The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Despite there being a valid 'cspec' property in the messages there's a discrepancy in message contents and CSPEC data: * Message Gene: MT-TK CSPEC Genes: [] * Message MONDOs: MONDO:0044970 CSPEC MONDO: []
  • No CSPEC computed assertion could be determined for this classification!


Variant: NC_012920.1(MT-TK):m.8342G>A

CA120556

9582 (ClinVar)

Gene: MT-TK
Condition: mitochondrial disease
Inheritance Mode: Mitochondrial inheritance
UUID: 3c7177ea-fdb9-4519-bf42-32453870526a
Approved on: 2023-07-24
Published on: 2025-06-03

HGVS expressions

NC_012920.1:m.8342G>A
J01415.2:m.8342G>A

Uncertain Significance

Met criteria codes 2
PP3 PM2_Supporting
Not Met criteria codes 4
PS2 PS4 PP1 PM6

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specification: ClinGen Mitochondrial Disease Nuclear and Mitochondrial Expert Panel Specifications to the ACMG/AMP Variant Interpretation Guidelines Version 1_mtDNA

Criteria Specification Approval History
Criteria Specifications for this VCEP
Evidence submitted by expert panel
Mitochondrial Diseases VCEP
The m.8342G>A variant in MT-TK has been reported in one individual with primary mitochondrial disease to date (PMID: 10220860), in a woman with ophthalmoplegia, ptosis, fatigue, muscle weakness, resting tremor, and myoclonic jerks. Muscle biopsy showed COX-negative fibers and decreased electron transport chain enzyme activities. The variant was present at 80% heteroplasmy in muscle and was undetectable in blood lymphocytes. The variant was also undetectable in blood lymphocytes from her asymptomatic mother, maternal aunt, and daughter. As the variant was also undetectable in this tissue in the proband, this cannot be considered a confirmed de novo occurrence. Single fiber testing in the proband showed higher levels of the variant in COX negative fibers (74%, n=26) than in COX positive fibers (53%, n=28), p<0.0003 (PS3_supporting, PMID: 10220860). There are no cybrids or other functional analyses reported for this variant. There is one additional reported individual with the variant in the medical literature, however the heteroplasmy levels are too low (3-4%) to be causative of the clinical features noted (febrile infection-related epilepsy syndrome, or FIRES; PMID: 37077567). This variant is absent in the MITOMAP GenBank dataset and gnomAD v3.1.2, and there is one heteroplasmic occurrence in the Helix dataset (PM2_supporting). The computational predictor MitoTIP suggests this variant is pathogenic (77.2 percentile) and HmtVAR predicts it to be pathogenic score of 0.65 (PP3). In summary, this variant meets criteria to be classified as uncertain significance for primary mitochondrial disease inherited in a mitochondrial manner. This classification was approved by the NICHD/NINDS U24 ClinGen Mitochondrial Disease Variant Curation Expert Panel on July 24, 2023. Mitochondrial DNA-specific ACMG/AMP criteria applied (PMID: 32906214): PS3_supporting, PM2_supporting, PP3.
Met criteria codes
PP3
The computational predictor MitoTIP suggests this variant is pathogenic (77.2 percentile) and HmtVAR predicts it to be pathogenic score of 0.65 (PP3).
PM2_Supporting
This variant is absent in the MITOMAP GenBank dataset and gnomAD v3.1.2, and there is one heteroplasmic occurrence in the Helix dataset (PM2_supporting).
Not Met criteria codes
PS2
The variant was also undetectable in blood lymphocytes from her asymptomatic mother, maternal aunt, and daughter. The variant was also undetectable in the proband's blood.
PS4
The m.8342G>A variant in MT-TK has been reported in one individual with primary mitochondrial disease to date (PMID: 10220860), in a woman with ophthalmoplegia, ptosis, fatigue, muscle weakness, resting tremor, and myoclonic jerks. Muscle biopsy showed COX-negative fibers and decreased electron transport chain enzyme activities. The variant was present at 80% heteroplasmy in muscle and was undetectable in blood lymphocytes. There is one additional reported individual with the variant in the medical literature, however the heteroplasmy levels are too low (3-4%) to be causative of the clinical features noted (febrile infection-related epilepsy syndrome, or FIRES; PMID: 37077567).
PP1
The variant was also undetectable in blood lymphocytes from her asymptomatic mother, maternal aunt, and daughter.
PM6
The variant was also undetectable in blood lymphocytes from her asymptomatic mother, maternal aunt, and daughter. The variant was also undetectable in the proband's blood.
Curation History
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