NM_005004.4:c.445G>A
Variant summary
Our verdict is Benign. Variant got -18 ACMG points: 2P and 20B. PM1BP4_StrongBP6_Very_StrongBS1BS2
The NM_005004.4(NDUFB8):c.445G>A(p.Val149Met) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000543 in 1,608,702 control chromosomes in the GnomAD database, including 8 homozygotes. In-silico tool predicts a benign outcome for this variant. 14/19 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★★).
Frequency
Consequence
NM_005004.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -18 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
NDUFB8 | NM_005004.4 | c.445G>A | p.Val149Met | missense_variant | Exon 4 of 5 | ENST00000299166.9 | NP_004995.1 | |
NDUFB8 | NM_001284367.2 | c.445G>A | p.Val149Met | missense_variant | Exon 4 of 5 | NP_001271296.1 | ||
NDUFB8 | NM_001284368.1 | c.352G>A | p.Val118Met | 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.445G>A | p.Val149Met | missense_variant | Exon 4 of 5 | 1 | NM_005004.4 | ENSP00000299166.4 | ||
ENSG00000255339 | ENST00000557395.5 | n.445G>A | non_coding_transcript_exon_variant | Exon 4 of 10 | 2 | ENSP00000456832.1 |
Frequencies
GnomAD3 genomes AF: 0.000867 AC: 132AN: 152184Hom.: 3 Cov.: 32
GnomAD3 exomes AF: 0.00181 AC: 445AN: 246084Hom.: 3 AF XY: 0.00161 AC XY: 214AN XY: 133326
GnomAD4 exome AF: 0.000509 AC: 742AN: 1456400Hom.: 5 Cov.: 30 AF XY: 0.000476 AC XY: 345AN XY: 724712
GnomAD4 genome AF: 0.000867 AC: 132AN: 152302Hom.: 3 Cov.: 32 AF XY: 0.000927 AC XY: 69AN XY: 74466
ClinVar
Submissions by phenotype
not provided Benign:2
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NDUFB8-related disorder Benign:1
This variant is classified as benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications). -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at