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    Capn8 calpain 8 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 170808, updated on 29-Feb-2024

    Summary

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    Official Symbol
    Capn8provided by RGD
    Official Full Name
    calpain 8provided by RGD
    Primary source
    RGD:620085
    See related
    Ensembl:ENSRNOG00000003468 AllianceGenome:RGD:620085
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Cls4; CL-2'; nCL-2
    Summary
    Predicted to enable calcium-dependent cysteine-type endopeptidase activity and identical protein binding activity. Predicted to be involved in proteolysis. Predicted to act upstream of or within calcium-dependent self proteolysis. Predicted to be located in Golgi apparatus. Predicted to be active in cytoplasm. Orthologous to human CAPN8 (calpain 8). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Adrenal (RPKM 29.3), Spleen (RPKM 4.5) and 2 other tissues See more
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    Genomic context

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    See Capn8 in Genome Data Viewer
    Location:
    13q26
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (96783640..96847825)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (94252218..94316146)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (100980149..101043110)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120096330 Neighboring gene uncharacterized LOC120096331 Neighboring gene coiled-coil domain containing 185 Neighboring gene sushi domain containing 4

    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. Estrogen regulates a tissue-specific calpain in the anterior pituitary. Duan WR, et al. Biochem Biophys Res Commun, 2002 Jul 12. PMID 12150941
    2. A novel tissue-specific calpain species expressed predominantly in the stomach comprises two alternative splicing products with and without Ca(2+)-binding domain. Sorimachi H, et al. J Biol Chem, 1993 Sep 15. PMID 7690035
    3. Stomach-specific calpain, nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP. Hata S, et al. J Biol Chem, 2006 Apr 21. PMID 16476741
    4. Stomach-specific calpain, nCL-2/calpain 8, is active without calpain regulatory subunit and oligomerizes through C2-like domains. Hata S, et al. J Biol Chem, 2007 Sep 21. PMID 17646163
    5. 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. nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP
      Title: Stomach-specific calpain, nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP.
    Submit: New GeneRIF Correction

    General gene information

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    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
    		  
    enables calcium-dependent cysteine-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables calcium-dependent cysteine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within calcium-dependent self proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    calpain-8
    Names
    calpain large subunit 4
    cysteine protease
    new calpain 2
    novel Calpain Large subunit
    stomach-specific M-type calpain
    tissue-specific calpain 2
    NP_579843.2
    XP_006250425.2
    XP_063128049.1
    XP_063128050.1
    XP_063128051.1
    XP_063128052.1
    XP_063128053.1

    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_133309.2 → NP_579843.2  calpain-8

      See identical proteins and their annotated locations for NP_579843.2

      Status: PROVISIONAL

      Source sequence(s)
      D14479
      UniProtKB/Swiss-Prot
      Q64698, Q78EJ8, Q78EJ9, Q8K407
      UniProtKB/TrEMBL
      A6JGM1
      Related
      ENSRNOP00000062898.3, ENSRNOT00000067005.5
      Conserved Domains (4) summary
      PTZ00183
      Location:612 → 692
      PTZ00183; centrin; Provisional
      cd00051
      Location:580 → 635
      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:46 → 342
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:356 → 509
      Calpain_III; Calpain large subunit, domain III

    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_086031.1 Reference GRCr8

      Range
      96783640..96847825
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063271983.1 → XP_063128053.1  calpain-8 isoform X6

    2. XM_063271979.1 → XP_063128049.1  calpain-8 isoform X1

    3. XM_063271982.1 → XP_063128052.1  calpain-8 isoform X4

    4. XM_063271981.1 → XP_063128051.1  calpain-8 isoform X3

    5. XM_006250363.5 → XP_006250425.2  calpain-8 isoform X5

      UniProtKB/TrEMBL
      A6JGM3
      Related
      ENSRNOP00000004649.6
      Conserved Domains (2) summary
      pfam00648
      Location:96 → 392
      Peptidase_C2; Calpain family cysteine protease
      cl00165
      Location:406 → 430
      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 ...

    6. XM_063271980.1 → XP_063128050.1  calpain-8 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q78EJ9.1 GenPept UniProtKB/Swiss-Prot:Q78EJ9

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