Strategically examining the full-genome of dengue virus type 3 in clinical isolates reveals its mutation spectra

Table 4 The Oligonucleotide primers and conditions used for RT-PCR of full-length genome of DENV-3

PCR Primer^a	Sequence (5' → 3')	Genome Position^b	Size(nt)^c
P1A	AGT TGT TAG TCT RCG TGG	1–18	1181
CP1181B	TCC ARG CAC CTT CAG ATG	1181–1199
DC530A	AAC AWR TGC ACC CTC	540–555	1164
CDC1694B	TGC ATK GCT CCT TCT TGR	1694–1712
P1259A	GGC AAG GGA AGC TTG GTG ACA TGC GC	1259–1285	1244
CDC2503B	GGG AGT CTG CTT GGA ATT	2503–2521
DC2171A	GCC ATT CTR GGW GAC ACC GCY TGG GA	2171–2197	1246
CDC3417B	TCT CTT CTT TGT CMT TCA	3417–3435
D3-3142A	CCA AAG AGT CTA GCT GGT CC	3142–3162	1535
D3-4677B	CAT TGT GCG TCA ACA CTG CC	4677–4697
d3NS2B1A	AGC TGG CCA CTG AAT GAG G	4124–4143	1562
D35686B	CAA AAG TCT TCC TAC TAA GTT G	5686–5708
D3-5443A	GCC GCA ATT TTC ATG ACA	5443–5461	2034
D3-7477B	AAC AGC TAT CGT GGT GTT CC	7477–7497
d37246A	AAG AAT CCA ACG GTG GAT GG	7246–7266	1454
d38750B	TCC CTT GTG CAT AAT CTG GG	8750–8770
d38501A	CAG GCT CAG CCT CCT CC	8501–8518	1654
d310316B	GCT TCT TCC GTA CTG TGG C	10316–10335
d39991A	CTT ACT GTC TGG AAC AGG G	9991–10010	648
d310688B	GTT GAT TCA ACA GCA CCA TTC	10688–10709

a Primer names with A in the end indicate a viral-sense orientation; names with B in the end indicate a complementary sense orientation
b Genome positions are given according to the published sequence of strain H87 of dengue virus serotype 3
c nt indicated nucleotide

ISSN: 1743-422X