chr10-132812889-T-C
Variant summary
Our verdict is Likely benign. Variant got -2 ACMG points: 2P and 4B. PM2BP4_Strong
The NM_001200049.3(CFAP46):āc.7397A>Gā(p.Gln2466Arg) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000523 in 1,607,396 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 13/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_001200049.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
CFAP46 | NM_001200049.3 | c.7397A>G | p.Gln2466Arg | missense_variant | 55/58 | ENST00000368586.10 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
CFAP46 | ENST00000368586.10 | c.7397A>G | p.Gln2466Arg | missense_variant | 55/58 | 5 | NM_001200049.3 | A2 | |
CFAP46 | ENST00000639072.2 | c.7397A>G | p.Gln2466Arg | missense_variant | 55/59 | 5 | P3 |
Frequencies
GnomAD3 genomes AF: 0.000283 AC: 43AN: 152156Hom.: 0 Cov.: 34
GnomAD3 exomes AF: 0.0000789 AC: 19AN: 240722Hom.: 0 AF XY: 0.0000913 AC XY: 12AN XY: 131398
GnomAD4 exome AF: 0.0000282 AC: 41AN: 1455122Hom.: 0 Cov.: 31 AF XY: 0.0000359 AC XY: 26AN XY: 724122
GnomAD4 genome AF: 0.000282 AC: 43AN: 152274Hom.: 0 Cov.: 34 AF XY: 0.000228 AC XY: 17AN XY: 74452
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at