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capn3a calpain 3a, (p94) [ Danio rerio (zebrafish) ]

Gene ID: 447832, updated on 27-Mar-2024

Summary

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Official Symbol
capn3aprovided by ZNC
Official Full Name
calpain 3a, (p94)provided by ZNC
Primary source
ZFIN:ZDB-GENE-040912-97
See related
Ensembl:ENSDARG00000041864 AllianceGenome:ZFIN:ZDB-GENE-040912-97
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
capn3; zgc:92687
Summary
Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in negative regulation of apoptotic process and proteolysis. Predicted to act upstream of or within sarcomere organization. Predicted to be active in cytoplasm. Is expressed in several structures, including brain; endoderm; lens; liver; and solid lens vesicle. Human ortholog(s) of this gene implicated in autosomal dominant limb-girdle muscular dystrophy; autosomal recessive limb-girdle muscular dystrophy type 2A; and muscular dystrophy. Orthologous to human CAPN3 (calpain 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 17
Exon count:
21
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (45305445..45346637)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (45191694..45363397)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene tau tubulin kinase 2a Neighboring gene glucosidase, alpha; neutral C Neighboring gene zinc finger protein 106a Neighboring gene uncharacterized LOC108179799 Neighboring gene proton activated chloride channel 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Pathogenesis of POLR1C-dependent Type 3 Treacher Collins Syndrome revealed by a zebrafish model. Lau MC, et al. Biochim Biophys Acta, 2016 Jun. PMID 26972049
  2. Def defines a conserved nucleolar pathway that leads p53 to proteasome-independent degradation. Tao T, et al. Cell Res, 2013 May. PMID 23357851, Free PMC Article
  3. PTC-bearing mRNA elicits a genetic compensation response via Upf3a and COMPASS components. Ma Z, et al. Nature, 2019 Apr. PMID 30944473
  4. Zebrafish orthologs of human muscular dystrophy genes. Steffen LS, et al. BMC Genomics, 2007 Mar 20. PMID 17374169, Free PMC Article
  5. Hypoxia-inducible factor 3 is an oxygen-dependent transcription activator and regulates a distinct transcriptional response to hypoxia. Zhang P, et al. Cell Rep, 2014 Mar 27. PMID 24613356

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by ZFIN

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 cysteine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in negative regulation of apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in proteolysis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
calpain-3
Names
calpain 3, (p94)
NP_001004571.1
XP_017207114.1
XP_017207115.1
XP_017207116.1
XP_021322825.1
XP_021322826.1

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_001004571.1 → NP_001004571.1  calpain-3

    See identical proteins and their annotated locations for NP_001004571.1

    Status: PROVISIONAL

    Source sequence(s)
    BC081672
    UniProtKB/TrEMBL
    A0A0H2UKX7, A0A8M1N251, Q66HU4
    Related
    ENSDARP00000141755.2, ENSDART00000172488.2
    Conserved Domains (5) summary
    COG5126
    Location:628 → 716
    FRQ1; Ca2+-binding protein, EF-hand superfamily [Signal transduction mechanisms]
    cd00051
    Location:601 → 655
    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:51 → 351
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:365 → 515
    Calpain_III; Calpain large subunit, domain III
    cl08302
    Location:568 → 625
    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 ...

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    45305445..45346637
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021467150.1 → XP_021322825.1  calpain-3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9PNP6
    Conserved Domains (4) summary
    pfam00648
    Location:51 → 351
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:372 → 515
    Calpain_III; Calpain large subunit, domain III
    cd15897
    Location:545 → 585
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:545 → 736
    EFh_PEF; The penta-EF hand (PEF) family

  2. XM_017351625.2 → XP_017207114.1  calpain-3 isoform X2

    UniProtKB/TrEMBL
    A0A8M6Z1H5

  3. XM_021467151.1 → XP_021322826.1  calpain-3 isoform X3

    UniProtKB/TrEMBL
    A0A8M9PKP1
    Conserved Domains (4) summary
    pfam00648
    Location:51 → 351
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:372 → 515
    Calpain_III; Calpain large subunit, domain III
    cd15897
    Location:545 → 573
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:545 → 724
    EFh_PEF; The penta-EF hand (PEF) family

  4. XM_017351626.2 → XP_017207115.1  calpain-3 isoform X4

    UniProtKB/TrEMBL
    A0A8M6YTT3

  5. XM_017351627.2 → XP_017207116.1  calpain-3 isoform X5

    UniProtKB/TrEMBL
    A0A8M6YVL1
Nucleotide Protein
Heading Accession and Version

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