1-84414861-G-A
Variant summary
Our verdict is Uncertain significance. Variant got 4 ACMG points: 4P and 0B. PM2PP3_Moderate
The NM_021233.3(DNASE2B):c.1079G>A(p.Cys360Tyr) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.00000373 in 1,606,862 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a pathogenic 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 Uncertain_significance. Variant got 4 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
DNASE2B | NM_021233.3 | c.1079G>A | p.Cys360Tyr | missense_variant | Exon 6 of 6 | ENST00000370665.4 | NP_067056.2 | |
DNASE2B | NM_058248.2 | c.455G>A | p.Cys152Tyr | missense_variant | Exon 4 of 4 | NP_490649.1 | ||
DNASE2B | XM_047426625.1 | c.842G>A | p.Cys281Tyr | missense_variant | Exon 5 of 5 | XP_047282581.1 | ||
DNASE2B | XM_011541878.3 | c.455G>A | p.Cys152Tyr | 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.1079G>A | p.Cys360Tyr | missense_variant | Exon 6 of 6 | 1 | NM_021233.3 | ENSP00000359699.3 | ||
DNASE2B | ENST00000370662.3 | c.455G>A | p.Cys152Tyr | missense_variant | Exon 4 of 4 | 1 | ENSP00000359696.3 |
Frequencies
GnomAD3 genomes AF: 0.0000131 AC: 2AN: 152218Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000161 AC: 4AN: 248082Hom.: 0 AF XY: 0.0000149 AC XY: 2AN XY: 134096
GnomAD4 exome AF: 0.00000344 AC: 5AN: 1454526Hom.: 0 Cov.: 31 AF XY: 0.00000277 AC XY: 2AN XY: 722322
GnomAD4 genome AF: 0.00000656 AC: 1AN: 152336Hom.: 0 Cov.: 32 AF XY: 0.00 AC XY: 0AN XY: 74492
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.1079G>A (p.C360Y) 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 1079, causing the cysteine (C) at amino acid position 360 to be replaced by a tyrosine (Y). 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