19-18194813-G-A
Variant summary
Our verdict is Uncertain significance. Variant got 3 ACMG points: 3P and 0B. PM2PP3
The NM_032683.3(MPV17L2):c.395G>A(p.Ser132Asn) variant causes a missense change. The variant allele was found at a frequency of 0.000134 in 1,610,292 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_032683.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 3 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
MPV17L2 | NM_032683.3 | c.395G>A | p.Ser132Asn | missense_variant | Exon 3 of 5 | ENST00000599612.3 | NP_116072.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
MPV17L2 | ENST00000599612.3 | c.395G>A | p.Ser132Asn | missense_variant | Exon 3 of 5 | 1 | NM_032683.3 | ENSP00000469836.2 | ||
MPV17L2 | ENST00000533807.3 | n.822G>A | non_coding_transcript_exon_variant | Exon 2 of 4 | 2 | |||||
MPV17L2 | ENST00000532896.5 | n.804-145G>A | intron_variant | Intron 1 of 2 | 2 |
Frequencies
GnomAD3 genomes AF: 0.0000789 AC: 12AN: 152176Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000705 AC: 17AN: 241266Hom.: 0 AF XY: 0.0000760 AC XY: 10AN XY: 131524
GnomAD4 exome AF: 0.000139 AC: 203AN: 1458116Hom.: 0 Cov.: 37 AF XY: 0.000127 AC XY: 92AN XY: 725068
GnomAD4 genome AF: 0.0000789 AC: 12AN: 152176Hom.: 0 Cov.: 32 AF XY: 0.0000269 AC XY: 2AN XY: 74328
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.395G>A (p.S132N) alteration is located in exon 3 (coding exon 3) of the MPV17L2 gene. This alteration results from a G to A substitution at nucleotide position 395, causing the serine (S) at amino acid position 132 to be replaced by an asparagine (N). 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