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    Capn9 calpain 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 116694, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Capn9provided by RGD
    Official Full Name
    calpain 9provided by RGD
    Primary source
    RGD:70965
    See related
    EnsemblRapid:ENSRNOG00000018480 AllianceGenome:RGD:70965
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Ncl-4
    Summary
    Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Biomarker of hypertension. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human CAPN9 (calpain 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    human mouse all
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    Genomic context

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    See Capn9 in Genome Data Viewer
    Location:
    19q12
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (69446847..69483810)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (52549448..52586413)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (57341938..57378901)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108348970 Neighboring gene component of oligomeric golgi complex 2 Neighboring gene angiotensinogen Neighboring gene similar to human chromosome 1 open reading frame 198 Neighboring gene uncharacterized LOC120098646

    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
    • 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. Down-regulation of calpain 9 is linked to hypertensive heart and kidney disease. Markmann A, et al. Cell Physiol Biochem, 2005. PMID 15665521
    2. Isolation of two novel genes, down-regulated in gastric cancer. Yoshikawa Y, et al. Jpn J Cancer Res, 2000 May. PMID 10835488, Free PMC Article
    3. Molecular cloning and characterization of a novel tissue-specific calpain predominantly expressed in the digestive tract. Lee HJ, et al. Biol Chem, 1998 Feb. PMID 9524069
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. differential regulation of calpain 9 may play a role in hypertensive target organ damage
      Title: Down-regulation of calpain 9 is linked to hypertensive heart and kidney disease.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables calcium-dependent cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent cysteine-type endopeptidase activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in proteolysis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    calpain-9
    Names
    digestive tract-specific calpain
    new calpain 4
    NP_001258069.1

    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_001271140.1 → NP_001258069.1  calpain-9

      See identical proteins and their annotated locations for NP_001258069.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/Swiss-Prot
      F1LR50, O35920
      UniProtKB/TrEMBL
      A6KJ12
      Related
      ENSRNOP00000025357.7, ENSRNOT00000025357.9
      Conserved Domains (4) summary
      cd00051
      Location:566 → 621
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
      pfam00648
      Location:43 → 335
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:349 → 491
      Calpain_III; Calpain large subunit, domain III
      pfam13499
      Location:597 → 652
      EF-hand_7; EF-hand domain pair

    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_086037.1 Reference GRCr8

      Range
      69446847..69483810
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O35920.2 GenPept UniProtKB/Swiss-Prot:O35920

    Gene LinkOut

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