rs147994992
Variant summary
Our verdict is Benign. Variant got -16 ACMG points: 0P and 16B. BP4_StrongBP6_Very_StrongBS2
The NM_004864.4(GDF15):c.350C>A(p.Ala117Asp) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000485 in 1,611,608 control chromosomes in the GnomAD database, including 8 homozygotes. In-silico tool predicts a benign outcome for this variant. 15/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Benign (★★).
Frequency
Consequence
NM_004864.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -16 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
GDF15 | ENST00000252809.3 | c.350C>A | p.Ala117Asp | missense_variant | Exon 2 of 2 | 1 | NM_004864.4 | ENSP00000252809.3 | ||
GDF15 | ENST00000595973.3 | c.350C>A | p.Ala117Asp | missense_variant | Exon 3 of 3 | 5 | ENSP00000470531.3 | |||
GDF15 | ENST00000597765.2 | c.350C>A | p.Ala117Asp | missense_variant | Exon 3 of 3 | 4 | ENSP00000469819.2 | |||
GDF15 | ENST00000594925.1 | n.168C>A | non_coding_transcript_exon_variant | Exon 2 of 2 | 3 |
Frequencies
GnomAD3 genomes AF: 0.00251 AC: 382AN: 152218Hom.: 3 Cov.: 33
GnomAD3 exomes AF: 0.000755 AC: 183AN: 242250Hom.: 3 AF XY: 0.000571 AC XY: 76AN XY: 133124
GnomAD4 exome AF: 0.000273 AC: 399AN: 1459272Hom.: 5 Cov.: 34 AF XY: 0.000247 AC XY: 179AN XY: 725982
GnomAD4 genome AF: 0.00251 AC: 383AN: 152336Hom.: 3 Cov.: 33 AF XY: 0.00239 AC XY: 178AN XY: 74492
ClinVar
Submissions by phenotype
not provided Benign:2
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at