Total submissions: 4
| Submitter | RCV | SCV | Clinical significance | Condition | Last evaluated | Review status | Method | Comment |
|---|---|---|---|---|---|---|---|---|
| Labcorp Genetics |
RCV001887805 | SCV002122608 | pathogenic | not provided | 2025-01-14 | criteria provided, single submitter | clinical testing | This sequence change creates a premature translational stop signal (p.Ser227Ilefs*33) in the LZTR1 gene. It is expected to result in an absent or disrupted protein product. Loss-of-function variants in LZTR1 are known to be pathogenic (PMID: 24362817, 25335493, 25480913, 25795793, 29469822, 30368668, 30442762, 30442766, 30481304, 30859559). This variant is present in population databases (rs777054968, gnomAD 0.006%). This variant has not been reported in the literature in individuals affected with LZTR1-related conditions. ClinVar contains an entry for this variant (Variation ID: 1354445). For these reasons, this variant has been classified as Pathogenic. |
| Ambry Genetics | RCV002361096 | SCV002662431 | pathogenic | Hereditary cancer-predisposing syndrome; Cardiovascular phenotype | 2022-01-18 | criteria provided, single submitter | clinical testing | The c.677dupC variant, located in coding exon 8 of the LZTR1 gene, results from a duplication of C at nucleotide position 677, causing a translational frameshift with a predicted alternate stop codon (p.S227Ifs*33). This alteration is expected to result in loss of function by premature protein truncation or nonsense-mediated mRNA decay. Loss-of-function variants in LZTR1 are related to an increased risk for schwannomas and autosomal recessive Noonan syndrome; however, such associations with autosomal dominant Noonan syndrome have not been observed (Piotrowski A et al. Nat Genet. 2014 Feb;46:182-7; Yamamoto GL et al. J Med Genet. 2015 Jun;52:413-21; Johnston JJ et al. Genet Med. 2018 10;20:1175-1185). Based on the supporting evidence, this variant is pathogenic for an increased risk of LZTR1-related schwannomatosis (SWN) and would be expected to cause autosomal recessive Noonan syndrome when present along with a second pathogenic or likely pathogenic variant on the other allele; however, the association of this alteration with autosomal dominant Noonan syndrome is unlikely. |
| Revvity Omics, |
RCV001887805 | SCV003833574 | likely pathogenic | not provided | 2022-02-03 | criteria provided, single submitter | clinical testing | |
| Baylor Genetics | RCV004571432 | SCV005060661 | likely pathogenic | LZTR1-related schwannomatosis | 2024-01-20 | criteria provided, single submitter | clinical testing |