NM_006017.3:c.2374-4dupC
Variant summary
Our verdict is Benign. Variant got -16 ACMG points: 0P and 16B. BP6_Very_StrongBA1
The NM_006017.3(PROM1):c.2374-4dupC variant causes a splice region, intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.259 in 1,485,620 control chromosomes in the GnomAD database, including 51,835 homozygotes. 1/1 splice prediction tools predict no significant impact on normal splicing. Variant has been reported in ClinVar as Likely benign (★★).
Frequency
Consequence
NM_006017.3 splice_region, intron
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -16 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.292 AC: 44022AN: 150920Hom.: 6657 Cov.: 0
GnomAD3 exomes AF: 0.282 AC: 41237AN: 146440Hom.: 5795 AF XY: 0.278 AC XY: 21518AN XY: 77404
GnomAD4 exome AF: 0.256 AC: 341110AN: 1334584Hom.: 45180 Cov.: 26 AF XY: 0.256 AC XY: 169101AN XY: 660612
GnomAD4 genome AF: 0.292 AC: 44029AN: 151036Hom.: 6655 Cov.: 0 AF XY: 0.294 AC XY: 21696AN XY: 73748
ClinVar
Submissions by phenotype
not specified Benign:2
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not provided Benign:2
This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease. -
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Retinitis Pigmentosa, Recessive Benign:1
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Stargardt Disease, Dominant Benign:1
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Macular dystrophy, retinal Benign:1
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Cone-Rod Dystrophy, Dominant Benign:1
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Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at