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

    Gene ID: 211232, updated on 9-Dec-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 be active in plasma membrane. Orthologous to human CPNE9 (copine family member 9). [provided by Alliance of Genome Resources, Dec 2024]
    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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    See Cpne9 in Genome Data Viewer
    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 calcium-dependent phospholipid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in 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 [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q1RLL3.1 GenPept UniProtKB/Swiss-Prot:Q1RLL3

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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