10-100526413-C-G
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 4P and 4B. PM1PM2BP4_Strong
The NM_005004.4(NDUFB8):āc.454G>Cā(p.Val152Leu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000207 in 1,447,854 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 15/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_005004.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
NDUFB8 | NM_005004.4 | c.454G>C | p.Val152Leu | missense_variant | Exon 4 of 5 | ENST00000299166.9 | NP_004995.1 | |
NDUFB8 | NM_001284367.2 | c.454G>C | p.Val152Leu | missense_variant | Exon 4 of 5 | NP_001271296.1 | ||
NDUFB8 | NM_001284368.1 | c.361G>C | p.Val121Leu | missense_variant | Exon 4 of 5 | NP_001271297.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
NDUFB8 | ENST00000299166.9 | c.454G>C | p.Val152Leu | missense_variant | Exon 4 of 5 | 1 | NM_005004.4 | ENSP00000299166.4 | ||
ENSG00000255339 | ENST00000557395.5 | n.454G>C | non_coding_transcript_exon_variant | Exon 4 of 10 | 2 | ENSP00000456832.1 |
Frequencies
GnomAD3 genomes Cov.: 32
GnomAD3 exomes AF: 0.00000420 AC: 1AN: 238054Hom.: 0 AF XY: 0.00000774 AC XY: 1AN XY: 129260
GnomAD4 exome AF: 0.00000207 AC: 3AN: 1447854Hom.: 0 Cov.: 30 AF XY: 0.00000278 AC XY: 2AN XY: 720488
GnomAD4 genome Cov.: 32
ClinVar
Submissions by phenotype
not provided Uncertain:1
This variant is present in population databases (rs763076321, ExAC 0.002%). This variant has not been reported in the literature in individuals affected with NDUFB8-related conditions. This sequence change replaces valine with leucine at codon 152 of the NDUFB8 protein (p.Val152Leu). The valine residue is weakly conserved and there is a small physicochemical difference between valine and leucine. Algorithms developed to predict the effect of missense changes on protein structure and function (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be tolerated. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at