Oligonucleotide primers and probes used in RT-PCR analysis
| Target transcript | Oligo | B95.8 genomic coordinates | Sequence |
|---|---|---|---|
| *All EBNA116 primers except Flyt, and all BART primers18 were described previously. We also used BLZF1 and BHRF1 specific primers as described previously.19 | |||
| as, antisense; BARTs, BamH1A region driven transcripts; EBNA, Epstein-Barr virus nuclear antigen; RT-PCR, reverse transcription polymerase chain reaction; s, sense. | |||
| EBNA1* | Y3 (s) | 48397–48416 | TGGCGTGTGACGTGGTGTAA |
| Q (s) | 62440–62457 | GTGCGCTACCGGATGGCG | |
| Flyt (s) | 62336–62355 | GACCACTGAGGGAGTGTTCC | |
| K (as) | 107986–107967 | CATTTCCAGGTCCTGTACCT | |
| ASU (as) | 67610–67589 | TCTACTGGCGGTGTATCATGCG | |
| PU (probe) | 67544–67563 | AGAGAGTAGTCTCAGGGCAT | |
| BARTs | A3 (s) | 157154–157173 | AGAGACCAGGCTGCTAAACA |
| A4 (as) | 159194–159175 | AACCAGCTTTCCTTTCCGAG | |
| AP (probe) | 157359–157378 | AAGACGTTGGAGGCACGCTG | |
| U1A | U1A1 (s) | – | CAGTATGCCAAGACCGACTCAGA |
| U1A2 (as) | – | GGCCCGGCATGTGGTGCATAA | |
| U1A3 (probe) | – | AGAAGAGGAAGCCCAAGAGCCA | |