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    Capn5 calpain 5 [ Mus musculus (house mouse) ]

    Gene ID: 12337, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Capn5provided by MGI
    Official Full Name
    calpain 5provided by MGI
    Primary source
    MGI:MGI:1100859
    See related
    Ensembl:ENSMUSG00000035547 AllianceGenome:MGI:1100859
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    nCL-3
    Summary
    The protein encoded by this gene is a member of the calpain family of proteins. Unlike many members of the calpain gene family, this gene lacks a calmodulin-like domain, required for calcium binding. Mouse models for Huntington's disease displayed increased levels of the protein encoded by this gene. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]
    Expression
    Broad expression in colon adult (RPKM 41.6), genital fat pad adult (RPKM 35.6) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Capn5 in Genome Data Viewer
    Location:
    7 E1; 7 53.57 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (97770766..97828148, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (98121559..98178946, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene glycerophosphodiester phosphodiesterase domain containing 4 Neighboring gene ubiquinol-cytochrome c reductase complex chaperone, CBP3 homolog pseudogene Neighboring gene myosin VIIA Neighboring gene STARR-seq mESC enhancer starr_19616 Neighboring gene STARR-positive B cell enhancer mm9_chr7:105268750-105269051 Neighboring gene STARR-positive B cell enhancer mm9_chr7:105326664-105326964 Neighboring gene STARR-seq mESC enhancer starr_19624 Neighboring gene olfactory marker protein Neighboring gene predicted gene, 16938 Neighboring gene UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 Neighboring gene alkaline ceramidase 3 Neighboring gene STARR-seq mESC enhancer starr_19625 Neighboring gene STARR-seq mESC enhancer starr_19626 Neighboring gene STARR-positive B cell enhancer mm9_chr7:105457877-105458178 Neighboring gene STARR-seq mESC enhancer starr_19627

    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. Capn5 is expressed in a subset of T cells and is dispensable for development. Franz T, et al. Mol Cell Biol, 2004 Feb. PMID 14749380, Free PMC Article
    2. Calpain-5 gene expression in the mouse eye and brain. Schaefer K, et al. BMC Res Notes, 2017 Nov 21. PMID 29157313, Free PMC Article
    3. Role of calpain-5 in cerebral ischemia and reperfusion injury. Chukai Y, et al. Biochim Biophys Acta Gen Subj, 2024 Jan. PMID 37949151
    4. Functional validation of a human CAPN5 exome variant by lentiviral transduction into mouse retina. Wert KJ, et al. Hum Mol Genet, 2014 May 15. PMID 24381307, Free PMC Article
    5. Calpain 5 is highly expressed in the central nervous system (CNS), carries dual nuclear localization signals, and is associated with nuclear promyelocytic leukemia protein bodies. Singh R, et al. J Biol Chem, 2014 Jul 11. PMID 24838245, Free PMC Article

    See all (37) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Role of calpain-5 in cerebral ischemia and reperfusion injury.
      Title: Role of calpain-5 in cerebral ischemia and reperfusion injury.
    2. Characterization of mitochondrial calpain-5.
      Title: Characterization of mitochondrial calpain-5.
    3. Oolfactory receptor neurons express OMP but not CAPN5 from CAPN5 gene expression even though they are localized in the same genomic locus.
      Title: Olfactory receptor neurons express olfactory marker protein but not calpain 5 from the same genomic locus.
    4. Ocular examination of the retina of Capn5 KO mice by histology and electroretinography showed no significant abnormalities.
      Title: CAPN5 genetic inactivation phenotype supports therapeutic inhibition trials.
    5. mRNA in situ hybridization experiments were performed to identify the expression of CAPN5 in the mouse eye and brain
      Title: Calpain-5 gene expression in the mouse eye and brain.
    6. CAPN5 mutation in hereditary uveitis: the R243L mutation increases calpain catalytic activity and triggers intraocular inflammation
      Title: CAPN5 mutation in hereditary uveitis: the R243L mutation increases calpain catalytic activity and triggers intraocular inflammation in a mouse model.
    7. CAPN5 is found in punctate domains associated with promyelocytic leukemia (PML) protein within the nucleus.
      Title: Calpain 5 is highly expressed in the central nervous system (CNS), carries dual nuclear localization signals, and is associated with nuclear promyelocytic leukemia protein bodies.
    8. Despite the numerous expression sites of Capn5, the majority of Capn5-null mice were viable and fertile and appeared healthy
      Title: Capn5 is expressed in a subset of T cells and is dispensable for development.
    9. calpain-derived Htt fragmentation has a role in Huntington's disease and aberrant activation of calpains may play a role in HD pathogenesis
      Title: Inhibition of calpain cleavage of huntingtin reduces toxicity: accumulation of calpain/caspase fragments in the nucleus.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium-dependent cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent cysteine-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in proteolysis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    calpain-5
    Names
    new calpain 3

    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_001301250.1 → NP_001288179.1  calpain-5

      See identical proteins and their annotated locations for NP_001288179.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains an alternate exon in the 5' UTR and represents use of an alternate promoter, compared to variant 1. Both variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC119880, AI049109, AK139476, AK164293, BQ176356
      Consensus CDS
      CCDS21465.1
      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Related
      ENSMUSP00000102729.2, ENSMUST00000107112.2
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    2. NM_007602.4 → NP_031628.1  calpain-5

      See identical proteins and their annotated locations for NP_031628.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AI049109, AK139476, AK164293, BQ176356, BY794575
      Consensus CDS
      CCDS21465.1
      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Related
      ENSMUSP00000048183.8, ENSMUST00000040971.14
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      97770766..97828148 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030242034.2 → XP_030097894.1  calpain-5 isoform X2

      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    2. XM_030242035.1 → XP_030097895.1  calpain-5 isoform X2

      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    3. XM_030242038.2 → XP_030097898.1  calpain-5 isoform X2

      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    4. XM_030242036.1 → XP_030097896.1  calpain-5 isoform X2

      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease

    5. XM_006507275.5 → XP_006507338.1  calpain-5 isoform X1

      UniProtKB/TrEMBL
      Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:528 → 651
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:365 → 511
      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:40 → 354
      Peptidase_C2; Calpain family cysteine protease

    6. XM_030242037.2 → XP_030097897.1  calpain-5 isoform X2

      UniProtKB/Swiss-Prot
      O08688, Q91YU0
      UniProtKB/TrEMBL
      Q3TPL4, Q3U2P3
      Conserved Domains (3) summary
      cd04046
      Location:515 → 638
      C2_Calpain; C2 domain present in Calpain proteins
      cd00214
      Location:352 → 498
      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:27 → 341
      Peptidase_C2; Calpain family cysteine protease
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O08688.1 GenPept UniProtKB/Swiss-Prot:O08688

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