11-47248762-G-A
Variant summary
Our verdict is Likely benign. Variant got -6 ACMG points: 0P and 6B. BP4_StrongBP6_Moderate
The NM_001610.4(ACP2):c.28C>T(p.Arg10Trp) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00236 in 1,601,376 control chromosomes in the GnomAD database, including 5 homozygotes. In-silico tool predicts a benign outcome for this variant. 14/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (★).
Frequency
Consequence
NM_001610.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -6 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
ACP2 | NM_001610.4 | c.28C>T | p.Arg10Trp | missense_variant | 1/11 | ENST00000672073.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
ACP2 | ENST00000672073.1 | c.28C>T | p.Arg10Trp | missense_variant | 1/11 | NM_001610.4 | P1 |
Frequencies
GnomAD3 genomes ? AF: 0.00233 AC: 355AN: 152244Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.00236 AC: 519AN: 219968Hom.: 0 AF XY: 0.00228 AC XY: 273AN XY: 119520
GnomAD4 exome AF: 0.00236 AC: 3418AN: 1449014Hom.: 5 Cov.: 32 AF XY: 0.00234 AC XY: 1682AN XY: 719530
GnomAD4 genome ? AF: 0.00233 AC: 355AN: 152362Hom.: 0 Cov.: 32 AF XY: 0.00239 AC XY: 178AN XY: 74506
ClinVar
Submissions by phenotype
not provided Benign:1
Likely benign, criteria provided, single submitter | clinical testing | Invitae | Jul 17, 2018 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at