ClinVar Miner

Submissions for variant NM_000222.3(KIT):c.1540+3A>G

dbSNP: rs2109769927
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV001976811 SCV002263282 uncertain significance Gastrointestinal stromal tumor 2023-10-08 criteria provided, single submitter clinical testing This sequence change falls in intron 9 of the KIT gene. It does not directly change the encoded amino acid sequence of the KIT protein. It affects a nucleotide within the consensus splice site. This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with KIT-related conditions. ClinVar contains an entry for this variant (Variation ID: 1479515). Variants that disrupt the consensus splice site are a relatively common cause of aberrant splicing (PMID: 17576681, 9536098). Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may disrupt the consensus 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.
Baylor Genetics RCV001976811 SCV004190377 uncertain significance Gastrointestinal stromal tumor 2023-06-23 criteria provided, single submitter clinical testing

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