rs3128651
Variant summary
Our verdict is Benign. Variant got -14 ACMG points: 0P and 14B. BP4_StrongBP6_ModerateBA1
The NM_001367479.1(DNAH14):c.3029A>G(p.Lys1010Arg) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.918 in 1,551,318 control chromosomes in the GnomAD database, including 663,891 homozygotes. In-silico tool predicts a benign outcome for this variant. 12/15 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★).
Frequency
Consequence
NM_001367479.1 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -14 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
DNAH14 | NM_001367479.1 | c.3029A>G | p.Lys1010Arg | missense_variant | 19/86 | ENST00000682510.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
DNAH14 | ENST00000682510.1 | c.3029A>G | p.Lys1010Arg | missense_variant | 19/86 | NM_001367479.1 | P1 | ||
DNAH14 | ENST00000430092.5 | c.3029A>G | p.Lys1010Arg | missense_variant | 19/84 | 5 | |||
DNAH14 | ENST00000439375.6 | c.3029A>G | p.Lys1010Arg | missense_variant | 18/83 | 5 | |||
DNAH14 | ENST00000445597.6 | c.2831A>G | p.Lys944Arg | missense_variant | 15/61 | 5 |
Frequencies
GnomAD3 genomes ? AF: 0.797 AC: 121026AN: 151772Hom.: 51613 Cov.: 33
GnomAD3 exomes AF: 0.870 AC: 137039AN: 157606Hom.: 60968 AF XY: 0.879 AC XY: 73173AN XY: 83214
GnomAD4 exome AF: 0.931 AC: 1302573AN: 1399428Hom.: 612260 Cov.: 57 AF XY: 0.931 AC XY: 642580AN XY: 690206
GnomAD4 genome ? AF: 0.797 AC: 121080AN: 151890Hom.: 51631 Cov.: 33 AF XY: 0.797 AC XY: 59182AN XY: 74244
ClinVar
Submissions by phenotype
not specified Benign:1
Benign, criteria provided, single submitter | clinical testing | Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine | Mar 28, 2016 | Variant identified in a genome or exome case(s) and assessed due to predicted null impact of the variant or pathogenic assertions in the literature or databases. Disclaimer: This variant has not undergone full assessment. The following are preliminary notes: Frequency - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at