| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnK-UUU-rps16 | LSC | 732 | 0.0286 | 1.00 | 70.5 | yes | View details |
| atpH-atpI | LSC | 748 | 0.0255 | 1.00 | 67.5 | yes | View details |
| trnC-GCA-petN | LSC | 635 | 0.0268 | 0.99 | 69.7 | yes | View details |
| petN-psbM | LSC | 995 | 0.0265 | 0.99 | 67.9 | yes | View details |
| trnE-UUC-trnT-GGU | LSC | 164 | 0.1211 | 0.98 | 65.2 | yes | View details |
| trnT-GGU-psbD | LSC | 1407 | 0.0260 | 1.00 | 69.6 | yes | View details |
| ycf3-trnS-GGA | LSC | 877 | 0.0228 | 1.00 | 69.9 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 765 | 0.0263 | 0.99 | 75.1 | yes | View details |
| petA-psbJ | LSC | 992 | 0.0259 | 1.00 | 78.2 | yes | View details |
| ycf1 | IRb | 1581 | 0.0026 | 1.00 | 38.2 | no | View details |
| ndhF-rpl32 | SSC | 1114 | 0.0292 | 0.99 | 70.6 | yes | View details |
| ycf1 | SSC | 5472 | 0.0159 | 1.00 | 51.5 | yes | View details |
| trnG-TCC-trnR-UCU | LSC | 153 | 0.0565 | 0.89 | 74.8 | yes | View details |
| rps2-rpoC2 | LSC | 216 | 0.0366 | 0.99 | 71.5 | yes | View details |
| ndhC-trnV-UAC | LSC | 1068 | 0.0145 | 1.00 | 70.4 | yes | View details |
| rps16-trnQ-UUG | LSC | 1237 | 0.0231 | 0.99 | 68.1 | yes | View details |
| trnS-GCU-trnG-TCC | LSC | 494 | 0.0263 | 0.98 | 67.2 | yes | View details |
| rps15-ycf1 | SSC | 396 | 0.0302 | 1.00 | 67.1 | yes | View details |
| psaJ-rpl33 | LSC | 443 | 0.0193 | 0.99 | 66.8 | yes | View details |
| rpoB-trnC-GCA | LSC | 1234 | 0.0213 | 0.99 | 64.9 | 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
19
Genome length
155–157 kb
Candidate markers
267
Primer pairs
95
Genome-wide nucleotide diversity
Candidate markers
12 hotspot labels from the diversity plot in genomic order, plus the top 8 remaining regions by MarkerSeek score (out of 267 candidates).
Primer pairs
Showing the top 30 of 95 primer pairs (ranked by primer score).
| Primer ID | Label | Forward | Reverse | Amplicon (bp) | Cross-species rate | Score |
|---|---|---|---|---|---|---|
| trnK-UUU-rps16_p1 | trnK-UUU-rps16 | TCCCTCGCTTCATCCAAATG |
GATTCAAAGTGTATCGCGCG |
1536–1578 | 0.947 | 87.6 |
| trnK-UUU-rps16_p2 | trnK-UUU-rps16 | CCCTTTCAGGATCAGTCGTG |
CGATTCAAAGTGTATCGCGC |
1589–1631 | 0.947 | 87.5 |
| trnK-UUU-rps16_p3 | trnK-UUU-rps16 | CCCTTTCAGGATCAGTCGTG |
GATTCAAAGTGTATCGCGCG |
1588–1630 | 0.947 | 87.5 |
| trnK-UUU-rps16_p4 | trnK-UUU-rps16 | CCTTTCAGGATCAGTCGTGG |
CGATTCAAAGTGTATCGCGC |
1588–1630 | 0.947 | 87.5 |
| trnK-UUU-rps16_p5 | trnK-UUU-rps16 | CCTTTCAGGATCAGTCGTGG |
GATTCAAAGTGTATCGCGCG |
1587–1629 | 0.947 | 87.5 |
| rps16-trnQ-UUG_p1 | rps16-trnQ-UUG | TGCTTTCTACCACAGCGTTT |
AAATATAGATGGGGCGTGGC |
1016–1587 | 1.000 | 88.3 |
| rps16-trnQ-UUG_p2 | rps16-trnQ-UUG | TTGCTTTCTACCACAGCGTT |
AAATATAGATGGGGCGTGGC |
1017–1588 | 1.000 | 88.3 |
| rps16-trnQ-UUG_p3 | rps16-trnQ-UUG | AAGTCGCACGTTGCTTTCTA |
AAATATAGATGGGGCGTGGC |
1027–1598 | 1.000 | 87.5 |
| rps16-trnQ-UUG_p4 | rps16-trnQ-UUG | TGCTTTCTACCACAGCGTTT |
GGGTTTTGGTCCCGGTATTC |
980–1551 | 1.000 | 85.8 |
| rps16-trnQ-UUG_p5 | rps16-trnQ-UUG | GGATCGTGTCCTTCAAGTCG |
AAATATAGATGGGGCGTGGC |
1041–1612 | 1.000 | 85.6 |
| trnS-GCU-trnG-TCC_p1 | trnS-GCU-trnG-TCC | ATTAGCAATCCGCCGCTTTA |
ACGAATCACACTTTTACCACT |
549–639 | 1.000 | 61.9 |
| trnS-GCU-trnG-TCC_p2 | trnS-GCU-trnG-TCC | ACGGAAAGAGAGGGATTCGA |
ACGAATCACACTTTTACCACT |
598–688 | 1.000 | 60.2 |
| trnS-GCU-trnG-TCC_p3 | trnS-GCU-trnG-TCC | ATTAGCAATCCGCCGCTTTA |
AACGAATCACACTTTTACCACT |
550–640 | 1.000 | 59.9 |
| trnS-GCU-trnG-TCC_p4 | trnS-GCU-trnG-TCC | ACGGAAAGAGAGGGATTCGA |
AACGAATCACACTTTTACCACT |
599–689 | 1.000 | 58.2 |
| trnS-GCU-trnG-TCC_p5 | trnS-GCU-trnG-TCC | GCTTTAGTCCACTCAGCCAT |
ACGAATCACACTTTTACCACT |
535–625 | 0.947 | 55.9 |
| trnG-TCC-trnR-UCU_p1 | trnG-TCC-trnR-UCU | AGCCTTCCAAGCTAACGATG |
AGAAGACCTCTGTCCTATCCA |
202–242 | 1.000 | 75.3 |
| trnG-TCC-trnR-UCU_p2 | trnG-TCC-trnR-UCU | CCTAGCCTTCCAAGCTAACG |
AGAAGACCTCTGTCCTATCCA |
205–245 | 1.000 | 75.1 |
| trnG-TCC-trnR-UCU_p3 | trnG-TCC-trnR-UCU | AGCCTTCCAAGCTAACGATG |
AGGTTTAGAAGACCTCTGTCCT |
208–248 | 1.000 | 74.7 |
| trnG-TCC-trnR-UCU_p4 | trnG-TCC-trnR-UCU | CCTAGCCTTCCAAGCTAACG |
AGGTTTAGAAGACCTCTGTCCT |
211–251 | 1.000 | 74.5 |
| trnG-TCC-trnR-UCU_p5 | trnG-TCC-trnR-UCU | CCCTAGCCTTCCAAGCTAAC |
AGAAGACCTCTGTCCTATCCA |
206–246 | 1.000 | 72.9 |
| atpH-atpI_p1 | atpH-atpI | ATAACGGAAGCGGCAGAAAT |
TGCTTTGGCTTTACTCACGT |
1104–1128 | 1.000 | 87.1 |
| atpH-atpI_p2 | atpH-atpI | CTCGCGATACCTTCTACAGC |
TGCTTTGGCTTTACTCACGT |
1194–1218 | 1.000 | 86.5 |
| atpH-atpI_p3 | atpH-atpI | ATAAACGGCGAATTACCCCC |
ATAGGGGAATCCATGGAGGG |
1268–1285 | 0.947 | 85.4 |
| atpH-atpI_p4 | atpH-atpI | ATAAACGGCGAATTACCCCC |
TGCTTTGGCTTTACTCACGT |
1569–1586 | 0.947 | 84.3 |
| atpH-atpI_p5 | atpH-atpI | ATAAACGGCGAATTACCCCC |
TATGGTCCCTGGGTTCCTTT |
1712–1729 | 0.947 | 83.6 |
| rps2-rpoC2_p1 | rps2-rpoC2 | CCGGCCTTCATCATCTCTTC |
TCCATGATACATCAGAACAATCA |
310–325 | 1.000 | 51.1 |
| rps2-rpoC2_p2 | rps2-rpoC2 | CGGCCTTCATCATCTCTTCC |
TCCATGATACATCAGAACAATCA |
309–324 | 1.000 | 51.1 |
| rps2-rpoC2_p3 | rps2-rpoC2 | AATGAACTCCGGCCTTCATC |
TCCATGATACATCAGAACAATCA |
318–333 | 1.000 | 50.9 |
| rps2-rpoC2_p4 | rps2-rpoC2 | AAAATGAACTCCGGCCTTCA |
TCCATGATACATCAGAACAATCA |
320–335 | 1.000 | 50.9 |
| rps2-rpoC2_p5 | rps2-rpoC2 | AATGAACTCCGGCCTTCATC |
TTCCATGATACATCAGAACAATCA |
319–334 | 1.000 | 50.9 |
Result downloads
Reference species (19)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Daucus aureus | KX832313.1 | 156896 | View on NCBI ↗ |
| Daucus carota | NC_008325.1 | 155911 | View on NCBI ↗ |
| Daucus carota subsp. capillifolius | KX832302.1 | 155906 | View on NCBI ↗ |
| Daucus carota subsp. carota | OR896878.1 | 155906 | View on NCBI ↗ |
| Daucus carota subsp. gummifer | KX832301.1 | 155857 | View on NCBI ↗ |
| Daucus carota subsp. maximus | KX832303.1 | 155870 | View on NCBI ↗ |
| Daucus carota subsp. sativus | CP093353.1 | 155839 | View on NCBI ↗ |
| Daucus conchitae | KX832329.1 | 156821 | View on NCBI ↗ |
| Daucus crinitus | KX832316.1 | 156342 | View on NCBI ↗ |
| Daucus guttatus | KX832319.1 | 157197 | View on NCBI ↗ |
| Daucus involucratus | KX832332.1 | 155441 | View on NCBI ↗ |
| Daucus littoralis | KX832321.1 | 156923 | View on NCBI ↗ |
| Daucus muricatus | KX832314.1 | 156052 | View on NCBI ↗ |
| Daucus pumilus | KX832312.1 | 155672 | View on NCBI ↗ |
| Daucus pusillus | KX832327.1 | 156939 | View on NCBI ↗ |
| Daucus rouyi | KX832311.1 | 155864 | View on NCBI ↗ |
| Daucus setulosus | NC_057953.1 | 157336 | View on NCBI ↗ |
| Daucus syrticus | KX832309.1 | 155906 | View on NCBI ↗ |
| Daucus tenuisectus | KX832318.1 | 156931 | View on NCBI ↗ |