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NM_032608.7(MYO18B):c.6660_6670del (p.Arg2220fs) AND Klippel-Feil anomaly-myopathy-facial dysmorphism syndrome

Germline classification:
Likely pathogenic (3 submissions)
Last evaluated:
Aug 13, 2021
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000721136.6

Allele description [Variation Report for NM_032608.7(MYO18B):c.6660_6670del (p.Arg2220fs)]

NM_032608.7(MYO18B):c.6660_6670del (p.Arg2220fs)

Gene:
MYO18B:myosin XVIIIB [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
22q12.1
Genomic location:
Preferred name:
NM_032608.7(MYO18B):c.6660_6670del (p.Arg2220fs)
HGVS:
  • NC_000022.11:g.26026634_26026644del
  • NG_046772.1:g.289491_289501del
  • NM_001318245.2:c.6663_6673del
  • NM_032608.7:c.6660_6670delMANE SELECT
  • NP_001305174.1:p.Arg2221fs
  • NP_115997.5:p.Arg2220fs
  • NC_000022.10:g.26422599_26422609del
  • NC_000022.10:g.26422600_26422610del
  • NM_032608.5:c.6660_6670del
  • NM_032608.5:c.6660_6670del11
  • p.Arg2220SerfsTer74
Protein change:
R2220fs
Links:
OMIM: 607295.0005; dbSNP: rs756408696
NCBI 1000 Genomes Browser:
rs756408696
Molecular consequence:
  • NM_001318245.2:c.6663_6673del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_032608.7:c.6660_6670del - frameshift variant - [Sequence Ontology: SO:0001589]
Functional consequence:
protein truncation [Variation Ontology: 0015]
Observations:
1

Condition(s)

Name:
Klippel-Feil anomaly-myopathy-facial dysmorphism syndrome
Synonyms:
Klippel-feil syndrome 4, autosomal recessive, with nemaline myopathy and facial dysmorphism; Klippel-Feil syndrome 4, autosomal recessive, with myopathy and facial dysmorphism
Identifiers:
MONDO: MONDO:0014689; MedGen: C4225285; Orphanet: 447974; OMIM: 616549

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000844943Institute for Genomic Medicine, Nationwide Children's Hospital
criteria provided, single submitter

(ACMG Guidelines, 2015)
Likely pathogenic
(Oct 10, 2018)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

SCV002017859Revvity Omics, Revvity
criteria provided, single submitter

(ACMG Guidelines, 2015)
Likely pathogenic
(Aug 13, 2021)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

SCV004099288OMIM
no assertion criteria provided
Pathogenic
(Oct 27, 2023)
germlineliterature only

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only
not providedgermlineyes1not providednot providednot providednot providedclinical testing
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From Institute for Genomic Medicine, Nationwide Children's Hospital, SCV000844943.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
11not providednot providedclinical testing PubMed (1)

Description

This individual is compound heterozygous for two likely pathogenic changes in the MYO18B gene. These frameshift alterations encode a premature stop of translation (ACMG: PVS1). The first, p.Arg2220SerfsTer74, occurs at an amino acid position 86% of the way through the full length protein, and the second, p.Leu2257SerfsTer16, occurs 88% of the way through the full length protein. These alterations occur within exon 43 of the transcript, NM_032608.5, within the penultimate exon of the gene (also representing the final coding exon of the transcript). These variants are very rare (p.Arg2220SerfsTer74) or absent (p.Leu2257SerfsTer16) from population databases (gnomAD) (ACMG: PM2). MYO18B is associated with autosomal recessive Klippel-Feil syndrome-4 with nemaline myopathy and facial dysmorphism (OMIM: 616549). Limited phenotypic data have been described in the literature and medical databases, however MYO18B variants encoding a premature stop of translation have been previously documented in association with myopathy, mild short stature, microcephaly, cardiomyopathy, pectus deformity, digit anomalies and distinctive facies (PMID: 25748484; 27858739). Characterization of the effect of a premature stop of translation within MYO18B has been described in the setting of in-vitro analyses. Examination of an affected patient's lymphocytes harboring a nonsense alteration (p.Ser2303Ter) demonstrated markedly diminished MYO18B transcript by quantitative PCR in comparison to a control, therefore hypothesized to be consistent with nonsense-mediated decay (PMID: 25748484). Moreover, western blot analysis and immunostaining of skeletal muscle in another patient harboring a nonsense alteration (p.Glu2166Ter) demonstrated the absence of the C-terminus of the protein hypothesized to be consistent with protein truncation (PMID: 27858739).

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot provided1not providednot providednot provided

From Revvity Omics, Revvity, SCV002017859.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

From OMIM, SCV004099288.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature onlynot provided

Description

For discussion of the 11-bp deletion (c.6660_6670del11, NM_032608.5) in the MYO18B gene, resulting in a frameshift and premature termination (Arg2220SerfsTer74), that was found in compound heterozygous state in a 4-year old boy with Klippel-Feil syndrome-4 (KFS4; 616549) and medulloblastoma, see 607295.0004.

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

Last Updated: Mar 16, 2024