rs10561331
Your query was ambiguous. Multiple possible variants found:
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_001386681.1(ACAT1):c.-199+4310_-199+4315delAAAAAA variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000397 in 252,142 control chromosomes in the GnomAD database, with no homozygous occurrence. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Genomes: 𝑓 0.000014 ( 0 hom., cov: 0)
Exomes 𝑓: 0.000073 ( 0 hom. )
Consequence
ACAT1
NM_001386681.1 intron
NM_001386681.1 intron
Scores
Not classified
Clinical Significance
Not reported in ClinVar
Conservation
PhyloP100: 0.702
Genes affected
ACAT1 (HGNC:93): (acetyl-CoA acetyltransferase 1) This gene encodes a mitochondrially localized enzyme that catalyzes the reversible formation of acetoacetyl-CoA from two molecules of acetyl-CoA. Defects in this gene are associated with 3-ketothiolase deficiency, an inborn error of isoleucine catabolism characterized by urinary excretion of 2-methyl-3-hydroxybutyric acid, 2-methylacetoacetic acid, tiglylglycine, and butanone. [provided by RefSeq, Feb 2009]
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ACMG classification
Classification made for transcript
Verdict is Uncertain_significance. Variant got 2 ACMG points.
PM2
Very rare variant in population databases, with high coverage;
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
ACAT1 | ENST00000672284.1 | c.-199+4299_-199+4304delAAAAAA | intron_variant | Intron 1 of 11 | ENSP00000500444.1 | |||||
ENSG00000255467 | ENST00000525548.1 | n.389+90_389+95delTTTTTT | intron_variant | Intron 1 of 3 | 3 |
Frequencies
GnomAD3 genomes AF: 0.0000141 AC: 2AN: 142076Hom.: 0 Cov.: 0
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GnomAD4 exome AF: 0.0000727 AC: 8AN: 109998Hom.: 0 AF XY: 0.0000679 AC XY: 4AN XY: 58930
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GnomAD4 genome AF: 0.0000141 AC: 2AN: 142144Hom.: 0 Cov.: 0 AF XY: 0.00 AC XY: 0AN XY: 68714
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Find out detailed SpliceAI scores and Pangolin per-transcript scores at