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    Capn12 calpain 12 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308476, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Capn12provided by RGD
    Official Full Name
    calpain 12provided by RGD
    Primary source
    RGD:1307341
    See related
    EnsemblRapid:ENSRNOG00000020389 AllianceGenome:RGD:1307341
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Orthologous to human CAPN12 (calpain 12). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 35.1), Lung (RPKM 21.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Capn12 in Genome Data Viewer
    Location:
    1q21
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (93298571..93311220)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (84171059..84183161)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (87066289..87078348)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene MARCKS-related protein-like Neighboring gene uncharacterized LOC102550499 Neighboring gene galectin 4 Neighboring gene galectin 7 Neighboring gene actinin alpha 4 Neighboring gene mitogen activated protein kinase kinase kinase kinase 1 Neighboring gene eukaryotic translation initiation factor 3, subunit K

    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. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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
    		  
    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-12

    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_001110808.1 → NP_001104278.1  calpain-12

      Status: INFERRED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      D3ZJZ8
      Related
      ENSRNOP00000027645.3, ENSRNOT00000027645.6
      Conserved Domains (4) summary
      cd00214
      Location:352 → 530
      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:596 → 623
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:567 → 719
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:46 → 339
      Peptidase_C2; Calpain family cysteine protease

    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_086019.1 Reference GRCr8

      Range
      93298571..93311220
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039111580.2 → XP_038967508.1  calpain-12 isoform X1

      Conserved Domains (4) summary
      cd00214
      Location:352 → 530
      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:596 → 623
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:567 → 693
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:46 → 339
      Peptidase_C2; Calpain family cysteine protease

    2. XM_039111581.2 → XP_038967509.1  calpain-12 isoform X2

      Conserved Domains (2) summary
      cd00214
      Location:352 → 530
      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 ...
      pfam00648
      Location:46 → 339
      Peptidase_C2; Calpain family cysteine protease

    RNA

    1. XR_005505354.2 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107499.1: Suppressed sequence

      Description
      NM_001107499.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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