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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

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

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