chr11-89798266-C-T
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP4_Moderate
The NM_020358.2(TRIM49):c.1223G>A(p.Arg408Gln) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000133 in 1,576,954 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 16/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_020358.2 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
TRIM49 | NM_020358.2 | c.1223G>A | p.Arg408Gln | missense_variant | 8/8 | ENST00000329758.5 | |
TRIM49 | XM_017018027.3 | c.992G>A | p.Arg331Gln | missense_variant | 5/5 | ||
TRIM49 | XM_024448617.2 | c.738+3436G>A | intron_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
TRIM49 | ENST00000329758.5 | c.1223G>A | p.Arg408Gln | missense_variant | 8/8 | 1 | NM_020358.2 | A2 | |
TRIM49 | ENST00000532501.2 | c.992G>A | p.Arg331Gln | missense_variant | 6/6 | 5 | P2 |
Frequencies
GnomAD3 genomes AF: 0.0000152 AC: 2AN: 131898Hom.: 0 Cov.: 18
GnomAD3 exomes AF: 0.0000249 AC: 6AN: 240528Hom.: 0 AF XY: 0.0000230 AC XY: 3AN XY: 130622
GnomAD4 exome AF: 0.0000131 AC: 19AN: 1444972Hom.: 0 Cov.: 30 AF XY: 0.0000153 AC XY: 11AN XY: 718840
GnomAD4 genome AF: 0.0000152 AC: 2AN: 131982Hom.: 0 Cov.: 18 AF XY: 0.0000157 AC XY: 1AN XY: 63712
ClinVar
Submissions by phenotype
not specified Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Ambry Genetics | Dec 07, 2021 | The c.1223G>A (p.R408Q) alteration is located in exon 8 (coding exon 6) of the TRIM49 gene. This alteration results from a G to A substitution at nucleotide position 1223, causing the arginine (R) at amino acid position 408 to be replaced by a glutamine (Q). 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