Table 4.
Strength of each initiation context within the HBV pgRNA in HepG2 cells
| Sequence context surrounding ATG codon (−6 to +6) | Predicted initiation strength | Strength of each context tested in HepG2 cells | |
|---|---|---|---|
| Human RefSeq Consensus | GCCGCCATGGCC | 1.00 | |
| C0AUG | TTGTACATGTCC | 0.41 | 0.32 ± 0.05 |
| CAUG | TGGGGCATGGAC | 0.79 | 0.87 ± 0.08 |
| C1AUG | GAATTGATGACT | 0.33 | 0.44 ± 0.05 |
| JAUG | TCAATTATGTTA | 0.16 | 0.69 ± 0.06 |
| C2AUG | ACTAACATGGGT | 0.77 | 1.00 ± 0.02 |
| PAUG | CACCAAATGCCC | 0.51 | 0.56 ± 0.04 |
| CAUGKO | TGGGGCAAGGAC | 0.00 | 0.00 ± 0.00 |
The key nucleotides at positions −3 and +4 relative to the start codon (underlined) are represented in bold. Matches to an information content scoring matrix derived from 16 232 human RefSeq initiation codons are scored 0–1. When tested in HepG2 cells, the relative strength of each initiation context are represented in arbitary units relative to the C2 AUG context (designated 1.00). Note that sequences within the coding region could also affect protein stability or activity.