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

Gene ID: 12733, updated on 2-Nov-2024

Summary

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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

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See Clcnka in Genome Data Viewer
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_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene 13076 Neighboring gene family with sequence similarity 131, member C Neighboring gene STARR-positive B cell enhancer ABC_E4697 Neighboring gene predicted gene, 34693 Neighboring gene STARR-positive B cell enhancer ABC_E4698 Neighboring gene chloride channel, voltage-sensitive Kb

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. Analysis of NaCl transport in thin ascending limb of Henle's loop in CLC-K1 null mice. Liu W, et al. Am J Physiol Renal Physiol, 2002 Mar. PMID 11832425
  2. Role of ClC-K and barttin in low potassium-induced sodium chloride cotransporter activation and hypertension in mouse kidney. Nomura N, et al. Biosci Rep, 2018 Feb 28. PMID 29326302, Free PMC Article
  3. The ClC-K2 Chloride Channel Is Critical for Salt Handling in the Distal Nephron. Hennings JC, et al. J Am Soc Nephrol, 2017 Jan. PMID 27335120, Free PMC Article
  4. Characterization of the mouse ClC-K1/Barttin chloride channel. L'Hoste S, et al. Biochim Biophys Acta, 2013 Nov. PMID 23791703
  5. Cl(-) channels in basolateral TAL membranes XV. Molecular heterogeneity between cortical and medullary channels. Winters CJ, et al. J Membr Biol, 2000 Oct 1. PMID 11014860

See all (29) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. molecular substrate of a chloride channel previously detected in the mouse thick ascending limb
    Title: Characterization of the mouse ClC-K1/Barttin chloride channel.
  3. 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.
  4. 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.
  5. 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.
Submit: New GeneRIF Correction

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables chloride channel activity IDA
Inferred from Direct Assay
more info
 PubMed 
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 chloride channel activity IEA
Inferred from Electronic Annotation
more info
  
enables voltage-gated monoatomic ion channel activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in chloride transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in chloride transport IBA
Inferred from Biological aspect of Ancestor
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 transepithelial chloride transport IMP
Inferred from Mutant Phenotype
more info
 PubMed 
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
  
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)

  1. 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

  2. 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

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    141111922..141126017 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9WUB7.2 GenPept UniProtKB/Swiss-Prot:Q9WUB7

Gene LinkOut

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