ClinVar Miner

Submissions for variant NM_001040142.2(SCN2A):c.3G>A (p.Met1Ile)

Minimum review status: Collection method:
Minimum conflict level:
ClinVar version:
Total submissions: 1
Download table as spreadsheet
Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Labcorp Genetics (formerly Invitae), Labcorp RCV005226271 SCV005864527 pathogenic Seizures, benign familial infantile, 3; Developmental and epileptic encephalopathy, 11 2025-01-08 criteria provided, single submitter clinical testing This sequence change affects the initiator methionine of the SCN2A mRNA. The next in-frame methionine is located at codon 73. This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with SCN2A-related conditions. Algorithms developed to predict the effect of sequence changes on RNA splicing suggest that this variant may disrupt the consensus splice site. This variant disrupts a region of the SCN2A protein in which other variant(s) (p.Arg28His) have been determined to be pathogenic (PMID: 36801247; internal data). This suggests that this is a clinically significant region of the protein, and that variants that disrupt it are likely to be disease-causing. For these reasons, this variant has been classified as Pathogenic.

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.