rs199729041
Variant summary
Our verdict is Uncertain significance. Variant got 3 ACMG points: 3P and 0B. PM2PP3
The NM_021233.3(DNASE2B):āc.425T>Gā(p.Ile142Ser) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000657 in 1,613,588 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 (ā ).
Frequency
Consequence
NM_021233.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 3 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
DNASE2B | NM_021233.3 | c.425T>G | p.Ile142Ser | missense_variant | Exon 4 of 6 | ENST00000370665.4 | NP_067056.2 | |
DNASE2B | XM_047426625.1 | c.188T>G | p.Ile63Ser | missense_variant | Exon 3 of 5 | XP_047282581.1 | ||
DNASE2B | NM_058248.2 | c.-200T>G | 5_prime_UTR_variant | Exon 2 of 4 | NP_490649.1 | |||
DNASE2B | XM_011541878.3 | c.-211T>G | upstream_gene_variant | XP_011540180.1 |
Ensembl
Frequencies
GnomAD3 genomes AF: 0.0000394 AC: 6AN: 152218Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000362 AC: 9AN: 248594Hom.: 0 AF XY: 0.0000519 AC XY: 7AN XY: 134816
GnomAD4 exome AF: 0.0000684 AC: 100AN: 1461370Hom.: 0 Cov.: 31 AF XY: 0.0000798 AC XY: 58AN XY: 726924
GnomAD4 genome AF: 0.0000394 AC: 6AN: 152218Hom.: 0 Cov.: 32 AF XY: 0.0000134 AC XY: 1AN XY: 74364
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.425T>G (p.I142S) alteration is located in exon 4 (coding exon 4) of the DNASE2B gene. This alteration results from a T to G substitution at nucleotide position 425, causing the isoleucine (I) at amino acid position 142 to be replaced by a serine (S). 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