chr2-135907332-T-G
Variant summary
Our verdict is Uncertain significance. Variant got 2 ACMG points: 2P and 0B. PM2
The NM_001349.4(DARS1):āc.1490A>Cā(p.Lys497Thr) variant causes a missense change involving the alteration of a conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. Variant has been reported in ClinVar as Uncertain significance (ā ).
Frequency
Consequence
NM_001349.4 missense
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Uncertain_significance. Variant got 2 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
DARS1 | NM_001349.4 | c.1490A>C | p.Lys497Thr | missense_variant | Exon 16 of 16 | ENST00000264161.9 | NP_001340.2 | |
DARS1 | NM_001293312.1 | c.1190A>C | p.Lys397Thr | missense_variant | Exon 15 of 15 | NP_001280241.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
DARS1 | ENST00000264161.9 | c.1490A>C | p.Lys497Thr | missense_variant | Exon 16 of 16 | 1 | NM_001349.4 | ENSP00000264161.4 | ||
DARS1 | ENST00000422708.3 | c.551A>C | p.Lys184Thr | missense_variant | Exon 6 of 6 | 2 | ENSP00000387508.1 | |||
DARS1 | ENST00000478212.5 | n.384A>C | non_coding_transcript_exon_variant | Exon 3 of 3 | 2 | |||||
DARS1 | ENST00000489964.5 | n.739A>C | non_coding_transcript_exon_variant | Exon 5 of 5 | 2 |
Frequencies
GnomAD3 genomes Cov.: 30
GnomAD3 exomes AF: 0.00000401 AC: 1AN: 249304Hom.: 0 AF XY: 0.00 AC XY: 0AN XY: 134990
GnomAD4 exome Data not reliable, filtered out with message: AS_VQSR AF: 0.00000966 AC: 14AN: 1448740Hom.: 0 Cov.: 30 AF XY: 0.00000693 AC XY: 5AN XY: 721124
GnomAD4 genome Cov.: 30
ClinVar
Submissions by phenotype
Inborn genetic diseases Uncertain:1
The c.1490A>C (p.K497T) alteration is located in exon 16 (coding exon 16) of the DARS gene. This alteration results from a A to C substitution at nucleotide position 1490, causing the lysine (K) at amino acid position 497 to be replaced by a threonine (T). The p.K497T alteration is predicted to be tolerated by in silico analysis. 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