rs611097
Variant summary
Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_StrongBA1
The ENST00000657968.1(ENSG00000287699):n.219+83C>T variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.836 in 152,142 control chromosomes in the GnomAD database, including 55,154 homozygotes. In-silico tool predicts a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Genomes: 𝑓 0.84 ( 55154 hom., cov: 32)
Consequence
ENSG00000287699
ENST00000657968.1 intron
ENST00000657968.1 intron
Scores
2
Clinical Significance
Not reported in ClinVar
Conservation
PhyloP100: -0.878
Genes affected
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ACMG classification
Classification made for transcript
Verdict is Benign. Variant got -12 ACMG points.
BP4
Computational evidence support a benign effect (BayesDel_noAF=-0.96).
BA1
GnomAd4 highest subpopulation (NFE) allele frequency at 95% confidence interval = 0.935 is higher than 0.05.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
LOC105375322 | XR_001744922.1 | n.1187+83C>T | intron_variant | |||||
LOC105375322 | XR_001744923.1 | n.952+83C>T | intron_variant | |||||
LOC105375322 | XR_001744924.1 | n.708+83C>T | intron_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
ENSG00000287699 | ENST00000657968.1 | n.219+83C>T | intron_variant |
Frequencies
GnomAD3 genomes AF: 0.836 AC: 127076AN: 152024Hom.: 55144 Cov.: 32
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GnomAD4 genome AF: 0.836 AC: 127118AN: 152142Hom.: 55154 Cov.: 32 AF XY: 0.839 AC XY: 62389AN XY: 74372
GnomAD4 genome
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ClinVar
Not reported inComputational scores
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Name
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Score
Prediction
BayesDel_noAF
Benign
CADD
Benign
DANN
Benign
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at