TABLE 1.
Oligonucleotides and templates used to generate the cDNA libraries
| Oligonucleotide | Sequence (5′ to 3′) | Template | Hybridize to a: |
|---|---|---|---|
| −35 N-Block | CCGCTCGAGCCATCNNNNNGGAAATAAAGCATCTCTA | TCS | (7558–7555) |
| −30 N-Block | CCGCTCGAGCCATCAGAGGNNNNNTAAAGCATCTCTACGGTGGTCCTAAA | TCS | (7558–7598) |
| −25 N-Block | CCGCTCGAGCCATCAGAGGGGAAANNNNNCATCTCTACGGTGGTCCTAA | TCS | (7558–7597) |
| −20 N-Block | CCGCTCGAGCCATCAGAGGGGAAATAAAGNNNNNCTACGGTGGTCCTAAATAGTCA | TCS | (7558–7604) |
| −15 N-Block | GCTCTAGAACTATGCTGACTATTTAGGACCACNNNNNAGATGCTTTATTTCCCCTCTGA | −40/+14 | 7611–7561 |
| −10 N-Block | GCTCTAGAACTATGCTGCTATTTAGGNNNNNCGTAGAGATGCTTTA | −40/+14 | 7611–7573 |
| −5 N-Block | GCTCTAGAACTATGCTGACTATNNNNNACCACCGTAGAGATGCTTTA | −40/+14 | 7611–7573 |
| +1 N-Block | GCTCTAGAACTATGCTGNNNNNTTAGGACCACCGTAGAGATGCTTTA | −40/+14 | 7611–7573 |
| +5 N-Block | GCTCTAGAACTATNNNNNCTATTTAGGACCACCGTA | −40/+14 | 7611–7584 |
| AatII | CCTCGTTCTGACGTCGAACA | −40/+14 | 8010–7990 |
| 1926 | GAGCATGTTAAAGAATCCTCTATTCA | SIN | 7673–7648b |
| 1941 | GATTACAACAGTACTGCGATGA | TCS | (8275–8297)c |
| 1940 | CCCGTTTTCACCATGGGCAAATA | −40/+14 | (8161–8183)c |
a
The position to which the oligonucleotide hybridizes to during PCR. Nucleotide positions are those of SIN, unless otherwise specified. Hybridization to the minus strand is denoted by parentheses.
b
In the capsid coding region.
c
Oligonucleotides 1941 hybridize 1940 and to all cDNA clones and libraries on the minus strand, upstream of the CAT termination codon.