rs9658655
Variant summary
Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_StrongBA1
The NM_001275.4(CHGA):āc.792G>Cā(p.Glu264Asp) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.103 in 1,577,272 control chromosomes in the GnomAD database, including 10,297 homozygotes. In-silico tool predicts a benign outcome for this variant. 12/20 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar. Another nucleotide change resulting in the same amino acid substitution has been previously reported as Likely benign in UniProt.
Frequency
Consequence
NM_001275.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -12 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
CHGA | NM_001275.4 | c.792G>C | p.Glu264Asp | missense_variant | Exon 6 of 8 | ENST00000216492.10 | NP_001266.1 | |
CHGA | XM_011536370.3 | c.792G>C | p.Glu264Asp | missense_variant | Exon 7 of 9 | XP_011534672.1 | ||
CHGA | NM_001301690.2 | c.356-684G>C | intron_variant | Intron 5 of 6 | NP_001288619.1 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.126 AC: 19220AN: 152062Hom.: 1497 Cov.: 33
GnomAD3 exomes AF: 0.131 AC: 29566AN: 225826Hom.: 2467 AF XY: 0.128 AC XY: 15464AN XY: 121086
GnomAD4 exome AF: 0.101 AC: 143541AN: 1425092Hom.: 8799 Cov.: 33 AF XY: 0.102 AC XY: 71615AN XY: 703606
GnomAD4 genome AF: 0.126 AC: 19250AN: 152180Hom.: 1498 Cov.: 33 AF XY: 0.127 AC XY: 9428AN XY: 74382
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at