ClinVar Miner

Submissions for variant NM_032444.4(SLX4):c.1829A>G (p.Gln610Arg)

gnomAD frequency: 0.00019  dbSNP: rs544935776
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Total submissions: 6
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV001048284 SCV001212278 uncertain significance Fanconi anemia 2021-08-27 criteria provided, single submitter clinical testing This sequence change replaces glutamine with arginine at codon 610 of the SLX4 protein (p.Gln610Arg). The glutamine residue is highly conserved and there is a small physicochemical difference between glutamine and arginine. This variant is present in population databases (rs544935776, ExAC 0.06%). This variant has not been reported in the literature in individuals affected with SLX4-related conditions. 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: "Probably Damaging"; Align-GVGD: "Class C0"). 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.
Illumina Laboratory Services, Illumina RCV001118424 SCV001276702 uncertain significance Fanconi anemia complementation group P 2018-01-13 criteria provided, single submitter clinical testing This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score, this variant could not be ruled out of causing disease and therefore its association with disease required further investigation. A literature search was performed for the gene, cDNA change, and amino acid change (if applicable). No publications were found based on this search. This variant was therefore classified as a variant of unknown significance for this disease.
Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden RCV002275216 SCV002010346 uncertain significance not provided 2021-11-03 criteria provided, single submitter clinical testing
Sema4, Sema4 RCV001048284 SCV002529277 uncertain significance Fanconi anemia 2021-09-02 criteria provided, single submitter curation
GeneDx RCV002275216 SCV002562473 uncertain significance not provided 2022-02-14 criteria provided, single submitter clinical testing Reported as a variant of uncertain significance in male breast cancer patients (Rizzolo et al,. 2019); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; This variant is associated with the following publications: (PMID: 30613976)
Fulgent Genetics, Fulgent Genetics RCV001118424 SCV002780585 uncertain significance Fanconi anemia complementation group P 2022-05-27 criteria provided, single submitter clinical testing

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