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    Capn9 calpain 9 [ Mus musculus (house mouse) ]

    Gene ID: 73647, updated on 9-Dec-2024

    Summary

    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. Is expressed in lung. 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
    Biased expression in stomach adult (RPKM 25.5), colon adult (RPKM 12.1) and 3 other tissues See more
    Orthologs
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    Genomic context

    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

    Expression

    • 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

    Variation

    Alleles

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

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in proteolysis  
    involved_in proteolysis  
    Component Evidence Code Pubs
    is_active_in cytoplasm  
    located_in cytoplasm  

    General protein information

    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_023709.4NP_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:566621
      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:43335
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:349491
      Calpain_III; Calpain large subunit, domain III
      pfam13499
      Location:597652
      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_006531404.3XP_006531467.1  calpain-9 isoform X1

      UniProtKB/TrEMBL
      Q6PDE6
      Conserved Domains (4) summary
      cd00214
      Location:347496
      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:523550
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:523718
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:43335
      Peptidase_C2; Calpain family cysteine protease
    2. XM_006531405.3XP_006531468.1  calpain-9 isoform X2

      UniProtKB/TrEMBL
      Q6PDE6
      Conserved Domains (4) summary
      cd00214
      Location:234383
      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:410437
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:410605
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:43222
      Peptidase_C2; Calpain family cysteine protease
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