Clcnka chloride channel, voltage-sensitive Ka [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Clcnkaprovided by MGI
Official Full Name: chloride channel, voltage-sensitive Kaprovided by MGI
Primary source: MGI:MGI:1329026
See related: Ensembl:ENSMUSG00000033770 AllianceGenome:MGI:1329026
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: CLC-K1; Clcnk1
Summary: This gene is a member of the CLC family of voltage-gated chloride channels. The gene is located adjacent to a highly similar chloride channel gene on chromosome 4. This gene is syntenic with human CLCNKB (geneID:1188). Multiple alternatively spliced variants, encoding the same protein, have been found for this gene. [provided by RefSeq, Sep 2009]
Expression: Restricted expression toward kidney adult (RPKM 38.0) See more
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Genomic context

Location:: 4 D3; 4 73.94 cM

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	4	NC_000070.7 (141111922..141126017, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	4	NC_000070.6 (141384611..141398706, complement)

Chromosome 4 - NC_000070.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

our study provides in vivo evidence that, in response to a low-potassium diet, ClC-K and barttin play important roles in the activation of the WNK4-SPAK-NCC cascade and blood pressure regulation.
Title: Role of ClC-K and barttin in low potassium-induced sodium chloride cotransporter activation and hypertension in mouse kidney.
molecular substrate of a chloride channel previously detected in the mouse thick ascending limb
Title: Characterization of the mouse ClC-K1/Barttin chloride channel.
induction of SGK1, CLC-K1 and barttin by high osmolarity and change in intracellular volume in distal renal tubular cells in vivo and in vitro
Title: High osmolality induces the kidney-specific chloride channel CLC-K1 by a serum and glucocorticoid-inducible kinase 1 MAPK pathway.
Gene expression profiling in the collecting tubules of aquaporin-1 and CLC-Nk1 knockout mice.
Title: Altered expression profile of transporters in the inner medullary collecting duct of aquaporin-1 knockout mice.
the major component of Cl(-) transport sensitive to NPPB or pH is mediated by CLC-K1 in the tAL.
Title: Analysis of NaCl transport in thin ascending limb of Henle's loop in CLC-K1 null mice.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Chemically induced (ENU) (1)
Endonuclease-mediated (1) 1 citation
Targeted (3) 1 citation

General gene information

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Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables chloride channel activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables voltage-gated chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables voltage-gated monoatomic ion channel activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chloride transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within monoatomic ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within monoatomic ion transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of body fluid levels	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within renal inner medulla development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transmembrane transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
part_of chloride channel complex	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of monoatomic ion channel complex	IEA Inferred from Electronic Annotation more info
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 protein ClC-Ka

Names: chloride channel K1; chloride channel Ka; putative basolateral cTAL chloride channel ClC-Ka

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_001146307.1 → NP_001139779.1 chloride channel protein ClC-Ka

See identical proteins and their annotated locations for NP_001139779.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

AY373832, BB743618, BG061970, CF725377

Consensus CDS

CCDS18871.1

UniProtKB/Swiss-Prot

A2ADB3, Q6UB69, Q8JZU7, Q9WUB7

Related

ENSMUSP00000101416.2, ENSMUST00000105790.8

Conserved Domains (3) summary

cd03683
Location:49 → 533

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:555 → 676

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00654
Location:106 → 514

Voltage_CLC; Voltage gated chloride channel
NM_024412.3 → NP_077723.3 chloride channel protein ClC-Ka

See identical proteins and their annotated locations for NP_077723.3

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.

Source sequence(s)

AY373832, BB743618, BG061970, CJ068439

Consensus CDS

CCDS18871.1

UniProtKB/Swiss-Prot

A2ADB3, Q6UB69, Q8JZU7, Q9WUB7

Related

ENSMUSP00000048520.8, ENSMUST00000042617.14

Conserved Domains (3) summary

cd03683
Location:49 → 533

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:555 → 676

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00654
Location:106 → 514

Voltage_CLC; Voltage gated chloride channel