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CPNE3 copine 3 [ Homo sapiens (human) ]

Gene ID: 8895, updated on 27-Nov-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
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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
  • 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. CPNE3 moderates the association between anxiety and working memory. Chen C, et al. Sci Rep, 2021 Mar 25. PMID 33767297, Free PMC Article
  2. Upregulation of CPNE3 suppresses invasion, migration and proliferation of glioblastoma cells through FAK pathway inactivation. Shi D, et al. J Mol Histol, 2021 Jun. PMID 33725213
  3. 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
  4. 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
  5. High expression of CPNE3 predicts adverse prognosis in acute myeloid leukemia. Fu L, et al. Cancer Sci, 2017 Sep. PMID 28670859, Free PMC Article

See all (109) 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)

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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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

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