ClinVar Miner

Submissions for variant NM_016239.4(MYO15A):c.7654+1G>C

gnomAD frequency: 0.00001  dbSNP: rs1338603862
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV001837648 SCV002098211 pathogenic not provided 2022-02-15 criteria provided, single submitter clinical testing Canonical splice site variant predicted to result in a null allele in a gene for which loss-of-function is a known mechanism of disease; Not observed at significant frequency in large population cohorts (gnomAD); Has not been previously published as pathogenic or benign to our knowledge
Invitae RCV001837648 SCV004612611 likely pathogenic not provided 2023-02-01 criteria provided, single submitter clinical testing This sequence change affects a donor splice site in intron 39 of the MYO15A gene. It is expected to disrupt RNA splicing. Variants that disrupt the donor or acceptor splice site typically lead to a loss of protein function (PMID: 16199547), and loss-of-function variants in MYO15A are known to be pathogenic (PMID: 17546645). This variant is present in population databases (no rsID available, gnomAD 0.002%). 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. Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may disrupt the consensus splice site. ClinVar contains an entry for this variant (Variation ID: 1342058). This variant has not been reported in the literature in individuals affected with MYO15A-related conditions.

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