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Cpne6 copine VI [ Mus musculus (house mouse) ]

Gene ID: 12891, updated on 11-Apr-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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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 (24) 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)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (1) 

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 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
acts_upstream_of_or_within 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 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 cell projection IEA
Inferred from Electronic Annotation
more info
  
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 cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
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 
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

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