rs2483221
Variant summary
Our verdict is Benign. Variant got -19 ACMG points: 0P and 19B. BP4_ModerateBP6_Very_StrongBP7BS1BS2
The NM_022114.4(PRDM16):c.1071C>T(p.Arg357Arg) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00173 in 1,603,902 control chromosomes in the GnomAD database, including 52 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★★).
Frequency
Consequence
NM_022114.4 synonymous
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -19 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.00861 AC: 1311AN: 152184Hom.: 24 Cov.: 33
GnomAD3 exomes AF: 0.00235 AC: 557AN: 237500Hom.: 11 AF XY: 0.00185 AC XY: 240AN XY: 129708
GnomAD4 exome AF: 0.00101 AC: 1468AN: 1451600Hom.: 28 Cov.: 31 AF XY: 0.000900 AC XY: 650AN XY: 721886
GnomAD4 genome AF: 0.00861 AC: 1311AN: 152302Hom.: 24 Cov.: 33 AF XY: 0.00839 AC XY: 625AN XY: 74464
ClinVar
Submissions by phenotype
not specified Benign:6
This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease. -
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Arg357Arg in exon 8 of PRDM16: This variant is not expected to have clinical sig nificance because it does not alter an amino acid residue and is not located wit hin the splice consensus sequence. It has been identified in 2.7% (120/4400) of African American chromosomes from a broad population by the NHLBI Exome Sequenci ng Project (http://evs.gs.washington.edu/EVS; dbSNP rs2483221). -
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not provided Benign:1
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PRDM16-related disorder Benign:1
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). -
Left ventricular noncompaction 8 Benign:1
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at