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    capn3b calpain 3b [ Oryzias melastigma (Indian medaka) ]

    Gene ID: 112158058, updated on 15-Mar-2024

    Summary

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    Gene symbol
    capn3b
    Gene description
    calpain 3b
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryzias melastigma
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Ovalentaria; Atherinomorphae; Beloniformes; Adrianichthyidae; Oryziinae; Oryzias
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
    zebrafish all
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    Genomic context

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    See capn3b in Genome Data Viewer
    Location:
    chromosome: LG24
    Exon count:
    20
    Annotation release Status Assembly LG Location
    101 current ASM292280v2 (GCF_002922805.2) LG24 NC_050535.1 (6204976..6219556)
    100 previous assembly Om_v0.7.RACA (GCF_002922805.1) Unplaced Scaffold NW_020096095.1 (18506172..18521929, complement)

    Linkage Group LG24 - NC_050535.1Genomic Context describing neighboring genes Neighboring gene macoilin Neighboring gene cysteine-rich venom protein TEL1 Neighboring gene nuclear receptor binding protein 1 Neighboring gene uncharacterized LOC118598135 Neighboring gene zinc finger protein 106b Neighboring gene churchill domain containing 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Tissue-specific transcriptome assemblies of the marine medaka Oryzias melastigma and comparative analysis with the freshwater medaka Oryzias latipes. Lai KP, et al. BMC Genomics, 2015 Feb 27. PMID 25765076, Free PMC Article
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables calcium-dependent cysteine-type endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    calpain-3b

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryzias melastigma Annotation Release 101 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM292280v2 Primary Assembly

    Genomic

    1. NC_050535.1 Reference ASM292280v2 Primary Assembly

      Range
      6204976..6219556
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036210443.1 → XP_036066336.1  calpain-3b

      UniProtKB/TrEMBL
      A0A834F0W1
      Conserved Domains (5) summary
      cd15897
      Location:612 → 640
      EFh_PEF; EF-hand motif [structural motif]
      cl25352
      Location:612 → 780
      EFh_PEF; The penta-EF hand (PEF) family
      pfam00648
      Location:95 → 389
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:410 → 547
      Calpain_III; Calpain large subunit, domain III
      pfam16648
      Location:556 → 612
      Calpain_u2; Unstructured region on Calpain-3
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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    Molecular Biology Databases