Calu calumenin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Caluprovided by RGD
Official Full Name: calumeninprovided by RGD
Primary source: RGD:620383
See related: EnsemblRapid:ENSRNOG00000006197 AllianceGenome:RGD:620383
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: Rcn; Cbp50
Summary: Enables calcium ion binding activity; enzyme binding activity; and enzyme inhibitor activity. Involved in peripheral nervous system axon regeneration and response to organic cyclic compound. Located in endoplasmic reticulum lumen. Orthologous to human CALU (calumenin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 931.3), Lung (RPKM 569.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q22

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (58914456..58941957)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (57949086..57976589)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (56625611..56653112)

Chromosome 4 - NC_086022.1 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 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?

the above results indicate that miR378* alleviates ERS and inhibits the activation of the ERS-mediated apoptosis signaling pathway in cardiomyocytes via regulating calumenin expression, thereby reducing cardiomyocyte apoptosis after doxorubicin-induced injury
Title: Protective effect of miR378* on doxorubicin-induced cardiomyocyte injury via calumenin.
Study suggests another cardioprotective effect of the antiarrhythmic agent ibutilide whereby pretreatment leads to the attenuation of endoplasmic reticulum stress induced apoptosis by regulating calumenin expression. This study provides further evidence for the role of calumenin in the cardiomyocyte endoplasmic reticulum stress response.
Title: Ibutilide treatment protects against ER stress induced apoptosis by regulating calumenin expression in tunicamycin treated cardiomyocytes.
Calumenin was upregulated by endoplasmic reticulum stress in neonatal rat ventricular cardiomyocytes.
Title: Calumenin has a role in the alleviation of ER stress in neonatal rat cardiomyocytes.
Data suggest that calumenin interacts with SERCA2 in the cardiac sarcoplasmic reticulum and may play an important role in the regulation of Ca2+ uptake during excitation-contraction coupling.
Title: Calumenin interacts with SERCA2 in rat cardiac sarcoplasmic reticulum.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH127678 (e-PCR)
- UniSTS:210988

MARC_11525-11526:1001518036:1 (e-PCR)
- UniSTS:267216

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	IDA Inferred from Direct Assay more info	PubMed
enables enzyme inhibitor activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in peripheral nervous system axon regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum lumen	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISS Inferred from Sequence or Structural Similarity more info
located_in melanosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in sarcoplasmic reticulum lumen	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: calumenin

Names: CBP-50; crocalbin; reticulocalbin

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_001033898.1 → NP_001029070.1 calumenin isoform b precursor

See identical proteins and their annotated locations for NP_001029070.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks one alternate in-frame exon and contains another alternate in-frame exon compare to variant 1. The resulting isoform (b) is of the same size as isoform a, but it differs in its internal aa sequence.

Source sequence(s)

BC101908

UniProtKB/TrEMBL

A0A0G2K4X7, A6IEC6, F7ETZ4, Q3MID6

Related

ENSRNOP00000008972.6, ENSRNOT00000008972.8

Conserved Domains (3) summary

cd00051
Location:157 → 214

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 ...

pfam13499
Location:157 → 214

EF-hand_7; EF-hand domain pair

cl08302
Location:193 → 258

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 ...
NM_022535.2 → NP_071980.2 calumenin isoform a precursor

See identical proteins and their annotated locations for NP_071980.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes isoform a. Both isoforms are of the same length but differ in their internal aa sequence.

Source sequence(s)

BC101908, CK476875

UniProtKB/TrEMBL

A6IEC5, G3V6S3

Related

ENSRNOP00000008356.5, ENSRNOT00000008356.7

Conserved Domains (3) summary

cd00051
Location:157 → 214

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 ...

pfam13499
Location:157 → 214

EF-hand_7; EF-hand domain pair

cl08302
Location:193 → 258

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 ...