Capn6 calpain 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Capn6provided by RGD
Official Full Name: calpain 6provided by RGD
Primary source: RGD:70960
See related: EnsemblRapid:ENSRNOG00000004882 AllianceGenome:RGD:70960
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
Summary: Predicted to enable microtubule binding activity. Predicted to be involved in microtubule bundle formation and regulation of cytoskeleton organization. Predicted to be located in perinuclear region of cytoplasm and spindle microtubule. Predicted to be active in cytoplasm. Orthologous to human CAPN6 (calpain 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 71.2), Kidney (RPKM 24.2) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: Xq33

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (112177467..112202178, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (107380774..107405489, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (115049113..115073824, complement)

Chromosome X - NC_086039.1 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 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?

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General gene information

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Gene Ontology Provided by RGD

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	IEA Inferred from Electronic Annotation more info
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in microtubule bundle formation	IEA Inferred from Electronic Annotation more info
involved_in microtubule bundle formation	ISO Inferred from Sequence Orthology more info
involved_in microtubule bundle formation	ISS Inferred from Sequence or Structural Similarity more info
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	IEA Inferred from Electronic Annotation more info
involved_in regulation of cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of cytoskeleton organization	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	ISO Inferred from Sequence Orthology more info
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

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Preferred Names: calpain-6

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_031808.2 → NP_113996.2 calpain-6

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

O88501

UniProtKB/TrEMBL

A6KG84, G3V6M4

Related

ENSRNOP00000006638.1, ENSRNOT00000006638.5

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 ...