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Clcn6
Gene Detail
Symbol

Name
ID
Clcn6
chloride channel 6
MGI:1347049
Feature Type
protein coding gene
Genetic Map
Chromosome 4
78.67 cM, cytoband E1
Detailed Genetic Map ± 1 cM


Mapping data(4)
Sequence Map
Chr4:148004259-148038821 bp, - strand
From VEGA annotation of GRCm38

  34563 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:985  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: CLCN6
Gene Tree: Clcn6

Human
homologs
CLCN6, chloride channel, voltage-sensitive 6
Orthology source: HGNC, HomoloGene

IDs:
NCBI Gene ID: 1185
neXtProt AC: NX_P51797

Human Synonyms: CLC-6

Human Chr (Location): 1p36; chr1:11806096-11843144 (+)  GRCh38.p2

Mutations,
alleles, and
phenotypes
All mutations/alleles(64) : Gene trapped(62) Targeted(2)
Genomic Mutations involving Clcn6 (1)
Incidental mutations (data from Mutagenetix , APF )
 
Mice homozygous for a knock-out allele exhibit impaired nociception, mild behavioral abnormalities, and a progressive neuropathy of the central and peripheral nervous systems with features of neuronal ceroid lipofuscinosis (a lysosomal storage disease).
 
Human Diseases Modeled in Mice Using Clcn6 (1)    Mutations Annotated to Human Diseases (1)    Phenotype Images(1)
Interactions
Clcn6 interacts with 236 markers (Mir1a-1, Mir1a-2, Mir7-1, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (15 annotations)
Process chloride transport, ion transport, ...
Component endosome, integral component of membrane, ...
Function antiporter activity, ATP binding, ...
External Resources: FuncBase
Expression
Literature Summary: (3 records)
Data Summary: Results (64)    Tissues (19)    Images (24)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 58
RT-PCR 6
cDNA source data(52)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: Xenbase clcn6    NEW 
Molecular
reagents
All nucleic(54) cDNA(52) Primer pair(1) Other(1)
Microarray probesets(4)
Other database
links
VEGA Gene Model OTTMUSG00000010195 (Evidence)
Ensembl Gene Model ENSMUSG00000029016 (Evidence)
Entrez Gene 26372 (Evidence)
UniGene 89987
DFCI TC1604368, TC1612404, TC1618186, TC1679082
DoTS DT.101726048, DT.40163264, DT.485359
NIA Mouse Gene Index U025781
Consensus CDS Project CCDS18928.1
International Mouse Phenotyping Consortium Status Clcn6
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000010195 VEGA Gene Model | MGI Sequence Detail 34563 C57BL/6J ±  kb
transcript OTTMUST00000023694 VEGA | MGI Sequence Detail 5198 Not Applicable 
polypeptide OTTMUSP00000010834 VEGA | MGI Sequence Detail 873 Not Applicable 

For the selected sequences
All sequences(65) RefSeq(9) UniProt(6)
Polymorphisms
SNPs within 2kb(379 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR000644 CBS domain
InterPro IPR002248 Chloride channel ClC-6
InterPro IPR014743 Chloride channel, core
InterPro IPR001807 Chloride channel, voltage gated
Protein Ontology PR:000005533 chloride channel protein 6
References
(Earliest) J:57786 Kornak U, et al., Complete genomic structure of the CLCN6 and CLCN7 putative chloride channel genes(1). Biochim Biophys Acta. 1999 Oct 6;1447(1):100-6
(Latest) J:195944 Arnaiz I, et al., Changing expression of chloride channels during preimplantation mouse development. Reproduction. 2013 Jan;145(1):73-84
All references(38)
Disease annotation references (1)
Other
accession IDs
MGI:2140385

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
08/25/2015
MGI 6.0
The Jackson Laboratory