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. 2015 Mar 10;6(2):e00105-15. doi: 10.1128/mBio.00105-15

TABLE 3 .

Oligonucleotides used for RT-qPCR of viral gRNA and sgmRNA

Amplicon Oligonucleotidea Oligonucleotide sequence (5′→3′)b Methodc
gRNA Rep-VS TTCTTTTGACAAAACATACGGTGAA SYBR
Rep-RS CTAGGCAACTGGTTTGTAACATCTTT SYBR
sgmRNA S LCS1-VS CCAACTCGAACTAAACTTTGGTAACC SYBR
LCS1-RS TCAATGGCATTACGACCAAAAC SYBR
sgmRNA 3a rt3a-VS2 CGGACACCAACTCGAACTAAACTTAC SYBR
rt3a-RS ATCAAGTTCGTCAAGTACAGCATCTAC SYBR
sgmRNA E Ldrt-VS CGTGGCTATATCTCTTCTTTTACTTTAACTAG SYBR
mRNAE-RS CAATGCCCTAGGAAACGTCATAG SYBR
sgmRNA M Ldrt-VS CGTGGCTATATCTCTTCTTTTACTTTAACTAG SYBR
mRNAM-RS GCATGCAATCACACACGCTAA SYBR
sgmRNA N Ldrt-VS CGTGGCTATATCTCTTCTTTTACTTTAACTAG SYBR
N82−RS TCTTCCGACCACGGGAATT SYBR
sgmRNA 7 Ldrt-VS CGTGGCTATATCTCTTCTTTTACTTTAACTAG SYBR
7 (38)-RS AAAACTGTAATAAATACAGCATGGAGGAA SYBR
gRNA Rep-VS TTCTTTTGACAAAACATACGGTGAA TaqMan
Rep-RS CTAGGCAACTGGTTTGTAACATCTTT TaqMan
Rep-MGB FAM-AGGGCACCGTTGTCA-MGB TaqMan
sgmRNA 7 Ldrt-VS CGTGGCTATATCTCTTCTTTTACTTTAACTAG TaqMan
7 (38)-RS AAAACTGTAATAAATACAGCATGGAGGAA TaqMan
mRNA7-MGB FAM-CGAACTAAACGAGATGCT-MGB TaqMan
a

VS, virus sense; RS, reverse sense; MGB, minor groove binder group.

b

FAM, 6-carboxyfluorescein.

c

SYBR, SYBR green-based detection chemistry for qPCR; TaqMan, TaqMan-based detection for qPCR.