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    Cpne9 copine family member 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 297516, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Cpne9provided by RGD
    Official Full Name
    copine family member 9provided by RGD
    Primary source
    RGD:1309212
    See related
    EnsemblRapid:ENSRNOG00000023077 AllianceGenome:RGD:1309212
    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
    Also known as
    RGD1309212
    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, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 59.2), Testes (RPKM 7.0) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cpne9 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (147985900..148009987)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (146429961..146454335)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (145238011..145262444)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486623 Neighboring gene myotubularin related protein 14 Neighboring gene bromodomain and PHD finger containing, 1 Neighboring gene 8-oxoguanine DNA glycosylase 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: 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. SYT14L, especially its C2 domain, is involved in regulating melanocyte differentiation. Yoo JC, et al. J Dermatol Sci, 2013 Dec. PMID 23999003
    2. Shotgun proteomics reveals specific modulated protein patterns in tears of patients with primary open angle glaucoma naïve to therapy. Pieragostino D, et al. Mol Biosyst, 2013 Jun. PMID 23580065
    3. Identification and characterization of the BRI2 interactome in the brain. Martins F, et al. Sci Rep, 2018 Feb 23. PMID 29476059, Free PMC Article
    4. 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
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC109370

    Gene Ontology Provided by RGD

    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 IEA
    Inferred from Electronic Annotation
    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
    copine family member 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_001024982.1 → NP_001020153.1  copine-9

      See identical proteins and their annotated locations for NP_001020153.1

      Status: PROVISIONAL

      Source sequence(s)
      BC091347
      UniProtKB/Swiss-Prot
      Q5BJS7
      UniProtKB/TrEMBL
      A0A140TAJ0
      Related
      ENSRNOP00000059939.4, ENSRNOT00000067396.5
      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_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086022.1 Reference GRCr8

      Range
      147985900..148009987
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063285878.1 → XP_063141948.1  copine-9 isoform X8

    2. XM_063285873.1 → XP_063141943.1  copine-9 isoform X3

    3. XM_063285874.1 → XP_063141944.1  copine-9 isoform X4

    4. XM_063285872.1 → XP_063141942.1  copine-9 isoform X2

    5. XM_063285871.1 → XP_063141941.1  copine-9 isoform X1

    6. XM_039107402.2 → XP_038963330.1  copine-9 isoform X5

      UniProtKB/TrEMBL
      A0A140TAJ0
      Related
      ENSRNOP00000097811.2, ENSRNOT00000111242.2
      Conserved Domains (3) summary
      cd04047
      Location:147 → 258
      C2B_Copine; C2 domain second repeat in Copine
      cd04048
      Location:14 → 134
      C2A_Copine; C2 domain first repeat in Copine
      cd01459
      Location:268 → 524
      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. ...

    7. XM_063285877.1 → XP_063141947.1  copine-9 isoform X7

    8. XM_063285875.1 → XP_063141945.1  copine-9 isoform X6

      UniProtKB/TrEMBL
      A0A8I6GMP3

    9. XM_063285876.1 → XP_063141946.1  copine-9 isoform X6

      UniProtKB/TrEMBL
      A0A8I6GMP3

    10. XM_039107406.1 → XP_038963334.1  copine-9 isoform X10

      Conserved Domains (1) summary
      cd01459
      Location:41 → 270
      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. ...

    11. XM_039107407.1 → XP_038963335.1  copine-9 isoform X10

      Conserved Domains (1) summary
      cd01459
      Location:41 → 270
      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. ...

    12. XM_039107405.2 → XP_038963333.1  copine-9 isoform X9

      Conserved Domains (1) summary
      cd01459
      Location:60 → 289
      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. ...

    RNA

    1. XR_010065629.1 RNA Sequence

    2. XR_010065630.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5BJS7.1 GenPept UniProtKB/Swiss-Prot:Q5BJS7

    Gene LinkOut

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

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