Clca5 chloride channel accessory 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clca5provided by RGD
Official Full Name: chloride channel accessory 5provided by RGD
Primary source: RGD:621100
See related: EnsemblRapid:ENSRNOG00000013334 AllianceGenome:RGD:621100
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: CLCA; Clca2; Clca4; rbCLCA
Summary: Predicted to enable intracellularly calcium-gated chloride channel activity. Predicted to be involved in chloride transmembrane transport and proteolysis. Predicted to be active in plasma membrane. Orthologous to human CLCA3P (chloride channel accessory 3, pseudogene). [provided by Alliance of Genome Resources, Jan 2025]
Expression: Biased expression in Spleen (RPKM 27.0), Thymus (RPKM 12.9) and 4 other tissues See more
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Genomic context

Location:: 2q44

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (236456923..236479220, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (233796569..233818867, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (250755976..250778269, complement)

Chromosome 2 - NC_086020.1 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?

CLCA splicing isoform is associated with adhesion through beta1-integrin and its scaffolding protein
Title: CLCA splicing isoform associated with adhesion through β1-integrin and its scaffolding protein: specific expression in undifferentiated epithelial cells.
We successfully cloned a rat brain CLCA (rbCLCA).
Title: Cloning and expression of Ca2+-activated chloride channel from rat brain.

Submit: New GeneRIF Correction

General gene information

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Markers

RH143389 (e-PCR)
- UniSTS:232636

BE199161 (e-PCR)
- UniSTS:207573

AI008454 (e-PCR)
- UniSTS:261624

RH131751 (e-PCR)
- UniSTS:215034

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables intracellularly calcium-gated chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables metallopeptidase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in chloride transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: chloride channel accessory 5

Names: Ca(2+)-activated chloride channel splicing; calcium activated chloride channel; chloride channel calcium activated 2; chloride channel calcium activated 4

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_001013202.2 → NP_001013220.1 chloride channel accessory 5 precursor

See identical proteins and their annotated locations for NP_001013220.1

Status: PROVISIONAL

Source sequence(s)

AB119249

UniProtKB/TrEMBL

Q4H2C5, Q75ZI5

Related

ENSRNOP00000071331.2, ENSRNOT00000085670.3

Conserved Domains (3) summary

TIGR00868
Location:1 → 866

hCaCC; calcium-activated chloride channel protein 1

cd00198
Location:307 → 461

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

cl19929
Location:529 → 569

A2M_N; MG2 domain