Capn6 calpain 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Capn6provided by MGI
Official Full Name: calpain 6provided by MGI
Primary source: MGI:MGI:1100850
See related: Ensembl:ENSMUSG00000067276 AllianceGenome:MGI:1100850
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
Summary: Enables microtubule binding activity. Involved in microtubule bundle formation and regulation of cytoskeleton organization. Located in microtubule. Is expressed in several structures, including body cavity or lining; lung; metanephros; tongue; and trunk. Orthologous to human CAPN6 (calpain 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in limb E14.5 (RPKM 163.8), CNS E11.5 (RPKM 19.4) and 2 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: X F2; X 64.83 cM

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	X	NC_000086.8 (142585232..142610408, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	X	NC_000086.7 (143802236..143827412, complement)

Chromosome X - NC_000086.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Calpain-6 deficiency reduced the percentage of ciliated cells and impaired sonic hedgehog signaling. It has been speculated that this defect might be associated with decreased levels of alpha-tubulin acetylation at lysine 40.
Title: Deficiency of calpain-6 inhibits primary ciliogenesis.
CAPN6 promotes atherogenicity in inflamed macrophages by disturbing CWC22/EJC systems.
Title: Calpain-6 confers atherogenicity to macrophages by dysregulating pre-mRNA splicing.
These results collectively showed that a loss of CAPN6 promotes skeletal muscle differentiation during both development and regeneration, suggesting a novel physiological function of CAPN6 as a suppressor of skeletal muscle differentiation.
Title: Calpain-6 deficiency promotes skeletal muscle development and regeneration.
CAPN6 acts as a regulator of Rac1 and cell motility through interaction with GEF-H1.
Title: Calpain-6, a microtubule-stabilizing protein, regulates Rac1 activity and cell motility through interaction with GEF-H1.
Capn6 promotes cytoskeletal organization and microtubule stability in osteoclasts.
Title: Calpain-6, a target molecule of glucocorticoids, regulates osteoclastic bone resorption via cytoskeletal organization and microtubule acetylation.
Capn6 is a microtubule-stabilizing protein expressed in embryonic tissues that may be involved in the regulation of microtubule dynamics and cytoskeletal organization.
Title: Calpain 6 is involved in microtubule stabilization and cytoskeletal organization.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)
Targeted (1) 1 citation

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

px-35e8 (e-PCR)
- UniSTS:257639

px-64d3 (e-PCR)
- UniSTS:258444

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
NOT enables calcium-dependent cysteine-type endopeptidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium-dependent cysteine-type endopeptidase activity	IEA Inferred from Electronic Annotation more info
enables microtubule 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 microtubule bundle formation	IMP Inferred from Mutant Phenotype more info	PubMed
NOT involved_in proteolysis	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in regulation of cytoskeleton organization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in spindle microtubule	IEA Inferred from Electronic Annotation more info
located_in spindle microtubule	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: calpain-6

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_007603.3 → NP_031629.3 calpain-6

See identical proteins and their annotated locations for NP_031629.3

Status: VALIDATED

Source sequence(s)

AK145116, BC052167, CN700442

Consensus CDS

CCDS30455.1

UniProtKB/Swiss-Prot

O35646, Q3UM55

UniProtKB/TrEMBL

Q80VZ1

Related

ENSMUSP00000084573.6, ENSMUST00000087316.6

Conserved Domains (3) summary

smart00230
Location:13 → 351

CysPc; Calpain-like thiol protease family

cd04046
Location:514 → 639

C2_Calpain; C2 domain present in Calpain proteins

cd00214
Location:349 → 497

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 ...