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NM_000451.4(SHOX):c.502C>T (p.Arg168Trp) AND Langer mesomelic dysplasia syndrome

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Mar 1, 2002
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
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:
RCV000010555.5

Allele description [Variation Report for NM_000451.4(SHOX):c.502C>T (p.Arg168Trp)]

NM_000451.4(SHOX):c.502C>T (p.Arg168Trp)

Gene:
SHOX:short stature homeobox [Gene - OMIM - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
Xp22.33
Genomic location:
Preferred name:
NM_000451.4(SHOX):c.502C>T (p.Arg168Trp)
HGVS:
  • NC_000023.11:g.640836C>T
  • NC_000024.10:g.640836C>T
  • NG_009385.2:g.21493C>T
  • NM_000451.4:c.502C>TMANE SELECT
  • NM_006883.2:c.502C>T
  • NP_000442.1:p.Arg168Trp
  • NP_006874.1:p.Arg168Trp
  • LRG_710t1:c.502C>T
  • LRG_710t2:c.502C>T
  • LRG_710:g.21493C>T
  • LRG_710p1:p.Arg168Trp
  • LRG_710p2:p.Arg168Trp
  • NC_000023.10:g.601571C>T
  • NC_000024.9:g.551571C>T
  • O15266:p.Arg168Trp
Protein change:
R168W; ARG168TRP
Links:
UniProtKB: O15266#VAR_019416; OMIM: 312865.0008; dbSNP: rs137852557
NCBI 1000 Genomes Browser:
rs137852557
Molecular consequence:
  • NM_000451.4:c.502C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_006883.2:c.502C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Langer mesomelic dysplasia syndrome (LMD)
Synonyms:
Langer mesomelic dysplasia; Dyschondrosteosis, homozygous; Mesomelic dwarfism of the hypoplastic ulna, fibula and mandible type
Identifiers:
MONDO: MONDO:0009588; MedGen: C0432230; Orphanet: 2632; OMIM: 249700

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000030781OMIM
no assertion criteria provided
Pathogenic
(Mar 1, 2002)
germlineliterature only

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Citations

PubMed

SHOX nullizygosity and haploinsufficiency in a Japanese family: implication for the development of Turner skeletal features.

Ogata T, Muroya K, Sasaki G, Nishimura G, Kitoh H, Hattori T.

J Clin Endocrinol Metab. 2002 Mar;87(3):1390-4.

PubMed [citation]
PMID:
11889214

Details of each submission

From OMIM, SCV000030781.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (1)

Description

Ogata et al. (2002) reported the clinical and molecular findings in a Japanese family consisting of a male infant with SHOX nullizygosity and his 4 family members with SHOX haploinsufficiency. The male infant had Langer mesomelic dysplasia (249700), the prepubertal sister had idiopathic short stature phenotype with no discernible skeletal features, the father had mild Leri-Weill dyschondrosteosis (127300), and the mother and the maternal grandmother had moderate Leri-Weill dyschondrosteosis. The 5 subjects lacked clinically recognizable short metacarpals, cubitus valgus, high-arched palate, short neck, and micrognathia, as well as recurrent otitis media and hearing loss. Fluorescence in situ hybridization and sequence analyses showed that the proband had a pseudoautosomal microdeletion involving SHOX (312865.0003) and a 502C-T transition in the homeobox domain at exon 4 that resulted in an arg-to-trp missense mutation at codon 168 (R168W). The father was heterozygous for the SHOX deletion, and the sister, the mother, and the grandmother were heterozygous for the C502T mutation. The authors concluded that these results, in conjunction with the previous findings, suggest that mesomelic skeletal features such as Langer mesomelic dysplasia and Leri-Weill dyschondrosteosis, which are absent or rare in Turner syndrome, are primarily caused by SHOX dosage effect and the bone maturing effect of gonadal estrogens, whereas other skeletal features such as short metacarpals, cubitus valgus, and various craniofacial and cervical skeletal stigmata, which are common in Turner syndrome, are largely contributed by a compressive effect of distended lymphatics and lymphedema on the developing skeletal tissues.

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

Last Updated: Apr 23, 2022