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    Clcn6 chloride voltage-gated channel 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 295586, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Clcn6provided by RGD
    Official Full Name
    chloride voltage-gated channel 6provided by RGD
    Primary source
    RGD:1305379
    See related
    EnsemblRapid:ENSRNOG00000008345 AllianceGenome:RGD:1305379
    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
    Summary
    Predicted to enable voltage-gated chloride channel activity. Involved in response to mechanical stimulus. Predicted to be located in membrane. Predicted to be active in intracellular membrane-bounded organelle. Human ortholog(s) of this gene implicated in coronary artery disease. Orthologous to human CLCN6 (chloride voltage-gated channel 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Kidney (RPKM 103.6), Brain (RPKM 59.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clcn6 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (163715593..163748301, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (158434299..158465174, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (164811815..164844554, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene natriuretic peptide B Neighboring gene natriuretic peptide A Neighboring gene methylenetetrahydrofolate reductase Neighboring gene NHP2-like protein 1-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Modulation of blood pressure regulatory genes in the Agtrap-Plod1 locus associated with a deletion in Clcn6. Klemens CA, et al. Physiol Rep, 2022 Aug. PMID 35927940, Free PMC Article
    2. Loss of Chloride Channel 6 (CLC-6) Affects Vascular Smooth Muscle Contractility and Arterial Stiffness via Alterations to Golgi Calcium Stores. Klemens CA, et al. Hypertension, 2021 Feb. PMID 33390052, Free PMC Article
    3. The rs3737964 single-nucleotide polymorphism of the chloride channel-6 gene as a risk factor for coronary heart disease. Zhang L, et al. Mol Genet Genomic Med, 2015 Nov. PMID 26740945, Free PMC Article
    4. Chloride channels and the reactions of cells to topography. Tobasnick G, et al. Eur Cell Mater, 2001 Dec 13. PMID 14562255
    5. Identifying multiple causative genes at a single GWAS locus. Flister MJ, et al. Genome Res, 2013 Dec. PMID 24006081, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Modulation of blood pressure regulatory genes in the Agtrap-Plod1 locus associated with a deletion in Clcn6.
      Title: Modulation of blood pressure regulatory genes in the Agtrap-Plod1 locus associated with a deletion in Clcn6.
    2. Loss of Chloride Channel 6 (CLC-6) Affects Vascular Smooth Muscle Contractility and Arterial Stiffness via Alterations to Golgi Calcium Stores.
      Title: Loss of Chloride Channel 6 (CLC-6) Affects Vascular Smooth Muscle Contractility and Arterial Stiffness via Alterations to Golgi Calcium Stores.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables antiporter activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chloride transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables voltage-gated chloride 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to mechanical stimulus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    H(+)/Cl(-) exchange transporter 6
    Names
    chloride channel 6
    chloride channel, voltage-sensitive 6
    chloride transport protein 6

    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_001106479.1 → NP_001099949.1  H(+)/Cl(-) exchange transporter 6

      See identical proteins and their annotated locations for NP_001099949.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473968
      UniProtKB/TrEMBL
      A6IU39, D4A3H5
      Related
      ENSRNOP00000011287.6, ENSRNOT00000011287.8
      Conserved Domains (5) summary
      smart00116
      Location:609 → 656
      CBS; Domain in cystathionine beta-synthase and other proteins
      COG0517
      Location:804 → 854
      CBS; CBS domain [Signal transduction mechanisms]
      cd03685
      Location:49 → 589
      ClC_6_like; ClC-6-like chloride channel proteins. This CD includes ClC-6, ClC-7 and ClC-B, C, D in plants. Proteins in this family are ubiquitous in eukarotes and their functions are unclear. They are expressed in intracellular organelles membranes. This family ...
      cd04591
      Location:801 → 854
      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:140 → 571
      Voltage_CLC; Voltage gated 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

    1. NC_086023.1 Reference GRCr8

      Range
      163715593..163748301 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006239378.5 → XP_006239440.1  H(+)/Cl(-) exchange transporter 6 isoform X1

      See identical proteins and their annotated locations for XP_006239440.1

      UniProtKB/TrEMBL
      D4A3H5
      Conserved Domains (2) summary
      cd03685
      Location:1 → 522
      ClC_6_like; ClC-6-like chloride channel proteins. This CD includes ClC-6, ClC-7 and ClC-B, C, D in plants. Proteins in this family are ubiquitous in eukarotes and their functions are unclear. They are expressed in intracellular organelles membranes. This family ...
      cd04591
      Location:534 → 787
      CBS_pair_voltage-gated_CLC_euk_bac; Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the voltage gated CLC (chloride channel) in eukaryotes and bacteria

    2. XM_039109377.2 → XP_038965305.1  H(+)/Cl(-) exchange transporter 6 isoform X3

      Conserved Domains (2) summary
      cl02915
      Location:70 → 196
      Voltage_gated_ClC; CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This ...
      cd04591
      Location:208 → 461
      CBS_pair_voltage-gated_CLC_euk_bac; Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the voltage gated CLC (chloride channel) in eukaryotes and bacteria

    3. XM_039109375.2 → XP_038965303.1  H(+)/Cl(-) exchange transporter 6 isoform X2

      Conserved Domains (3) summary
      cd03685
      Location:49 → 589
      ClC_6_like; ClC-6-like chloride channel proteins. This CD includes ClC-6, ClC-7 and ClC-B, C, D in plants. Proteins in this family are ubiquitous in eukarotes and their functions are unclear. They are expressed in intracellular organelles membranes. This family ...
      cd02205
      Location:607 → 655
      CBS_pair_SF; CBS repeat [structural motif]
      cl15354
      Location:601 → 655
      CBS_pair_SF; Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains superfamily

    RNA

    1. XR_592730.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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