Skip to main content

Table 5 Primers and probes used for the real-time PCR

From: Two-fold differences are the detection limit for determining transgene copy numbers in plants by real-time PCR

Target

Amplicon: length, Tm

Oligonucleotide: Length, Tm

Sequence with dyes (for probes)

Endogenous control: Plastidic glutamine-synthetase

ampGSP1 86 bp, 79°C

Forward primer GSP20-24 24 bp, 54°C

5'TGGAAACTTTAGGGTCCTTACTAC3'

  

Reverse primer GSP21-22 22 bp, 56°C

5'CAAGCCTTGTAGTGAGCATCTG3'

  

Probe (binds to same strand as GSP21-22) 24 bp, 64°C

TET-5'ATGACTTATCCGCTCCAGCACCAC3'-TAMRA

Transgene: Streptothricin-acetyl transferase

ampNAT1 86 bp, 81°C

Forward primer NAT8-18 18 bp, 57°C

5'TTGTTGTGTCGCACACGC3'

  

Reverse primer NAT9-20 20 bp, 56°C

5'GAGCTGTCTGCTTAGTGCCC3'

  

Probe (binds to same strand as NAT8-18) 23 bp, 64°C

FAM-5'AAGGAGTCGCGCACAGTCTCATC3'-TAMRA

Transgene: NOS-terminator

AmpNOT2 76 bp, 74°C

Forward primer NOT5-24 24 bp, 59°C

5'-TGGGTTTTTATGAT TAGAGTCCCG-3'

  

Reverse primer NOT6-23 23 bp, 59°C

5'-CCTAGTTTGCG CGCTATATTTTG-3'

  

Probe (binds to same strand as NOT5-24) 20 bp, 69°C

FAM-5'-CATTTAATACGC GATAGAAA-3'-Q-MGB Q = dark quencher