15-73052728-T-C
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_002499.4(NEO1):c.53T>C(p.Leu18Pro) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★). Synonymous variant affecting the same amino acid position (i.e. L18L) has been classified as Likely benign.
Frequency
Consequence
NM_002499.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
NEO1 | ENST00000261908.11 | c.53T>C | p.Leu18Pro | missense_variant | Exon 1 of 29 | 1 | NM_002499.4 | ENSP00000261908.6 | ||
NEO1 | ENST00000558964.5 | c.53T>C | p.Leu18Pro | missense_variant | Exon 1 of 28 | 1 | ENSP00000453200.1 | |||
NEO1 | ENST00000560262.5 | c.53T>C | p.Leu18Pro | missense_variant | Exon 1 of 28 | 1 | ENSP00000453317.1 | |||
NEO1 | ENST00000339362.9 | c.53T>C | p.Leu18Pro | missense_variant | Exon 2 of 30 | 5 | ENSP00000341198.5 |
Frequencies
GnomAD3 genomes Cov.: 29
GnomAD4 exome Data not reliable, filtered out with message: AC0 AF: 0.00 AC: 0AN: 1190842Hom.: 0 Cov.: 30 AF XY: 0.00 AC XY: 0AN XY: 586120
GnomAD4 genome Cov.: 29
ClinVar
Submissions by phenotype
not provided Uncertain:1
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at
Publications
No publications associated with this variant yet.