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    Cpne4 copine IV [ Mus musculus (house mouse) ]

    Gene ID: 74020, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Cpne4provided by MGI
    Official Full Name
    copine IVprovided by MGI
    Primary source
    MGI:MGI:1921270
    See related
    Ensembl:ENSMUSG00000032564 AllianceGenome:MGI:1921270
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    3632411M23Rik; 4933406O10Rik
    Summary
    Predicted to enable calcium-dependent phospholipid binding activity. Predicted to be involved in cellular response to calcium ion. Predicted to be active in plasma membrane. Is expressed in central nervous system and dorsal root ganglion. Orthologous to human CPNE4 (copine 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in frontal lobe adult (RPKM 23.3), CNS E18 (RPKM 7.0) and 4 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    9 F1; 9 56.61 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (104443900..104911747)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (104566701..105034544)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 25904 Neighboring gene predicted gene, 57490 Neighboring gene STARR-seq mESC enhancer starr_25118 Neighboring gene STARR-seq mESC enhancer starr_25120 Neighboring gene STARR-seq mESC enhancer starr_25121 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:105003152-105003421 Neighboring gene mitochondrial ribosomal protein L3 Neighboring gene STARR-positive B cell enhancer ABC_E5099 Neighboring gene nudix hydrolase 16

    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. An Atoh1 CRE Knock-In Mouse Labels Motor Neurons Involved in Fine Motor Control. Ogujiofor OW, et al. eNeuro, 2021 Jan-Feb. PMID 33468540, Free PMC Article
    2. Transcriptional mechanisms of EphA7 gene expression in the developing cerebral cortex. Pietri S, et al. Cereb Cortex, 2012 Jul. PMID 21940705
    3. The copines, a novel class of C2 domain-containing, calcium-dependent, phospholipid-binding proteins conserved from Paramecium to humans. Creutz CE, et al. J Biol Chem, 1998 Jan 16. PMID 9430674
    4. Identifying new candidate genes for hereditary facial paresis on chromosome 3q21-q22 by RNA in situ hybridization in mouse. van der Zwaag B, et al. Genomics, 2005 Jul. PMID 15953540
    5. Divergent Hox Coding and Evasion of Retinoid Signaling Specifies Motor Neurons Innervating Digit Muscles. Mendelsohn AI, et al. Neuron, 2017 Feb 22. PMID 28190640, Free PMC Article

    See all (20) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • 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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to calcium ion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    copine-4

    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_001357439.2 → NP_001344368.1  copine-4 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC117688, AC160113, AC160135
      UniProtKB/TrEMBL
      Q9D6C8
      Conserved Domains (3) summary
      cd04047
      Location:173 → 285
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:42 → 158
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:344 → 561
      Copine; Copine

    2. NM_001378996.1 → NP_001365925.1  copine-4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC117688, AC160113, AC160135
      UniProtKB/TrEMBL
      Q9D6C8
      Conserved Domains (3) summary
      cd04047
      Location:163 → 275
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:32 → 148
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:334 → 551
      Copine

    3. NM_028719.3 → NP_082995.1  copine-4 isoform 2

      See identical proteins and their annotated locations for NP_082995.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AC117688, AC160113, AC160135
      Consensus CDS
      CCDS23461.1
      UniProtKB/Swiss-Prot
      Q8BLR2
      UniProtKB/TrEMBL
      Q9D6C8
      Related
      ENSMUSP00000049663.9, ENSMUST00000057742.15
      Conserved Domains (3) summary
      cd04047
      Location:155 → 267
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:24 → 140
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:326 → 543
      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_000075.7 Reference GRCm39 C57BL/6J

      Range
      104443900..104911747
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036155345.1 → XP_036011238.1  copine-4 isoform X1

      UniProtKB/Swiss-Prot
      Q8BLR2
      UniProtKB/TrEMBL
      Q9D6C8
      Conserved Domains (3) summary
      cd04047
      Location:155 → 267
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:24 → 140
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:326 → 543
      Copine
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BLR2.1 GenPept UniProtKB/Swiss-Prot:Q8BLR2

    Gene LinkOut

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

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