Is PRSS1 p.Pro97= (c.291C>G) pathogenic?

PRSS1 p.Pro97= (c.291C>G) is classified Likely benign in PRSS1 (ClinVar, Multiple submitters, 4 submitters; last evaluated 2025-07-21). Ultra-rare (popmax 0.0183%, amr); Associated with hereditary chronic pancreatitis.

What condition is associated with PRSS1 p.Pro97= (c.291C>G)?

PRSS1 p.Pro97= (c.291C>G) is associated with hereditary chronic pancreatitis (ClinVar).

How common is PRSS1 p.Pro97= (c.291C>G) in the general population?

PRSS1 p.Pro97= (c.291C>G) is ultra-rare (popmax 0.0183%, amr) (gnomAD).

PRSS1 p.Pro97=

Q: How is Autosomal dominant hereditary chronic pancreatitis inherited?

Typically Autosomal dominant (Orphanet). A genetic counselor can assess individual risk for a family.

c.291C>G · rs200763933 · VCV618336

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 4 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.0183%, amr)

Conditions

hereditary chronic pancreatitis

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 -6.9	GERP -3.7
Overall
CADD	2.841	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0183% Admixed American · 11/59,966 alleles

Filtering AF 0.0102% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.00786%

Overall 0.0052% 84/1,613,948 alleles · ultra-rare exomes 78/1,461,888 · genomes 6/152,060 · joint denominator

Ancestry group	Frequency	1 in
Admixed Americangrpmax	0.0183%	5,451
European (non-Finnish)	0.0061%	16,389
Finnishnot grpmax-eligible	0.00156%	64,028

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: PRSS1
Protein: p.Pro97=
Coding: c.291C>G
MANE Select: NM_002769
dbSNP: rs200763933
Type: single nucleotide variant
Location: chr7:142751864 (GRCh38)
Gene constraint: LOEUF 1.301 · pLI <0.01 · ClinGen HI 0/3 (gnomAD)
Structure: AlphaFold pLDDT 92.24 · 12 PDB
Residue 97: the peptidase s1 domain

Full PRSS1 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

hereditary chronic pancreatitis — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Autosomal dominant hereditary chronic pancreatitis (Orphanet):

Inheritance: Autosomal dominant
Onset: Adolescent, Childhood
Prevalence: 1-9 / 1 000 000 (France)

Similar variants

PRSS1 p.Pro97Ala Uncertain significance ★ ⚠ same residue
PRSS1 p.Pro97His Uncertain significance ★ ⚠ same residue
PRSS1 p.Pro97Ser Uncertain significance ★ ⚠ same residue
PRSS1 p.Ala16Val Pathogenic/Likely pathogenic ★★ ⚠ same condition
PRSS1 p.Arg116Cys Pathogenic/Likely pathogenic ★★ same condition
PRSS1 p.Arg122Cys Pathogenic ★★ same condition
PRSS1 p.Arg122His Pathogenic/Likely pathogenic ★★ ⚠ same condition
PRSS1 p.Asn29Ile 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/prss1-p-pro97 (accessed [today's date]).

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