Clca1 chloride channel accessory 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clca1provided by RGD
Official Full Name: chloride channel accessory 1provided by RGD
Primary source: RGD:1306258
See related: EnsemblRapid:ENSRNOG00000060831 AllianceGenome:RGD:1306258
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: Clca3
Summary: Predicted to enable intracellularly calcium-gated chloride channel activity. Involved in cellular response to hypoxia. Located in zymogen granule membrane. Human ortholog(s) of this gene implicated in asthma and chronic obstructive pulmonary disease. Orthologous to human CLCA1 (chloride channel accessory 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 82.3), Thymus (RPKM 5.4) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q44

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (236599022..236624714, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (233938677..233964369, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (250897980..250923711, 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?

amino acids H159 and E167 in the rbCLCA1 metalloprotease motif are important in rbCLCA1 processing for localization to the cell surface.
Title: rbCLCA1 is a putative metalloprotease family member: localization and catalytic domain identification.
Dexamethasone substantially downregulates the expression of CLCA3 mRNA and Muc5ac protein in nasal mucosa in allergic rhinitis.
Title: [Effects of glucocorticoid on calcium-activated chloride channel expression in nasal mucosa in allergic rhinitis rats].

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General gene information

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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 calcium ion transport	IEA Inferred from Electronic Annotation more info
involved_in cellular response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
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
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in microvillus	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in secretory granule	ISO Inferred from Sequence Orthology more info
located_in zymogen granule membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: calcium-activated chloride channel regulator 1

Names: chloride channel calcium activated 3

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_001107449.1 → NP_001100919.1 calcium-activated chloride channel regulator 1 precursor

See identical proteins and their annotated locations for NP_001100919.1

Status: PROVISIONAL

Source sequence(s)

CH473952

UniProtKB/TrEMBL

A0A0G2JWX9, A6HWA3

Related

ENSRNOP00000070057.1, ENSRNOT00000084996.3

Conserved Domains (2) summary

cd00198
Location:306 → 459

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:25 → 903

CLCA; Calcium-activated chloride channel