Supplementary Table 2.
The choosing of the sequences for primer designing
| Transcript variation | Bk1 | Bk2 (U) | Bk3 | Bk4 | Bk5 | Bk6 | Bk7 | Bk8 (U) | Bk9 (D) | Bk10 | Bk11 | Bk21 | Bk22 (U/D) | Bk23 (D) | Bk24 | Forward primer | Reverse primer | Expected product size (bp) | Size (s) of the predicted additional product (s) generated by the primers (bp) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | af | # | b | ar | #r | # | b | d | a | # | 1F | 1R | 438 | T5-321 | |||||
| 2 | #f | # | # | br | # | # | b | d | a | # | 2F | 2R | 505 | / | |||||
| 3 | af | # | b | # | # | b | br | 1F | 3R | 2193 | T5-2049 | ||||||||
| 4 | #f | # | b | # | # | b | ar | 3F | 4R | 2060 | / | ||||||||
| 5 | af | # | a | # | # | ar | cr | 1F | 5R | 1782 | / | ||||||||
| 6 | #f | # | # | a | # | # | b | ar | 4F | 4R | 2267 | / | |||||||
| 7 | #f | # | ar | #r | # | b | a | 2F | 1R | 227 | / | ||||||||
| 8 | b | # | af | a | # | b | ar | 5F | 4R | 1856 | / | ||||||||
| 9 | b | # | # | #f | b | ar | #r | # | b | d | a | # | 6F | 1R | 259 | / | |||
| 10 | bf | #f | #r | br | # | # | b | d | a | # | 7F | 6R | 359 | / | |||||
| 11 | bf | #f | a | b | # | # | b | d | ar | #r | 8F | 7R | 2160 | T13-2123/T23-1932/T21-2103/T22-1989/T16-2206/T1-2066 | |||||
| 12 | af | # | b | b | # | # | b | d | br | #r | 1F | 8R | 2408 | / | |||||
| 13 | af | # | b | b | # | # | b | d | ar | #r | 1F | 7R | 2251 | T16-2134/T1-2194 | |||||
| 14 | bf | #f | a | b | # | # | b | d | br | #r | 8F | 8R | 2317 | T18-2260/T12-2280 | |||||
| 15 | bf | #f | # | a | b | # | # | b | d | br | #r | 7F | 8R | 2554 | / | ||||
| 16 | af | # | b | # | # | b | d | ar | #r | 1F | 7R | 2134 | T13-2251/T1-2194 | ||||||
| 17 | bf | #f | #r | br | b | # | # | b | d | a | # | 7F | 9R | 357 | / | ||||
| 18 | b | # | a | af | #f | # | b | d | br | #r | 9F | 8R | 1949 | / | |||||
| 19 | #f | # | ar | b | # | # | b | d | a | # | 3F | 10R | 154 | / | |||||
| 20 | bf | #f | # | a | b | # | # | b | d | ar | #r | 7F | 7R | 2397 | T17-2360/T9-2445/T10-2243 | ||||
| 21 | bf | #f | a | a | # | # | b | d | ar | #r | 8F | 7R | 2103 | T11-2160/T13-2123/T23-1932/T22-1989/T16-2206/T1-2066 | |||||
| 22 | b | # | a | bf | #f | b | d | ar | #r | 10F | 7R | 1619 | / | ||||||
| 23 | b | # | a | af | #f | b | d | ar | #r | 11F | 7R | 1620 | / |
All the blocks that were valuable for specific primer designing were listed in the table; The positions of the variant sequences in some blocks which are different among the transcript variations were indicated by “U” (upstream, 5’terminal) or “D” (downstream, 3’ terminal) in the brackets following the block numbers; The blocks with superscript “f” indicated the positions of the sequences used for forward primers designing, and the blocks with superscript “r” indicated the positions of the sequences used for reverse primers designing; In some transcripts, the superscript “f” or “r” may appeared in two neighbored blocks, indicated the primers spanned the introns between the two exons to enhance the specificity; Primer names for each transcript variation and the corresponding product sizes were listed in the table. Transcript variation 11 and 21 shared the primer pair, and transcript 13 and 16 shared the primer pair; Due to the similarity of these transcript variations, many sequences are shared among transcripts. Thus, some of the primer pairs were predicted to produce multiple products. The sizes of the additional products predicted were listed in the table in the format of “Tx-xxx.” “Tx” suggested the source of the product and “xxx” suggested the size of the product. For example, “T5-321” means the product was derived from transcript variation 5 and was 321 bp in size