rs76079250
Variant summary
Our verdict is Benign. Variant got -20 ACMG points: 0P and 20B. BP4_StrongBP6_Very_StrongBS1BS2
The NM_006440.5(TXNRD2):āc.763G>Cā(p.Gly255Arg) variant causes a missense change. The variant allele was found at a frequency of 0.000857 in 1,557,312 control chromosomes in the GnomAD database, including 14 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Benign (ā ā ). Another variant affecting the same amino acid position, but resulting in a different missense (i.e. G255S) has been classified as Uncertain significance.
Frequency
Consequence
NM_006440.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -20 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
TXNRD2 | NM_006440.5 | c.763G>C | p.Gly255Arg | missense_variant | 10/18 | ENST00000400521.7 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
TXNRD2 | ENST00000400521.7 | c.763G>C | p.Gly255Arg | missense_variant | 10/18 | 1 | NM_006440.5 | P4 |
Frequencies
GnomAD3 genomes AF: 0.00457 AC: 695AN: 152234Hom.: 12 Cov.: 33
GnomAD3 exomes AF: 0.000819 AC: 134AN: 163530Hom.: 0 AF XY: 0.000631 AC XY: 55AN XY: 87168
GnomAD4 exome AF: 0.000456 AC: 640AN: 1404960Hom.: 2 Cov.: 32 AF XY: 0.000385 AC XY: 267AN XY: 693724
GnomAD4 genome AF: 0.00456 AC: 694AN: 152352Hom.: 12 Cov.: 33 AF XY: 0.00436 AC XY: 325AN XY: 74498
ClinVar
Submissions by phenotype
Glucocorticoid deficiency 5 Benign:1
Benign, criteria provided, single submitter | clinical testing | Fulgent Genetics, Fulgent Genetics | Sep 30, 2021 | - - |
not provided Benign:1
Benign, criteria provided, single submitter | clinical testing | GeneDx | Mar 07, 2019 | - - |
Primary dilated cardiomyopathy Benign:1
Benign, criteria provided, single submitter | clinical testing | Invitae | Jan 28, 2024 | - - |
Cardiovascular phenotype Benign:1
Benign, criteria provided, single submitter | clinical testing | Ambry Genetics | Nov 20, 2015 | This alteration is classified as benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity. - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at