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Cpne4 copine 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 367160, updated on 2-Nov-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, Nov 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 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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