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CAPN3 calpain 3 [ Sus scrofa (pig) ]

Gene ID: 397349, updated on 17-Aug-2024

Summary

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Official Symbol
CAPN3provided by VGNC
Official Full Name
calpain 3provided by VGNC
Primary source
VGNC:VGNC:103042
See related
Ensembl:ENSSSCG00000004728
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Sus scrofa
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
Also known as
SKM; p94
Expression
Biased expression in longissimus dorsi muscle (RPKM 168.6), psoas major muscle (RPKM 141.8) and 1 other tissue See more
Orthologs
human mouse all
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Genomic context

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See CAPN3 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
24
Annotation release Status Assembly Chr Location
106 current Sscrofa11.1 (GCF_000003025.6) 1 NC_010443.5 (128960117..129013508, complement)
105 previous assembly Sscrofa10.2 (GCF_000003025.5) 1 NC_010443.4 (143852337..143905767, complement)

Chromosome 1 - NC_010443.5Genomic Context describing neighboring genes Neighboring gene synaptosome associated protein 23 Neighboring gene zinc finger protein 106 Neighboring gene uncharacterized LOC110261287 Neighboring gene glucosidase alpha, neutral C Neighboring gene uncharacterized LOC110256586

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
  • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
  • BioProject: PRJNA311523
  • Publication: PMID 27646534
  • Analysis date: Thu Dec 14 17:10:49 2017

Bibliography

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Related articles in PubMed

  1. Chromosomal localization of the porcine skeletal muscle calpain gene. Briley GP, et al. Mamm Genome, 1996 Mar. PMID 8833248
  2. Investigation on CAST, CAPN1 and CAPN3 porcine gene polymorphisms and expression in relation to post-mortem calpain activity in muscle and meat quality. Gandolfi G, et al. Meat Sci, 2011 Aug. PMID 21450414
  3. PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Uenishi H, et al. Nucleic Acids Res, 2007 Jan. PMID 17145712, Free PMC Article
  4. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
  5. 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

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The higher CAPN3 gene expression in less tender muscles confirmed the lack of a direct involvement of calpain 3 in meat tenderization.
    Title: Investigation on CAST, CAPN1 and CAPN3 porcine gene polymorphisms and expression in relation to post-mortem calpain activity in muscle and meat quality.
Submit: New GeneRIF Correction

General gene information

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Markers

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
Names
CANP 3
calcium-activated neutral proteinase 3
calpain L3
calpain large polypeptide L3
calpain p94
muscle-specific calcium-activated neutral protease 3
nCL-1
new calpain 1
skeletal muscle calpain
skeletal muscle-specific calpain
NP_999336.2
XP_005659762.1
XP_005659763.1
XP_013848567.1
XP_013848568.1
XP_013848569.1
XP_013848570.1
XP_020938560.1
XP_020938570.1
XP_020938571.1

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_214171.2 → NP_999336.2  calpain-3

    Status: VALIDATED

    Source sequence(s)
    AEMK02000004
    UniProtKB/TrEMBL
    A0A481CNC7, A0A4X1V219, A0A8D0JPS2, A0A8D1S4Y0
    Related
    ENSSSCP00000073818.1, ENSSSCT00000066596.1
    Conserved Domains (4) summary
    pfam00648
    Location:77 → 416
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:437 → 580
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:584 → 654
    Calpain_u2; Unstructured region on Calpain-3
    cd16190
    Location:654 → 822
    EFh_PEF_CAPN3; Calcium-activated neutral

RefSeqs of Annotated Genomes: Sus scrofa 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 Sscrofa11.1 Primary Assembly

Genomic

  1. NC_010443.5 Reference Sscrofa11.1 Primary Assembly

    Range
    128960117..129013508 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_013993113.2 → XP_013848567.1  calpain-3 isoform X2

    UniProtKB/TrEMBL
    A0A4X1V219
    Conserved Domains (6) summary
    cd00051
    Location:713 → 767
    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:77 → 416
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:430 → 580
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:671 → 736
    EF-hand_7; EF-hand domain pair
    pfam16648
    Location:584 → 669
    Calpain_u2; Unstructured region on Calpain-3
    cl08302
    Location:744 → 833
    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 ...

  2. XM_021082912.1 → XP_020938571.1  calpain-3 isoform X9

    Conserved Domains (4) summary
    pfam01067
    Location:38 → 181
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:185 → 255
    Calpain_u2; Unstructured region on Calpain-3
    cd16190
    Location:255 → 423
    EFh_PEF_CAPN3; Calcium-activated neutral
    cl00051
    Location:1 → 27
    CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.

  3. XM_013993115.2 → XP_013848569.1  calpain-3 isoform X4

    UniProtKB/TrEMBL
    A0A480JMC8, A0A8D0JPK2
    Conserved Domains (6) summary
    cd00051
    Location:664 → 718
    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:77 → 367
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:381 → 531
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:622 → 687
    EF-hand_7; EF-hand domain pair
    pfam16648
    Location:535 → 620
    Calpain_u2; Unstructured region on Calpain-3
    cl08302
    Location:695 → 784
    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 ...

  4. XM_013993114.2 → XP_013848568.1  calpain-3 isoform X1

    UniProtKB/TrEMBL
    A0A8D0JWG4
    Conserved Domains (6) summary
    cd00051
    Location:707 → 761
    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:77 → 416
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:430 → 580
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:665 → 730
    EF-hand_7; EF-hand domain pair
    pfam16648
    Location:584 → 663
    Calpain_u2; Unstructured region on Calpain-3
    cl08302
    Location:738 → 827
    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 ...

  5. XM_005659706.3 → XP_005659763.1  calpain-3 isoform X7

    UniProtKB/TrEMBL
    A0A287BSN0, A0A480NBP1, A0A8D0RVE7
    Related
    ENSSSCP00000059453.1, ENSSSCT00000037973.3
    Conserved Domains (5) summary
    cd00051
    Location:605 → 659
    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:77 → 367
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:381 → 531
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:563 → 628
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:636 → 725
    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 ...

  6. XM_021082901.1 → XP_020938560.1  calpain-3 isoform X6

    UniProtKB/TrEMBL
    A0A480JMC8, A0A8D0JPK2, F1SI23
    Related
    ENSSSCP00000005095.4, ENSSSCT00000005221.5
    Conserved Domains (4) summary
    pfam00648
    Location:77 → 367
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:388 → 531
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:535 → 605
    Calpain_u2; Unstructured region on Calpain-3
    cd16190
    Location:605 → 773
    EFh_PEF_CAPN3; Calcium-activated neutral

  7. XM_013993116.2 → XP_013848570.1  calpain-3 isoform X5

    UniProtKB/TrEMBL
    A0A4X1V1W9, A0A8D0JWG4, A0A8D1RZV3
    Conserved Domains (5) summary
    cd00051
    Location:654 → 708
    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:77 → 416
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:430 → 580
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:612 → 677
    EF-hand_7; EF-hand domain pair
    cl08302
    Location:685 → 774
    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 ...

  8. XM_005659705.3 → XP_005659762.1  calpain-3 isoform X3

    UniProtKB/TrEMBL
    A0A4X1V0D1, A0A5G2QPB9, A0A8D0JWG4
    Related
    ENSSSCP00000066545.2, ENSSSCT00000090081.2
    Conserved Domains (5) summary
    cd00051
    Location:692 → 746
    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:77 → 416
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:430 → 580
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:584 → 648
    Calpain_u2; Unstructured region on Calpain-3
    cl08302
    Location:723 → 812
    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 ...

  9. XM_021082911.1 → XP_020938570.1  calpain-3 isoform X8

    Conserved Domains (4) summary
    pfam01067
    Location:38 → 181
    Calpain_III; Calpain large subunit, domain III
    pfam16648
    Location:185 → 270
    Calpain_u2; Unstructured region on Calpain-3
    cd16190
    Location:270 → 438
    EFh_PEF_CAPN3; Calcium-activated neutral
    cl00051
    Location:1 → 27
    CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P43368.2 GenPept UniProtKB/Swiss-Prot:P43368

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