NM_030787.4:c.1067G>A
Variant summary
Our verdict is Benign. Variant got -20 ACMG points: 0P and 20B. BP4_StrongBP6_Very_StrongBS1BS2
The NM_030787.4(CFHR5):c.1067G>A(p.Arg356His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0237 in 1,609,466 control chromosomes in the GnomAD database, including 548 homozygotes. In-silico tool predicts a benign outcome for this variant. 14/20 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (★★). Another variant affecting the same amino acid position, but resulting in a different missense (i.e. R356C) has been classified as Uncertain significance.
Frequency
Consequence
NM_030787.4 missense
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Benign. Variant got -20 ACMG points.
Transcripts
RefSeq
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0171 AC: 2603AN: 151944Hom.: 29 Cov.: 32
GnomAD3 exomes AF: 0.0163 AC: 4073AN: 249494Hom.: 54 AF XY: 0.0165 AC XY: 2224AN XY: 134950
GnomAD4 exome AF: 0.0244 AC: 35503AN: 1457404Hom.: 519 Cov.: 30 AF XY: 0.0238 AC XY: 17233AN XY: 725058
GnomAD4 genome AF: 0.0171 AC: 2602AN: 152062Hom.: 29 Cov.: 32 AF XY: 0.0159 AC XY: 1180AN XY: 74344
ClinVar
Submissions by phenotype
not provided Benign:5
See Variant Classification Assertion Criteria. -
CFHR5: BP4, BS1, BS2 -
- -
- -
- -
not specified Benign:2
- -
Variant identified in a genome or exome case(s) and assessed due to predicted null impact of the variant or pathogenic assertions in the literature or databases. Disclaimer: This variant has not undergone full assessment. The following are preliminary notes: Frequency in ESP (all): 272/13000=2% -
CFH-Related Dense Deposit Disease / Membranoproliferative Glomerulonephritis Type II Benign:1
This variant was observed as part of a predisposition screen in an ostensibly healthy population. A literature search was performed for the gene, cDNA change, and amino acid change (where applicable). Publications were found based on this search. The evidence from the literature, in combination with allele frequency data from public databases where available, was sufficient to determine this variant is unlikely to cause disease. Therefore, this variant is classified as likely benign. -
CFHR5 deficiency Benign:1
- -
Atypical hemolytic-uremic syndrome Benign:1
- -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at