ClinVar Miner

Submissions for variant NM_000026.4(ADSL):c.1167G>A (p.Met389Ile)

gnomAD frequency: 0.00001  dbSNP: rs766782678
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV000412930 SCV000492310 uncertain significance not specified 2016-12-05 criteria provided, single submitter clinical testing A variant of uncertain significance has been identified in the ADSL gene. The M389I variant has not been published as a pathogenic variant, nor has it been reported as a benign variant to our knowledge. The M389I variant is not observed at a significant frequency in large population cohorts (Lek et al., 2016; 1000 Genomes Consortium et al., 2015; Exome Variant Server). The M389I variant is a conservative amino acid substitution, which is not likely to impact secondary protein structure as these residues share similar properties. This substitution occurs at a position where amino acids with similar properties to Methionine are tolerated across species. However, in silico analysis predicts this variant is probably damaging to the protein structure/function. Therefore, based on the currently available information, it is unclear whether this variant is a pathogenic variant or a rare benign variant.
Invitae RCV001351733 SCV001546227 uncertain significance Adenylosuccinate lyase deficiency 2022-08-31 criteria provided, single submitter clinical testing This sequence change replaces methionine, which is neutral and non-polar, with isoleucine, which is neutral and non-polar, at codon 389 of the ADSL protein (p.Met389Ile). This variant is present in population databases (rs766782678, gnomAD 0.006%). This variant has not been reported in the literature in individuals affected with ADSL-related conditions. ClinVar contains an entry for this variant (Variation ID: 373693). Algorithms developed to predict the effect of missense changes on protein structure and function are either unavailable or do not agree on the potential impact of this missense change (SIFT: "Deleterious"; PolyPhen-2: "Benign"; Align-GVGD: "Class C0"). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may create or strengthen a splice site. 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.

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