ClinVar Miner

Submissions for variant NM_001365999.1(SZT2):c.9286+5G>A (rs367775055)

Minimum review status: Collection method:
Minimum conflict level:
ClinVar version:
Total submissions: 2
Download table as spreadsheet
Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV000485962 SCV000565609 uncertain significance not provided 2018-12-19 criteria provided, single submitter clinical testing The c.9115+5G>A variant in the SZT2 gene has not been reported previously as a pathogenic variant nor as a benign variant, to our knowledge. This variant destroys the splice donor site in intron 65, and is expected to cause abnormal gene splicing. The c.9115+5G>A variant is observed in 39/264188 (0.015%) alleles in large population cohorts (Lek et al., 2016). We interpret c.9115+5G>A as a variant of uncertain significance.
Invitae RCV000485962 SCV000943374 uncertain significance not provided 2018-12-29 criteria provided, single submitter clinical testing This sequence change falls in intron 65 of the SZT2 gene. It does not directly change the encoded amino acid sequence of the SZT2 protein, but it affects a nucleotide within the consensus splice site of the intron. This variant is present in population databases (rs367775055, ExAC 0.01%). This variant has not been reported in the literature in individuals with SZT2-related disease. ClinVar contains an entry for this variant (Variation ID: 418511). Nucleotide substitutions within 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, but this prediction has not been confirmed by published transcriptional studies. 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.

The information on this website is not intended for direct diagnostic use or medical decision-making without review by a genetics professional. Individuals should not change their health behavior solely on the basis of information contained on this website. Neither the University of Utah nor the National Institutes of Health independently verfies the submitted information. If you have questions about the information contained on this website, please see a health care professional.