Isolation, identification and complete genome sequence analysis of a strain of foot-and-mouth disease virus serotype Asia1 from pigs in southwest of China

Table 1 Synthetic oligonucleotides used for amplification of the FMDV genome^a

Primers	Position	Sequence(5'-3')	Fragment
S1 ^b	Used for 5'-RACE	CATGGCTACATGCTGACAGCCTA	5'RACE
S2	344-367	TGAAAGGCGGGCGCTTGGTGACA	5'RACE
U1	379-399	TAAgTTTTACCGTCGTTCCC	UFR
U2	718-736	ACCGAGCGTGGAGTCAAT	UFR
A1	524-541	CGGAAGTAAAACGGCACA	A
A2	2276-2293	GATTTCCAACAGCGGTCA	A
B1	2217-2233	CGTGTTTGGCAGCCTCAT	B
B2	4700-4717	CCACGGGTTCAGGTCTCG	B
C1	4576-4593	AACGGCCCAAGCAAGTAT	C
C2	6599-6616	TGGAAACGCACGAGCAGT	C
D1	6205-6222	GGCAGAGCCATGACAGAC	D
D2	7458-7475	GGGTGGAAGCCAAACTCT	D
GSP1	7446-7463	GGTGTTTCGCACAGAGTT	3'RACE
R1	3'end	TAAgCAAgCATgCCATATgTT	3'RACE
3' RACERT^c	Used for 3'-RACE	TAAgCAAgCATgCCATATg(T)₁₅

^a The primers used in this study were designed based on JS/CHA/05 (Accession NO. EF149009)
^b S1 was used in 5'-RACE for amplification of the 5' end of RNA.
^c 3'RACERT was used in 3'-RACE for amplification of the 3' end of RNA.