ClinVar Miner

Submissions for variant NM_000187.4(HGD):c.15+1G>A

dbSNP: rs552207335
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Counsyl RCV000410834 SCV000485893 likely pathogenic Alkaptonuria 2016-02-26 criteria provided, single submitter clinical testing
Invitae RCV000410834 SCV002305623 likely pathogenic Alkaptonuria 2023-10-29 criteria provided, single submitter clinical testing This sequence change affects a donor splice site in intron 1 of the HGD 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 HGD are known to be pathogenic (PMID: 12501223, 19862842). This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with HGD-related conditions. ClinVar contains an entry for this variant (Variation ID: 370545). 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 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.

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