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    Cpne6 copine VI [ Mus musculus (house mouse) ]

    Gene ID: 12891, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cpne6provided by MGI
    Official Full Name
    copine VIprovided by MGI
    Primary source
    MGI:MGI:1334445
    See related
    Ensembl:ENSMUSG00000022212 AllianceGenome:MGI:1334445
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Calcium-dependent membrane-binding proteins may regulate molecular events at the interface of the cell membrane and cytoplasm. This gene is one of several genes that encodes a calcium-dependent protein containing two N-terminal type II C2 domains and an integrin A domain-like sequence in the C-terminus. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jan 2018]
    Expression
    Biased expression in frontal lobe adult (RPKM 96.5), cortex adult (RPKM 42.0) and 2 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cpne6 in Genome Data Viewer
    Location:
    14 C3; 14 28.19 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (55747902..55754892)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (55510445..55517435)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene dehydrogenase/reductase 4 Neighboring gene capping protein regulator and myosin 1 linker 3 Neighboring gene STARR-positive B cell enhancer ABC_E10826 Neighboring gene neural retina leucine zipper gene Neighboring gene STARR-positive B cell enhancer ABC_E5439 Neighboring gene phosphoenolpyruvate carboxykinase 2 (mitochondrial)

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. The calcium sensor Copine-6 regulates spine structural plasticity and learning and memory. Reinhard JR, et al. Nat Commun, 2016 May 19. PMID 27194588, Free PMC Article
    2. N-copine: a novel two C2-domain-containing protein with neuronal activity-regulated expression. Nakayama T, et al. FEBS Lett, 1998 May 22. PMID 9645480
    3. Copine-6 Binds to SNAREs and Selectively Suppresses Spontaneous Neurotransmission. Liu P, et al. J Neurosci, 2018 Jun 27. PMID 29802203, Free PMC Article
    4. The second C2-domain of copine-2, copine-6 and copine-7 is responsible for their calcium-dependent membrane association. Perestenko P, et al. FEBS J, 2015 Oct. PMID 26175110
    5. Localization and subcellular distribution of N-copine in mouse brain. Nakayama T, et al. J Neurochem, 1999 Jan. PMID 9886090

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. we identify copine-6 as a specific regulator of spontaneous neurotransmission
      Title: Copine-6 Binds to SNAREs and Selectively Suppresses Spontaneous Neurotransmission.
    2. links activity-triggered calcium signals to spine structural plasticity necessary for learning and memory
      Title: The calcium sensor Copine-6 regulates spine structural plasticity and learning and memory.
    3. The second C2-domain of copine-6 is responsible for calcium-dependent membrane association.
      Title: The second C2-domain of copine-2, copine-6 and copine-7 is responsible for their calcium-dependent membrane association.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium-dependent phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent phospholipid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylserine binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to calcium ion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to calcium ion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of dendrite extension IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of dendrite extension ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in postsynaptic actin cytoskeleton organization EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in postsynaptic actin cytoskeleton organization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in postsynaptic actin cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in clathrin-coated endocytic vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in perikaryon IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 

    General protein information

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    Preferred Names
    copine-6
    Names
    N-copine
    neuronal-copine

    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_001136057.3 → NP_001129529.1  copine-6 isoform a

      See identical proteins and their annotated locations for NP_001129529.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1, 2 and 4 encode the same isoform (a).
      Source sequence(s)
      BC050766, BY081897, CJ143652, CJ286371
      Consensus CDS
      CCDS27112.1
      UniProtKB/Swiss-Prot
      Q9Z140
      UniProtKB/TrEMBL
      Q3UN71
      Related
      ENSMUSP00000073847.5, ENSMUST00000074225.11
      Conserved Domains (3) summary
      cd04047
      Location:152 → 266
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:20 → 137
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:325 → 541
      Copine; Copine

    2. NM_001146183.2 → NP_001139655.1  copine-6 isoform b

      See identical proteins and their annotated locations for NP_001139655.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is 1 aa shorter compared to isoform a.
      Source sequence(s)
      AK134548, BY081897, CJ143652, CJ286371
      Consensus CDS
      CCDS49493.1
      UniProtKB/TrEMBL
      Q3UN71, Q3UYN2
      Related
      ENSMUSP00000132999.2, ENSMUST00000165262.8
      Conserved Domains (3) summary
      cd04047
      Location:152 → 266
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:20 → 137
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:325 → 540
      Copine; Copine

    3. NM_001360193.1 → NP_001347122.1  copine-6 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 encode the same isoform (a).
      Source sequence(s)
      AK134548, AK144410, CJ143652, CJ286371
      Consensus CDS
      CCDS27112.1
      UniProtKB/Swiss-Prot
      Q9Z140
      UniProtKB/TrEMBL
      Q3UN71
      Conserved Domains (3) summary
      cd04047
      Location:152 → 266
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:20 → 137
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:325 → 541
      Copine; Copine

    4. NM_009947.4 → NP_034077.1  copine-6 isoform a

      See identical proteins and their annotated locations for NP_034077.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 encode the same isoform (a).
      Source sequence(s)
      AC159002, AK134548, AK144410, CJ143652, CJ286371
      Consensus CDS
      CCDS27112.1
      UniProtKB/Swiss-Prot
      Q9Z140
      UniProtKB/TrEMBL
      Q3UN71
      Related
      ENSMUSP00000126493.2, ENSMUST00000163767.8
      Conserved Domains (3) summary
      cd04047
      Location:152 → 266
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:20 → 137
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:325 → 541
      Copine; Copine

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000080.7 Reference GRCm39 C57BL/6J

      Range
      55747902..55754892
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9Z140.1 GenPept UniProtKB/Swiss-Prot:Q9Z140

    Gene LinkOut

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

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