rs368241036
Variant summary
Our verdict is Benign. Variant got -11 ACMG points: 0P and 11B. BP4_StrongBP6_ModerateBP7BS2
The NM_020717.5(SHROOM4):c.4281C>T(p.His1427His) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000823 in 1,209,976 control chromosomes in the GnomAD database, including 2 homozygotes. There are 327 hemizygotes in GnomAD. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (★).
Frequency
Consequence
NM_020717.5 synonymous
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -11 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
SHROOM4 | ENST00000376020.9 | c.4281C>T | p.His1427His | synonymous_variant | Exon 9 of 9 | 2 | NM_020717.5 | ENSP00000365188.2 | ||
SHROOM4 | ENST00000289292.11 | c.4281C>T | p.His1427His | synonymous_variant | Exon 9 of 10 | 1 | ENSP00000289292.7 | |||
SHROOM4 | ENST00000460112.3 | c.3933C>T | p.His1311His | synonymous_variant | Exon 8 of 8 | 5 | ENSP00000421450.1 |
Frequencies
GnomAD3 genomes AF: 0.000285 AC: 32AN: 112387Hom.: 0 Cov.: 24 AF XY: 0.000261 AC XY: 9AN XY: 34535
GnomAD3 exomes AF: 0.000210 AC: 38AN: 181053Hom.: 0 AF XY: 0.000228 AC XY: 15AN XY: 65679
GnomAD4 exome AF: 0.000878 AC: 964AN: 1097589Hom.: 2 Cov.: 31 AF XY: 0.000876 AC XY: 318AN XY: 362963
GnomAD4 genome AF: 0.000285 AC: 32AN: 112387Hom.: 0 Cov.: 24 AF XY: 0.000261 AC XY: 9AN XY: 34535
ClinVar
Submissions by phenotype
not provided Benign:1
SHROOM4: BP4, BP7 -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at