Is POLG2 p.Pro294= (c.882C>G) pathogenic?

POLG2 p.Pro294= (c.882C>G) is classified Benign/Likely benign in POLG2 (ClinVar, Multiple submitters, 2 submitters; last evaluated 2025-11-03). Rare (popmax 0.105%, eas).

How common is POLG2 p.Pro294= (c.882C>G) in the general population?

POLG2 p.Pro294= (c.882C>G) is rare (popmax 0.105%, eas) (gnomAD).

POLG2 p.Pro294=

c.882C>G · rs782340170 · VCV1594757

Benign/Likely benign Multiple submitters

Classification

Benign/Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

rare (popmax 0.105%, eas)

⚠ Built without this gene's context — gene constraint and dosage, protein structure, pathways, panels and related-variant links were not looked up for this page. why

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	—	not looked up on this page · why
Constraint at this position
Conservation	phyloP 0.64	GERP 0.014, phastCons 1
Overall
CADD	6.165	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.105% East Asian · 47/44,880 alleles

Filtering AF 0.0808% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0725%

Overall 0.00304% 49/1,613,520 alleles · rare exomes 40/1,461,366 · genomes 9/152,154 · joint denominator

Ancestry group	Frequency	1 in
East Asiangrpmax	0.105%	955
Remaining individualsnot grpmax-eligible	0.0032%	31,236

Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.

Variant & gene context

Gene: POLG2
Protein: p.Pro294=
Coding: c.882C>G
MANE Select: NM_007215
dbSNP: rs782340170
Type: single nucleotide variant
Location: chr17:64490883 (GRCh38)

Full POLG2 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

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/polg2-p-pro294 (accessed [today's date]).

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