Is TG p.Ser884= (c.2652A>C) pathogenic?

TG p.Ser884= (c.2652A>C) is classified Conflicting classifications of pathogenicity in TG (ClinVar, Conflicting submitters, 2 submitters; last evaluated 2024-10-03). Ultra-rare (popmax 0.0662%, mid); Associated with thyroid dyshormonogenesis 3.

What condition is associated with TG p.Ser884= (c.2652A>C)?

TG p.Ser884= (c.2652A>C) is associated with thyroid dyshormonogenesis 3 (ClinVar).

How common is TG p.Ser884= (c.2652A>C) in the general population?

TG p.Ser884= (c.2652A>C) is ultra-rare (popmax 0.0662%, mid) (gnomAD).

How is Familial thyroid dyshormonogenesis inherited?

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

TG p.Ser884=

c.2652A>C · rs115199914 · VCV910869

Conflicting classifications of pathogenicity Conflicting submitters

Classification

Conflicting classifications of pathogenicity

ClinVar

Review

Conflicting submitters ★☆☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.0662%, mid)

Conditions

thyroid dyshormonogenesis 3

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 -3.5	GERP -4.2
Overall
CADD	0.736	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0662% Middle Eastern · 4/6,046 alleles

Filtering AF 0.0226% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0135%

Overall 0.00782% 126/1,611,654 alleles · ultra-rare exomes 107/1,459,418 · genomes 19/152,236 · joint denominator

Ancestry group	Frequency	1 in
Middle Easterngrpmax	0.0662%	1,512
Remaining individualsnot grpmax-eligible	0.0208%	4,800
European (non-Finnish)	0.00848%	11,786
South Asian	0.00662%	15,113
Admixed American	0.00334%	29,969
African / African-American	0.00133%	74,978

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: TG
Protein: p.Ser884=
Coding: c.2652A>C
MANE Select: NM_003235
dbSNP: rs115199914
Type: single nucleotide variant
Location: chr8:132888459 (GRCh38)
Gene constraint: LOEUF 0.892 · pLI <0.01 (gnomAD)
Residue 884: the thyroglobulin type-1 7 domain

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

Disease context

thyroid dyshormonogenesis 3 — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Familial thyroid dyshormonogenesis (Orphanet):

Inheritance: Autosomal recessive
Onset: Infancy, Neonatal
Prevalence: 1-9 / 100 000 (Worldwide)

Similar variants

TG c.274+2T>G Pathogenic ★★ same condition
TG c.3634+1G>A Likely pathogenic ★★ same condition
TG c.5686+1G>A Pathogenic ★★ same condition
TG c.5686+1G>T Pathogenic ★★ same condition
TG c.638+5G>A Pathogenic/Likely pathogenic ★★ same condition
TG c.6782+1G>T Likely pathogenic ★★ same condition
TG c.7863-1G>A Likely pathogenic ★★ same condition
TG p.Arg1530Ter 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/tg-p-ser884 (accessed [today's date]).

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