ClinVar Miner

Submissions for variant NM_006432.5(NPC2):c.364-2A>G

dbSNP: rs777654308
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Counsyl RCV000665605 SCV000789755 likely pathogenic Niemann-Pick disease, type C2 2018-05-15 criteria provided, single submitter clinical testing
Labcorp Genetics (formerly Invitae), Labcorp RCV000665605 SCV004694085 likely pathogenic Niemann-Pick disease, type C2 2023-05-07 criteria provided, single submitter clinical testing This sequence change affects an acceptor splice site in intron 3 of the NPC2 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 NPC2 are known to be pathogenic (PMID: 25145893). This variant is present in population databases (rs777654308, gnomAD 0.0009%). 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: 550768). This variant has not been reported in the literature in individuals affected with NPC2-related conditions.

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