rs121908256
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 4P and 4B. PM2PM5BP4_Strong
The ENST00000310942.9(CBX2):c.1328G>A(p.Arg443His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.00000932 in 1,609,930 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 15/20 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar. Another variant affecting the same amino acid position, but resulting in a different missense (i.e. R443P) has been classified as Pathogenic.
Frequency
Consequence
ENST00000310942.9 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 | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
CBX2 | NM_005189.3 | c.1328G>A | p.Arg443His | missense_variant | 5/5 | ENST00000310942.9 | NP_005180.1 | |
CBX2 | XM_011525382.2 | c.1328G>A | p.Arg443His | missense_variant | 5/6 | XP_011523684.1 | ||
CBX2 | XM_011525383.3 | c.1073G>A | p.Arg358His | missense_variant | 5/6 | XP_011523685.1 | ||
CBX2 | XM_047436946.1 | c.1073G>A | p.Arg358His | missense_variant | 4/5 | XP_047292902.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
CBX2 | ENST00000310942.9 | c.1328G>A | p.Arg443His | missense_variant | 5/5 | 1 | NM_005189.3 | ENSP00000308750 | P1 |
Frequencies
GnomAD3 genomes AF: 0.00000657 AC: 1AN: 152182Hom.: 0 Cov.: 33
GnomAD3 exomes AF: 0.0000208 AC: 5AN: 239942Hom.: 0 AF XY: 0.0000229 AC XY: 3AN XY: 130720
GnomAD4 exome AF: 0.00000960 AC: 14AN: 1457748Hom.: 0 Cov.: 34 AF XY: 0.0000138 AC XY: 10AN XY: 724872
GnomAD4 genome AF: 0.00000657 AC: 1AN: 152182Hom.: 0 Cov.: 33 AF XY: 0.00 AC XY: 0AN XY: 74336
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at