rs7232
Variant summary
Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_StrongBA1
The ENST00000528851.6(MS4A6A):c.553A>T(p.Thr185Ser) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.349 in 1,610,750 control chromosomes in the GnomAD database, including 104,970 homozygotes. In-silico tool predicts a benign outcome for this variant. 12/16 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar. Another nucleotide change resulting in same amino acid change has been previously reported as Likely benignin UniProt.
Frequency
Consequence
ENST00000528851.6 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -12 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
MS4A6A | NM_022349.4 | c.553A>T | p.Thr185Ser | missense_variant | 6/6 | ENST00000528851.6 | NP_071744.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
MS4A6A | ENST00000528851.6 | c.553A>T | p.Thr185Ser | missense_variant | 6/6 | 1 | NM_022349.4 | ENSP00000431901 |
Frequencies
GnomAD3 genomes AF: 0.272 AC: 41186AN: 151360Hom.: 6920 Cov.: 32
GnomAD3 exomes AF: 0.308 AC: 77415AN: 251080Hom.: 13945 AF XY: 0.327 AC XY: 44393AN XY: 135678
GnomAD4 exome AF: 0.357 AC: 520684AN: 1459274Hom.: 98051 Cov.: 34 AF XY: 0.361 AC XY: 262326AN XY: 726034
GnomAD4 genome AF: 0.272 AC: 41188AN: 151476Hom.: 6919 Cov.: 32 AF XY: 0.270 AC XY: 19993AN XY: 74000
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at