KCNQ1 Variant R669T

Summary of observed carriers, functional annotations, and structural context for KCNQ1 R669T. Data combine curated literature, international cohorts, and gnomAD observations.

Estimated LQT1 penetrance

9%

0/11 effective observations

Total carriers

1

0 LQT1 · 1 unaffected

Functional studies

0

Publications with functional data

R669T is present in 1 alleles in gnomAD. This residue resides in a Non_Hotspot region for LQT1.

Variant features alone are equivalent to phenotyping 0 individuals with LQT1 and 10 unaffected individuals.

In silico predictors

Variant-level computational predictors.
PROVEAN PolyPhen-2 BLAST-PSSM REVEL Penetrance Density LQT1 (%)
-0.81 0.016 -1 0.572 0

PROVEAN scores below -2 suggest deleterious impact. REVEL scores above 0.5–0.75 are often interpreted as likely pathogenic. PolyPhen-2 scores above 0.85 are typically pathogenic. BLAST-PSSM reflects evolutionary conservation; more negative values indicate rarer substitutions. Penetrance density summarises neighbouring residue risk (Kroncke et al. 2019).

Reported carrier data

Observed carriers by publication or cohort.
Source Year Carriers Unaffected LQT1 Other Disease
Literature, cohort, and gnomAD – 1 1 0 –
Variant features alone – 15 10 0 –

Totals may differ from individual publications due to duplicate patients removed during curation.

Nearby variants

Neighbouring residues within 15 Ångström provide structural context. Variants listed in the right-most column have been observed clinically or in gnomAD.

Previously observed variants near R669T.
Neighbour residue Distance (Å) Observed variants
669 0 R669S, R669S, R669T,
668 4
670 4 R670K,
667 5 V667M
671 5 G671S,
666 7
672 7
665 8
673 8 D673N,
664 8
674 8 E674K,
663 9 E663K,
675 9
662 10
661 11
660 11 P660S,
659 12
658 13 T658N,
657 13 N657S,
656 14
655 14
654 15