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    Capn9 calpain 9 [ Mus musculus (house mouse) ]

    Gene ID: 73647, updated on 12-May-2024

    Summary

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    Official Symbol
    Capn9provided by MGI
    Official Full Name
    calpain 9provided by MGI
    Primary source
    MGI:MGI:1920897
    See related
    Ensembl:ENSMUSG00000031981 AllianceGenome:MGI:1920897
    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
    GC36; nCL4; nCL-4; 2200003B16Rik
    Summary
    Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human CAPN9 (calpain 9). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in stomach adult (RPKM 25.5), colon adult (RPKM 12.1) and 3 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Capn9 in Genome Data Viewer
    Location:
    8 E2; 8 72.81 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (125301361..125345470)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (124576062..124618731)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9122 Neighboring gene component of oligomeric golgi complex 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:127097574-127097727 Neighboring gene angiotensinogen Neighboring gene STARR-seq mESC enhancer starr_23008 Neighboring gene RIKEN cDNA 2310022B05 gene Neighboring gene VISTA enhancer mm1665 Neighboring gene tetratricopeptide repeat domain 13 Neighboring gene predicted gene, 46058

    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. Antisense RNA-mediated deficiency of the calpain protease, nCL-4, in NIH3T3 cells is associated with neoplastic transformation and tumorigenesis. Liu K, et al. J Biol Chem, 2000 Oct 6. PMID 10906334
    2. Calpain 9 as a therapeutic target in TGFβ-induced mesenchymal transition and fibrosis. Kim DH, et al. Sci Transl Med, 2019 Jul 17. PMID 31316008, Free PMC Article
    3. A Gastrointestinal Calpain Complex, G-calpain, Is a Heterodimer of CAPN8 and CAPN9 Calpain Isoforms, Which Play Catalytic and Regulatory Roles, Respectively. Hata S, et al. J Biol Chem, 2016 Dec 30. PMID 27881674, Free PMC Article
    4. Calpain 8/nCL-2 and calpain 9/nCL-4 constitute an active protease complex, G-calpain, involved in gastric mucosal defense. Hata S, et al. PLoS Genet, 2010 Jul 29. PMID 20686710, Free PMC Article
    5. 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

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. these data provide a strong signature for tolerance of therapeutic strategies for fibrosis aimed at CAPN9 antagonism.
      Title: Calpain 9 as a therapeutic target in TGFβ-induced mesenchymal transition and fibrosis.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    Pathways from PubChem

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    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables calcium-dependent cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cysteine-type peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables peptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    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_076198.2
    XP_006531467.1
    XP_006531468.1

    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_023709.4 → NP_076198.2  calpain-9

      See identical proteins and their annotated locations for NP_076198.2

      Status: VALIDATED

      Source sequence(s)
      AC135015, AK008629, BE944051
      Consensus CDS
      CCDS40514.1
      UniProtKB/Swiss-Prot
      E9QNM7, O35919, Q9D805
      UniProtKB/TrEMBL
      Q6PDE6
      Related
      ENSMUSP00000090717.6, ENSMUST00000093033.6
      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_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_000074.7 Reference GRCm39 C57BL/6J

      Range
      125301361..125345470
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006531404.3 → XP_006531467.1  calpain-9 isoform X1

      UniProtKB/TrEMBL
      Q6PDE6
      Conserved Domains (4) summary
      cd00214
      Location:347 → 496
      Calpain_III; Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are ...
      cd15897
      Location:523 → 550
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:523 → 718
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:43 → 335
      Peptidase_C2; Calpain family cysteine protease

    2. XM_006531405.3 → XP_006531468.1  calpain-9 isoform X2

      UniProtKB/TrEMBL
      Q6PDE6
      Conserved Domains (4) summary
      cd00214
      Location:234 → 383
      Calpain_III; Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are ...
      cd15897
      Location:410 → 437
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:410 → 605
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:43 → 222
      Peptidase_C2; Calpain family cysteine protease
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D805.2 GenPept UniProtKB/Swiss-Prot:Q9D805

    Gene LinkOut

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