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NM_001378183.1(PIEZO2):c.8396G>A (p.Arg2799His) AND Gordon syndrome

Germline classification:
Pathogenic (3 submissions)
Last evaluated:
Oct 2, 2021
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:
RCV000125478.8

Allele description [Variation Report for NM_001378183.1(PIEZO2):c.8396G>A (p.Arg2799His)]

NM_001378183.1(PIEZO2):c.8396G>A (p.Arg2799His)

Gene:
PIEZO2:piezo type mechanosensitive ion channel component 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
18p11.22
Genomic location:
Preferred name:
NM_001378183.1(PIEZO2):c.8396G>A (p.Arg2799His)
Other names:
NM_001378183.1(PIEZO2):c.8396G>A; p.Arg2799His
HGVS:
  • NC_000018.10:g.10671729C>T
  • NG_034005.1:g.482034G>A
  • NM_001378183.1:c.8396G>AMANE SELECT
  • NM_022068.4:c.8057G>A
  • NP_001365112.1:p.Arg2799His
  • NP_071351.2:p.Arg2686His
  • NC_000018.9:g.10671726C>T
  • NM_022068.2:c.8057G>A
  • NM_022068.3:c.8057G>A
  • Q9H5I5:p.Arg2686His
Protein change:
R2686H; ARG2686HIS
Links:
UniProtKB: Q9H5I5#VAR_071303; OMIM: 613629.0003; dbSNP: rs587777450
NCBI 1000 Genomes Browser:
rs587777450
Molecular consequence:
  • NM_001378183.1:c.8396G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_022068.4:c.8057G>A - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Name:
Gordon syndrome (DA3)
Synonyms:
ARTHROGRYPOSIS MULTIPLEX CONGENITA, DISTAL, TYPE IIA; Arthrogryposis distal type 3; Arthrogryposis multiplex congenita distal type 2a; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0007252; MedGen: C0220666; Orphanet: 376; OMIM: 114300

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000168930OMIM
no assertion criteria provided
Pathogenic
(May 1, 2014)
germlineliterature only

PubMed (4)
[See all records that cite these PMIDs]

SCV000281716University of Washington Center for Mendelian Genomics, University of Washington
no assertion criteria provided
Pathogenic
(Jun 4, 2014)
de novoresearch

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

SCV0020122693billion
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Oct 2, 2021)
germlineclinical testing

PubMed (3)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedde novoyesnot providednot providednot providednot providednot providedresearch
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only
not providedgermlineyes1not providednot provided1not providedclinical testing

Citations

PubMed

A family with distal arthrogryposis and cleft palate: possible overlap between Gordon syndrome and Aase-Smith syndrome.

Becker K, Splitt M.

Clin Dysmorphol. 2001 Jan;10(1):41-5.

PubMed [citation]
PMID:
11152147

Arthrogryposis, ophthalmoplegia, and retinopathy: confirmation of a new type of arthrogryposis.

Schrander-Stumpel CT, Höweler CJ, Reekers AD, De Smet NM, Hall JG, Fryns JP.

J Med Genet. 1993 Jan;30(1):78-80. Review.

PubMed [citation]
PMID:
8423615
PMCID:
PMC1016242
See all PubMed Citations (5)

Details of each submission

From OMIM, SCV000168930.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (4)

Description

In affected individuals from 9 families with distal arthrogryposis type 3 (DA3; 114300), including the family originally reported by Becker and Splitt (2001), McMillin et al. (2014) identified heterozygosity for a c.8057G-A transition in exon 52 of the PIEZO2 gene, resulting in an arg2686-to-his (R2686H) substitution. The mutation, which segregated with disease in each family, was not present in the ESP6500 or 1000 Genomes Project databases, or in more than 1,400 chromosomes from internal databases. In addition, 2 probands who had been diagnosed with distal arthrogryposis type 5 (DA5; 108145), 1 of whom was the Dutch patient described by Schrander-Stumpel et al. (1993), were found to be heterozygous for R2686H. Neither proband exhibited the characteristic DA3 feature of cleft palate; however, given the reduced penetrance of cleft palate in DA3, McMillin et al. (2014) suggested that the correct diagnosis in the 2 cases was DA3 rather than DA5. The authors also noted that the presence of cleft palate was significantly associated with R2686H (p less than 0.0001).

In a father and 2 sons with DA3, who also exhibited mild intellectual disability and psychomotor delay, Alisch et al. (2017) identified heterozygosity for the recurrent R2686H mutation.

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

From University of Washington Center for Mendelian Genomics, University of Washington, SCV000281716.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedresearch PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1de novoyesnot providednot providednot providednot providednot providednot providednot provided

From 3billion, SCV002012269.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testing PubMed (3)

Description

Same nucleotide change resulting in same amino acid change has been previously reported as de novoo and observed in at least four similarly affected unrelated individuals ((ClinVar ID: VCV000137629.13, PMID:, 24726473 and 27714920, PS2 and PS4). It is not observed in the gnomAD v2.1.1 dataset (PM2). A different missense change at the same codon (p.Arg2686Cys) has been reported as pathogenic/likely pathogenic with strong evidence (ClinVar ID: VCV000137630.1, PMID: 24726473, PM5). The variant was observed as assumed (i.e. paternity and maternity not confirmed) de novoo (3billion dataset, PM6). In silico tool predictions suggest damaging effect of the variant on gene or gene product (REVEL: 0.967, 3Cnet: 0.865, PP3). Therefore, this variant is classified as pathogenic according to the recommendation of ACMG/AMP guideline.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyes1not providednot provided1not providednot providednot provided

Last Updated: Oct 20, 2024