X-153788090-C-T
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_004135.4(IDH3G):c.392G>A(p.Arg131Gln) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000661 in 1,210,799 control chromosomes in the GnomAD database, with no homozygous occurrence. There are 5 hemizygotes in GnomAD. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_004135.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -4 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0000178 AC: 2AN: 112623Hom.: 0 Cov.: 25 AF XY: 0.0000575 AC XY: 2AN XY: 34781
GnomAD3 exomes AF: 0.00000545 AC: 1AN: 183512Hom.: 0 AF XY: 0.0000147 AC XY: 1AN XY: 67942
GnomAD4 exome AF: 0.00000546 AC: 6AN: 1098176Hom.: 0 Cov.: 32 AF XY: 0.00000825 AC XY: 3AN XY: 363532
GnomAD4 genome AF: 0.0000178 AC: 2AN: 112623Hom.: 0 Cov.: 25 AF XY: 0.0000575 AC XY: 2AN XY: 34781
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.392G>A (p.R131Q) alteration is located in exon 6 (coding exon 6) of the IDH3G gene. This alteration results from a G to A substitution at nucleotide position 392, causing the arginine (R) at amino acid position 131 to be replaced by a glutamine (Q). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at