ClinVar Miner

Submissions for variant NM_001365999.1(SZT2):c.2824C>T (p.Arg942Trp)

gnomAD frequency: 0.00003  dbSNP: rs773789668
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV002314386 SCV000847882 uncertain significance Inborn genetic diseases 2016-09-20 criteria provided, single submitter clinical testing The p.R942W variant (also known as c.2824C>T), located in coding exon 20 of the SZT2 gene, results from a C to T substitution at nucleotide position 2824. The arginine at codon 942 is replaced by tryptophan, an amino acid with dissimilar properties. This variant was not reported in population based cohorts in the following databases: Database of Single Nucleotide Polymorphisms (dbSNP), NHLBI Exome Sequencing Project (ESP), and 1000 Genomes Project. In the ESP, this variant was not observed in 6503 samples (13006 alleles) with coverage at this position. This amino acid position is well conserved in available vertebrate species. In addition, the in silico prediction for this alteration is inconclusive. Since supporting evidence is limited at this time, the clinical significance of this variant remains unclear.
Invitae RCV002533009 SCV003449099 uncertain significance not provided 2022-02-17 criteria provided, single submitter clinical testing This sequence change replaces arginine, which is basic and polar, with tryptophan, which is neutral and slightly polar, at codon 942 of the SZT2 protein (p.Arg942Trp). This variant is present in population databases (rs773789668, gnomAD 0.01%). This variant has not been reported in the literature in individuals affected with SZT2-related conditions. ClinVar contains an entry for this variant (Variation ID: 588290). Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be disruptive. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.
Genome-Nilou Lab RCV003457757 SCV004180767 uncertain significance Developmental and epileptic encephalopathy, 18 2023-04-11 criteria provided, single submitter clinical testing

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