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Cpne4 copine IV [ Mus musculus (house mouse) ]

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

Summary

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
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Genomic context

See Cpne4 in Genome Data Viewer
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

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 

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_001357439.2NP_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:173285
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:42158
    C2A_Copine; C2 domain first repeat in Copine
    pfam07002
    Location:344561
    Copine; Copine
  2. NM_001378996.1NP_001365925.1  copine-4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC117688, AC160113, AC160135
    UniProtKB/TrEMBL
    Q9D6C8
    Conserved Domains (3) summary
    cd04047
    Location:163275
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:32148
    C2A_Copine; C2 domain first repeat in Copine
    pfam07002
    Location:334551
    Copine
  3. NM_028719.3NP_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:155267
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:24140
    C2A_Copine; C2 domain first repeat in Copine
    pfam07002
    Location:326543
    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_036155345.1XP_036011238.1  copine-4 isoform X1

    UniProtKB/Swiss-Prot
    Q8BLR2
    UniProtKB/TrEMBL
    Q9D6C8
    Conserved Domains (3) summary
    cd04047
    Location:155267
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:24140
    C2A_Copine; C2 domain first repeat in Copine
    pfam07002
    Location:326543
    Copine