X-3006652-G-A
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2
The NM_001011719.2(ARSH):c.40G>A(p.Ala14Thr) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.000322 in 1,209,307 control chromosomes in the GnomAD database, with no homozygous occurrence. There are 120 hemizygotes in GnomAD. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001011719.2 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -4 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.000171 AC: 19AN: 111338Hom.: 0 Cov.: 23 AF XY: 0.000179 AC XY: 6AN XY: 33516
GnomAD3 exomes AF: 0.000147 AC: 27AN: 183166Hom.: 0 AF XY: 0.000192 AC XY: 13AN XY: 67606
GnomAD4 exome AF: 0.000338 AC: 371AN: 1097917Hom.: 0 Cov.: 29 AF XY: 0.000314 AC XY: 114AN XY: 363279
GnomAD4 genome AF: 0.000171 AC: 19AN: 111390Hom.: 0 Cov.: 23 AF XY: 0.000179 AC XY: 6AN XY: 33578
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.40G>A (p.A14T) alteration is located in exon 1 (coding exon 1) of the ARSH gene. This alteration results from a G to A substitution at nucleotide position 40, causing the alanine (A) at amino acid position 14 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