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NM_000249.3(MLH1):c.-33T>G AND MLH1-related disorder

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Dec 26, 2023
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV003891797.1

Allele description [Variation Report for NM_000249.3(MLH1):c.-33T>G]

NM_000249.3(MLH1):c.-33T>G

Gene:
MLH1:mutL homolog 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
3p22.2
Genomic location:
Preferred name:
NM_000249.3(MLH1):c.-33T>G
HGVS:
  • NC_000003.12:g.36993515T>G
  • NG_007109.2:g.5166T>G
  • NG_008418.1:g.4790A>C
  • NG_099042.2:g.44T>G
  • NM_000249.3:c.-33T>G
  • NM_001167617.2:c.-549T>G
  • NM_001167618.2:c.-978T>G
  • NM_001167619.2:c.-891T>G
  • NM_001258271.1:c.-33T>G
  • NM_001258273.1:c.-665T>G
  • NM_001258274.2:c.-1128T>G
  • NM_001354615.1:c.-659T>G
  • NM_001354616.1:c.-659T>G
  • NM_001354617.1:c.-751T>G
  • NM_001354618.1:c.-983T>G
  • NM_001354619.1:c.-1107T>G
  • NM_001354620.1:c.-317T>G
  • NM_001354621.1:c.-1076T>G
  • NM_001354622.1:c.-1189T>G
  • NM_001354623.1:c.-1098T>G
  • NM_001354624.1:c.-859T>G
  • NM_001354625.1:c.-757T>G
  • NM_001354626.1:c.-854T>G
  • NM_001354627.1:c.-1086T>G
  • NM_001354628.1:c.-33T>G
  • NM_001354629.1:c.-33T>G
  • NM_001354630.1:c.-33T>G
  • LRG_216t1:c.-33T>G
  • LRG_216:g.5166T>G
  • NC_000003.11:g.37035006T>G
Links:
dbSNP: rs201247839
NCBI 1000 Genomes Browser:
rs201247839

Condition(s)

Name:
MLH1-related disorder
Synonyms:
MLH1-related condition
Identifiers:

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000805936PreventionGenetics, part of Exact Sciences
criteria provided, single submitter

(ACMG Guidelines, 2015)		Uncertain significance
(Dec 26, 2023) 		germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From PreventionGenetics, part of Exact Sciences, SCV000805936.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

The MLH1 c.-33T>G variant is located in the 5' untranslated region. This variant has been reported as a variant of uncertain significance in a patient with Lynch syndrome in a screen for causal MLH1 promoter and cis regulatory elements (Morak et al. 2018. PubMed ID: 29472279). This variant is reported in 0.010% of alleles in individuals of East Asian descent in gnomAD, which may be too common to be a primary cause of disease. In ClinVar, it is interpreted as uncertain and likely benign (https://www.ncbi.nlm.nih.gov/clinvar/variation/234367/). Although we suspect that this variant may be benign, at this time, the clinical significance of this variant is uncertain due to the absence of conclusive functional and genetic evidence.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Sep 16, 2024