Submissions for variant NM_000048.4(ASL):c.1135C>G (p.Arg379Gly)

Total submissions: 3

Submitter	RCV	SCV	Clinical significance	Condition	Last evaluated	Review status	Method	Comment
Labcorp Genetics (formerly Invitae), Labcorp	RCV002624490	SCV003516757	likely pathogenic	Argininosuccinate lyase deficiency	2024-12-05	criteria provided, single submitter	clinical testing	This sequence change replaces arginine, which is basic and polar, with glycine, which is neutral and non-polar, at codon 379 of the ASL protein (p.Arg379Gly). This variant is present in population databases (rs28940287, gnomAD 0.0009%). This missense change has been observed in individual(s) with clinical features consistent with argininosuccinate lyase deficiency (PMID: 31130284). This variant is also known as c.1075C>G; p.Arg359Gly. ClinVar contains an entry for this variant (Variation ID: 2196834). Invitae Evidence Modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) indicates that this missense variant is expected to disrupt ASL protein function with a positive predictive value of 80%. This variant disrupts the p.Arg379 amino acid residue in ASL. Other variant(s) that disrupt this residue have been determined to be pathogenic (PMID: 12408190, 20236848, 21667091, 25778938, 27515243). This suggests that this residue is clinically significant, and that variants that disrupt this residue are likely to be disease-causing. In summary, the currently available evidence indicates that the variant is pathogenic, but additional data are needed to prove that conclusively. Therefore, this variant has been classified as Likely Pathogenic.
Genomic Medicine Center of Excellence, King Faisal Specialist Hospital and Research Centre	RCV002624490	SCV004805066	likely pathogenic	Argininosuccinate lyase deficiency	2024-03-17	criteria provided, single submitter	research
Fulgent Genetics, Fulgent Genetics	RCV002624490	SCV005667429	likely pathogenic	Argininosuccinate lyase deficiency	2024-03-13	criteria provided, single submitter	clinical testing