GenTIGSA Gene Database on Rare Genetic Disorders

Variants in ClinVar from 539 of 916 Rare Genetic Disorders of GenTIGS

Lynch syndrome

An  Autosomal dominant  mode(s) within the Cancer disorders  category

Conflicting classifications of pathogenicity 2
Likely pathogenic 2
Pathogenic 6
Uncertain significance 1

Variant name Variant type GRCH38 location Germline classification Molecular consequence dbSNP_ID Submitter
NM_000249.4(MLH1):c.454-13A>G Single nucleotide variant Chr3:37008801 Likely pathogenic Intron variant rs267607749
NM_000249.4(MLH1):c.306G>T (p.Glu102Asp) Single nucleotide variant Chr3:37001053 Uncertain significance Missense variant|5 prime UTR variant|intron variant rs63751665 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
.Neuberg Centre For Genomic Medicine, NCGM
NM_000249.4(MLH1):c.2038T>G (p.Cys680Gly) Single nucleotide variant Chr3:37048952 Conflicting classifications of pathogenicity Missense variant|intron variant rs63750809 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
.Neuberg Centre For Genomic Medicine, NCGM
NM_000249.4(MLH1):c.2038T>C (p.Cys680Arg) Single nucleotide variant Chr3:37048952 Likely pathogenic Missense variant|intron variant rs63750809
NM_000249.4(MLH1):c.156del (p.Glu53fs) Deletion Chr3:36996656 Pathogenic Frameshift variant|5 prime UTR variant|intron variant rs63750028 .Biotechnology, Institute of Science, Nirma University
.Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
.Neuberg Centre For Genomic Medicine, NCGM
NM_000251.3(MSH2):c.294T>A (p.Tyr98Ter) Single nucleotide variant Chr2:47408483 Pathogenic Nonsense rs763872353 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_000251.3(MSH2):c.274C>G (p.Leu92Val) Single nucleotide variant Chr2:47408463 Conflicting classifications of pathogenicity Missense variant rs587779154 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
NM_000251.3(MSH2):c.1226_1227del (p.Gln409fs) Deletion Chr2:47429891 - 47429892 Pathogenic Frameshift variant rs63750086 .GenePathDx, GenePath diagnostics
NM_000251.3(MSH2):c.1165C>T (p.Arg389Ter) Single nucleotide variant Chr2:47429830 Pathogenic Nonsense rs587779075 .Foundation for Research in Genetics and Endocrinology, FRIGE's Institute of Human Genetics
.Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
.Neuberg Centre For Genomic Medicine, NCGM
NM_000535.7(PMS2):c.1239dup (p.Asp414fs) Duplication Chr7:5987525 - 5987526 Pathogenic Frameshift variant|non-coding transcript variant rs267608159 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India
NM_000535.7(PMS2):c.2404C>T (p.Arg802Ter) Single nucleotide variant Chr7:5977629 Pathogenic Nonsense|non-coding transcript variant rs63751466 .Kasturba Medical College, Manipal, Kasturba Medical College, Manipal, Manipal Academy of Higher Education, Manipal, India

Indian Institutes & Variant Submission Overview
Chromosome-wise Variant Distribution