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NM_000083.3(CLCN1):c.1437_1450del (p.Pro480fs) AND Batten-Turner congenital myopathy

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Apr 5, 2019
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV000778142.5

Allele description [Variation Report for NM_000083.3(CLCN1):c.1437_1450del (p.Pro480fs)]

NM_000083.3(CLCN1):c.1437_1450del (p.Pro480fs)

Gene:
CLCN1:chloride voltage-gated channel 1 [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
7q34
Genomic location:
Preferred name:
NM_000083.3(CLCN1):c.1437_1450del (p.Pro480fs)
Other names:
dbSNP ID: rs768119034
HGVS:
  • NC_000007.14:g.143339288_143339301del
  • NG_009815.2:g.28163_28176del
  • NM_000083.3:c.1437_1450delMANE SELECT
  • NP_000074.3:p.Pro480fs
  • NC_000007.13:g.143036380_143036393del
  • NC_000007.13:g.143036381_143036394del
  • NG_009815.1:g.28163_28176del
  • NM_000083.2:c.1437_1450delACCCTGCGGAGGCT
  • NM_000083.3:c.1437_1450del14MANE SELECT
  • NM_000083.3:c.1437_1450delACCCTGCGGAGGCTMANE SELECT
  • NR_046453.2:n.1392_1405del
  • p.Pro480Hisfs*24
Protein change:
P480fs
Links:
OMIM: 118425.0009; dbSNP: rs768119034
Molecular consequence:
  • NM_000083.3:c.1437_1450del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NR_046453.2:n.1392_1405del - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
Batten-Turner congenital myopathy
Synonyms:
Myotonia congenita; Congenital myotonia
Identifiers:
MONDO: MONDO:0100468; MedGen: C0027127; Orphanet: 206973; OMIM: 255300

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000914273Illumina Laboratory Services, Illumina
criteria provided, single submitter

(ICSL Variant Classification Criteria 09 May 2019)
Pathogenic
(Apr 5, 2019)
germlineclinical testing

PubMed (7)
[See all records that cite these PMIDs]

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Chloride channel myotonia: exon 8 hot-spot for dominant-negative interactions.

Fialho D, Schorge S, Pucovska U, Davies NP, Labrum R, Haworth A, Stanley E, Sud R, Wakeling W, Davis MB, Kullmann DM, Hanna MG.

Brain. 2007 Dec;130(Pt 12):3265-74. Epub 2007 Oct 11.

PubMed [citation]
PMID:
17932099

Novel muscle chloride channel mutations and their effects on heterozygous carriers.

Mailänder V, Heine R, Deymeer F, Lehmann-Horn F.

Am J Hum Genet. 1996 Feb;58(2):317-24.

PubMed [citation]
PMID:
8571958
PMCID:
PMC1914535
See all PubMed Citations (7)

Details of each submission

From Illumina Laboratory Services, Illumina, SCV000914273.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (7)

Description

The CLCN1 c.1437_1450delACCCTGCGGAGGCT (p.Pro480HisfsTer24) variant results in a frameshift variant that is predicted to result in premature termination of the protein. Across a selection of the available literature, the p.Pro480HisfsTer24 variant has been reported in at least 14 individuals with myotonia congenita (MC), which includes three in a homozygous state and six in a compound heterozygous state (Meyer-Kleine et al. 1994; Lehmann-Horn et al. 1995; Meyer-Kleine et al. 1995; Mailander et al. 1996; Fialho et al. 2007; Dupre et al. 2009; Raja Rayan et al. 2012; Brugnoni et al. 2013). The variant appears to be associated with an autosomal recessive inheritance pattern, as the majority of evaluated heterozygous family members were unaffected. However, a single clinically unaffected heterozygous male was reported to display latent myotonia (Mailander et al. 1996). Homozygosity for the variant also reportedly results in a more severe phenotype associated with transient weakness and severely reduced chloride conductance in muscle fibers, consistent with features of recessive MC. The p.Pro480HisfsTer24 variant was absent from at least 660 control chromosomes and is reported at a frequency of 0.000150 in the European (non-Finnish) population of the Genome Aggregation Database. Based on the collective evidence, the p.Pro480HisfsTer24 variant is classified as pathogenic for myotonia congenita. This variant was observed by ICSL as part of a predisposition screen in an ostensibly healthy population.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Jun 20, 2026

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