Capns1 calpain, small subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Capns1provided by RGD
Full Name: calpain, small subunit 1provided by RGD
Primary source: RGD:2270
See related: EnsemblRapid:ENSRNOG00000067065 AllianceGenome:RGD:2270
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Capn4
Summary: Contributes to calcium-dependent cysteine-type endopeptidase activity. Involved in protein catabolic process. Predicted to be located in cytosol and membrane. Predicted to be part of calpain complex. Orthologous to human CAPNS1 (calpain small subunit 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Adrenal (RPKM 558.0), Heart (RPKM 527.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q21

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (94572083..94582332, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (85444613..85454861, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (91058528..91064880, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

This study suggests that augmented calpain activity is associated with increased incidence of thrombosis under hypoxic environments.
Title: Altered expression of platelet proteins and calpain activity mediate hypoxia-induced prothrombotic phenotype.
c-Myc regulates calpain activity through calpastatin; apoptosis induced by calpain inhibition is dependent on c-Myc, and calpastatin knockdown promotes transformation in c-Myc-negative cells
Title: Regulation of calpain activity by c-Myc through calpastatin and promotion of transformation in c-Myc-negative cells by calpastatin suppression.
These findings determine the role of mitochondrial translocation of calpain-1 in MMP-9 activation during hyperhomocysteinemia (HHcy), in part, by increasing mitochondrial oxidative stress.
Title: Homocysteine-mediated activation and mitochondrial translocation of calpain regulates MMP-9 in MVEC.

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General gene information

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Markers

RH137061 (e-PCR)
- UniSTS:219150

RH139378 (e-PCR)
- UniSTS:221464

RH133836 (e-PCR)
- UniSTS:217119

RH127933 (e-PCR)
- UniSTS:211243

CLIPR-59__4586 (e-PCR)
- UniSTS:471394

RH129537 (e-PCR)
- UniSTS:212839

RH129705 (e-PCR)
- UniSTS:212839

UniSTS:235641 (e-PCR)
- UniSTS:235641

AI844915 (e-PCR)
- UniSTS:165519

D1Bda12 (e-PCR)
- UniSTS:239759

AI044262 (e-PCR)
- UniSTS:247958

AI235173 (e-PCR)
- UniSTS:250337

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	TAS Traceable Author Statement more info	PubMed
contributes_to 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 protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteolysis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of calpain complex	IBA Inferred from Biological aspect of Ancestor more info
part_of calpain complex	IEA Inferred from Electronic Annotation more info
part_of calpain complex	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endomembrane system	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: calpain small subunit 1

Names: CANP small subunit; CDPS; CSS1; calcium-activated neutral proteinase small subunit; calcium-dependent protease small subunit 1; calpain 4; calpain regulatory subunit; calpain small subunit 1-like

NP_058814.1

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_017118.1 → NP_058814.1 calpain small subunit 1

See identical proteins and their annotated locations for NP_058814.1

Status: PROVISIONAL

Source sequence(s)

BC098068

UniProtKB/Swiss-Prot

P97572, Q4V795, Q64537

UniProtKB/TrEMBL

A6J9U9, M0RD20

Related

ENSRNOP00000064672.3, ENSRNOT00000075236.4

Conserved Domains (1) summary

cl08302
Location:146 → 196

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 ...