Conserved Primers The four primer lists are provided for downloads. These primers are saved in the four MS excel format files. 1. contig_primer_list.xls
2. singleton_primer_list.xls
3. single_est_5_primer_list.xls
4. single_est_3_primer_list.xls The conserved primer design documentation is also available for download.
Table 1: Conserved PCR Primer Sets
| EST resources |
Mapped contig |
Mapped singletons |
Mapped single 5' EST |
Mapped single 3' EST |
| Total sequences |
4186 |
1859 |
6426 |
5814 |
| Sequences matched 2 or more exons |
2240 |
373 |
2092 |
1020 |
| Total primers picked |
1958 |
265 |
1624 |
705 |
| Chr1 |
254 |
41 |
211 |
95 |
| Chr2 |
295 |
43 |
237 |
103 |
| Chr3 |
285 |
41 |
261 |
113 |
| Chr4 |
334 |
44 |
272 |
117 |
| Chr5 |
319 |
41 |
238 |
119 |
| Chr6 |
226 |
28 |
189 |
77 |
| Chr7 |
245 |
27 |
214 |
81 |
| Unknown |
0 |
0 |
2 |
0 |
Table 2: The success rates for conserved PCR primer design
| Step |
Mapped contig |
Mapped singletons |
Mapped single 5' EST EST EST |
Mapped single 3' EST |
| EST selected |
4186 |
1859 |
6426 |
5814 |
| Sucessful alignment of exons |
54% |
20% |
33% |
18% |
| conserved PCR primers | 87% |
71% |
78% |
69% |
Primer Design