4-99216223-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_001102470.2(ADH6):c.58G>A(p.Ala20Thr) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000126 in 1,583,326 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 15/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001102470.2 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/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
ADH6 | NM_001102470.2 | c.58G>A | p.Ala20Thr | missense_variant | 2/9 | ENST00000394899.6 | NP_001095940.1 | |
ADH6 | NM_000672.4 | c.58G>A | p.Ala20Thr | missense_variant | 2/8 | NP_000663.1 | ||
ADH6 | NR_132990.2 | n.152G>A | non_coding_transcript_exon_variant | 2/7 | ||||
LOC100507053 | NR_037884.1 | n.3789+11792C>T | intron_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
ADH6 | ENST00000394899.6 | c.58G>A | p.Ala20Thr | missense_variant | 2/9 | 2 | NM_001102470.2 | ENSP00000378359.2 |
Frequencies
GnomAD3 genomes AF: 0.00000680 AC: 1AN: 146996Hom.: 0 Cov.: 27
GnomAD4 exome AF: 6.96e-7 AC: 1AN: 1436330Hom.: 0 Cov.: 32 AF XY: 0.00000140 AC XY: 1AN XY: 714234
GnomAD4 genome AF: 0.00000680 AC: 1AN: 146996Hom.: 0 Cov.: 27 AF XY: 0.0000141 AC XY: 1AN XY: 71106
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | May 10, 2024 | The c.58G>A (p.A20T) alteration is located in exon 2 (coding exon 2) of the ADH6 gene. This alteration results from a G to A substitution at nucleotide position 58, causing the alanine (A) at amino acid position 20 to be replaced by a threonine (T). 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