Table 1.
Primers, TaqMan probes and non-extendable oligonucleotide blockers of the developed assay.
| Oligonucleotide Name (Fluorophore) | Sequence (5′–3′) | Hybridization on Acc. NC_045512 | Tm (°C) | Conc. (μΜ) |
|---|---|---|---|---|
| DSarsUp1 | TGATTTTACAGGCTGCGTTATAGCTTGGA | 22,843–22,871 | 69.0 | 0.20 |
| SARSpDo1 | ACAGTTGCTGGTGCATGTAGAAGT | 23,110–23,133 | 66.5 | 0.20 |
| Probe 478K (HEX) | ACA+AGG+T+T+TGCT+ACC | 22,910–22,924 | 63.1 | 0.40 |
| Probe 484Εw (FAM) * | AA+AACCT+T+C+AACACCA | 23,005–23,019 | 62.9 | 0.12 |
| Probe 484Κ (Tex.Red) * | AA+AACCT+T+T+AA+CACCA | 62.2 | 0.07 | |
| Probe 501Y (Cy5) * | AACACCA+T+A+AGTGGGT | 23,056–23,071 | 62.7 | 0.30 |
| Inh478T | ACA+AGGTGTGCTA+CC/3SpC3/ | 22,910–22,924 | 61.5 | 0.50 |
| Inh501N | ACACCA+T+T+AGTGGGT/3SpC3/ | 23,057–23,071 | 62.7 | 0.30 |
+: Locked Nucleic Acid (LNA) modifications; *: previously published sequences; 3SpC3: 3’-end C3 Spacer terminator. Mismatch positions are indicated in boldface.