| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnK-UUU-rps16 | LSC | 878 | 0.0324 | 0.98 | 73.1 | yes | View details |
| rps16-trnQ-UUG | LSC | 1308 | 0.0286 | 0.97 | 74.0 | yes | View details |
| atpF-atpH | LSC | 434 | 0.0487 | 0.99 | 89.4 | yes | View details |
| petN-psbM | LSC | 1094 | 0.0273 | 1.00 | 81.9 | yes | View details |
| petA-psbJ | LSC | 1014 | 0.0299 | 0.99 | 86.3 | yes | View details |
| ycf1 | IRb | 1881 | 0.0044 | 1.00 | 43.8 | no | View details |
| ndhF-rpl32 | SSC | 1233 | 0.0324 | 0.98 | 78.0 | yes | View details |
| rpl32-trnL-UAG | SSC | 737 | 0.0491 | 0.92 | 86.2 | yes | View details |
| ycf1 | SSC | 5493 | 0.0177 | 1.00 | 60.7 | yes | View details |
| atpH-atpI | LSC | 796 | 0.0255 | 1.00 | 78.6 | yes | View details |
| trnH-GUG-psbA | LSC | 348 | 0.0436 | 1.00 | 77.1 | yes | View details |
| trnS-GCU-trnG-UCC | LSC | 720 | 0.0217 | 1.00 | 75.6 | yes | View details |
| rpoB-trnC-GCA | LSC | 1262 | 0.0207 | 0.99 | 73.9 | yes | View details |
| ndhC-trnV-UAC | LSC | 1215 | 0.0266 | 0.98 | 73.9 | yes | View details |
| trnT-GGU-psbD | LSC | 1204 | 0.0180 | 1.00 | 73.1 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 719 | 0.0209 | 0.99 | 73.1 | yes | View details |
| psbK-psbI | LSC | 432 | 0.0282 | 0.99 | 71.5 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 688 | 0.0221 | 0.99 | 71.5 | yes | View details |
| trnP-UGG-psaJ | LSC | 431 | 0.0282 | 0.99 | 71.0 | yes | View details |
| Candidate markers include all hotspot labels marked in the diversity plot, listed in genomic order, plus the top 10 remaining regions by MarkerSeek score. Primer design is attempted for every listed region. Primer available: yes means at least one valid primer pair was found; no means no valid pair passed screening; NA means primer design was skipped. | |||||||
Species
43
Genome length
155–157 kb
Candidate markers
264
Primer pairs
90
Genome-wide nucleotide diversity
Candidate markers
9 hotspot labels from the diversity plot in genomic order, plus the top 10 remaining regions by MarkerSeek score (out of 264 candidates).
Primer pairs
Showing the top 30 of 90 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| trnH-GUG-psbA_p1 | trnH-GUG-psbA | GATCCACTTGGCTACATCCG |
ACCGCGCTAATCTTGGTATG |
438–502 | 0.977 | 89.0 |
| trnH-GUG-psbA_p2 | trnH-GUG-psbA | CAATCCACTGCCTTGATCCA |
ACCGCGCTAATCTTGGTATG |
452–516 | 0.977 | 88.9 |
| trnH-GUG-psbA_p3 | trnH-GUG-psbA | AATCCACTGCCTTGATCCAC |
ACCGCGCTAATCTTGGTATG |
451–515 | 0.977 | 88.9 |
| trnH-GUG-psbA_p4 | trnH-GUG-psbA | ACAATCCACTGCCTTGATCC |
ACCGCGCTAATCTTGGTATG |
453–517 | 0.977 | 88.9 |
| trnH-GUG-psbA_p5 | trnH-GUG-psbA | GATCCACTTGGCTACATCCG |
CGCGCTAATCTTGGTATGGA |
436–500 | 0.977 | 88.8 |
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | CCCTTTCAGGATCAGTCGTG |
CTTTTTCTCGAGCCGTACGA |
1231–1392 | 1.000 | 91.7 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | CCTTTCAGGATCAGTCGTGG |
CTTTTTCTCGAGCCGTACGA |
1230–1391 | 1.000 | 91.7 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | CCTTTCAGGATCAGTCGTGG |
GCCGTACGAGGAGAAAACTT |
1219–1380 | 0.977 | 90.3 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | CCCTTTCAGGATCAGTCGTG |
TGCTGCCATTTTGGAAGGAT |
1613–1774 | 0.814 | 84.0 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | CCTTTCAGGATCAGTCGTGG |
TGCTGCCATTTTGGAAGGAT |
1612–1773 | 0.814 | 84.0 |
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
GGGTTTTGGTCCCGGTATTC |
844–1859 | 1.000 | 86.6 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
TCGGAGGTTCGAATCCTTTC |
826–1841 | 1.000 | 85.5 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
TAAGGCAACGGGTTTTGGTC |
853–1868 | 1.000 | 85.4 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | CGGATCGTGTCCTTCAAGTC |
GGGTTTTGGTCCCGGTATTC |
859–1874 | 1.000 | 84.8 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | GGATCGTGTCCTTCAAGTCG |
GGGTTTTGGTCCCGGTATTC |
858–1873 | 1.000 | 84.8 |
| psbK-psbI_p1 | psbK-psbI | GTTTGGCAAGCTGCTGTAAG |
ACGCCCCGGATCATTAGATA |
398–563 | 1.000 | 91.0 |
| psbK-psbI_p2 | psbK-psbI | GTTTGGCAAGCTGCTGTAAG |
TACGCCCCGGATCATTAGAT |
399–564 | 1.000 | 91.0 |
| psbK-psbI_p3 | psbK-psbI | GTTTGGCAAGCTGCTGTAAG |
TTACGCCCCGGATCATTAGA |
400–565 | 1.000 | 89.2 |
| psbK-psbI_p4 | psbK-psbI | TGGCAAGCTGCTGTAAGTTT |
ACGCCCCGGATCATTAGATA |
395–560 | 1.000 | 89.0 |
| psbK-psbI_p5 | psbK-psbI | TGGCAAGCTGCTGTAAGTTT |
TACGCCCCGGATCATTAGAT |
396–561 | 1.000 | 89.0 |
| trnS-GCU-trnG-UCC_p1 | trnS-GCU-trnG-UCC | ATTAGCAATCCGCCGCTTTA |
TGAATCAAACCGAAAGATCCCT |
670–894 | 0.930 | 69.5 |
| trnS-GCU-trnG-UCC_p2 | trnS-GCU-trnG-UCC | ACGGAAAGAGAGGGATTCGA |
TGAATCAAACCGAAAGATCCCT |
719–943 | 0.930 | 68.3 |
| trnS-GCU-trnG-UCC_p3 | trnS-GCU-trnG-UCC | GCTTTAGTCCACTCAGCCAT |
TGAATCAAACCGAAAGATCCCT |
656–880 | 0.930 | 66.7 |
| trnS-GCU-trnG-UCC_p4 | trnS-GCU-trnG-UCC | AGTCCACTCAGCCATCTCTC |
TGAATCAAACCGAAAGATCCCT |
651–875 | 0.930 | 65.9 |
| trnS-GCU-trnG-UCC_p5 | trnS-GCU-trnG-UCC | ATTAGCAATCCGCCGCTTTA |
TGAATCAAACCGAAAGATCCC |
670–894 | 0.930 | 65.8 |
| atpF-atpH_p1 | atpF-atpH | ATTAAACCCGAAACTCCCGG |
GCCTGGTTGTAGCATTAGCA |
442–579 | 0.953 | 87.2 |
| atpF-atpH_p2 | atpF-atpH | ATTAAACCCGAAACTCCCGG |
TGGCCTGGTTGTAGCATTAG |
444–581 | 0.977 | 86.8 |
| atpF-atpH_p3 | atpF-atpH | CCAGTGGCCCAAATAAACGA |
GCCTGGTTGTAGCATTAGCA |
415–552 | 0.977 | 85.4 |
| atpF-atpH_p4 | atpF-atpH | CCAGTGGCCCAAATAAACGA |
TGGCCTGGTTGTAGCATTAG |
417–554 | 1.000 | 85.0 |
| atpF-atpH_p5 | atpF-atpH | ATTAAACCCGAAACTCCCGG |
TTTATGGCCTGGTTGTAGCA |
448–585 | 0.977 | 83.0 |
Result downloads
Reference species (43)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Bupleurum angustissimum | NC_057639.1 | 155829 | View on NCBI ↗ |
| Bupleurum aureum | NC_077617.1 | 155568 | View on NCBI ↗ |
| Bupleurum bicaule | NC_057641.1 | 155922 | View on NCBI ↗ |
| Bupleurum boissieuanum | NC_036017.1 | 156108 | View on NCBI ↗ |
| Bupleurum chaishoui | OQ460227.1 | 155272 | View on NCBI ↗ |
| Bupleurum chinense | NC_046774.1 | 155545 | View on NCBI ↗ |
| Bupleurum chinense f. octoradiatum | OR995345.1 | 155863 | View on NCBI ↗ |
| Bupleurum chinense f. vanheurckii | PP003283.1 | 155859 | View on NCBI ↗ |
| Bupleurum commelynoideum | NC_056802.1 | 155417 | View on NCBI ↗ |
| Bupleurum commelynoideum var. flaviflorum | OR778866.1 | 155557 | View on NCBI ↗ |
| Bupleurum dracaenoides | NC_050984.1 | 155140 | View on NCBI ↗ |
| Bupleurum euphorbioides | NC_053888.1 | 154871 | View on NCBI ↗ |
| Bupleurum falcatum | NC_027834.1 | 155989 | View on NCBI ↗ |
| Bupleurum gibraltaricum | MW497418.1 | 157303 | View on NCBI ↗ |
| Bupleurum hamiltonii | NC_056298.1 | 155320 | View on NCBI ↗ |
| Bupleurum kaoi | NC_063520.1 | 155938 | View on NCBI ↗ |
| Bupleurum komarovianum | PX571100.1 | 155835 | View on NCBI ↗ |
| Bupleurum krylovianum | NC_077618.1 | 155654 | View on NCBI ↗ |
| Bupleurum kweichowense | NC_058630.1 | 155025 | View on NCBI ↗ |
| Bupleurum latissimum | NC_033346.1 | 155621 | View on NCBI ↗ |
| Bupleurum longicaule | NC_077619.1 | 155149 | View on NCBI ↗ |
| Bupleurum longicaule var. giraldii | MW442884.1 | 155761 | View on NCBI ↗ |
| Bupleurum longiradiatum | OR508822.1 | 155897 | View on NCBI ↗ |
| Bupleurum malconense | OQ621988.1 | 155507 | View on NCBI ↗ |
| Bupleurum marginatum | NC_077620.1 | 155539 | View on NCBI ↗ |
| Bupleurum marginatum var. stenophyllum | OR508824.1 | 155536 | View on NCBI ↗ |
| Bupleurum microcephalum | OQ460231.1 | 155080 | View on NCBI ↗ |
| Bupleurum petiolulatum | NC_077621.1 | 155220 | View on NCBI ↗ |
| Bupleurum petraeum | OR896876.1 | 157075 | View on NCBI ↗ |
| Bupleurum pseudochaishoui | OQ460238.1 | 155012 | View on NCBI ↗ |
| Bupleurum rockii | NC_058631.1 | 155121 | View on NCBI ↗ |
| Bupleurum shanianum | NC_058629.1 | 154925 | View on NCBI ↗ |
| Bupleurum sichuanense | OQ460234.1 | 155533 | View on NCBI ↗ |
| Bupleurum sikangense | NC_056803.1 | 155357 | View on NCBI ↗ |
| Bupleurum smithii | NC_077622.1 | 155573 | View on NCBI ↗ |
| Bupleurum smithii var. auriculatum | OR811240.1 | 156021 | View on NCBI ↗ |
| Bupleurum smithii var. parvifolium | OR778869.1 | 155578 | View on NCBI ↗ |
| Bupleurum stellatum | OR896877.1 | 157028 | View on NCBI ↗ |
| Bupleurum thianschanicum | NC_077623.1 | 155385 | View on NCBI ↗ |
| Bupleurum triradiatum | NC_077624.1 | 155691 | View on NCBI ↗ |
| Bupleurum wenchuanense | OQ621998.1 | 155108 | View on NCBI ↗ |
| Bupleurum yinchowense | NC_054205.1 | 155851 | View on NCBI ↗ |
| Bupleurum yunnanense | NC_058628.1 | 155211 | View on NCBI ↗ |