rs780335632
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM1BP4_Moderate
The NM_004364.5(CEBPA):c.803G>T(p.Gly268Val) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000139 in 1,443,362 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 12/19 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★★). Another variant affecting the same amino acid position, but resulting in a different missense (i.e. G268C) has been classified as Uncertain significance.
Frequency
Consequence
NM_004364.5 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 |
---|---|---|---|---|---|---|---|
CEBPA | NM_004364.5 | c.803G>T | p.Gly268Val | missense_variant | 1/1 | ENST00000498907.3 | |
CEBPA | NM_001287424.2 | c.908G>T | p.Gly303Val | missense_variant | 1/1 | ||
CEBPA | NM_001287435.2 | c.761G>T | p.Gly254Val | missense_variant | 1/1 | ||
CEBPA | NM_001285829.2 | c.446G>T | p.Gly149Val | missense_variant | 1/1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
CEBPA | ENST00000498907.3 | c.803G>T | p.Gly268Val | missense_variant | 1/1 | NM_004364.5 | P1 | ||
ENST00000587312.1 | n.334C>A | non_coding_transcript_exon_variant | 1/2 | 3 |
Frequencies
GnomAD3 genomes ? Cov.: 32
GnomAD3 exomes AF: 0.0000141 AC: 3AN: 213054Hom.: 0 AF XY: 0.00000848 AC XY: 1AN XY: 117856
GnomAD4 exome AF: 0.0000139 AC: 20AN: 1443362Hom.: 0 Cov.: 31 AF XY: 0.0000125 AC XY: 9AN XY: 717342
GnomAD4 genome ? Cov.: 32
ClinVar
Submissions by phenotype
Acute myeloid leukemia Uncertain:2
Uncertain significance, criteria provided, single submitter | clinical testing | Baylor Genetics | May 04, 2023 | - - |
Uncertain significance, criteria provided, single submitter | clinical testing | Invitae | Jun 15, 2023 | ClinVar contains an entry for this variant (Variation ID: 526807). In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is not expected to disrupt CEBPA protein function. This variant has not been reported in the literature in individuals affected with CEBPA-related conditions. This variant is present in population databases (rs780335632, gnomAD 0.002%). This sequence change replaces glycine, which is neutral and non-polar, with valine, which is neutral and non-polar, at codon 268 of the CEBPA protein (p.Gly268Val). - |
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at