Is BRCA2 p.Thr1412fs (c.4234_4236delinsC) pathogenic?

BRCA2 p.Thr1412fs (c.42344236delinsC) is classified Likely pathogenic in BRCA2 (ClinVar, Single submitter, 1 submitter). Absent from gnomAD; Associated with pancreatic cancer, susceptibility to, 2.

What condition is associated with BRCA2 p.Thr1412fs (c.4234_4236delinsC)?

BRCA2 p.Thr1412fs (c.4234_4236delinsC) is associated with pancreatic cancer, susceptibility to, 2 (ClinVar).

How common is BRCA2 p.Thr1412fs (c.4234_4236delinsC) in the general population?

BRCA2 p.Thr1412fs (c.4234_4236delinsC) is absent from gnomAD (gnomAD).

BRCA2 p.Thr1412fs

c.4234_4236delinsC · rs2548527950 · VCV3236848

Likely pathogenic Single submitter

Classification

Likely pathogenic

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

Consequence

frameshift

predicted LoF

gnomAD v4.1

Not reported

no gnomAD frequency available for this variant

Conditions

pancreatic cancer, susceptibility to, 2

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Consequence	frameshift	predicted loss-of-function in a haploinsufficient gene (ClinGen)
NMD	predicted	premature termination codon in exon 11 of 27
Splicing
SpliceAI	—	not assessed · substitutions only
Constraint at this position
Conservation	phyloP 2.1	GERP -2.1, phastCons 0.004

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: BRCA2
Protein: p.Thr1412fs
Coding: c.4234_4236delinsC
MANE Select: NM_000059
dbSNP: rs2548527950
Type: Indel
Location: chr13:32338589 (GRCh38)
Gene constraint: LOEUF 0.803 · pLI <0.01 · ClinGen HI 3/3 (gnomAD)
Residue 1412: the 'interaction with rad51' region; the 'interaction with polh' region; the 'required for stimulation of polh dna polymerization activity' region

Full BRCA2 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

pancreatic cancer, susceptibility to, 2 — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

BRCA2 p.Arg2799fs Pathogenic ★★★ same condition
BRCA2 p.Trp2725fs Pathogenic ★★★ same condition
BRCA2 p.Val2263fs Likely pathogenic ★ same condition
BRCA2 p.Arg1471Ile Conflicting classifications of pathogenicity ★ same condition
BRCA2 p.Thr1412Pro Conflicting classifications of pathogenicity ★ ⚠ same residue
BRCA2 c.316+5G>A Pathogenic ★★★ same condition
BRCA2 c.5217_5224del Pathogenic ★★★ same condition
BRCA2 c.631+2T>G Pathogenic ★★★ 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/brca2-p-thr1412fs (accessed [today's date]).

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