The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • There was no gene found in the curated document received from the VCI/VCEP
  • Despite there being a valid 'cspec' property in the messages there's a discrepancy in message contents and CSPEC data: * Message Gene: undefined CSPEC Genes: [] * Message MONDOs: MONDO:0044970 CSPEC MONDO: []


Variant: NC_012920.1:m.4983C>T

CA414778366

439962 (ClinVar)

Gene: N/A
Condition: mitochondrial disease (MONDO:0044970)
Inheritance Mode: Mitochondrial inheritance
UUID: ac4a7c00-e4d4-4089-b11e-68f9be1bd311
Approved on: 2024-10-14
Published on: 2024-12-10

HGVS expressions

NC_012920.1:m.4983C>T
J01415.2:m.4983C>T
ENST00000361453.3:c.514C>T

Uncertain Significance

Met criteria codes 2
PVS1_Strong PM2_Supporting
Not Met criteria codes 6
PS2 PS3 PS4 PP1 PP3 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.4983C>T (p.Q172Term) variant in MT-ND2 was reviewed by the Mitochondrial Disease Variant Curation Expert Panel on October 14, 2024. There are no individuals with this variant reported in the medical literature to our knowledge. There is one prior report in ClinVar for this variant, however details are not provided precluding consideration of this case for this curation. As such, there are no reported de novo occurrences or large families to consider for evidence of variant segregation. This variant is absent in the GenBank dataset, Helix dataset, and gnomAD v3.1.2 (PM2_supporting). There are no in silico predictors for this type of variant in mitochondrial DNA. This variant results in a significant truncation of the MT-ND2 protein (PVS1_strong). There are no cybrids, single fiber studies, or other functional assays reported on this variant. 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 October 14, 2024. Mitochondrial DNA-specific ACMG/AMP criteria applied (PMID: 32906214): PVS1_strong, PM2_supporting.
Met criteria codes
PVS1_Strong
The transition at base position m.4983 causes a Q172Term change. This causes a significant truncation > 50% of the ND2 protein (PVS1_strong).
PM2_Supporting
This variant is absent in the GenBank dataset, Helix dataset, and gnomAD v3.1.2 (PM2_supporting).
Not Met criteria codes
PS2
There are no reported de novo occurrences of this variant to our knowledge.
PS3
There are no cybrids, single fiber studies, or other functional assays reported on this variant.
PS4
There are no individuals with this variant reported in the medical literature to our knowledge.
PP1
There are no reports of large families with this variant segregating with disease.
PP3
There are no in silico predictors for this type of variant in mitochondrial DNA.
PM6
There are no reported de novo occurrences of this variant to our knowledge.
Curation History
The information on this website is not intended for direct diagnostic use or medical decision-making without review by a genetics professional. Individuals should not change their health behavior solely on the basis of information contained on this website. If you have questions about the information contained on this website, please see a health care professional.
ClinGen Terms of Use.
¤ Powered by BCM's Genboree.