Is POR p.Pro52= (c.156C>T) pathogenic?

POR p.Pro52= (c.156C>T) is classified Likely benign in POR (ClinVar, Multiple submitters, 2 submitters; last evaluated 2023-10-18). Ultra-rare (popmax 0.0329%, mid); Associated with congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency.

How common is POR p.Pro52= (c.156C>T) in the general population?

POR p.Pro52= (c.156C>T) is ultra-rare (popmax 0.0329%, mid) (gnomAD).

POR p.Pro52=

Q: What condition is associated with POR p.Pro52= (c.156C>T)?

POR p.Pro52= (c.156C>T) is associated with congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency (ClinVar).

Q: How is Congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency inherited?

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

c.156C>T · rs782368623 · VCV1176229

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.0329%, mid)

Conditions

congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency

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 -20
Overall
CADD	0.2	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0329% Middle Eastern · 2/6,080 alleles

Filtering AF 0.0058% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.00241%

Overall 0.00137% 22/1,611,148 alleles · ultra-rare

Ancestry group	Frequency	1 in
Middle Easterngrpmax	0.0329%	3,040
African / African-American	0.00535%	18,707
South Asian	0.00332%	30,139
Remaining individualsnot grpmax-eligible	0.00321%	31,193
European (non-Finnish)	0.000933%	107,153

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: POR
Protein: p.Pro52=
Coding: c.156C>T
MANE Select: NM_001395413
dbSNP: rs782368623
Type: single nucleotide variant
Location: chr7:75954157 (GRCh38)
Gene constraint: LOEUF 0.887 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 91.29 · 14 PDB

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

Disease context

congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Congenital adrenal hyperplasia due to cytochrome P450 oxidoreductase deficiency (Orphanet):

Inheritance: Autosomal recessive
Onset: Infancy, Neonatal
Prevalence: 1-9 / 1 000 000 (Europe)

Similar variants

POR c.1240-2A>G Likely pathogenic ★★ same condition
POR c.179+2T>C Likely pathogenic ★★ same condition
POR c.723-2A>T Pathogenic ★★ same condition
POR c.821+1G>A Pathogenic/Likely pathogenic ★★ same condition
POR p.Arg220Ter Pathogenic ★★ same condition
POR p.Arg454His Pathogenic/Likely pathogenic ★★ same condition
POR p.Arg551Ter Pathogenic/Likely pathogenic ★★ same condition
POR p.Arg613Ter Pathogenic/Likely 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/por-p-pro52 (accessed [today's date]).

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