chr19-51225221-C-T
Variant summary
Our verdict is Benign. Variant got -20 ACMG points: 0P and 20B. BP4_StrongBP6_Very_StrongBA1
The NM_001772.4(CD33):c.41C>T(p.Ala14Val) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.302 in 1,612,814 control chromosomes in the GnomAD database, including 79,734 homozygotes. In-silico tool predicts a benign outcome for this variant. 12/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★★). Another nucleotide change resulting in the same amino acid substitution has been previously reported as Likely benign in UniProt.
Frequency
Consequence
NM_001772.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -20 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.254 AC: 38597AN: 152014Hom.: 6040 Cov.: 32
GnomAD3 exomes AF: 0.307 AC: 76894AN: 250170Hom.: 14417 AF XY: 0.294 AC XY: 39783AN XY: 135206
GnomAD4 exome AF: 0.307 AC: 448224AN: 1460682Hom.: 73682 Cov.: 52 AF XY: 0.301 AC XY: 218666AN XY: 726522
GnomAD4 genome AF: 0.254 AC: 38618AN: 152132Hom.: 6052 Cov.: 32 AF XY: 0.258 AC XY: 19208AN XY: 74380
ClinVar
Submissions by phenotype
not provided Benign:3
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This variant is associated with the following publications: (PMID: 25762156, 24381305, 26621708, 23946390, 30917570) -
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at