Is DNAH8 p.Ser1889= (c.5667C>T) pathogenic?

DNAH8 p.Ser1889= (c.5667C>T) is classified Likely benign in DNAH8 (ClinVar, Multiple submitters, 2 submitters; last evaluated 2025-06-27). Ultra-rare (popmax 0.066%, sas); Associated with primary ciliary dyskinesia.

What condition is associated with DNAH8 p.Ser1889= (c.5667C>T)?

DNAH8 p.Ser1889= (c.5667C>T) is associated with primary ciliary dyskinesia (ClinVar).

How common is DNAH8 p.Ser1889= (c.5667C>T) in the general population?

DNAH8 p.Ser1889= (c.5667C>T) is ultra-rare (popmax 0.066%, sas) (gnomAD).

How is Primary ciliary dyskinesia inherited?

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

DNAH8 p.Ser1889=

c.5667C>T · rs143295890 · VCV696015

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.066%, sas)

Conditions

primary ciliary dyskinesia

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 -6.4	GERP -5.2
Overall
CADD	3.785	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.066% South Asian · 60/90,912 alleles

Filtering AF 0.0526% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0477%

Overall 0.0179% 289/1,612,982 alleles · ultra-rare

Ancestry group	Frequency	1 in
South Asiangrpmax	0.066%	1,515
Middle Eastern	0.0495%	2,019
European (non-Finnish)	0.0185%	5,411
Remaining individualsnot grpmax-eligible	0.00801%	12,492
East Asian	0.00223%	44,778
Admixed American	0.00167%	59,844
African / African-American	0.00133%	74,932

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: DNAH8
Protein: p.Ser1889=
Coding: c.5667C>T
MANE Select: NM_001206927
dbSNP: rs143295890
Type: single nucleotide variant
Location: chr6:38853281 (GRCh38)
Gene constraint: LOEUF 0.692 · pLI <0.01 (gnomAD)
Residue 1889: the 'aaa 1' region; a UniProt-annotated variant site (found in a patient with primary ciliary dyskinesia; uncertain significance)

Full DNAH8 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

primary ciliary dyskinesia — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Primary ciliary dyskinesia (Orphanet):

Inheritance: Autosomal dominant, Autosomal recessive, X-linked recessive
Onset: Neonatal
Prevalence: 1-5 / 10 000 (Pakistan)

Similar variants

DNAH8 p.Ser1889Phe Uncertain significance ★ ⚠ same residue
DNAH8 c.10963-1G>A Likely pathogenic ★★ same condition
DNAH8 c.11563+1G>T Likely pathogenic ★★ same condition
DNAH8 c.2664+2T>C Likely pathogenic ★★ same condition
DNAH8 c.5734-1G>T Likely pathogenic ★★ same condition
DNAH8 p.Arg1090Ter Pathogenic/Likely pathogenic ★★ same condition
DNAH8 p.Arg207Ter Pathogenic/Likely pathogenic ★★ same condition
DNAH8 p.Arg2878Ter 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/dnah8-p-ser1889 (accessed [today's date]).

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