rs920672041
Variant summary
Our verdict is Uncertain significance. Variant got 5 ACMG points: 5P and 0B. PM1PM2PP3
The NM_001985.3(ETFB):āc.598A>Gā(p.Lys200Glu) variant causes a missense, splice region change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000204 in 1,613,912 control chromosomes in the GnomAD database, including 1 homozygotes. In-silico tool predicts a pathogenic outcome for this variant. 3/3 splice prediction tools predict no significant impact on normal splicing. Variant has been reported in ClinVar as Uncertain significance (ā ā ).
Frequency
Consequence
NM_001985.3 missense, splice_region
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 5 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
ETFB | NM_001985.3 | c.598A>G | p.Lys200Glu | missense_variant, splice_region_variant | 6/6 | ENST00000309244.9 | NP_001976.1 | |
ETFB | NM_001014763.1 | c.871A>G | p.Lys291Glu | missense_variant, splice_region_variant | 5/5 | NP_001014763.1 | ||
ETFB | XM_024451418.2 | c.487A>G | p.Lys163Glu | missense_variant, splice_region_variant | 6/6 | XP_024307186.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
ETFB | ENST00000309244.9 | c.598A>G | p.Lys200Glu | missense_variant, splice_region_variant | 6/6 | 1 | NM_001985.3 | ENSP00000311930.3 | ||
ETFB | ENST00000354232.8 | c.871A>G | p.Lys291Glu | missense_variant, splice_region_variant | 5/5 | 1 | ENSP00000346173.3 | |||
ETFB | ENST00000596253.1 | c.439A>G | p.Lys147Glu | missense_variant, splice_region_variant | 5/5 | 3 | ENSP00000469628.1 | |||
ENSG00000267984 | ENST00000600974.1 | n.78+135T>C | intron_variant | 3 |
Frequencies
GnomAD3 genomes AF: 0.0000394 AC: 6AN: 152120Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000159 AC: 4AN: 251044Hom.: 0 AF XY: 0.0000221 AC XY: 3AN XY: 135718
GnomAD4 exome AF: 0.0000185 AC: 27AN: 1461792Hom.: 1 Cov.: 32 AF XY: 0.0000206 AC XY: 15AN XY: 727196
GnomAD4 genome AF: 0.0000394 AC: 6AN: 152120Hom.: 0 Cov.: 32 AF XY: 0.0000404 AC XY: 3AN XY: 74300
ClinVar
Submissions by phenotype
Multiple acyl-CoA dehydrogenase deficiency Uncertain:2
Uncertain significance, criteria provided, single submitter | clinical testing | Labcorp Genetics (formerly Invitae), Labcorp | Mar 31, 2022 | This sequence change replaces lysine, which is basic and polar, with glutamic acid, which is acidic and polar, at codon 200 of the ETFB protein (p.Lys200Glu). This variant is present in population databases (no rsID available, gnomAD 0.006%). This variant has not been reported in the literature in individuals affected with ETFB-related conditions. ClinVar contains an entry for this variant (Variation ID: 459960). 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 disruptive. 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. - |
Uncertain significance, criteria provided, single submitter | clinical testing | Genomic Research Center, Shahid Beheshti University of Medical Sciences | Aug 07, 2018 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at