1-51746715-T-G
Variant summary
Our verdict is Likely benign. Variant got -5 ACMG points: 0P and 5B. BP4BS2
The NM_001330580.2(OSBPL9):c.-76T>G variant causes a 5 prime UTR premature start codon gain change. The variant allele was found at a frequency of 0.000427 in 1,608,382 control chromosomes in the GnomAD database, including 1 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_001330580.2 5_prime_UTR_premature_start_codon_gain
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -5 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.000223 AC: 34AN: 152226Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.000173 AC: 43AN: 248420Hom.: 1 AF XY: 0.000186 AC XY: 25AN XY: 134274
GnomAD4 exome AF: 0.000448 AC: 652AN: 1456156Hom.: 1 Cov.: 29 AF XY: 0.000424 AC XY: 307AN XY: 724558
GnomAD4 genome AF: 0.000223 AC: 34AN: 152226Hom.: 0 Cov.: 32 AF XY: 0.000242 AC XY: 18AN XY: 74370
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.489T>G (p.F163L) alteration is located in exon 7 (coding exon 7) of the OSBPL9 gene. This alteration results from a T to G substitution at nucleotide position 489, causing the phenylalanine (F) at amino acid position 163 to be replaced by a leucine (L). 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