6-12292382-G-A
Variant summary
Our verdict is Likely benign. Variant got -6 ACMG points: 0P and 6B. BP4_StrongBP6_Moderate
The NM_001955.5(EDN1):c.106G>A(p.Gly36Arg) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000224 in 1,613,956 control chromosomes in the GnomAD database, including 3 homozygotes. In-silico tool predicts a benign outcome for this variant. 15/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★).
Frequency
Consequence
NM_001955.5 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -6 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
EDN1 | NM_001955.5 | c.106G>A | p.Gly36Arg | missense_variant | 2/5 | ENST00000379375.6 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
EDN1 | ENST00000379375.6 | c.106G>A | p.Gly36Arg | missense_variant | 2/5 | 1 | NM_001955.5 | P1 |
Frequencies
GnomAD3 genomes ? AF: 0.000460 AC: 70AN: 152198Hom.: 1 Cov.: 33
GnomAD3 exomes AF: 0.000749 AC: 186AN: 248278Hom.: 1 AF XY: 0.000714 AC XY: 96AN XY: 134374
GnomAD4 exome AF: 0.000200 AC: 292AN: 1461640Hom.: 2 Cov.: 32 AF XY: 0.000179 AC XY: 130AN XY: 727152
GnomAD4 genome ? AF: 0.000460 AC: 70AN: 152316Hom.: 1 Cov.: 33 AF XY: 0.000564 AC XY: 42AN XY: 74480
ClinVar
Submissions by phenotype
not provided Benign:1
Benign, criteria provided, single submitter | clinical testing | Invitae | Jul 26, 2023 | - - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at