ClinVar Miner

Submissions for variant NM_000249.4(MLH1):c.1668-1G>T

dbSNP: rs267607845
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Total submissions: 4
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
International Society for Gastrointestinal Hereditary Tumours (InSiGHT) RCV000075301 SCV000106297 likely pathogenic Lynch syndrome 2019-06-21 reviewed by expert panel curation Interrupts canonical donor splice site
Invitae RCV001854292 SCV002243666 pathogenic Hereditary nonpolyposis colorectal neoplasms 2022-08-23 criteria provided, single submitter clinical testing Disruption of this splice site has been observed in individual(s) with clinical features of Lynch syndrome (PMID: 15342696, 17095871, 19267393, 25110875, 27601186, 28449805, 29909963, 31054147). For these reasons, this variant has been classified as Pathogenic. Studies have shown that disruption of this splice site results in skipping of exon 15 and introduces a premature termination codon (19267393, Invitae). The resulting mRNA is expected to undergo nonsense-mediated decay. ClinVar contains an entry for this variant (Variation ID: 89827). This variant is not present in population databases (gnomAD no frequency). This sequence change affects an acceptor splice site in intron 14 of the MLH1 gene. RNA analysis indicates that disruption of this splice site induces altered splicing and may result in an absent or disrupted protein product.
Myriad Genetics, Inc. RCV003451049 SCV004190026 pathogenic Colorectal cancer, hereditary nonpolyposis, type 2 2023-07-21 criteria provided, single submitter clinical testing This variant is considered pathogenic. This variant occurs within a consensus splice junction and is predicted to result in abnormal mRNA splicing of either an out-of-frame exon or an in-frame exon necessary for protein stability and/or normal function. This variant is strongly associated with more severe personal and family histories of cancer, typical for individuals with pathogenic variants in this gene [PMID: 27363726].
Human Genome Sequencing Center Clinical Lab, Baylor College of Medicine RCV000075301 SCV005045725 likely pathogenic Lynch syndrome 2023-11-02 criteria provided, single submitter clinical testing

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