| Label | Region | Length (bp) | Pi | Alignment reliability | MarkerSeek score | Primer available | Action |
|---|---|---|---|---|---|---|---|
| trnE-UUC-trnT-GGU | LSC | 763 | 0.0208 | 0.97 | 72.8 | yes | View details |
| petA-psbJ | LSC | 950 | 0.0206 | 1.00 | 80.4 | yes | View details |
| ycf2 | LSC | 6303 | 0.0070 | 1.00 | 48.3 | yes | View details |
| ycf1 | IRb | 1959 | 0.0029 | 0.99 | 44.5 | no | View details |
| ndhF | SSC | 2247 | 0.0058 | 1.00 | 47.2 | yes | View details |
| rpl32-trnL-UAG | SSC | 916 | 0.0134 | 0.99 | 72.4 | yes | View details |
| ycf1 | SSC | 5505 | 0.0085 | 1.00 | 52.2 | yes | View details |
| trnL-CAA-trnH-GUG | LSC | 1927 | 0.0607 | 0.97 | 84.0 | no | View details |
| trnH-GUG-psbA | LSC | 195 | 0.0377 | 1.00 | 74.4 | yes | View details |
| ndhC-trnV-UAC | LSC | 1079 | 0.0092 | 1.00 | 68.8 | yes | View details |
| psaA-ycf3 | LSC | 707 | 0.0048 | 1.00 | 67.8 | yes | View details |
| ycf3-trnS-GGA | LSC | 829 | 0.0076 | 0.99 | 66.0 | yes | View details |
| accD | LSC | 1470 | 0.0055 | 1.00 | 66.0 | yes | View details |
| ndhG-ndhI | SSC | 361 | 0.0098 | 1.00 | 65.9 | yes | View details |
| trnT-UGU-trnL-UAA | LSC | 792 | 0.0095 | 1.00 | 65.3 | yes | View details |
| atpH-atpI | LSC | 920 | 0.0085 | 1.00 | 64.3 | yes | View details |
| trnS-GCU-trnG-UCC | LSC | 566 | 0.0136 | 0.98 | 63.9 | yes | View details |
| ndhF-rpl32 | SSC | 1043 | 0.0119 | 0.97 | 63.2 | 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
29
Genome length
146–149 kb
Candidate markers
262
Primer pairs
80
Genome-wide nucleotide diversity
Candidate markers
8 hotspot labels from the diversity plot in genomic order, plus the top 10 remaining regions by MarkerSeek score (out of 262 candidates).
Primer pairs
Showing the top 30 of 80 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 |
GCGCTAACCTTGGTATGGAA |
295–338 | 1.000 | 90.7 |
| trnH-GUG-psbA_p2 | trnH-GUG-psbA | CAATCCACTGCCTTGATCCA |
GCGCTAACCTTGGTATGGAA |
309–352 | 1.000 | 90.4 |
| trnH-GUG-psbA_p3 | trnH-GUG-psbA | AATCCACTGCCTTGATCCAC |
GCGCTAACCTTGGTATGGAA |
308–351 | 1.000 | 90.4 |
| trnH-GUG-psbA_p4 | trnH-GUG-psbA | ACAATCCACTGCCTTGATCC |
GCGCTAACCTTGGTATGGAA |
310–353 | 1.000 | 90.4 |
| trnH-GUG-psbA_p5 | trnH-GUG-psbA | GATCCACTTGGCTACATCCG |
CCTCTAGACCTAGCTGCTGT |
245–288 | 1.000 | 90.4 |
| trnS-GCU-trnG-UCC_p1 | trnS-GCU-trnG-UCC | ATTAGCAATCCGCCGCTTTA |
GGGGGTTACTCGAACGAATC |
622–671 | 1.000 | 88.7 |
| trnS-GCU-trnG-UCC_p2 | trnS-GCU-trnG-UCC | ACGGAAAGAGAGGGATTCGA |
GGGGGTTACTCGAACGAATC |
671–720 | 1.000 | 87.4 |
| trnS-GCU-trnG-UCC_p3 | trnS-GCU-trnG-UCC | GCTTTAGTCCACTCAGCCAT |
GGGGGTTACTCGAACGAATC |
608–657 | 1.000 | 85.9 |
| trnS-GCU-trnG-UCC_p4 | trnS-GCU-trnG-UCC | ATTAGCAATCCGCCGCTTTA |
AGGGGGTTACTCGAACGAAT |
623–672 | 1.000 | 85.8 |
| trnS-GCU-trnG-UCC_p5 | trnS-GCU-trnG-UCC | AGTCCACTCAGCCATCTCTC |
GGGGGTTACTCGAACGAATC |
603–652 | 1.000 | 85.1 |
| atpH-atpI_p1 | atpH-atpI | ATAACGGAAGCGGCAGAAAT |
ATAGGGGAATCCATGGAGGG |
799–1246 | 1.000 | 86.5 |
| atpH-atpI_p2 | atpH-atpI | TACCTTGACCAACTCCAGGT |
ATAGGGGAATCCATGGAGGG |
855–1302 | 1.000 | 85.8 |
| atpH-atpI_p3 | atpH-atpI | AGCCAATCCAGCAGCAATAA |
ATAGGGGAATCCATGGAGGG |
815–1262 | 1.000 | 85.6 |
| atpH-atpI_p4 | atpH-atpI | AATAACGGAAGCGGCAGAAA |
ATAGGGGAATCCATGGAGGG |
800–1247 | 1.000 | 85.3 |
| atpH-atpI_p5 | atpH-atpI | GCAGTACCTTGACCAACTCC |
ATAGGGGAATCCATGGAGGG |
859–1306 | 1.000 | 85.1 |
| trnE-UUC-trnT-GGU_p1 | trnE-UUC-trnT-GGU | GTGTAGTACCCTACCCCCAG |
GAACCGATGACTTACGCCTT |
327–1042 | 1.000 | 89.1 |
| trnE-UUC-trnT-GGU_p2 | trnE-UUC-trnT-GGU | GTGTAGTACCCTACCCCCAG |
TACCGCTGAGTTAAAAGGGC |
292–1007 | 1.000 | 88.6 |
| trnE-UUC-trnT-GGU_p3 | trnE-UUC-trnT-GGU | CGTTGCCTCCTTGAAAGAGA |
GAACCGATGACTTACGCCTT |
292–1007 | 0.966 | 88.2 |
| trnE-UUC-trnT-GGU_p4 | trnE-UUC-trnT-GGU | CGTTGCCTCCTTGAAAGAGA |
TACCGCTGAGTTAAAAGGGC |
257–972 | 0.966 | 87.7 |
| trnE-UUC-trnT-GGU_p5 | trnE-UUC-trnT-GGU | CGTTGCCTCCTTGAAAGAGA |
CCGATGACTTACGCCTTACC |
289–1004 | 0.966 | 87.0 |
| psaA-ycf3_p1 | psaA-ycf3 | GCCCATTCCTCGAAAGAAGT |
AGCGCAGAATTGGTTGAAGA |
800–845 | 1.000 | 85.1 |
| psaA-ycf3_p2 | psaA-ycf3 | GCCCATTCCTCGAAAGAAGT |
TTGAAGATCACGAGGCGTTT |
787–832 | 1.000 | 84.7 |
| psaA-ycf3_p3 | psaA-ycf3 | TTCTTGAGAAATGACCCGGC |
AGCGCAGAATTGGTTGAAGA |
823–868 | 1.000 | 84.6 |
| psaA-ycf3_p4 | psaA-ycf3 | GCCCATTCCTCGAAAGAAGT |
TTGGTTGAAGATCACGAGGC |
791–836 | 1.000 | 84.5 |
| psaA-ycf3_p5 | psaA-ycf3 | TTCTTGAGAAATGACCCGGC |
TTGAAGATCACGAGGCGTTT |
810–855 | 1.000 | 84.1 |
| ycf3-trnS-GGA_p1 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
CCCTCGGTAAACAAAAGCCT |
899–921 | 1.000 | 79.1 |
| ycf3-trnS-GGA_p2 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
TTCCAATGCTACGCCTTCAA |
870–892 | 1.000 | 78.6 |
| ycf3-trnS-GGA_p3 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
ACGGAAAGAGAGGGATTCGA |
920–942 | 1.000 | 78.4 |
| ycf3-trnS-GGA_p4 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
AGTTCCAATGCTACGCCTTC |
872–894 | 1.000 | 78.0 |
| ycf3-trnS-GGA_p5 | ycf3-trnS-GGA | CATTTATCCGCGATCTAGGCA |
ACCCTCGGTAAACAAAAGCC |
900–922 | 1.000 | 76.7 |
Result downloads
Reference species (29)
One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.
| Species | Accession | Length (bp) | Link |
|---|---|---|---|
| Angelica acutiloba | NC_029391.1 | 147074 | View on NCBI ↗ |
| Angelica amurensis | MW436378.1 | 146931 | View on NCBI ↗ |
| Angelica anomala | NC_057139.1 | 147145 | View on NCBI ↗ |
| Angelica apaensis | NC_057132.1 | 147021 | View on NCBI ↗ |
| Angelica biserrata | NC_057127.1 | 146677 | View on NCBI ↗ |
| Angelica cartilaginomarginata | NC_057138.1 | 146582 | View on NCBI ↗ |
| Angelica cartilaginomarginata var. foliosa | MT921959.1 | 147017 | View on NCBI ↗ |
| Angelica cincta | MW436379.1 | 146765 | View on NCBI ↗ |
| Angelica dahurica | NC_029392.1 | 146918 | View on NCBI ↗ |
| Angelica dahurica var. formosana | OR209160.1 | 147068 | View on NCBI ↗ |
| Angelica decursiva | NC_057130.1 | 146158 | View on NCBI ↗ |
| Angelica kangdingensis | NC_057131.1 | 146529 | View on NCBI ↗ |
| Angelica laxifoliata | NC_040122.1 | 147026 | View on NCBI ↗ |
| Angelica likiangensis | NC_071789.1 | 146770 | View on NCBI ↗ |
| Angelica longicaudata | NC_071790.1 | 146976 | View on NCBI ↗ |
| Angelica maowenensis | NC_057133.1 | 146882 | View on NCBI ↗ |
| Angelica megaphylla | NC_057128.1 | 146724 | View on NCBI ↗ |
| Angelica multicaulis | MT561027.1 | 146808 | View on NCBI ↗ |
| Angelica nitida | NC_057137.1 | 146789 | View on NCBI ↗ |
| Angelica omeiensis | NC_057135.1 | 147814 | View on NCBI ↗ |
| Angelica paeoniifolia | PV613211.1 | 146174 | View on NCBI ↗ |
| Angelica polymorpha | NC_041580.1 | 147127 | View on NCBI ↗ |
| Angelica porphyrocaulis | NC_057136.1 | 146859 | View on NCBI ↗ |
| Angelica pseudoselinum | NC_057134.1 | 148942 | View on NCBI ↗ |
| Angelica saxatilis | MW436381.1 | 147032 | View on NCBI ↗ |
| Angelica sylvestris | NC_051890.1 | 147158 | View on NCBI ↗ |
| Angelica ternata | MT561043.1 | 147742 | View on NCBI ↗ |
| Angelica tianmuensis | NC_057126.1 | 147308 | View on NCBI ↗ |
| Angelica valida | NC_057129.1 | 146833 | View on NCBI ↗ |