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Table 1 Primers for the strand-specific PCR and PCR conditions

From: Strand-specific PCR of UV radiation-damaged genomic DNA revealed an essential role of DNA-PKcs in the transcription-coupled repair

Aim Primers Primer sequence1 PCR condition
First strand synthesis of DHFR transcribed strand DHFR_UP-TSP1 5'-GAGTCGAGTCGACATCG AGCCACTGTGCCCGGTCAGAC-3' 94°C 15 s, 62°C 15 s, 72°C 60 s for 1 cycle
First strand synthesis of DHFR non-transcribed strand DHFR_UP-NTSP1 5'-GAGTCGAGTCGACATCG GGATGTGCCCTGGTGACTGGA-3' 94°C 15 s, 62°C 15 s, 72°C 60 s for 1 cycle
Amplification of DHFR transcribed strand DHFR_TSP2 5'-GGATGTGCCCTGGTGACTGGA-3' 94°C 15 s, 62°C 15 s, 72°C 40 s for 25 cycles
  UP 5'-GAGTCGAGTCGACATCG-3'  
Amplification of DHFR no-transcribed strand DHFR_NTSP2 5'-AGCCACTGTGCCCGGTCAGAC-3' 94°C 15 s, 62°C 15 s, 72°C 40 s for 25 cycles.
  UP 5'-GAGTCGAGTCGACATCG-3'  
First strand synthesis of c-myc transcribed strand c-myc_UP-TSP1 5'-GAGTCGAGTCGACATCG AACTTTGTGCCTTGGATTT-3' 94°C 15 s, 58°C 15 s, 72°C 60 s for 1 cycle
Amplification of c-myc transcribed strand c-myc_TSP2 5'-TACTGGAGCTGATGCTGAGC-3' 94°C 15 s, 58°C 15 s, 72°C 40 s for 25 cycles
  UP 5'-GAGTCGAGTCGACATCG-3'  
Amplification of β-actin β-actin P1 5'-GCCAGGTCCAGACGCAGGAT-3' 94°C 15 s, 62°C 15 s, 72°C 10 s for 22 cycles
  β-actin P2 5'-TGCTATCCCTGTACGCCTCTG-3'  
  1. 1 The underline sequence is an adaptor universal primer (UP) without homology to mammalian genomic DNA.