Capn5 calpain 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Capn5provided by RGD
Official Full Name: calpain 5provided by RGD
Primary source: RGD:620084
See related: Ensembl:ENSRNOG00000014251 AllianceGenome:RGD:620084
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
Also known as: Htra3
Summary: Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Involved in granulosa cell differentiation; luteinization; and ovarian follicle development. Predicted to be located in cell surface and synapse. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in neovascular inflammatory vitreoretinopathy. Orthologous to human CAPN5 (calpain 5). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information: Annotation category: suggests misassembly
Expression: Biased expression in Thymus (RPKM 97.1), Lung (RPKM 94.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (161827474..161884142, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (152416252..152472923, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (163073134..163129736, 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?

CAPN5 is found in punctate domains associated with promyelocytic leukemia (PML) protein within the nucleus.
Title: Calpain 5 is highly expressed in the central nervous system (CNS), carries dual nuclear localization signals, and is associated with nuclear promyelocytic leukemia protein bodies.
Results describe the cloning and characterization of rat calpain-5, which is highly homologous to human and mouse sequences.
Title: Molecular cloning and characterization of rat and human calpain-5.

Submit: New GeneRIF Correction

General gene information

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Markers

RH94591 (e-PCR)
- UniSTS:119839

Capn5 (e-PCR), detects polymorphism
- UniSTS:496021

RH136948 (e-PCR)
- UniSTS:219037

BI280088 (e-PCR)
- UniSTS:249020

Omp (e-PCR), detects polymorphism
- UniSTS:144083

D1Mgh19 (e-PCR)
- UniSTS:118493

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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

Process	Evidence Code	Pubs
involved_in granulosa cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in luteinization	IEP Inferred from Expression Pattern more info	PubMed
involved_in ovarian follicle development	IEP Inferred from Expression Pattern 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

Component	Evidence Code	Pubs
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	IEA Inferred from Electronic Annotation more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: calpain-5

Names: high-temperature requirement factor A3

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_134461.2 → NP_604456.2 calpain-5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q8R4C0

UniProtKB/TrEMBL

A0A0G2JYD8, A6I6C6

Related

ENSRNOP00000070614.2, ENSRNOT00000083055.2

Conserved Domains (3) summary

cd04046
Location:515 → 638

C2_Calpain; C2 domain present in Calpain proteins

pfam00648
Location:27 → 341

Peptidase_C2; Calpain family cysteine protease

pfam01067
Location:354 → 493

Calpain_III; Calpain large subunit, domain III