SCN5A Variant L461S
Summary of observed carriers, functional annotations, and structural context for SCN5A L461S. Data combine curated literature, international cohorts, and gnomAD observations.
Estimated LQT3 penetrance
17%
0/10 effective observations
Estimated BrS1 penetrance
5%
0/10 effective observations
Total carriers
0
0 BrS1 · 0 LQT3 · 0 unaffected
Variant features alone are equivalent to phenotyping 0 individuals for Brugada syndrome and 0 individuals for LQT3.
In silico predictors
| PROVEAN | PolyPhen-2 | BLAST-PSSM | REVEL | Penetrance Density BrS (%) | Penetrance Density LQT3 (%) |
|---|---|---|---|---|---|
| NA | NA | NA | 0.223 | 1 | 23 |
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. Penetrance density summarises neighbouring residue risk (Kroncke et al. 2019).
Reported carrier data
| Source | Year | Carriers | Unaffected | LQT3 | BrS1 | Other | Other Disease |
|---|---|---|---|---|---|---|---|
| Literature, cohort, and gnomAD | – | 0 | 0 | 0 | 0 | – | |
| Variant features alone | – | 15 | 15 | 0 | 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.
| Neighbour residue | Distance (Å) | Observed variants |
|---|---|---|
| 446 | 15 | E446K, |
| 447 | 14 | c.1338+2T>A, c.1339-24G>A, A447S, A447G, |
| 448 | 14 | |
| 449 | 13 | T449A, Y449C, |
| 450 | 13 | |
| 451 | 12 | |
| 452 | 11 | G452D, |
| 453 | 11 | V453M, |
| 454 | 10 | |
| 455 | 9 | |
| 456 | 8 | V456M, |
| 457 | 8 | |
| 458 | 7 | p.R458VfsX12, R458C, R458H, |
| 459 | 5 | S459G, |
| 460 | 4 | |
| 461 | 0 | L461V, |
| 462 | 4 | E462K, E462A, |
| 463 | 5 | M463T, M463R, |
| 464 | 7 | |
| 465 | 8 | p.P465LfsX5, |
| 466 | 8 | L466F, L466F, |
| 467 | 9 | |
| 468 | 10 | P468L, |
| 469 | 11 | V469I, |
| 470 | 11 | N470K, N470K, |
| 471 | 12 | |
| 472 | 13 | |
| 473 | 13 | E473X, |
| 474 | 14 | R474G, R474K, |
| 475 | 14 | R475K, R475S, R475S |
| 476 | 15 |