1-84414591-G-A
Variant summary
Our verdict is Likely benign. Variant got -2 ACMG points: 2P and 4B. PM2BP4_Strong
The NM_021233.3(DNASE2B):c.809G>A(p.Arg270Gln) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000176 in 1,613,912 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_021233.3 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 rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
DNASE2B | NM_021233.3 | c.809G>A | p.Arg270Gln | missense_variant | Exon 6 of 6 | ENST00000370665.4 | NP_067056.2 | |
DNASE2B | NM_058248.2 | c.185G>A | p.Arg62Gln | missense_variant | Exon 4 of 4 | NP_490649.1 | ||
DNASE2B | XM_047426625.1 | c.572G>A | p.Arg191Gln | missense_variant | Exon 5 of 5 | XP_047282581.1 | ||
DNASE2B | XM_011541878.3 | c.185G>A | p.Arg62Gln | missense_variant | Exon 3 of 3 | XP_011540180.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
DNASE2B | ENST00000370665.4 | c.809G>A | p.Arg270Gln | missense_variant | Exon 6 of 6 | 1 | NM_021233.3 | ENSP00000359699.3 | ||
DNASE2B | ENST00000370662.3 | c.185G>A | p.Arg62Gln | missense_variant | Exon 4 of 4 | 1 | ENSP00000359696.3 |
Frequencies
GnomAD3 genomes AF: 0.000309 AC: 47AN: 152118Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.000311 AC: 78AN: 251086Hom.: 0 AF XY: 0.000309 AC XY: 42AN XY: 135704
GnomAD4 exome AF: 0.000162 AC: 237AN: 1461794Hom.: 0 Cov.: 30 AF XY: 0.000160 AC XY: 116AN XY: 727188
GnomAD4 genome AF: 0.000309 AC: 47AN: 152118Hom.: 0 Cov.: 32 AF XY: 0.000404 AC XY: 30AN XY: 74298
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.809G>A (p.R270Q) alteration is located in exon 6 (coding exon 6) of the DNASE2B gene. This alteration results from a G to A substitution at nucleotide position 809, causing the arginine (R) at amino acid position 270 to be replaced by a glutamine (Q). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at