Transcript mapping of Cotton leaf curl Burewala virusand its cognate betasatellite, Cotton leaf curl Multan betasatellite

Table 1 Oligonucleotide primers used in the study

Primer	Oligonucleotide sequence (5^′ to 3^′)	Nucleotide coordinates*
BuC2R	TCATTCAAGATCTACTCTCC	1500-1520
REn-^′5B	GCTGTGAGGTCATCCAGATTC	1235-1256
V2CP-^′5B	TAGGAACATCTGGACTTCTGT	488-466
V2cpB2	ACCGTGAACGGTGTCGGGGA	176-156
BC2	TGCTCCCTTCAAAGCCGT	358-376
BC2bb	GAGATCGAGATAGAAGATATAG	314-292
BC1-^′3	CAAGTATGAAGGGATCGTCCA	435-415
BC1-^′5	TGGACGATCCCTTCATACTTG	415-435
BuC2F	ATGCAACCTTCATCACTCTC	1608-1587
REn-^′3B	ATGGATTCACGCACAGGGGA	1463-1443
5^′RACE outer	GCTGATGGCGATGAATGAACACTG	-
5^′RACE inner	CGCGGATCCGAACACTGCGTTTGCTGGCTTGATG	-
3^′RACE outer	GCGAGCACAGAATTAATACGACT	-
3^′RACE inner	CGCGGATCCGAATTAATACGACTCACTATAGG	-
C1C4-^′5K	CTAGTTCCTTAATGACTC	2137-2155
C1C4-5^′K2	AACGTTTGGGGGGAGCCAT	2577-2596
C1C4B1	ATGGCTCCCCCCAAACGTT	2596-2577
v2cpb1	ATGTCGAAGCGACCAGCAGATATAATC	292-318
c1c4b2	ATTGTCTCCAAATGGCAT	2664-2682
v2cpb2b	GCGTACCTTCGAAGCGGGCGTGGAAAT	320-346
v2cp-^′3b	ACAGAAGTCCAGATGTTCCTAG	466-488
VF	CTTCGTTGCTAAGTTTGCG	105-123
VR	ATTTGTCACGGAATCATAGA	1059-1039
CF	GCGTCATATGATTGGCCGAC	66-46
CR	TATTGAAGATGATTGGTCTA	1076-1096

*CLCuBuV nucleotide coordinates are according to acc. no. AM421522 [21]. CLCuMuB nucleotide coordinates are according to acc. no. AM774307 [21].