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Cpne9 copine family member IX [ Mus musculus (house mouse) ]

Gene ID: 211232, updated on 11-Apr-2024

Summary

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Official Symbol
Cpne9provided by MGI
Official Full Name
copine family member IXprovided by MGI
Primary source
MGI:MGI:2443052
See related
Ensembl:ENSMUSG00000030270 AllianceGenome:MGI:2443052
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
mKIAA4217; A730016F12Rik
Summary
Predicted to enable calcium-dependent phospholipid binding activity. Predicted to be involved in cellular response to calcium ion and positive regulation of dendrite extension. Predicted to act upstream of or within cell differentiation. Predicted to be active in plasma membrane. Orthologous to human CPNE9 (copine family member 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in cortex adult (RPKM 13.5), cerebellum adult (RPKM 10.5) and 2 other tissues See more
Orthologs
human all
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Genomic context

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Location:
6 E3; 6 52.75 cM
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (113259244..113282532)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (113282283..113305571)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene lipoma HMGIC fusion partner-like protein 4 Neighboring gene STARR-positive B cell enhancer ABC_E683 Neighboring gene myotubularin related protein 14 Neighboring gene STARR-seq mESC enhancer starr_17036 Neighboring gene STARR-positive B cell enhancer ABC_E237 Neighboring gene bromodomain and PHD finger containing, 1 Neighboring gene STARR-positive B cell enhancer ABC_E1326 Neighboring gene 8-oxoguanine DNA-glycosylase 1 Neighboring gene calcium/calmodulin-dependent protein kinase I

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. True S-cones are concentrated in the ventral mouse retina and wired for color detection in the upper visual field. Nadal-Nicolás FM, et al. Elife, 2020 May 28. PMID 32463363, Free PMC Article
  2. 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
  3. Assembly, verification, and initial annotation of the NIA mouse 7.4K cDNA clone set. VanBuren V, et al. Genome Res, 2002 Dec. PMID 12466305, Free PMC Article
  4. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
  5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

See all (17) 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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA4217

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
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to calcium ion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of dendrite extension ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
copine-9
Names
copine IX

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_170673.3 → NP_733773.2  copine-9

    See identical proteins and their annotated locations for NP_733773.2

    Status: VALIDATED

    Source sequence(s)
    AK047571, AK137422
    Consensus CDS
    CCDS20413.1
    UniProtKB/Swiss-Prot
    Q1RLL3, Q8C990
    UniProtKB/TrEMBL
    A0A0R4J0J1
    Related
    ENSMUSP00000044416.6, ENSMUST00000041203.6
    Conserved Domains (3) summary
    cd04047
    Location:148 → 259
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:14 → 135
    C2A_Copine; C2 domain first repeat in Copine
    cd01459
    Location:269 → 525
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

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_000072.7 Reference GRCm39 C57BL/6J

    Range
    113259244..113282532
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006505851.4 → XP_006505914.1  copine-9 isoform X1

    See identical proteins and their annotated locations for XP_006505914.1

    UniProtKB/Swiss-Prot
    Q1RLL3, Q8C990
    UniProtKB/TrEMBL
    Q8BRJ6
    Conserved Domains (3) summary
    cd04047
    Location:130 → 241
    C2B_Copine; C2 domain second repeat in Copine
    cd04048
    Location:5 → 117
    C2A_Copine; C2 domain first repeat in Copine
    cd01459
    Location:251 → 507
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

  2. XM_030255300.1 → XP_030111160.1  copine-9 isoform X3

    Conserved Domains (2) summary
    cd04047
    Location:1 → 108
    C2B_Copine; C2 domain second repeat in Copine
    cd01459
    Location:118 → 374
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

  3. XM_006505852.4 → XP_006505915.1  copine-9 isoform X3

    See identical proteins and their annotated locations for XP_006505915.1

    Conserved Domains (2) summary
    cd04047
    Location:1 → 108
    C2B_Copine; C2 domain second repeat in Copine
    cd01459
    Location:118 → 374
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

  4. XM_036166007.1 → XP_036021900.1  copine-9 isoform X3

    Conserved Domains (2) summary
    cd04047
    Location:1 → 108
    C2B_Copine; C2 domain second repeat in Copine
    cd01459
    Location:118 → 374
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

  5. XM_011241277.3 → XP_011239579.1  copine-9 isoform X2

    Conserved Domains (2) summary
    cd04047
    Location:25 → 136
    C2B_Copine; C2 domain second repeat in Copine
    cd01459
    Location:146 → 402
    vWA_copine_like; VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. ...

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_175079.1: Suppressed sequence

    Description
    NM_175079.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q1RLL3.1 GenPept UniProtKB/Swiss-Prot:Q1RLL3

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