ClinVar Miner

Submissions for variant NM_000540.3(RYR1):c.3389G>A (p.Arg1130His)

gnomAD frequency: 0.00006  dbSNP: rs371498385
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Total submissions: 5
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
PreventionGenetics, part of Exact Sciences RCV000721493 SCV000852569 uncertain significance not provided 2015-08-05 criteria provided, single submitter clinical testing
Invitae RCV000796409 SCV000935921 uncertain significance RYR1-related disorder 2022-10-01 criteria provided, single submitter clinical testing This sequence change replaces arginine, which is basic and polar, with histidine, which is basic and polar, at codon 1130 of the RYR1 protein (p.Arg1130His). This variant is present in population databases (rs371498385, gnomAD 0.02%). This missense change has been observed in individual(s) with clinical features of congenital myopathy (Invitae). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. ClinVar contains an entry for this variant (Variation ID: 590513). 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 RYR1 protein function. 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.
Fulgent Genetics, Fulgent Genetics RCV002499326 SCV002816740 uncertain significance Central core myopathy; Malignant hyperthermia, susceptibility to, 1; Congenital multicore myopathy with external ophthalmoplegia; Congenital myopathy with fiber type disproportion; King Denborough syndrome 2021-09-14 criteria provided, single submitter clinical testing
GeneDx RCV000721493 SCV003836853 uncertain significance not provided 2022-08-29 criteria provided, single submitter clinical testing In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; Has not been previously published as pathogenic or benign to our knowledge
Neuberg Centre For Genomic Medicine, NCGM RCV003338767 SCV004047095 uncertain significance Central core myopathy criteria provided, single submitter clinical testing The missense variant c.3389G>A (p.Arg1130His) in RYR1 gene has not been reported previously as a pathogenic variant nor as a benign variant, to our knowledge. This variant has been reported to the ClinVar database as Uncertain Significance. The p.Arg1130His variant is novel (not in any individuals) in 1000 Genomes and allele frequency of 0.005660% is reported in gnomAD. The amino acid Arg at position 1130 is changed to a His changing protein sequence and it might alter its composition and physico-chemical properties. The amino acid change p.Arg1130His in RYR1 is predicted as conserved by GERP++ and PhyloP across 100 vertebrates. For these reasons, this variant has been classified as Uncertain Significance .

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