Is TXNRD2 p.Phe400= (c.1200C>T) pathogenic?

TXNRD2 p.Phe400= (c.1200C>T) is classified Likely benign in TXNRD2 (ClinVar, Single submitter, 1 submitter; last evaluated 2020-02-19). Absent from gnomAD v4.1; Associated with Cardiovascular phenotype.

What condition is associated with TXNRD2 p.Phe400= (c.1200C>T)?

TXNRD2 p.Phe400= (c.1200C>T) is associated with Cardiovascular phenotype (ClinVar).

How common is TXNRD2 p.Phe400= (c.1200C>T) in the general population?

TXNRD2 p.Phe400= (c.1200C>T) is absent from gnomAD v4.1 (gnomAD).

TXNRD2 p.Phe400=

c.1200C>T · rs2517274999 · VCV1747375

Likely benign Single submitter

Classification

Likely benign

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

gnomAD v4.1

Absent

absent from gnomAD v4.1

Conditions

Cardiovascular phenotype

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 1.5	GERP 0.58, phastCons 1
Overall
CADD	7.765	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Absent from gnomAD v4.1. Not observed in any sequenced alleles — a rarity signal (ACMG PM2-supporting), not evidence of pathogenicity on its own.

Variant & gene context

Gene: TXNRD2
Protein: p.Phe400=
Coding: c.1200C>T
MANE Select: NM_006440
dbSNP: rs2517274999
Type: single nucleotide variant
Location: chr22:19880254 (GRCh38)
Gene constraint: LOEUF 1.18 · pLI <0.01 (gnomAD)

Full TXNRD2 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

Cardiovascular phenotype — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

TXNRD2 c.104-3C>G Uncertain significance ★★ same condition
TXNRD2 c.1182+5G>A Uncertain significance ★★ same condition
TXNRD2 c.172+3A>G Uncertain significance ★★ same condition
TXNRD2 c.450-1G>A Uncertain significance ★★ same condition
TXNRD2 c.528+2T>C Uncertain significance ★★ same condition
TXNRD2 c.591+1G>A Uncertain significance ★★ same condition
TXNRD2 c.662+1G>A Uncertain significance ★★ same condition
TXNRD2 p.Ala131Gly Uncertain significance ★★ 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/txnrd2-p-phe400 (accessed [today's date]).

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