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Clcn6 chloride channel, voltage-sensitive 6 [ Mus musculus (house mouse) ]

Gene ID: 26372, updated on 5-Mar-2024

Summary

Official Symbol
Clcn6provided by MGI
Official Full Name
chloride channel, voltage-sensitive 6provided by MGI
Primary source
MGI:MGI:1347049
See related
Ensembl:ENSMUSG00000029016 AllianceGenome:MGI:1347049
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Clc6
Summary
This gene encodes a member of the ClC chloride channel and transporter family of proteins. The encoded protein may function as a vesicular Cl-/H+ antiporter. Homozygous knockout mice exhibit decreased pain sensitivity, behavioral abnormalities and features of lysosomal storage disease. [provided by RefSeq, Aug 2015]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 17.3), CNS E14 (RPKM 16.1) and 28 other tissues See more
Orthologs
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Genomic context

See Clcn6 in Genome Data Viewer
Location:
4 E1; 4 78.67 cM
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (148088716..148123270, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (148004259..148038813, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene natriuretic peptide type B Neighboring gene natriuretic peptide type A Neighboring gene STARR-seq mESC enhancer starr_12064 Neighboring gene NSA2 ribosome biogenesis homolog pseudogene Neighboring gene Mthfr promoter region Neighboring gene methylenetetrahydrofolate reductase Neighboring gene predicted gene 13201 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2, pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (1)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
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 nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables voltage-gated chloride channel activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in chloride transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within monoatomic ion transport IEA
Inferred from Electronic Annotation
more info
 
involved_in response to mechanical stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in transmembrane transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in endosome IEA
Inferred from Electronic Annotation
more info
 
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

Preferred Names
H(+)/Cl(-) exchange transporter 6
Names
chloride channel 6
chloride channel protein 6
chloride transport protein 6
clC-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_011929.3NP_036059.1  H(+)/Cl(-) exchange transporter 6

    See identical proteins and their annotated locations for NP_036059.1

    Status: REVIEWED

    Source sequence(s)
    AK165362, AL606929, BM949055, BQ174789, BQ178271, CB521277, CX205353, CX564347
    Consensus CDS
    CCDS18928.1
    UniProtKB/Swiss-Prot
    O35454
    UniProtKB/TrEMBL
    A2A7F6, Q3UM91
    Related
    ENSMUSP00000030879.6, ENSMUST00000030879.12
    Conserved Domains (5) summary
    smart00116
    Location:609656
    CBS; Domain in cystathionine beta-synthase and other proteins
    COG0517
    Location:804854
    CBS; CBS domain [Signal transduction mechanisms]
    cd03685
    Location:49589
    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:801854
    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:140571
    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
    148088716..148123270 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)