X-3015192-G-A
Variant summary
Our verdict is Benign. Variant got -14 ACMG points: 0P and 14B. BP4_StrongBP6_ModerateBS1BS2
The NM_001011719.2(ARSH):c.563G>A(p.Arg188His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0149 in 1,207,986 control chromosomes in the GnomAD database, including 121 homozygotes. There are 5,889 hemizygotes in GnomAD. 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 Likely benign (★).
Frequency
Consequence
NM_001011719.2 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -14 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0102 AC: 1141AN: 111389Hom.: 5 Cov.: 22 AF XY: 0.00891 AC XY: 299AN XY: 33557
GnomAD3 exomes AF: 0.0115 AC: 2051AN: 177648Hom.: 12 AF XY: 0.0127 AC XY: 797AN XY: 62554
GnomAD4 exome AF: 0.0154 AC: 16854AN: 1096546Hom.: 116 Cov.: 32 AF XY: 0.0154 AC XY: 5590AN XY: 362078
GnomAD4 genome AF: 0.0102 AC: 1141AN: 111440Hom.: 5 Cov.: 22 AF XY: 0.00889 AC XY: 299AN XY: 33618
ClinVar
Submissions by phenotype
not provided Benign:2
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at