rs775427696
Variant summary
Our verdict is Likely benign. Variant got -2 ACMG points: 2P and 4B. PP2PP3BS2
The ENST00000373980.11(PRKG1):c.449A>C(p.Asp150Ala) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.0000316 in 1,611,572 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★★). Synonymous variant affecting the same amino acid position (i.e. D150D) has been classified as Likely benign.
Frequency
Consequence
ENST00000373980.11 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
PRKG1 | NM_006258.4 | c.449A>C | p.Asp150Ala | missense_variant | 2/18 | ENST00000373980.11 | NP_006249.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
PRKG1 | ENST00000373980.11 | c.449A>C | p.Asp150Ala | missense_variant | 2/18 | 1 | NM_006258.4 | ENSP00000363092 |
Frequencies
GnomAD3 genomes AF: 0.0000132 AC: 2AN: 151946Hom.: 0 Cov.: 31
GnomAD3 exomes AF: 0.0000240 AC: 6AN: 249962Hom.: 0 AF XY: 0.0000222 AC XY: 3AN XY: 135108
GnomAD4 exome AF: 0.0000336 AC: 49AN: 1459626Hom.: 0 Cov.: 30 AF XY: 0.0000331 AC XY: 24AN XY: 726124
GnomAD4 genome AF: 0.0000132 AC: 2AN: 151946Hom.: 0 Cov.: 31 AF XY: 0.00 AC XY: 0AN XY: 74210
ClinVar
Submissions by phenotype
not provided Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | GeneDx | Jan 26, 2023 | Identified in a patient with thoracic aortic aneurysm and aortic dissection (TAAD) (Overwater et al., 2018); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; This variant is associated with the following publications: (PMID: 29907982) - |
Aortic aneurysm, familial thoracic 8 Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Labcorp Genetics (formerly Invitae), Labcorp | Oct 17, 2023 | This sequence change replaces aspartic acid, which is acidic and polar, with alanine, which is neutral and non-polar, at codon 150 of the PRKG1 protein (p.Asp150Ala). This variant is present in population databases (rs775427696, gnomAD 0.007%). This missense change has been observed in individual(s) with clinical features of PRKG1-related conditions (PMID: 29907982). This variant is also known as c.404A>C, p.Asp135Ala. ClinVar contains an entry for this variant (Variation ID: 544057). An algorithm developed to predict the effect of missense changes on protein structure and function (PolyPhen-2) suggests that this variant is likely to be tolerated. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at