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    Cpne4 copine 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 367160, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cpne4provided by RGD
    Official Full Name
    copine 4provided by RGD
    Primary source
    RGD:1308844
    See related
    EnsemblRapid:ENSRNOG00000026577 AllianceGenome:RGD:1308844
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable calcium-dependent phospholipid binding activity. Predicted to be involved in cellular response to calcium ion. Predicted to be active in glutamatergic synapse and plasma membrane. Orthologous to human CPNE4 (copine 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 68.0), Spleen (RPKM 18.6) and 2 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cpne4 in Genome Data Viewer
    Location:
    8q32
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (114056152..114531855)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (105177376..105653075)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (113105814..113586429)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ribosomal protein S11, pseudogene 16 Neighboring gene mitochondrial ribosomal protein L3 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Expression levels of NPPB, ITGB6, CPNE4, EML5, and ITSN1 in fresh exudates swabbed from critically colonised and infected full-thickness wounds in rats. Takizawa C, et al. Int Wound J, 2023 Apr. PMID 36307995, Free PMC Article
    2. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Expression levels of NPPB, ITGB6, CPNE4, EML5, and ITSN1 in fresh exudates swabbed from critically colonised and infected full-thickness wounds in rats.
      Title: Expression levels of NPPB, ITGB6, CPNE4, EML5, and ITSN1 in fresh exudates swabbed from critically colonised and infected full-thickness wounds in rats.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium-dependent phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    copine-4
    Names
    copine IV

    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_001109003.1 → NP_001102473.1  copine-4

      See identical proteins and their annotated locations for NP_001102473.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473954
      UniProtKB/TrEMBL
      A0A8I6AVT2, A6I2M2, F1M0Z3
      Related
      ENSRNOP00000016749.6, ENSRNOT00000016749.8
      Conserved Domains (3) summary
      cd04047
      Location:165 → 277
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:34 → 150
      C2A_Copine; C2 domain first repeat in Copine
      pfam07002
      Location:336 → 553
      Copine; Copine

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      114056152..114531855
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081885.2 → XP_038937813.1  copine-4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AVT2, H1UBM8
      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

    2. XM_039081886.2 → XP_038937814.1  copine-4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AVT2, H1UBM8
      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

    3. XM_017595789.3 → XP_017451278.1  copine-4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AVT2, A0A8I6GKR1
      Related
      ENSRNOP00000109404.1, ENSRNOT00000171645.1

    4. XM_017595791.3 → XP_017451280.1  copine-4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AVT2, H1UBM8
      Related
      ENSRNOP00000080435.1, ENSRNOT00000102050.2
      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

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