rs12033832
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Variant summary
Our verdict is Benign. Variant got -13 ACMG points: 0P and 13B. BP4_StrongBP7BA1
The NM_152232.6(TAS1R2):c.2319C>T(p.Ser773=) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.33 in 1,613,942 control chromosomes in the GnomAD database, including 90,178 homozygotes. In-silico tool predicts a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Genomes: 𝑓 0.30 ( 6986 hom., cov: 33)
Exomes 𝑓: 0.33 ( 83192 hom. )
Consequence
TAS1R2
NM_152232.6 synonymous
NM_152232.6 synonymous
Scores
2
Clinical Significance
Not reported in ClinVar
Conservation
PhyloP100: 0.102
Genes affected
TAS1R2 (HGNC:14905): (taste 1 receptor member 2) Contributes to sweet taste receptor activity. Involved in detection of chemical stimulus involved in sensory perception of sweet taste and positive regulation of cytokinesis. Part of sweet taste receptor complex. [provided by Alliance of Genome Resources, Apr 2022]
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ACMG classification
Classification made for transcript
Verdict is Benign. Variant got -13 ACMG points.
BP4
Computational evidence support a benign effect (BayesDel_noAF=-0.78).
BP7
Synonymous conserved (PhyloP=0.102 with no splicing effect.
BA1
GnomAd4 highest subpopulation (EAS) allele frequency at 95% confidence interval = 0.43 is higher than 0.05.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
TAS1R2 | NM_152232.6 | c.2319C>T | p.Ser773= | synonymous_variant | 6/6 | ENST00000375371.4 | NP_689418.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
TAS1R2 | ENST00000375371.4 | c.2319C>T | p.Ser773= | synonymous_variant | 6/6 | 2 | NM_152232.6 | ENSP00000364520 | P1 |
Frequencies
GnomAD3 genomes AF: 0.296 AC: 45042AN: 152044Hom.: 6985 Cov.: 33
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GnomAD3 exomes AF: 0.309 AC: 77680AN: 251166Hom.: 12642 AF XY: 0.311 AC XY: 42281AN XY: 135764
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GnomAD4 exome AF: 0.334 AC: 487779AN: 1461780Hom.: 83192 Cov.: 77 AF XY: 0.332 AC XY: 241320AN XY: 727194
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GnomAD4 genome AF: 0.296 AC: 45066AN: 152162Hom.: 6986 Cov.: 33 AF XY: 0.293 AC XY: 21823AN XY: 74396
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Not reported inComputational scores
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Benign
CADD
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Details are displayed if max score is > 0.2
Find out detailed SpliceAI scores and Pangolin per-transcript scores at