Clca2 chloride channel accessory 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clca2provided by RGD
Official Full Name: chloride channel accessory 2provided by RGD
Primary source: RGD:1304894
See related: Ensembl:ENSRNOG00000013771 AllianceGenome:RGD:1304894
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: Clca5
Summary: Predicted to enable intracellular calcium activated chloride channel activity and ligand-gated ion channel activity. Predicted to be involved in ion transmembrane transport and proteolysis. Predicted to act upstream of or within chloride transport. Predicted to be located in several cellular components, including cell junction; cytosol; and nucleus. Predicted to be integral component of plasma membrane. Orthologous to human CLCA2 (chloride channel accessory 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 28.5), Thymus (RPKM 4.3) and 4 other tissues See more
Orthologs: human mouse all
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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 (236655419..236682669, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (233993619..234022691, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (250954423..250981544, complement)

Chromosome 2 - NC_086020.1 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
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 calcium-activated chloride channel-associated protein rCLCA2 is expressed throughout rat epidermis, facilitates apoptosis and is downmodulated by UVB.
Title: The calcium-activated chloride channel-associated protein rCLCA2 is expressed throughout rat epidermis, facilitates apoptosis and is downmodulated by UVB.
The mCLCA5 protein is uniquely expressed in highly select bronchial epithelial cells and submucosal glands in naive mice, consistent with anatomical locations of progenitor cell niches.
Title: Murine CLCA5 is uniquely expressed in distinct niches of airway epithelial cells.

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

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chloride channel activity	ISO Inferred from Sequence Orthology more info
enables intracellularly calcium-gated chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables ligand-gated monoatomic ion channel activity	ISO Inferred from Sequence Orthology 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
acts_upstream_of_or_within chloride transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear membrane	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: calcium-activated chloride channel regulator 2

Names: chloride channel calcium activated 5; chloride channel, calcium activated, family member 2

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_001107450.2 → NP_001100920.1 calcium-activated chloride channel regulator 2

See identical proteins and their annotated locations for NP_001100920.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A6HWA4, D3ZVT7

Related

ENSRNOP00000018435.4, ENSRNOT00000018435.6

Conserved Domains (2) summary

cd00198
Location:310 → 466

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 ...

pfam08434
Location:34 → 893

CLCA; Calcium-activated chloride channel

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

236655419..236682669 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102133.2 → XP_038958061.1 calcium-activated chloride channel regulator 2 isoform X1

Conserved Domains (1) summary

TIGR00868
Location:1 → 817

hCaCC; calcium-activated chloride channel protein 1