ClinVar Miner

Submissions for variant NM_032444.4(SLX4):c.709C>T (p.Arg237Trp)

gnomAD frequency: 0.00003  dbSNP: rs199912910
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Invitae RCV001068121 SCV001233211 uncertain significance Fanconi anemia 2021-08-20 criteria provided, single submitter clinical testing This sequence change replaces arginine with tryptophan at codon 237 of the SLX4 protein (p.Arg237Trp). The arginine residue is weakly conserved and there is a moderate physicochemical difference between arginine and tryptophan. This variant is present in population databases (rs199912910, ExAC 0.09%). 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: "Benign"; 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 RCV001120031 SCV001278493 uncertain significance Fanconi anemia complementation group P 2018-01-12 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.
Fulgent Genetics, Fulgent Genetics RCV001120031 SCV002783235 uncertain significance Fanconi anemia complementation group P 2022-03-28 criteria provided, single submitter clinical testing
Ambry Genetics RCV004030663 SCV004953303 uncertain significance Inborn genetic diseases 2024-01-23 criteria provided, single submitter clinical testing The c.709C>T (p.R237W) alteration is located in exon 3 (coding exon 2) of the SLX4 gene. This alteration results from a C to T substitution at nucleotide position 709, causing the arginine (R) at amino acid position 237 to be replaced by a tryptophan (W). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.

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