TABLE 1.
Primers used for the genome sequencing of HCoV-NL63
| Primer | Sequence (5′–3′) | Target (nucleotide position) or amplification method | Size (bp) |
|---|---|---|---|
| 1F | CCTGGCCTCTTGCTTTTTCACATGT | 20504 | 1,686 |
| 1R | ACTTCGACGGTTGAGAAACAAATAG | 22189 | 1,686 |
| 2F | CGCGTTAAGAGTGGTTCACCAGGTG | 22059 | 1,623 |
| 2R | CAAAGCTGCAAGCCGTCCAGTAATT | 23681 | 1,623 |
| 3F | TTCAATTCAAGCCGATCAACAAGTT | 23624 | 1,600 |
| 3R | GTCATCAATTAATCGAAGGAACATC | 25223 | 1,600 |
| 4F | CGAAGAGCCTGTTGTTGGTATAGTC | 25153 | 1,690 |
| 4R | AACACGCTTCCAACGAGGTTTCTTC | 26849 | 1,690 |
| 5F | CCAGGGCTGATAAGCCTTCTCAGTT | 26800 | 754 |
| 5R | GTGTATCCATATCAAAAACAATATC | 27553 | 754 |
| 6F | TGAGGATGTTTGTGTTTGTTTTGAC | 18864 | 1,710 |
| 6R | GTCAGGAACACCTAATTGTAACATA | 20573 | 1,710 |
| 7F | TGCGTGGTTGGTTGGGTATGGATGT | 17234 | 1,682 |
| 7R | ACGCTCATACGAACCCTGAATACTA | 18915 | 1,682 |
| 8F | ATTCAGCAACTGGTTCCTTAGATGT | 15479 | 1,808 |
| 8R | GTTATCGCCACAAACATGAGCACTT | 17286 | 1,808 |
| 9F | CTCCCTACTATGACACAGCTGAATC | 14005 | 1,596 |
| 9R | AGCCGCAAAGAGTCTAAGTGTATCT | 15600 | 1,596 |
| 10F | GACCGTACAACTATTCAAAGTGTTG | 12398 | 1,659 |
| 10R | GTTCTTTACCACTAATAGCATACTT | 14056 | 1,659 |
| 11F | GGGCTATGGCTAATGGTTATACAAG | 9801 | 1,435 |
| 11R | TTTGCGATATTCATGGCACGCTTCA | 11235 | 1,435 |
| 12F | ACCCTTCAGAGTGTTGCTTCATCAT | 11090 | 1,378 |
| 12R | AGTCGAGCTGCACTAGAACCCCTTG | 12467 | 1,378 |
| 13F | CAACCACTGTAACTAGCTTTCATGG | 7758 | 2,103 |
| 13R | CTGCCAAAATAGAATAGCACTCAAC | 9860 | 2,103 |
| 14F | GTCAAAAGGGTGATGCTGAAGAGGC | 5424 | 2,394 |
| 14R | TCAACTGACCATTCTCAATGTACTT | 7817 | 2,394 |
| 15F | TAGAGATGAATTGGGTGTTCGTGTT | 3424 | 2,043 |
| 15R | GGTCCAACATCACCTGTAACAAATT | 5466 | 2,043 |
| 16F | GCAGATGTTCCAGATGCTTTTCAAT | 1637 | 1,864 |
| 16R | GCAACTGTACAAGTGTGGTACTAAT | 3500 | 1,864 |
| 17F | CAGCAATTATGTTCTTCAGGACTTT | 565 | 1,118 |
| 17R | GTGTAAATGTGCGATAAACTGATTG | 1682 | 1,118 |
| 18F | CTTAAAGAATTTTTCTATCTATAGA | 1 | 1,056 |
| 18R | CATGCACCAACACTCCAACTCTCAG | 1056 | 1,056 |
| GSP 1 | CGAAGAGCCTGTTGTTGGTATAGTC | 3′ RACEa | Unknown |
| AP | GGCCACGCGTCGACTAGTACTTTTTTTTTTTTTTTTT | 3′ RACE | Unknown |
| GSP 2 | CCAGGGCTGATAAGCCTTCTCAGTT | Nested PCR | Unknown |
| AUAP | GGCCACGCGTCGACTAGTAC | Nested PCR | Unknown |
| AAP | GGCCACGCGTCGACTAGTACGGGGGGGGGG | 5′ RACE | Unknown |
| GSP 1 | GTGTAAATGTGCGATAAACTGATTG | 5′ RACE | Unknown |
| AUAP | GGCCACGCGTCGACTAGTAC | Nested PCR | Unknown |
| GSP 2 | CATGCACCAACACTCCAACTCTCAG | Nested PCR | Unknown |
| GSP3 | CCATGGCCAAAAACAACATCAAAGT | Nested PCR | Unknown |
a
RACE, rapid amplification of cDNA ends.