chr19-17807986-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_014256.4(B3GNT3):c.179C>T(p.Pro60Leu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000126 in 1,585,932 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 13/21 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Consequence
NM_014256.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
B3GNT3 | NM_014256.4 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | ENST00000318683.7 | NP_055071.2 | |
B3GNT3 | XM_011527626.3 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | XP_011525928.1 | ||
B3GNT3 | XM_047438042.1 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | XP_047293998.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
B3GNT3 | ENST00000318683.7 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | 1 | NM_014256.4 | ENSP00000321874.5 | ||
B3GNT3 | ENST00000595387.1 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | 1 | ENSP00000472638.1 | |||
B3GNT3 | ENST00000599265.5 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 3 | 3 | ENSP00000471733.1 | |||
B3GNT3 | ENST00000600777.1 | c.179C>T | p.Pro60Leu | missense_variant | Exon 2 of 2 | 3 | ENSP00000468914.1 |
Frequencies
GnomAD3 genomes AF: 0.00000661 AC: 1AN: 151278Hom.: 0 Cov.: 27
GnomAD4 exome AF: 6.97e-7 AC: 1AN: 1434654Hom.: 0 Cov.: 69 AF XY: 0.00 AC XY: 0AN XY: 714440
GnomAD4 genome AF: 0.00000661 AC: 1AN: 151278Hom.: 0 Cov.: 27 AF XY: 0.00 AC XY: 0AN XY: 73878
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at