SCN5A Variant R1982T
Summary of observed carriers, functional annotations, and structural context for SCN5A R1982T. Data combine curated literature, international cohorts, and gnomAD observations.
Estimated LQT3 penetrance
7%
0/11 effective observations
Estimated BrS1 penetrance
7%
0/11 effective observations
Total carriers
1
0 BrS1 · 0 LQT3 · 1 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 (%) |
|---|---|---|---|---|---|
| -4.01 | 0.774 | -0.19 | 0.629 | 0 | 5 |
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 | – | 1 | 1 | 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 |
|---|---|---|
| 1967 | 15 | p.S1967LfsX12, |
| 1968 | 14 | I1968T, I1968S, I1968N, I1968V, I1968M, |
| 1969 | 14 | |
| 1970 | 13 | p.S1970_S1972del, |
| 1971 | 13 | |
| 1972 | 12 | |
| 1973 | 11 | F1973L, |
| 1974 | 11 | |
| 1975 | 10 | P1975T, |
| 1976 | 9 | S1976C, |
| 1977 | 8 | Y1977N, |
| 1978 | 8 | |
| 1979 | 7 | |
| 1980 | 5 | V1980F, |
| 1981 | 4 | |
| 1982 | 0 | R1982T, |
| 1983 | 4 | A1983V, A1983G, |
| 1984 | 5 | T1984I, |
| 1985 | 7 | S1985R, |
| 1986 | 8 | D1986N, D1986G, |
| 1987 | 8 | N1987K, |
| 1988 | 9 | L1988R, |
| 1989 | 10 | |
| 1990 | 11 | V1990L, |
| 1991 | 11 | R1991Q, R1991W, |
| 1992 | 12 | G1992A, |
| 1993 | 13 | |
| 1994 | 13 | |
| 1995 | 14 | Y1995X, |
| 1996 | 14 | S1996N, S1996R, |
| 1997 | 15 | H1997R, |