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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

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