Is CEBPA p.Arg333= (c.999C>G) pathogenic?

CEBPA p.Arg333= (c.999C>G) is classified Likely benign in CEBPA (ClinVar, Single submitter, 1 submitter; last evaluated 2022-02-22). Absent from gnomAD v4.1; Associated with acute myeloid leukemia.

What condition is associated with CEBPA p.Arg333= (c.999C>G)?

CEBPA p.Arg333= (c.999C>G) is associated with acute myeloid leukemia (ClinVar).

How common is CEBPA p.Arg333= (c.999C>G) in the general population?

CEBPA p.Arg333= (c.999C>G) is absent from gnomAD v4.1 (gnomAD).

CEBPA p.Arg333=

c.999C>G · rs1967159575 · VCV2063619

Likely benign Single submitter

Classification

Likely benign

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

gnomAD v4.1

Absent

absent from gnomAD v4.1

Conditions

acute myeloid leukemia

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 0.001	GERP -3.4, phastCons 0.34
Overall
CADD	15.18	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Absent from gnomAD v4.1. Not observed in any sequenced alleles — a rarity signal (ACMG PM2-supporting), not evidence of pathogenicity on its own.

Variant & gene context

Gene: CEBPA
Protein: p.Arg333=
Coding: c.999C>G
MANE Select: NM_004364
dbSNP: rs1967159575
Type: single nucleotide variant
Location: chr19:33301416 (GRCh38)
Gene constraint: LOEUF 1.372 · pLI 0.26 · ClinGen HI 0/3 (gnomAD)
Structure: AlphaFold pLDDT 63.67 · 2 PDB
Residue 333: the bzip domain; the 'interaction with foxo1' region; the 'leucine-zipper' region; an α-helix

Full CEBPA gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

acute myeloid leukemia — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

CEBPA p.Arg333Cys Uncertain significance ★ ⚠ same residue
CEBPA p.Arg333Pro Uncertain significance ★ ⚠ same residue
CEBPA p.Glu59Ter Pathogenic ★★ same condition
CEBPA p.Ala113Ser Uncertain significance ★★ ⚠ same condition
CEBPA p.Ala118Thr Uncertain significance ★★ ⚠ same condition
CEBPA p.Ala118Val Uncertain significance ★★ ⚠ same condition
CEBPA p.Ala124Val Uncertain significance ★★ ⚠ same condition
CEBPA p.Ala154Val Uncertain significance ★★ ⚠ same condition

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/cebpa-p-arg333 (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown