Is POLE p.Val1177fs (c.3529_3530del) pathogenic?

POLE p.Val1177fs (c.35293530del) is classified Pathogenic in POLE (ClinVar, Single submitter, 1 submitter; last evaluated 2023-02-18). Absent from gnomAD.

How common is POLE p.Val1177fs (c.3529_3530del) in the general population?

POLE p.Val1177fs (c.3529_3530del) is absent from gnomAD (gnomAD).

POLE p.Val1177fs

c.3529_3530del · rs2541998903 · VCV2838577

Pathogenic Single submitter

Classification

Pathogenic

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

Consequence

frameshift

predicted LoF

gnomAD v4.1

Not reported

no gnomAD frequency available for this variant

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Consequence	frameshift	predicted loss-of-function
NMD	predicted	premature termination codon in exon 29 of 49
Splicing
SpliceAI	—	not assessed · substitutions only
Constraint at this position
Conservation	phyloP 1.8	GERP -2.8, phastCons 1

Predicted loss-of-function is descriptive, not an applied PVS1 code.

Population frequency

dbSNP / gnomAD

No gnomAD frequency available for this variant. This is missing data, not an absence: the variant may or may not be present in gnomAD. Rarity (ACMG PM2) and BA1/BS1 cannot be assessed for it.

Variant & gene context

Gene: POLE
Protein: p.Val1177fs
Coding: c.3529_3530del
MANE Select: NM_006231
dbSNP: rs2541998903
Type: Deletion
Location: chr12:132657188 (GRCh38)
Gene constraint: LOEUF 0.75 · pLI <0.01 · ClinGen HI 1/3 (gnomAD)
Structure: AlphaFold pLDDT 80.32 · 18 PDB
Residue 1177: a β-strand; a UniProt-annotated variant site (in imagei)

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

Similar variants

POLE p.Val1177Ile Conflicting classifications of pathogenicity ★ ⚠ same residue
POLE p.Val1177= Likely benign ★ same residue
POLE c.5379-5_5384del Likely pathogenic ★★ same type
POLE p.Phe48fs Pathogenic/Likely pathogenic ★★ same type
POLE c.1359+4_1359+74del Uncertain significance ★★ same type
POLE c.206_211delCCGAGA Uncertain significance ★★ same type
POLE c.3459+4del Uncertain significance ★★ same type
POLE p.Ala1288_Leu1295del Uncertain significance ★★ same type

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/pole-p-val1177fs (accessed [today's date]).

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