139 → 251
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:7 → 125
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:310 → 527
      Copine; Copine

    5. XM_005251093.5 → XP_005251150.1  copine-3 isoform X1

      See identical proteins and their annotated locations for XP_005251150.1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1
      Conserved Domains (3) summary
      cd04047
      Location:139 → 251
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:7 → 125
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:310 → 527
      Copine; Copine

    6. XM_047422395.1 → XP_047278351.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      87634662..87681751
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054361451.1 → XP_054217426.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    2. XM_054361452.1 → XP_054217427.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    3. XM_054361449.1 → XP_054217424.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    4. XM_054361448.1 → XP_054217423.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    5. XM_054361450.1 → XP_054217425.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1

    6. XM_054361453.1 → XP_054217428.1  copine-3 isoform X1

      UniProtKB/Swiss-Prot
      A8KA47, O75131, Q8IYA1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O75131.1 GenPept UniProtKB/Swiss-Prot:O75131

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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