Table 3.
PARR primer sets used in the final protocol.
| Primer set | Primer number | Target | Original primer name | Reference | Sequence | Product size |
|---|---|---|---|---|---|---|
| 1 | 913 | IgH V FWR3 | CB1 (5′) | Burnett (2003) | 6-FAM-CAG CCT GAG AGC CGA GGA CAC | 85–139 bp |
| 914 | IgH J1-2 | CB2 (3′) | Burnett (2003) | TGA GGA GAC GGT GAC CAG GGT | ||
| 2 | 916 | IgH V FWR3 | Tamura F (5′) | Tamura (2006) | 6-FAM-ACA CGG CCV TGT ATT ACT GT | 79–90 bp |
| 914 | IgH J1-2 | CB2 (3′) | Burnett (2003) | TGA GGA GAC GGT GAC CAG GGT | ||
| 3 | 913 | IgH V FWR3 | CB1 (5′) | Burnett (2003) | 6-FAM-CAG CCT GAG AGC CGA GGA CAC | 85–145 bp |
| 915a | IgH J3 | CB3(3′)a | Burnett (2003) | TGA GGA CAC GAA GAG TGA GG | ||
| 4 | 919 | IgH V FWR1 | 3′ FWR1 (5′) | Gentilini (2009) | HEX-GCC TCT GGA TTC ACC TTC AG | 262–315 bp |
| 914 | IgH J1-2 | CB2 (3′) | Burnett (2003) | TGA GGA GAC GGT GAC CAG GGT | ||
| 5 | 918 | IgH V FWR1 | 5′ FWR1(5′) | Gentilini (2009) | HEX-GAG GTG CAG CTG GTG GAG TCT | 309–378 bp |
| 914 | IgH J1-2 | CB2 (3′) | Burnett (2003) | TGA GGA GAC GGT GAC CAG GGT | ||
| 6 | 919 | IgH V FWR1 | 3′ FWR1 (5′) | Gentilini (2009) | HEX-GCC TCT GGA TTC ACC TTC AG | 262–315 bp |
| 915a | IgH J3 | CB3(3′)a | Burnett (2003) | TGA GGA CAC GAA GAG TGA GG | ||
| 7 | 928 | TCRγ V2&6 | dTCRγ-Va (5′) | Chaubert (2010) | 6-FAM-GGC GTG TAC TAC TGC GCT GCC | 55–82 bp |
| 930a | TCRγ Jx-2 | dTCRγ-Jb (3′)a | Chaubert (2010) | TGT GCC AGG ACC AAD YAC TTT | ||
| 8 | 925a | TCRγ V3&5&7 | Vγb (5′)a | Yagihara (2007) | HEX-CCA TGT AYT ACT GTG CCT GCT GG | 55–82 bp |
| 930a | TCRγ Jx-2 | dTCRγ-Jb (3′)a | Chaubert (2010) | TGT GCC AGG ACC AAD YAC TTT | ||
| 9 | 928 | TCRγ V2&6 | dTCRγ-Va (5′) | Chaubert (2010) | 6-FAM-GGC GTG TAC TAC TGC GCT GCC | 55–82 bp |
| 929 | TCRγ Jx-1 | dTCRγ-Ja (3′) | Chaubert (2010) | TAC CTT CTG TAA ATA TCT TGA TC | ||
| 10 | 925a | TCRγ V3&5&7 | Vγb (5′)a | Yagihara (2007) | HEX-CCA TGT AYT ACT GTG CCT GCT GG | 55–82 bp |
| 929 | TCRγ Jx-1 | dTCRγ-Ja (3′) | Chaubert (2010) | TAC CTT CTG TAA ATA TCT TGA TC |
Altered bases are marked in bold. Degenerate bases: V = A, C or G; D = A, G or T; Y = C or T.
a
Denotes primer altered slightly from the original published sequence; this is also marked by the suffix ‘a’ in the primer number.