2-42763085-C-G
Variant summary
Our verdict is Benign. Variant got -10 ACMG points: 0P and 10B. BP4_StrongBP6_ModerateBS2
The NM_148962.5(OXER1):āc.978G>Cā(p.Gln326His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00545 in 1,614,148 control chromosomes in the GnomAD database, including 33 homozygotes. In-silico tool predicts a benign outcome for this variant. 14/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Likely benign (ā ).
Frequency
Consequence
NM_148962.5 missense
Scores
Clinical Significance
Conservation
Genome browser will be placed here
ACMG classification
Verdict is Benign. Variant got -10 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
OXER1 | NM_148962.5 | c.978G>C | p.Gln326His | missense_variant | 1/1 | ENST00000378661.4 | NP_683765.2 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
OXER1 | ENST00000378661.4 | c.978G>C | p.Gln326His | missense_variant | 1/1 | 6 | NM_148962.5 | ENSP00000367930.3 |
Frequencies
GnomAD3 genomes AF: 0.00393 AC: 598AN: 152208Hom.: 2 Cov.: 33
GnomAD3 exomes AF: 0.00374 AC: 936AN: 250282Hom.: 3 AF XY: 0.00363 AC XY: 492AN XY: 135680
GnomAD4 exome AF: 0.00560 AC: 8193AN: 1461822Hom.: 31 Cov.: 35 AF XY: 0.00544 AC XY: 3958AN XY: 727220
GnomAD4 genome AF: 0.00393 AC: 598AN: 152326Hom.: 2 Cov.: 33 AF XY: 0.00360 AC XY: 268AN XY: 74486
ClinVar
Submissions by phenotype
not provided Benign:1
Likely benign, criteria provided, single submitter | clinical testing | CeGaT Center for Human Genetics Tuebingen | Aug 01, 2024 | OXER1: BP4, BS2 - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at