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CAPN10 calpain 10 [ Homo sapiens (human) ]

Gene ID: 11132, updated on 18-Sep-2024

Summary

Official Symbol
CAPN10provided by HGNC
Official Full Name
calpain 10provided by HGNC
Primary source
HGNC:HGNC:1477
See related
Ensembl:ENSG00000142330 MIM:605286; AllianceGenome:HGNC:1477
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CANP10; NIDDM1
Summary
Calpains represent a ubiquitous, well-conserved family of calcium-dependent cysteine proteases. The calpain proteins are heterodimers consisting of an invariant small subunit and variable large subunits. The large catalytic subunit has four domains: domain I, the N-terminal regulatory domain that is processed upon calpain activation; domain II, the protease domain; domain III, a linker domain of unknown function; and domain IV, the calmodulin-like calcium-binding domain. This gene encodes a large subunit. It is an atypical calpain in that it lacks the calmodulin-like calcium-binding domain and instead has a divergent C-terminal domain. It is similar in organization to calpains 5 and 6. This gene is associated with type 2 or non-insulin-dependent diabetes mellitus (NIDDM), and is located within the NIDDM1 region. Multiple alternative transcript variants have been described for this gene. [provided by RefSeq, Sep 2010]
Expression
Ubiquitous expression in spleen (RPKM 8.4), testis (RPKM 6.6) and 25 other tissues See more
Orthologs
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Genomic context

See CAPN10 in Genome Data Viewer
Location:
2q37.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (240586734..240599104)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (241080759..241093164)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (241526151..241538521)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12518 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12519 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:241508348-241508986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:241508987-241509625 Neighboring gene arginyl aminopeptidase like 1 Neighboring gene Sharpr-MPRA regulatory region 11586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17403 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17404 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17405 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17406 Neighboring gene Sharpr-MPRA regulatory region 5965 Neighboring gene CAPN10 divergent transcript Neighboring gene G protein-coupled receptor 35 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17407 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17408 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17409 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:241564851-241565357 Neighboring gene Sharpr-MPRA regulatory region 3769 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:241571415-241571915 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:241581025-241581562 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:241584497-241584996 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12522 Neighboring gene uncharacterized LOC124908016 Neighboring gene galactose-3-O-sulfotransferase 1 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: GPR35

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables SNARE binding ISS
Inferred from Sequence or Structural Similarity
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 IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables cytoskeletal protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in mitochondrion IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
calpain-10
Names
calcium-activated neutral proteinase 10
calpain-like protease CAPN10
NP_075571.2
NP_075573.3

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.

Genomic

  1. NG_011558.3 RefSeqGene

    Range
    5002..17372
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_023083.4NP_075571.2  calpain-10 isoform a

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1, also known as CAPN10a) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC124862
    Consensus CDS
    CCDS42838.1
    UniProtKB/Swiss-Prot
    A8MVS7, Q4ZFV1, Q8NCD4, Q96IG4, Q96JI2, Q9HC89, Q9HC90, Q9HC91, Q9HC92, Q9HC93, Q9HC94, Q9HC95, Q9HC96
    UniProtKB/TrEMBL
    B7WPF5
    Related
    ENSP00000375844.2, ENST00000391984.7
    Conserved Domains (2) summary
    cd00044
    Location:2319
    CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
    cd00214
    Location:335496
    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 ...
  2. NM_023085.4NP_075573.3  calpain-10 isoform c

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3, also known as CAPN10c) lacks two consecutive exons, resulting in the loss of an in-frame segment in the 3' coding region, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AC124862
    Consensus CDS
    CCDS33420.1
    UniProtKB/TrEMBL
    B7Z6G3
    Related
    ENSP00000270362.6, ENST00000354082.8
    Conserved Domains (2) summary
    cd00044
    Location:2319
    CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.
    cd00214
    Location:335498
    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 ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    240586734..240599104
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    241080759..241093164
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_021251.3: Suppressed sequence

    Description
    NM_021251.3: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NM_023084.1: Suppressed sequence

    Description
    NM_023084.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
  3. NM_023086.1: Suppressed sequence

    Description
    NM_023086.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
  4. NM_023087.1: Suppressed sequence

    Description
    NM_023087.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
  5. NM_023088.1: Suppressed sequence

    Description
    NM_023088.1: This RefSeq was permanently suppressed because it is a nonsense-mediated decay (NMD) candidate.
  6. NM_023089.1: Suppressed sequence

    Description
    NM_023089.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.