11-11964669-A-T
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BP4_Strong
The NM_001018057.2(DKK3):c.848T>A(p.Val283Glu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000171 in 1,613,834 control chromosomes in the GnomAD database, including 2 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001018057.2 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -4 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.000191 AC: 29AN: 152180Hom.: 1 Cov.: 33
GnomAD3 exomes AF: 0.000311 AC: 78AN: 250558Hom.: 1 AF XY: 0.000325 AC XY: 44AN XY: 135498
GnomAD4 exome AF: 0.000169 AC: 247AN: 1461654Hom.: 1 Cov.: 35 AF XY: 0.000183 AC XY: 133AN XY: 727126
GnomAD4 genome AF: 0.000191 AC: 29AN: 152180Hom.: 1 Cov.: 33 AF XY: 0.000161 AC XY: 12AN XY: 74346
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.848T>A (p.V283E) alteration is located in exon 8 (coding exon 7) of the DKK3 gene. This alteration results from a T to A substitution at nucleotide position 848, causing the valine (V) at amino acid position 283 to be replaced by a glutamic acid (E). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at