11-4545229-CT-C
Variant summary
Our verdict is Benign. Variant got -9 ACMG points: 0P and 9B. BP6BS1BS2
The NM_001004137.1(OR52M1):c.41delT(p.Phe14SerfsTer32) variant causes a frameshift change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00406 in 1,612,378 control chromosomes in the GnomAD database, including 100 homozygotes. Variant has been reported in ClinVar as Benign (no stars).
Frequency
Consequence
NM_001004137.1 frameshift
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -9 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.00902 AC: 1373AN: 152168Hom.: 12 Cov.: 32
GnomAD3 exomes AF: 0.00793 AC: 1975AN: 248920Hom.: 31 AF XY: 0.00814 AC XY: 1095AN XY: 134468
GnomAD4 exome AF: 0.00354 AC: 5162AN: 1460094Hom.: 88 Cov.: 31 AF XY: 0.00400 AC XY: 2909AN XY: 726346
GnomAD4 genome AF: 0.00906 AC: 1380AN: 152284Hom.: 12 Cov.: 32 AF XY: 0.00929 AC XY: 692AN XY: 74452
ClinVar
Submissions by phenotype
OR52M1-related disorder Benign:1
This variant is classified as benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications). -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at