Capn10 calpain 10 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Capn10provided by RGD
Official Full Name: calpain 10provided by RGD
Primary source: RGD:69354
See related: Ensembl:ENSRNOG00000045623 AllianceGenome:RGD:69354
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables SNARE binding activity; calcium-dependent cysteine-type endopeptidase activity; and cytoskeletal protein binding activity. Involved in several processes, including actin cytoskeleton reorganization; autophagy of mitochondrion; and response to glucose. 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). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 88.6), Adrenal (RPKM 79.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q36

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (100943665..100957910)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (93498132..93510494)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (100104000..100112833)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

diabetes-induced renal mitochondrial dysfunction and renal injury may directly result from the loss of renal calpain 10
Title: Loss of calpain 10 causes mitochondrial dysfunction during chronic hyperglycemia.
Calpain 10 levels decreased in the kidney, but not in the liver, with age, and this decrease was attenuated with caloric restriction.
Title: Calpain 10 is required for cell viability and is decreased in the aging kidney.
These results provide evidence that several previously postulated splice variants of calpain 10 are localized to the mitochondria in kidneys of rabbits, rats, and mice.
Title: Mitochondrial calpain 10 activity and expression in the kidney of multiple species.
"Calpain 10 (CAPN10) is reported linked with type 2 diabetes in certain human populations..." "Levels of mRNA for type 2 diabetes-related genes such as ...CPN10 were quantified in WBC...in OLETF rats... known to initiate type 2 diabetes at 18 weeks..."
Title: 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.
195 gly-ser SNP might be associated with susceptibility to type 2 diabetes mellitus
Title: Capn10, a candidate gene responsible for type 2 diabetes mellitus in the OLETF rat.
Data show that calpain 10 is a mitochondrially targeted and is a mediator of mitochondrial dysfunction through the cleavage of Complex I subunits and activation of the mitochondrial permeability transition.
Title: Calpain 10: a mitochondrial calpain and its role in calcium-induced mitochondrial dysfunction.
Finally, we identified a 54 kDa isoform as the major CAPN10 isoform that associates with the actin cytoskeleton.
Title: Calpain facilitates actin reorganization during glucose-stimulated insulin secretion.

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General gene information

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Markers

AI430010 (e-PCR)
- UniSTS:158834

RH137033 (e-PCR)
- UniSTS:219122

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNARE binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium-dependent cysteine-type endopeptidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium-dependent cysteine-type endopeptidase activity	IDA Inferred from Direct Assay more info	PubMed
enables calcium-dependent cysteine-type endopeptidase activity	IEA Inferred from Electronic Annotation more info
enables calcium-dependent cysteine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
enables calcium-dependent cysteine-type endopeptidase activity	NAS Non-traceable Author Statement more info	PubMed
enables cytoskeletal protein binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to insulin stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to insulin stimulus	ISO Inferred from Sequence Orthology more info
involved_in mitochondrion organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of glucose import	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of glucose import	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of insulin secretion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of insulin secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intracellular transport	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of intracellular transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type B pancreatic cell apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of type B pancreatic cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in proteolysis	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of actin cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in response to glucose	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IDA Inferred from Direct Assay more info	PubMed
involved_in type B pancreatic cell apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in type B pancreatic cell apoptotic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoskeleton	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial inner membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial matrix	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial outer membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: calpain-10

Names: CANP 10; calcium-activated neutral proteinase 10

NP_113861.1

EC 3.4.22.-

EC 3.4.22.17

XP_038940084.1

EC 3.4.22.-

EC 3.4.22.17

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)

NM_031673.2 → NP_113861.1 calpain-10

See identical proteins and their annotated locations for NP_113861.1

Status: VALIDATED

Source sequence(s)

AF227909, BC085725

UniProtKB/Swiss-Prot

Q9ES66

UniProtKB/TrEMBL

A0A9K3Y884, M0RD70, Q7TQ41

Related

ENSRNOP00000067567.2, ENSRNOT00000074160.2

Conserved Domains (3) summary

smart00720
Location:338 → 488

calpain_III; calpain_III domain

cd00044
Location:8 → 319

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:506 → 647

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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

100943665..100957910

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039084156.2 → XP_038940084.1 calpain-10 isoform X1

Conserved Domains (2) summary

cd00044
Location:8 → 319

CysPc; Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction.

cl00165
Location:338 → 422

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 ...