12-25204207-T-G
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_001001660.3(ETFRF1):āc.168T>Gā(p.Ile56Met) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000477 in 1,613,098 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_001001660.3 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 |
---|---|---|---|---|---|---|---|---|
ETFRF1 | NM_001001660.3 | c.168T>G | p.Ile56Met | missense_variant | Exon 3 of 3 | ENST00000381356.9 | NP_001001660.2 | |
ETFRF1 | XM_005253319.5 | c.168T>G | p.Ile56Met | missense_variant | Exon 3 of 3 | XP_005253376.1 | ||
ETFRF1 | XM_005253320.5 | c.168T>G | p.Ile56Met | missense_variant | Exon 4 of 4 | XP_005253377.1 | ||
ETFRF1 | XM_017018850.3 | c.168T>G | p.Ile56Met | missense_variant | Exon 3 of 3 | XP_016874339.1 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.000191 AC: 29AN: 152226Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000604 AC: 15AN: 248326Hom.: 0 AF XY: 0.0000297 AC XY: 4AN XY: 134710
GnomAD4 exome AF: 0.0000329 AC: 48AN: 1460754Hom.: 0 Cov.: 31 AF XY: 0.0000289 AC XY: 21AN XY: 726610
GnomAD4 genome AF: 0.000190 AC: 29AN: 152344Hom.: 0 Cov.: 32 AF XY: 0.000161 AC XY: 12AN XY: 74488
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.168T>G (p.I56M) alteration is located in exon 3 (coding exon 2) of the ETFRF1 gene. This alteration results from a T to G substitution at nucleotide position 168, causing the isoleucine (I) at amino acid position 56 to be replaced by a methionine (M). 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