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Capn9 calpain 9 [ Mus musculus (house mouse) ]

Gene ID: 73647, updated on 11-Apr-2024

Summary

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Official Symbol
Capn9provided by MGI
Official Full Name
calpain 9provided by MGI
Primary source
MGI:MGI:1920897
See related
Ensembl:ENSMUSG00000031981 AllianceGenome:MGI:1920897
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
GC36; nCL4; nCL-4; 2200003B16Rik
Summary
Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in stomach cancer. Orthologous to human CAPN9 (calpain 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in stomach adult (RPKM 25.5), colon adult (RPKM 12.1) and 3 other tissues See more
Orthologs
human all
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Genomic context

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Location:
8 E2; 8 72.81 cM
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (125301361..125345470)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (124576062..124618731)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E9122 Neighboring gene component of oligomeric golgi complex 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr8:127097574-127097727 Neighboring gene angiotensinogen Neighboring gene STARR-seq mESC enhancer starr_23008 Neighboring gene RIKEN cDNA 2310022B05 gene Neighboring gene VISTA enhancer mm1665 Neighboring gene tetratricopeptide repeat domain 13 Neighboring gene predicted gene, 46058

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Antisense RNA-mediated deficiency of the calpain protease, nCL-4, in NIH3T3 cells is associated with neoplastic transformation and tumorigenesis. Liu K, et al. J Biol Chem, 2000 Oct 6. PMID 10906334
  2. Calpain 9 as a therapeutic target in TGFβ-induced mesenchymal transition and fibrosis. Kim DH, et al. Sci Transl Med, 2019 Jul 17. PMID 31316008, Free PMC Article
  3. A Gastrointestinal Calpain Complex, G-calpain, Is a Heterodimer of CAPN8 and CAPN9 Calpain Isoforms, Which Play Catalytic and Regulatory Roles, Respectively. Hata S, et al. J Biol Chem, 2016 Dec 30. PMID 27881674, Free PMC Article
  4. Calpain 8/nCL-2 and calpain 9/nCL-4 constitute an active protease complex, G-calpain, involved in gastric mucosal defense. Hata S, et al. PLoS Genet, 2010 Jul 29. PMID 20686710, Free PMC Article
  5. Molecular cloning and characterization of a novel tissue-specific calpain predominantly expressed in the digestive tract. Lee HJ, et al. Biol Chem, 1998 Feb. PMID 9524069

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. these data provide a strong signature for tolerance of therapeutic strategies for fibrosis aimed at CAPN9 antagonism.
    Title: Calpain 9 as a therapeutic target in TGFβ-induced mesenchymal transition and fibrosis.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (2) 

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by MGI

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 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 proteolysis IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
calpain-9
Names
digestive tract-specific calpain
new calpain 4
NP_076198.2
XP_006531467.1
XP_006531468.1

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_023709.4 → NP_076198.2  calpain-9

    See identical proteins and their annotated locations for NP_076198.2

    Status: VALIDATED

    Source sequence(s)
    AC135015, AK008629, BE944051
    Consensus CDS
    CCDS40514.1
    UniProtKB/Swiss-Prot
    E9QNM7, O35919, Q9D805
    UniProtKB/TrEMBL
    Q6PDE6
    Related
    ENSMUSP00000090717.6, ENSMUST00000093033.6
    Conserved Domains (4) summary
    cd00051
    Location:566 → 621
    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:43 → 335
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:349 → 491
    Calpain_III; Calpain large subunit, domain III
    pfam13499
    Location:597 → 652
    EF-hand_7; EF-hand domain pair

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000074.7 Reference GRCm39 C57BL/6J

    Range
    125301361..125345470
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006531404.3 → XP_006531467.1  calpain-9 isoform X1

    UniProtKB/TrEMBL
    Q6PDE6
    Conserved Domains (4) summary
    cd00214
    Location:347 → 496
    Calpain_III; Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are ...
    cd15897
    Location:523 → 550
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:523 → 718
    EFh_PEF; The penta-EF hand (PEF) family
    pfam00648
    Location:43 → 335
    Peptidase_C2; Calpain family cysteine protease

  2. XM_006531405.3 → XP_006531468.1  calpain-9 isoform X2

    UniProtKB/TrEMBL
    Q6PDE6
    Conserved Domains (4) summary
    cd00214
    Location:234 → 383
    Calpain_III; Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are ...
    cd15897
    Location:410 → 437
    EFh_PEF; EF-hand motif [structural motif]
    cl25352
    Location:410 → 605
    EFh_PEF; The penta-EF hand (PEF) family
    pfam00648
    Location:43 → 222
    Peptidase_C2; Calpain family cysteine protease
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9D805.2 GenPept UniProtKB/Swiss-Prot:Q9D805

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