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capn3b calpain 3b [ Seriola dumerili (greater amberjack) ]

Gene ID: 111237184, updated on 15-Mar-2024

Summary

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Gene symbol
capn3b
Gene description
calpain 3b
See related
Ensembl:ENSSDUG00000002257
Gene type
protein coding
RefSeq status
MODEL
Organism
Seriola dumerili
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Carangaria; Carangiformes; Carangidae; Seriola
Orthologs
zebrafish all
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Genomic context

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See capn3b in Genome Data Viewer
Location:
chromosome: Un
Exon count:
24
Annotation release Status Assembly Chr Location
100 current Sdu_1.0 (GCF_002260705.1) Unplaced Scaffold NW_019174280.1 (15986379..16003693, complement)

NW_019174280.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 106-like Neighboring gene zinc finger protein 106b Neighboring gene nuclear receptor binding protein 1 Neighboring gene macoilin-1-like Neighboring gene serotriflin-like

Genomic regions, transcripts, and products

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Genomic Sequence:
NW_019174280 Unplaced Scaffold Reference Sdu_1.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Whole Genome Sequencing of Greater Amberjack (Seriola dumerili) for SNP Identification on Aligned Scaffolds and Genome Structural Variation Analysis Using Parallel Resequencing. Araki K, et al. Int J Genomics, 2018. PMID 29785397, 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-3-like

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Seriola dumerili Annotation Release 100 details...Open this link in a new tab

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

Reference Sdu_1.0 Primary Assembly

Genomic

  1. NW_019174280.1 Reference Sdu_1.0 Primary Assembly

    Range
    15986379..16003693 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_022766181.1 → XP_022621902.1  calpain-3-like isoform X2

    UniProtKB/TrEMBL
    A0A3B4TCP6
    Related
    ENSSDUP00000003727.1, ENSSDUT00000003810.1
    Conserved Domains (5) summary
    pfam00648
    Location:86 → 384
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:405 → 548
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:552 → 589
    Calpain_u2; Unstructured region on Calpain-3
    cd15897
    Location:610 → 638
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:610 → 779
    EFh_PEF; The penta-EF hand (PEF) family

  2. XM_022766172.1 → XP_022621893.1  calpain-3-like isoform X1

    UniProtKB/TrEMBL
    A0A3B4TCP6
    Conserved Domains (5) summary
    pfam00648
    Location:86 → 384
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:405 → 548
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:552 → 597
    Calpain_u2; Unstructured region on Calpain-3
    cd15897
    Location:618 → 646
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:618 → 787
    EFh_PEF; The penta-EF hand (PEF) family

  3. XM_022766191.1 → XP_022621912.1  calpain-3-like isoform X3

    Conserved Domains (5) summary
    pfam01067
    Location:167 → 310
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:314 → 359
    Calpain_u2; Unstructured region on Calpain-3
    cd15897
    Location:380 → 408
    EFh_PEF; EF-hand motif [structural motif]
    cl00051
    Location:1 → 146
    CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
    cl25352
    Location:380 → 549
    EFh_PEF; The penta-EF hand (PEF) family
Nucleotide Protein
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