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Table 1 Primers for this study

From: A 5'-proximal Stem-loop Structure of 5' Untranslated Region of Porcine Reproductive and Respiratory Syndrome Virus Genome Is Key for Virus Replication

Name Sequence Application
F-L-LL 5'-GTATTGTCAggagctgtgaAGattgacacagcccAAAGCTTGCTGCACAG-3' PCR mutagenesis for mutant L-LL
R-L-LL 5'-CTGTGCAGCAAGCTTTgggctgtgtcaatCTtcacagctccTGACAATAC-3'  
F-L-RR 5'-GTATTGTCAggagctgtgatcattCTcacagcccAAAGCTTGCTGCACAG-3' PCR mutagenesis for mutant L-RR
R-L-RR 5'-CTGTGCAGCAAGCTTTgggctgtgAGaatgatcacagctccTGACAATAC-3'  
F-L-RL 5'-GTATTGTCAggagctgtgaAGattCTcacagcccAAAGCTTGCTGCACAG-3' PCR mutagenesis for mutant L-RL
R-L-RL 5'-CTGTGCAGCAAGCTTTgggctgtgAGaatCTtcacagctccTGACAATAC-3'  
F-S-LL 5'-GCCTTGACATTTGTATTGTCAggagctgtgatcattctgtgtcgggAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant S-LL
R-S-LL 5'-GTTTCTGTGCAGCAAGCTTTcccgacacagaatgatcacagctccTGACAATACAAATGTCAAGGC-3'  
F-S-RR 5'-GCCTTGACATTTGTATTGTCAccacgacacaagattgacacagcccAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant S-RR
R-S-RR 5'-GTTTCTGTGCAGCAAGCTTTgggctgtgtcaatcttgtgtcgtggTGACAATACAAATGTCAAGGC-3'  
F-S-RL 5'-GCCTTGACATTTGTATTGTCAcccgacacagattctagtgtcgaggAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant S-RL
F-S-RL 5'-GTTTCTGTGCAGCAAGCTTTcctcgacactagaatctgtgtcgggTGACAATACAAATGTCAAGGC-3'  
F-EX 5'-GCCTTGACATTTGTATTGTCAtggaggcgtgggtacagccccgccccaAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant EX
R-EX 5'-GTTTCTGTGCAGCAAGCTTTtggggcggggctgtacccacgcctccaTGACAATACAAATGTCAAGGC-3'  
F-D1 5'-GACATTTGTATTGTCAgagctgtgatcattgacacagccAAAGCTTGCTGCACAG-3' PCR mutagenesis for mutant D1
R-D1 5'-CTGTGCAGCAAGCTTTggctgtgtcaatgatcacagctcTGACAATACAAATGTC-3'  
F-D2 5'-GACATTTGTATTGTCAgctgtgatcattgacacagcAAAGCTTGCTGCACAG-3' PCR mutagenesis for mutant D2
R-D2 5'-CTGTGCAGCAAGCTTTgctgtgtcaatgatcacagcTGACAATACAAATGTC-3'  
F-D3 5'-GCCTTGACATTTGTATTGTCActgtgatcattgacacagAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant D3
R-D3 5'-GTTTCTGTGCAGCAAGCTTTctgtgtcaatgatcacagTGACAATACAAATGTCAAGGC-3'  
F-D4 5'-GCCTTGACATTTGTATTGTCAtgtgatcattgacacaAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant D4
R-D4 5'-GTTTCTGTGCAGCAAGCTTTtgtgtcaatgatcacaTGACAATACAAATGTCAAGGC-3'  
F-D5 5'-GCCTTGACATTTGTATTGTCAgtgatcattgacacAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant D5
R-D5 5'-GTTTCTGTGCAGCAAGCTTTgtgtcaatgatcacTGACAATACAAATGTCAAGGC-3'  
F-D6 5'-GCCTTGACATTTGTATTGTCAtgatcattgacaAAAGCTTGCTGCACAGAAAC-3' PCR mutagenesis for mutant D6
R-D6 5'-GTTTCTGTGCAGCAAGCTTTtgtcaatgatcaTGACAATACAAATGTCAAGGC-3'  
Qst 5'-GAGTGACGAGGACTCGAGCGCATGCTTTTTTTTTTTTTT-3' RT for cDNA preparation
F-6 5'-GTATAGGTGTTGGCTCTATGC-3' (-) gRNAs analysis
R-683 5'-GGAGCGGCAGGTTGGTTAACACG-3' (-) gRNAs analysis
F-12 5'-GTGTTGGCTCTATGCCTTGAC-3' (-) gRNAs analysis, sg mRNA7 analysis
R-343 5'-ATAGAATAGGCCCAGCACCCC-3' (-) gRNAs analysis
R-15284 5'-CTCCACAGTGTAACTTATCCTCC-3' sg mRNA7 analysis
F-actin 5'-CCCATCTATGAGGGCTACGC-3' β-actin analysis
R-actin 5'-TTTGATGTCACGCACAATTTC-3' β-actin analysis
  1. Prefixes: F, forward primer; R, reverse primer; RT, reverse transcription; (-) gRNAs, negativ-strand genomic RNA; sg, subgenomic. The lowercase represent different sequences compared the APRRSV (GQ330474) in N-SL2.