rs121908113
Variant summary
Our verdict is Likely pathogenic. Variant got 8 ACMG points: 8P and 0B. PM1PM2PM5PP3_Moderate
The ENST00000220822.12(GDAP1):c.652C>G(p.Gln218Glu) variant causes a missense change involving the alteration of a conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Conflicting classifications of pathogenicity (no stars). Another variant affecting the same amino acid position, but resulting in a different missense (i.e. Q218P) has been classified as Uncertain significance.
Frequency
Consequence
ENST00000220822.12 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_pathogenic. Variant got 8 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
GDAP1 | NM_018972.4 | c.652C>G | p.Gln218Glu | missense_variant | 5/6 | ENST00000220822.12 | NP_061845.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
GDAP1 | ENST00000220822.12 | c.652C>G | p.Gln218Glu | missense_variant | 5/6 | 1 | NM_018972.4 | ENSP00000220822 | P3 |
Frequencies
GnomAD3 genomes Cov.: 29
GnomAD4 exome Cov.: 27
GnomAD4 genome Cov.: 29
ClinVar
Submissions by phenotype
Charcot-Marie-Tooth disease axonal type 2K Pathogenic:1
Pathogenic, no assertion criteria provided | literature only | OMIM | Jan 01, 2008 | - - |
Charcot-Marie-Tooth disease type 4A Uncertain:1
Uncertain significance, no assertion criteria provided | literature only | Inherited Neuropathy Consortium Ii, University Of Miami | Jan 06, 2016 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at