ClinVar Miner

Submissions for variant NM_015443.4(KANSL1):c.37G>A (p.Ala13Thr)

gnomAD frequency: 0.00001  dbSNP: rs528026295
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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV001711477 SCV000241346 likely benign not provided 2021-02-02 criteria provided, single submitter clinical testing In silico analysis supports that this missense variant does not alter protein structure/function
Labcorp Genetics (formerly Invitae), Labcorp RCV001852462 SCV002254009 uncertain significance Koolen-de Vries syndrome 2021-07-08 criteria provided, single submitter clinical testing Due to the possible presence of a polymorphic segmental duplication, the location of the variant could not be unambiguously resolved. Variants with ambiguous mapping are still reported relative to the KANSL1 transcript. This sequence change replaces alanine with threonine at codon 13 of the KANSL1 protein (p.Ala13Thr). The alanine residue is highly conserved and there is a small physicochemical difference between alanine and threonine. The frequency data for this variant in the population databases (ExAC) is considered unreliable due to the presence of homologous sequence, such as pseudogenes or paralogs, in the genome. This variant has not been reported in the literature in individuals with KANSL1-related conditions. ClinVar contains an entry for this variant (Variation ID: 205761). 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: "Not Available"; Align-GVGD: "Class C55"). Until the location of this sequence change can be resolved, the clinical significance of this variant remains uncertain. It has been classified as a Variant of Uncertain Significance.
Fulgent Genetics, Fulgent Genetics RCV001852462 SCV005644182 uncertain significance Koolen-de Vries syndrome 2024-06-20 criteria provided, single submitter clinical testing

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