rs532411
Variant summary
Our verdict is Benign. Variant got -14 ACMG points: 0P and 14B. BP4_StrongBP6_ModerateBA1
The NM_199420.4(POLQ):c.6911C>T(p.Ala2304Val) variant causes a missense change. The variant allele was found at a frequency of 0.067 in 1,613,214 control chromosomes in the GnomAD database, including 4,717 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 variant affecting the same amino acid position, but resulting in a different missense (i.e. A2304S) has been classified as Likely benign.
Frequency
Consequence
NM_199420.4 missense
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Benign. Variant got -14 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
POLQ | NM_199420.4 | c.6911C>T | p.Ala2304Val | missense_variant | 24/30 | ENST00000264233.6 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
POLQ | ENST00000264233.6 | c.6911C>T | p.Ala2304Val | missense_variant | 24/30 | 1 | NM_199420.4 | P1 | |
POLQ | ENST00000474243.1 | n.412C>T | non_coding_transcript_exon_variant | 4/6 | 5 |
Frequencies
GnomAD3 genomes AF: 0.0980 AC: 14910AN: 152134Hom.: 1059 Cov.: 32
GnomAD3 exomes AF: 0.0613 AC: 15382AN: 250860Hom.: 727 AF XY: 0.0569 AC XY: 7715AN XY: 135592
GnomAD4 exome AF: 0.0638 AC: 93152AN: 1460962Hom.: 3653 Cov.: 30 AF XY: 0.0619 AC XY: 44985AN XY: 726844
GnomAD4 genome AF: 0.0981 AC: 14934AN: 152252Hom.: 1064 Cov.: 32 AF XY: 0.0952 AC XY: 7085AN XY: 74450
ClinVar
Submissions by phenotype
POLQ-related disorder Benign:1
Benign, criteria provided, single submitter | clinical testing | PreventionGenetics, part of Exact Sciences | Oct 28, 2019 | 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