Table 1.
ASAP PCR primers. Primer sequences, annealing site and the relative position in tobacco (Nt), Arabidopsis (At) and maize (Zm) are presented, along with the anticipated amplicon size. * represent the primers with low sequence similarity in maize.
| Primer | Gene (Nicotiana) | Sequence 5' to 3' | Position in Nt | Size | Position in At | Size | Position in Zm | Size |
| IRB1F | Upstream of JLB | ggatttttttttagtgaacgtgtcac | 86657–86682 | 804 | 84258–84283 | 812 | 82644–82669* | 1001 |
| IRB1R | Intron rpl2 | aagtatcgacgtaatttcatagagtc | 87436–87461 | 85045–85070 | 83622–83647 | |||
| IRB2F | Intron rpl2 | catctggcttatgttcttcatgtagc | 87397–87422 | 1048 | 85006–85031 | 1049 | 83583–83608 | 1043 |
| IRB2R | rpl23 3'end | caactaggacagaaataaagcattgg | 88420–88445 | 86030–86055 | 84601–84626 | |||
| IRB3F | rpl23 3'end | atacgtctgtaatgcattgtatgtcc | 88310–88335 | 1001 | 85920–85945 | 980 | 84491–84516 | |
| IRB3R | YCF2/ORF2280 5' | gaagatacaggagcgaaacaatcaac | 89285–89311 | 86875–86900 | Deleted | |||
| IRB4F | YCF2/ORF2280 | aagaaaaaatctctatttgatagggc | 89181–89206 | 1031 | 86770–86795 | 1037 | Deleted | |
| IRB4R | YCF2/ORF2280 | tttcgttccgtttgaagaaaggaagg | 90212–90187 | 87782–87807 | Deleted | |||
| IRB5F | YCF2/ORF2280 | ggattccattagtaatgaggattcgg | 90096–90121 | 1162 | 87685–87710 | 1171 | Deleted | |
| IRB5R | YCF2/ORF2280 | gaggctcgaaccatttcttctgactc | 91233–91258 | 88831–88856 | Deleted | |||
| IRB6F | YCF2/ORF2280 | cttcgaatatggaattcaaagggatc | 91131–91156 | 1042 | 88729–88754 | 1081 | Deleted | |
| IRB6R | YCF2/ORF2280 | tgaatatgttagatacctgtgactcg | 92148–92173 | 89785–89810 | Deleted | |||
| IRB7F | YCF2/ORF2280 | acaattcctcaatatcttgttcattc | 92049–92074 | 1091 | 89680–89705 | 1088 | Deleted | |
| IRB7R | YCF2/ORF2280 | tcttctagagaatctcctaattgttc | 93115–93140 | 90743–90768 | Deleted | |||
| IRB8F | YCF2/ORF2280 | gaaaaggtcaaatctttgatgattcc | 92995–93020 | 1041 | 90623–90648 | 1035 | Deleted | |
| IRB8R | YCF2/ORF2280 | tttccggcatcatatccatagttagc | 94011–94036 | 91633–91658 | Deleted | |||
| IRB9F | YCF2/ORF2280 | ctgaacaagttcctggataacaagcc | 93853–93878 | 1169 | 91493–91518 | 1151 | Deleted | |
| IRB9R | YCF2/ORF2280 | aaatctctgatcaaggatagaacaag | 94997–95022 | 92619–92644 | Deleted | |||
| IRB10F | YCF2/ORF2280 | gatctagttcatggcctattagaagt | 94849–94874 | 1025 | 92471–92496 | 1021 | 86077–86102 | 1138 |
| IRB10R | ORF 87/YCF 15 | taacatattcttccatggagctaagg | 93849–95874 | 93475–93492 | 87190–87215* | |||
| IRB11F | YCF2/ORF2280 3' | cggatgaaatgaaaattggattcatg | 95669–95724 | 1094 | 93330–93355 | 1319 | No similarity | |
| IRB11R | ORF 79 | aatcggacctgctttttacatatctc | 96739–96763 | 94624–94649 | No similarity | |||
| IRB12F | ORF 79 | ccaattgcttcgatttgaattatccg | 96626–96644 | 1061 | 94483–94508 | 1101 | 88794–88819 | 1079 |
| IRB12R | ndhB 3' exon | tggaaatcctagctattcttagcatg | 97662–97687 | 95559–95584 | 89848–89873 | |||
| IRB13F | ndhB 3' exon | attccaataattacatatccgatttg | 97567–97592 | 1043 | 95464–95489 | 1049 | 89753–89778 | 1068 |
| IRB13R | ndhB 5' exon | cttatcaatacacaaatgtataactc | 98585–98610 | 96488–96513 | 90796–90821 | |||
| IRB14F | ndhB 5' exon | tacgtcaggagtccattgatgagaag | 98494–98519 | 1171 | 96397–96422 | 1206 | 90705–90730 | 1192 |
| IRB14R | rps 7 5'end | aatatggctttcaaattaagttccga | 99640–99665 | 97578–97603 | 91872–91897 | |||
| IRB15F | rps 7 5'end | gtgcaaaagctctatttgcctctgcc | 99551–99576 | 1230 | 97489–97514 | 1231 | 91783–91808 | 1245 |
| IRB15R | rps12 exon 2 | tcactgcttatatacccggtattggc | 100754–100781 | 98695–98720 | 93003–93028 | |||
| IRB16F | rps12 exon 2 | tcctcgaacaatgtgatatctcacac | 100699–100694 | 968 | 98608–98633 | 1079 | 92916–92941 | 859 |
| IRB16R | Spacer | caacataggtcatcgaaaggatctcg | 101642–101667 | 99662–99687 | 93750–93775 | |||
| IRB17F | Spacer | gtgtgagcttatccatgcggttatgc | 101554–101581 | 1116 | 99576–99601 | 1345 | 93669–93694 | 1339 |
| IRB17R | rrn16 start | gcttcatattcgcccggagttcgctc | 102645–102670 | 100896–100921 | 95043–95068* | |||
| IRB18F | trnV 3' end | aagtcatcagttcgagcctgattatc | 102504–102529 | 1117 | 100751–100776 | 1122 | 94901–94926 | 1121 |
| IRB18R | rrn16 start | tgagtttcattcttgcgaacgtactc | 103596–103621 | 101848–101873 | 95997–96022 | |||
| IRB19F | rrn16 | cgacactgacactgagagacgaaagc | 103452–103477 | 1343 | 101704–101729 | 1341 | 95853–95878 | 1347 |
| IRB19R | trnI Intron/OriA | atcgaaagttggatctacattggatc | 104770–104795 | 103020–103045 | 97175–97200 | |||
| IRB20F | trnI start | gggctattagctcagtggtagagcgc | 104551–104576 | 877 | 102801–102826 | 898 | 96953–96978 | 1119 |
| IRB20R | trnA start | caagagcggagctctaccaactgagc | 105403–105428 | 103674–103699 | 98047–98072 | |||
| IRB21F | trnI end | gaggtctctggttcaagtccaggatg | 105229–105324 | 941 | 103571–103596 | 962 | 97943–97968 | 968 |
| IRB21R | trnA end | ataagcggactcgaaccgctgacatc | 106145–106170 | 104508–104533 | 98886–98911 | |||
| IRB22F | trnA intron | agattttgagaagagttgctctttgg | 106003–106028 | 1190 | 104367–104392 | 1188 | 98743–98768 | 1193 |
| IRB22R | 23S | tagatgtccagtcaactgctgcgcct | 107168–107193 | 105530–105555 | 99911–99936 | |||
| IRB23F | 23S | gaaactaagtggaggtccgaaccgac | 107053–107079 | 1225 | 105416–105441 | 1224 | 99797–99822 | 1291 |
| IRB23R | 23S | cgctaccttaggaccgttatagttac | 108253–108278 | 106615–106640 | 101063–101088 | |||
| IRB24F | 23S | ggtctccgcaaagtcgtaagaccatg | 108131–108156 | 1172 | 106493–106518 | 1169 | 100941–100966 | 1156 |
| IRB24R | 4.5S | acatcactgcacttccacttgacacc | 109278–109303 | 107637–107662 | 102072–102097 | |||
| IRB25F | 23S end | ctgctgaaagcatctaagtagtaagc | 109089–109115 | 963 | 107451–107476 | 929 | 101897–101922 | 920 |
| IRB25R | trnR end | ggttgtgggcgaggagggattcgaac | 110027–110052 | 108355–108380 | 102792–102817 | |||
| IRB26F | Spacer | aaatggctggggagaggaaaggttcc | 109905–109930 | 1182 | 108231–108256 | 1232 | No similarity | |
| IRB26R | ORF350 | attatcttcatgcataaggatactag | 111062–111087 | 109438–109463 | No similarity | |||
| IRB27F | Spacer | tggctctatttcattatattccatcc | 110844–110869 | 1036 | 109225–109250 | 986 | No similarity | |
| IRB27R | ORF 350 | agtggatccctcttgttcctgtttag | 111855–111880 | 110186–110211 | No similarity |