NM_000243.3:c.333G>A
Variant summary
Our verdict is Benign. Variant got -14 ACMG points: 0P and 14B. BP4_StrongBP6_Very_StrongBP7BS2_Supporting
The NM_000243.3(MEFV):c.333G>A(p.Gly111Gly) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000593 in 1,612,880 control chromosomes in the GnomAD database, including 5 homozygotes. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (★★).
Frequency
Consequence
NM_000243.3 synonymous
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Benign. Variant got -14 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.00316 AC: 481AN: 152252Hom.: 3 Cov.: 34
GnomAD3 exomes AF: 0.000796 AC: 197AN: 247392Hom.: 0 AF XY: 0.000586 AC XY: 79AN XY: 134840
GnomAD4 exome AF: 0.000325 AC: 475AN: 1460510Hom.: 2 Cov.: 65 AF XY: 0.000261 AC XY: 190AN XY: 726586
GnomAD4 genome AF: 0.00316 AC: 481AN: 152370Hom.: 3 Cov.: 34 AF XY: 0.00293 AC XY: 218AN XY: 74508
ClinVar
Submissions by phenotype
Familial Mediterranean fever Benign:3Other:1
- -
- -
- -
- -
not provided Benign:3
The MEFV c.333G>A;p.Gly111Gly variant has not been described in the medical literature, but is listed in a gene-specific database in a symptomatic individual (see link). The variant is listed in the ClinVar database (Variation ID: 97517) and the dbSNP variant database (rs61732425) with an allele frequency of up to 0.7373 percent (32/4308 alleles) in the African American population in the Exome Variant Server and up to 1.081 percent in the African population in the Genome Aggregation Consortium (251/23226 alleles, 2 homozygotes). The nucleotide at this position is weakly conserved and computational algorithms (SpliceSiteFinder-like, MaxEntScan, NNSplice, GeneSplicer, Human Splicing Finder) predict this variant does not significantly alter splicing. Considering available information, this variant is classified as likely benign. References: Link to Infevers database: http://fmf.igh.cnrs.fr/ISSAID/infevers/search.php?n=1 -
- -
- -
not specified Benign:2
- -
- -
Acute febrile neutrophilic dermatosis Benign:1
- -
Inborn genetic diseases Benign:1
This alteration is classified as likely benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity. -
Autoinflammatory syndrome Benign:1
- -
Familial Mediterranean fever, autosomal dominant Benign:1
- -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at