X-1632771-C-G
Variant summary
Our verdict is Benign. Variant got -11 ACMG points: 0P and 11B. BP4_StrongBP6_ModerateBP7BS2
The NM_001171038.2(ASMT):āc.630C>Gā(p.Arg210=) variant causes a synonymous change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.000108 in 359,972 control chromosomes in the GnomAD database, with no homozygous occurrence. There are 13 hemizygotes in GnomAD. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (ā ). Synonymous variant affecting the same amino acid position (i.e. R210R) has been classified as Likely benign.
Frequency
Consequence
NM_001171038.2 synonymous
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -11 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
ASMT | NM_001171038.2 | c.630C>G | p.Arg210= | synonymous_variant | 6/9 | ENST00000381241.9 | |
ASMT | NM_001171039.1 | c.562+2832C>G | intron_variant | ||||
ASMT | NM_001416525.1 | c.563-379C>G | intron_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
ASMT | ENST00000381241.9 | c.630C>G | p.Arg210= | synonymous_variant | 6/9 | 1 | NM_001171038.2 | ||
ASMT | ENST00000381229.9 | c.563-379C>G | intron_variant | 1 | P1 | ||||
ASMT | ENST00000381233.8 | c.562+2832C>G | intron_variant | 1 | |||||
ASMT | ENST00000509780.6 | n.289-3471C>G | intron_variant, non_coding_transcript_variant | 1 |
Frequencies
GnomAD3 genomes AF: 0.000112 AC: 17AN: 151978Hom.: 0 Cov.: 32 AF XY: 0.0000808 AC XY: 6AN XY: 74222
GnomAD3 exomes AF: 0.0000604 AC: 3AN: 49710Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 25312
GnomAD4 exome AF: 0.000106 AC: 22AN: 207876Hom.: 0 Cov.: 0 AF XY: 0.0000640 AC XY: 7AN XY: 109394
GnomAD4 genome AF: 0.000112 AC: 17AN: 152096Hom.: 0 Cov.: 32 AF XY: 0.0000807 AC XY: 6AN XY: 74350
ClinVar
Submissions by phenotype
ASMT-related disorder Benign:1
Likely benign, criteria provided, single submitter | clinical testing | PreventionGenetics, part of Exact Sciences | Aug 10, 2021 | This variant is classified as likely benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications). - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at