Table 2.
Effects of significant substitutions on potential secondary structures and coding function in the core gene. Consensus nucleotide is shown in bold.
| Position | Control Type | HCC Type | RNA effect | Core effect | ARFP effect | ||
|---|---|---|---|---|---|---|---|
| Control | HCC | Control | HCC | ||||
| 36 | A | G/C | None | Lys | Silent/Asn | Asn | Ser/Thr |
| Weakens SLV | Silent (Gly) | Ala | Val | ||||
| 78 | U | C | GCGU | ||||
| 209 | G | A | None | Gln | Arg | Gly | Ser |
| Strengthens SL_248 | |||||||
| 271 | A | U/C | Introduces GU or GC pair Weakens SL_248 | Met | Leu | Silent (Ala) | |
| 309 | U | C/A | Disrupts AU base pair | Silent (Ser) | Leu | Pro | |
| 384 | C | U | None | Silent (Cys) | Ala | Val | |
| 408 | C | U | None | Silent (Tyr) | Thr | Ile | |
| 435 | G | A/C | None | Silent (Gly) | |||
| 465 | C | U | Weakens TSLE (GCGU) | Silent (Val) | |||
| 481 | G | A | Strengthens TSLE, UGUA | Gly | Ser | ||
| 546 | G | A/C | None | Silent (Leu) | |||