rs12355840
Variant summary
Our verdict is Likely benign. Variant got -2 ACMG points: 2P and 4B. PM2BP4_Strong
The NR_030170.1(MIR202):n.13G>C variant causes a non coding transcript exon change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000133 in 459,482 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Consequence
NR_030170.1 non_coding_transcript_exon
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/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
MIR202 | NR_030170.1 | n.13G>C | non_coding_transcript_exon_variant | 1/1 | |||
MIR202HG | NR_108079.1 | n.95+183G>C | intron_variant, non_coding_transcript_variant | ||||
MIR202HG | NR_108078.1 | n.189G>C | non_coding_transcript_exon_variant | 2/3 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
MIR202 | ENST00000362219.2 | n.13G>C | non_coding_transcript_exon_variant | 1/1 | |||||
MIR202HG | ENST00000553459.1 | n.101+183G>C | intron_variant, non_coding_transcript_variant | 2 | |||||
MIR202HG | ENST00000300167.7 | n.189G>C | non_coding_transcript_exon_variant | 2/3 | 2 |
Frequencies
GnomAD3 genomes ? AF: 0.000105 AC: 16AN: 151992Hom.: 0 Cov.: 33
GnomAD3 exomes AF: 0.000110 AC: 17AN: 154602Hom.: 0 AF XY: 0.0000980 AC XY: 8AN XY: 81648
GnomAD4 exome AF: 0.000146 AC: 45AN: 307374Hom.: 0 Cov.: 0 AF XY: 0.000132 AC XY: 23AN XY: 174214
GnomAD4 genome ? AF: 0.000105 AC: 16AN: 152108Hom.: 0 Cov.: 33 AF XY: 0.000134 AC XY: 10AN XY: 74380
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at