MECP2 p.Pro414fs

The p.Pro402LeufsTer3 variant in MECP2 (NM_004992.4) is predicted to cause a premature stop codon that leads to a truncated or absent protein in a gene where loss-of-function is an established mechanism. There is significant evidence that loss of this region of the gene is pathogenic (PVS1). The p.Pro402LeufsTer3 variant in MECP2 is absent from gnomAD v4.1.0 (PM2_Supporting). The p.Pro402LeufsTer3 variant in MECP2 has been reported as a de novo occurrence (biological parentage confirmed) in an individual with non-specific neurodevelopmental symptoms and other features that are not typical of Rett syndrome (internal database - CeGaT Center for Human Genetics Tuebingen) (PS2 not applied). The p.Pro402LeufsTer3 has also been observed in an individual with Rett syndrome; however, this individual was also found to have a second truncating variant in MECP2 (p.Arg255*), phase unknown, that is upstream of the p.Pro402LeufsTer3 variant (PMID: 30081849). The p.Pro402LeufsTer3 variant has been observed in the hemizygous state in an individual with a neurodevelopmental disorder, and was found to be inherited from the unaffected mother (internal database - PreventionGenetics) (BS2_Supporting). The p.Pro402LeufsTer3 variant is found in a patient with an alternate molecular basis of disease (internal database - Centre de Biologie Pathologie Génétique) (BP5). In summary, the p.Pro402LeufsTer3 variant in MECP2 is classified as a variant of uncertain significance based on the ACMG/AMP criteria (PVS1, PM2_supporting, BS2_Supporting, BP5). (MECP2 Specifications v5.0; curation approved on 10/28/2025)