Capn10 (calpain 10) - Rat Genome Database

Send us a Message

Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Capn10 (calpain 10) Rattus norvegicus
Symbol: Capn10
Name: calpain 10
RGD ID: 69354
Description: Enables SNARE binding activity; calcium-dependent cysteine-type endopeptidase activity; and cytoskeletal protein binding activity. Involved in several processes, including actin cytoskeleton reorganization; aging; and autophagy of mitochondrion. Located in several cellular components, including cell cortex; cytosol; and mitochondrion. Used to study type 2 diabetes mellitus. Biomarker of type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in obesity; pancreatic cancer; polycystic ovary syndrome; and type 2 diabetes mellitus. Orthologous to human CAPN10 (calpain 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: calcium-activated neutral proteinase 10; calpain-10; CANP 10; MGC93346
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2993,498,132 - 93,510,494 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,498,478 - 93,510,494 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9101,934,100 - 101,946,097 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.09107,069,891 - 107,081,888 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.09105,426,045 - 105,438,042 (+)NCBIRnor_WKY
Rnor_6.09100,104,000 - 100,112,833 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,104,000 - 100,112,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0999,767,655 - 99,776,488 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera991,034,781 - 91,046,660 (+)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)


References - curated
# Reference Title Reference Citation
1. Calpain 10: a mitochondrial calpain and its role in calcium-induced mitochondrial dysfunction. Arrington DD, etal., Am J Physiol Cell Physiol. 2006 Dec;291(6):C1159-71. Epub 2006 Jun 21.
2. A calpain-10 gene polymorphism is associated with reduced muscle mRNA levels and insulin resistance. Baier LJ, etal., J Clin Invest. 2000 Oct;106(7):R69-73.
3. Chronic high glucose downregulates mitochondrial calpain 10 and contributes to renal cell death and diabetes-induced renal injury. Covington MD and Schnellmann RG, Kidney Int. 2012 Feb;81(4):391-400. doi: 10.1038/ki.2011.356. Epub 2011 Oct 19.
4. Calpain 10 is required for cell viability and is decreased in the aging kidney. Covington MD, etal., Am J Physiol Renal Physiol. 2009 Mar;296(3):F478-86. Epub 2009 Jan 14.
5. Challenges in identifying genetic variation affecting susceptibility to type 2 diabetes: examples from studies of the calpain-10 gene. Cox NJ Hum Mol Genet 2001 Oct 1;10(20):2301-5.
6. Calpain 10 SNP-44 gene polymorphism affects susceptibility to type 2 diabetes mellitus and diabetic-related conditions. Demirci H, etal., Genet Test. 2008 Jun;12(2):305-9. doi: 10.1089/gte.2007.0118.
7. Association of Diabetes Susceptibility Gene Calpain-10 with Pancreatic Cancer Among Smokers. Fong PY, etal., J Gastrointest Cancer. 2010 Feb 23.
8. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
10. Haplotype combination of Calpain-10 gene polymorphism is associated with metabolic syndrome in type 2 diabetes. Kang ES, etal., Diabetes Res Clin Pract. 2006 Sep;73(3):268-75. Epub 2006 Mar 20.
11. A novel 111/121 diplotype in the Calpain-10 gene is associated with type 2 diabetes. Kang ES, etal., J Hum Genet. 2006;51(7):629-33. Epub 2006 May 24.
12. Calpain-10 expression is elevated in pancreatic islets from patients with type 2 diabetes. Ling C, etal., PLoS One. 2009 Aug 18;4(8):e6558.
13. Characterization and expression of calpain 10. A novel ubiquitous calpain with nuclear localization. Ma H, etal., J Biol Chem 2001 Jul 27;276(30):28525-31.
14. Evidence that an isoform of calpain-10 is a regulator of exocytosis in pancreatic beta-cells. Marshall C, etal., Mol Endocrinol. 2005 Jan;19(1):213-24. Epub 2004 Oct 7.
15. Capn10, a candidate gene responsible for type 2 diabetes mellitus in the OLETF rat. Muramatsu Y, etal., IUBMB Life 2003 Sep;55(9):533-7.
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
18. Common polymorphisms of calpain-10 are associated with abdominal obesity in subjects at high risk of type 2 diabetes. Pihlajamaki J, etal., Diabetologia. 2006 Jul;49(7):1560-6. Epub 2006 May 12.
19. GOA pipeline RGD automated data pipeline
20. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
22. Calpain 10 as a predictive gene for type 2 diabetes: evidence from a novel screening system using white blood cells of Otsuka Long-Evans Tokushima Fatty (OLETF) rats. Sato Y, etal., Biol Pharm Bull. 2003 Dec;26(12):1765-8.
23. Loss of calpain 10 causes mitochondrial dysfunction during chronic hyperglycemia. Smith MA, etal., Arch Biochem Biophys. 2012 Jul 15;523(2):161-8. doi: 10.1016/ Epub 2012 May 1.
24. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
25. Calpain facilitates actin reorganization during glucose-stimulated insulin secretion. Turner MD, etal., Biochem Biophys Res Commun. 2007 Jan 19;352(3):650-5. Epub 2006 Nov 29.
26. Calpain-10 variants and haplotypes are associated with polycystic ovary syndrome in Caucasians. Vollmert C, etal., Am J Physiol Endocrinol Metab. 2007 Mar;292(3):E836-44. Epub 2006 Nov 14.
27. High dose of lipoxin A4 induces apoptosis in rat renal interstitial fibroblasts. Wu SH, etal., Prostaglandins Leukot Essent Fatty Acids. 2005 Aug;73(2):127-37.
28. Association of CAPN10 gene with insulin sensitivity, glucose tolerance and renal function in essential hypertensive patients. Zhou X, etal., Clin Chim Acta. 2010 Aug 5;411(15-16):1126-31. doi: 10.1016/j.cca.2010.04.012. Epub 2010 Apr 18.
Additional References at PubMed
PMID:12477932   PMID:12974673   PMID:15044459   PMID:17572128   PMID:18054326  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2993,498,132 - 93,510,494 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl993,498,478 - 93,510,494 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx9101,934,100 - 101,946,097 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.09107,069,891 - 107,081,888 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.09105,426,045 - 105,438,042 (+)NCBIRnor_WKY
Rnor_6.09100,104,000 - 100,112,833 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9100,104,000 - 100,112,832 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0999,767,655 - 99,776,488 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera991,034,781 - 91,046,660 (+)NCBICelera
Cytogenetic Map9q36NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh382240,586,734 - 240,599,104 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2240,586,734 - 240,617,705 (+)EnsemblGRCh38hg38GRCh38
GRCh372241,526,151 - 241,538,521 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362241,174,818 - 241,205,795 (+)NCBINCBI36Build 36hg18NCBI36
Build 342241,246,141 - 241,277,112NCBI
Celera2235,198,477 - 235,210,856 (+)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2233,282,748 - 233,295,178 (+)NCBIHuRef
CHM1_12241,532,185 - 241,544,581 (+)NCBICHM1_1
T2T-CHM13v2.02241,080,759 - 241,093,164 (+)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm39192,862,130 - 92,875,670 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl192,862,098 - 92,875,663 (+)EnsemblGRCm39 Ensembl
GRCm38192,934,408 - 92,947,948 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl192,934,376 - 92,947,941 (+)EnsemblGRCm38mm10GRCm38
MGSCv37194,830,985 - 94,844,525 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36194,764,814 - 94,778,354 (+)NCBIMGSCv36mm8
Celera195,879,004 - 95,892,543 (+)NCBICelera
Cytogenetic Map1DNCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_004955542874,083 - 885,084 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955542874,083 - 885,085 (-)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
PanPan1.12B246,645,632 - 246,658,490 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B246,645,630 - 246,679,169 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B127,838,477 - 127,851,334 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
CanFam3.12550,555,402 - 50,566,132 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2550,555,425 - 50,566,135 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2551,024,232 - 51,034,956 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02551,006,207 - 51,016,927 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2551,006,221 - 51,212,445 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12550,848,152 - 50,858,875 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02550,593,900 - 50,604,615 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02550,870,741 - 50,881,464 (+)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_024405303192,177,907 - 192,189,909 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367451,029,514 - 1,039,524 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl15139,557,469 - 139,568,767 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115139,557,643 - 139,568,764 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.110126,613,722 - 126,626,388 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604072,768,979 - 72,782,938 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla_female_1.0 EnsemblNW_0046248474,911,737 - 4,922,192 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248474,911,052 - 4,922,549 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Capn10
35 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:305
Count of miRNA genes:201
Interacting mature miRNAs:235
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)977813894101597663Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)977813894111552878Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)979271511102910209Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)992491589100929786Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,510,073 - 93,510,237 (+)MAPPERmRatBN7.2
Rnor_6.09100,112,413 - 100,112,576NCBIRnor6.0
Rnor_5.0999,776,068 - 99,776,231UniSTSRnor5.0
Celera991,046,240 - 91,046,403UniSTS
Cytogenetic Map9q36UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2993,510,223 - 93,510,416 (+)MAPPERmRatBN7.2
Rnor_6.09100,112,563 - 100,112,755NCBIRnor6.0
Rnor_5.0999,776,218 - 99,776,410UniSTSRnor5.0
Celera991,046,390 - 91,046,582UniSTS
RH 3.4 Map9796.7UniSTS
Cytogenetic Map9q36UniSTS


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
Medium 3 26 20 6 18 6 74 29 41 11
Low 17 37 35 1 35 8 11 6 8
Below cutoff


Reference Sequences
RefSeq Acc Id: ENSRNOT00000074160   ⟹   ENSRNOP00000067567
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl993,498,478 - 93,510,494 (+)Ensembl
Rnor_6.0 Ensembl9100,104,000 - 100,112,832 (+)Ensembl
RefSeq Acc Id: NM_031673   ⟹   NP_113861
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
mRatBN7.2993,498,496 - 93,510,494 (+)NCBI
Rnor_6.09100,104,000 - 100,112,833 (+)NCBI
Rnor_5.0999,767,655 - 99,776,488 (+)NCBI
Celera991,034,781 - 91,046,660 (+)RGD
RefSeq Acc Id: XM_039084156   ⟹   XP_038940084
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2993,498,132 - 93,507,229 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_113861   ⟸   NM_031673
- UniProtKB: Q9ES66 (UniProtKB/Swiss-Prot),   Q5U345 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067567   ⟸   ENSRNOT00000074160
RefSeq Acc Id: XP_038940084   ⟸   XM_039084156
- Peptide Label: isoform X1
Protein Domains
Calpain catalytic

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9ES66-F1-model_v2 AlphaFold Q9ES66 1-666 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69354 AgrOrtholog
BioCyc Gene G2FUF-26664 BioCyc
Ensembl Genes ENSRNOG00000045623 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000067567 ENTREZGENE
  ENSRNOP00000067567.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074160 ENTREZGENE
  ENSRNOT00000074160.2 UniProtKB/TrEMBL
InterPro C2_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calpain_cysteine_protease UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calpain_domain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calpain_III_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CAPN10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Papain-like_cys_pep_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_cys_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_C2_calpain_cat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:63834 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PANTHER PTHR10183:SF30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_C2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Capn10 PhenoGen
SMART calpain_III UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CysPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49758 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF54001 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC231933
UniProt CAN10_RAT UniProtKB/Swiss-Prot
UniProt Secondary M0RD70 UniProtKB/TrEMBL

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Capn10  calpain 10       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease variant of the human homolog is associated with increased risk of type II diabetes 68750
gene_product member of the calpain family of calcium dependent intracellular nonlysosomal proteases 68750