Total submissions: 9
Submitter | RCV | SCV | Clinical significance | Condition | Last evaluated | Review status | Method | Comment |
---|---|---|---|---|---|---|---|---|
Labcorp Genetics |
RCV002512869 | SCV000287820 | pathogenic | Carney-Stratakis syndrome; Pheochromocytoma; Paragangliomas with sensorineural hearing loss; Cowden syndrome 3 | 2024-04-09 | criteria provided, single submitter | clinical testing | This sequence change replaces aspartic acid, which is acidic and polar, with tyrosine, which is neutral and polar, at codon 92 of the SDHD protein (p.Asp92Tyr). RNA analysis indicates that this missense change induces altered splicing and likely disrupts the C-terminus of the protein. This variant is not present in population databases (gnomAD no frequency). This missense change has been observed in individual(s) with paraganglioma and pheochromocytoma (PMID: 19584903, 21348866). It is commonly reported in individuals of Dutch ancestry (PMID: 19584903, 21348866). ClinVar contains an entry for this variant (Variation ID: 6897). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) has been performed at Invitae for this missense variant, however the output from this modeling did not meet the statistical confidence thresholds required to predict the impact of this variant on SDHD protein function. Experimental studies have shown that this missense change affects SDHD function (PMID: 26008905). Studies have shown that this missense change results in skipping of exon 3 and introduces a new termination codon (Invitae). However the mRNA is not expected to undergo nonsense-mediated decay. For these reasons, this variant has been classified as Pathogenic. |
Ambry Genetics | RCV000567104 | SCV000664566 | pathogenic | Hereditary cancer-predisposing syndrome | 2022-05-13 | criteria provided, single submitter | clinical testing | The p.D92Y variant (also known as c.274G>T), located in coding exon 3 of the SDHD gene, results from a G to T substitution at nucleotide position 274. The aspartic acid at codon 92 is replaced by tyrosine, an amino acid with highly dissimilar properties. This alteration has been detected in multiple individuals with paragangliomas and is noted to be a founder mutation in the Dutch population (Taschner PE et al. Genes Chromosomes Cancer, 2001 Jul;31:274-81; Bayley JP et al. BMC Med. Genet., 2014 Oct;15:111; Hensen EF et al. Eur. J. Hum. Genet., 2010 Jan;18:62-6; Hensen EF et al. Clin. Genet., 2012 Mar;81:284-8; Baysal BE et al. Science, 2000 Feb;287:848-51; van Schothorst EM et al. Am. J. Hum. Genet., 1998 Aug;63:468-73). In addition, this alteration has been shown to strongly segregate with paragangliomas in a large multi-generational family (Hensen EF et al. Eur. J. Hum. Genet., 2010 Jan;18:62-6). This amino acid position is completely conserved in available vertebrate species. In addition, this alteration is predicted to be deleterious by in silico analysis. Based on the supporting evidence, this alteration is interpreted as a disease-causing mutation. |
Revvity Omics, |
RCV001701480 | SCV002019158 | likely pathogenic | not provided | 2020-09-09 | criteria provided, single submitter | clinical testing | |
MGZ Medical Genetics Center | RCV002288471 | SCV002581638 | pathogenic | Paragangliomas 4 | 2022-01-17 | criteria provided, single submitter | clinical testing | |
Department of Clinical Genetics, |
RCV000020520 | SCV005689606 | pathogenic | Hereditary pheochromocytoma-paraganglioma | 2025-01-24 | criteria provided, single submitter | clinical testing | The following ACMG criteria have been used in classification: PM2_SUP; PS4; PP1; PP3; PS3 |
OMIM | RCV000007305 | SCV000027502 | pathogenic | Paragangliomas 1 | 2012-03-01 | no assertion criteria provided | literature only | |
Gene |
RCV000020520 | SCV000040977 | not provided | Hereditary pheochromocytoma-paraganglioma | no assertion provided | literature only | ||
Genome Diagnostics Laboratory, |
RCV001701480 | SCV001929698 | pathogenic | not provided | no assertion criteria provided | clinical testing | ||
Joint Genome Diagnostic Labs from Nijmegen and Maastricht, |
RCV001701480 | SCV001951954 | pathogenic | not provided | no assertion criteria provided | clinical testing |