Markers + reference

Impatiens

67 species · Balsaminaceae · Ericales

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Species 67
Genome length 151–153 kb
Candidate markers 272
Primer pairs 70

Genome-wide nucleotide diversity

Sliding-window nucleotide diversity
Sliding-window nucleotide diversity (π) across the plastome.

Candidate markers

6 hotspot labels from the diversity plot in genomic order, plus the top 9 remaining regions by MarkerSeek score (out of 272 candidates).

Label Region Length (bp) Pi Alignment reliability MarkerSeek score Primer available Action
trnT-UGU-trnL-UAA LSC 940 0.0668 0.90 84.8 yes View details
ycf1 IRb 1035 0.0083 1.00 56.4 no View details
ndhF SSC 2220 0.0451 1.00 81.3 yes View details
ndhF-rpl32 SSC 813 0.0942 0.85 77.0 yes View details
rpl32-trnL-UAG SSC 542 0.0838 0.96 84.0 yes View details
ycf1 SSC 5601 0.0574 0.99 78.0 yes View details
atpH-atpI LSC 1160 0.0465 0.96 89.3 yes View details
petN-psbM LSC 815 0.0488 0.98 83.9 yes View details
matK-trnK-UUU LSC 1518 0.0392 0.99 81.3 yes View details
trnC-GCA-petN LSC 803 0.0395 0.93 81.3 yes View details
rpoB-trnC-GCA LSC 1088 0.0461 0.96 80.8 yes View details
ndhC-trnV-UAC LSC 443 0.0630 0.98 80.3 yes View details
trnK-UUU-rps16 LSC 666 0.0510 0.87 78.5 yes View details
rpl16-rps3 LSC 1229 0.0348 0.99 78.1 yes View details
ycf4-cemA LSC 704 0.0466 0.91 78.0 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.

Primer pairs

Showing the top 30 of 70 primer pairs (ranked by primer score).

Primer ID Label Forward Reverse Amplicon (bp) Cross-species rate Score
matK-trnK-UUU_p1 matK-trnK-UUU TCCTTGATACCTAACATAATGCA AACGGTAGAGTACTCGGCTT 1544–1577 0.970 50.8
matK-trnK-UUU_p2 matK-trnK-UUU TCCTTGATACCTAACATAATGCA ACGGTAGAGTACTCGGCTTT 1543–1576 0.970 50.8
matK-trnK-UUU_p3 matK-trnK-UUU TTCCTTGATACCTAACATAATGCA AACGGTAGAGTACTCGGCTT 1545–1578 0.970 50.8
matK-trnK-UUU_p4 matK-trnK-UUU TTCCTTGATACCTAACATAATGCA ACGGTAGAGTACTCGGCTTT 1544–1577 0.970 50.8
matK-trnK-UUU_p5 matK-trnK-UUU TCCTTGATACCTAACATAATGCA GGGTTGCTAACTCAACGGTA 1557–1590 0.925 49.0
trnK-UUU-rps16_p1 trnK-UUU-rps16 CGTTCCGCAACTGGTACTAA AAAAGGGTATGTTGCTGCCA 1614–1724 0.925 88.4
trnK-UUU-rps16_p2 trnK-UUU-rps16 TCAGGATCAGTCGTGGTCTT AAAAGGGTATGTTGCTGCCA 1343–1455 0.925 88.3
trnK-UUU-rps16_p3 trnK-UUU-rps16 CCTTTCAGGATCAGTCGTGG AAAAGGGTATGTTGCTGCCA 1347–1459 0.851 85.8
trnK-UUU-rps16_p4 trnK-UUU-rps16 CGAATCCTCGCTTCATCCAA AAAAGGGTATGTTGCTGCCA 1300–1412 0.821 84.3
trnK-UUU-rps16_p5 trnK-UUU-rps16 CCTTTCAGGATCAGTCGTGG TAACTGCCCCAGAATGAGGA 1225–1339 0.701 79.7
atpH-atpI_p1 atpH-atpI CAGCAGCAATAACAGAAGCG TTTTGCAACTTTAGCTGCGG 969–1270 1.000 89.6
atpH-atpI_p2 atpH-atpI GCCAATCCAGCAGCAATAAC TTTTGCAACTTTAGCTGCGG 976–1277 1.000 89.2
atpH-atpI_p3 atpH-atpI AAGCGGCAGAAATAAGTGGA TTTTGCAACTTTAGCTGCGG 954–1255 1.000 87.0
atpH-atpI_p4 atpH-atpI CGCGATACCTTCTACAGCTT TTTTGCAACTTTAGCTGCGG 1049–1350 1.000 87.0
atpH-atpI_p5 atpH-atpI CCAGCAGCAATAACAGAAGC TTTTGCAACTTTAGCTGCGG 970–1271 1.000 86.5
rpoB-trnC-GCA_p1 rpoB-trnC-GCA TTTGTTCTTGCATGTCCCGA GCAGTGACATCGCACAAAAA 1533–2146 0.881 86.1
rpoB-trnC-GCA_p2 rpoB-trnC-GCA CGAGCCCATATCCTTGCTTT GCAGTGACATCGCACAAAAA 1753–2366 0.881 86.1
rpoB-trnC-GCA_p3 rpoB-trnC-GCA TTTGTTCTTGCATGTCCCGA CTTTTGGAAACACGCAGACC 1404–1656 0.881 86.1
rpoB-trnC-GCA_p4 rpoB-trnC-GCA GAAAATACCGGATCCCCACC CTTTTGGAAACACGCAGACC 1831–2083 0.836 84.3
rpoB-trnC-GCA_p5 rpoB-trnC-GCA GAAAATACCGGATCCCCACC GCAGTGACATCGCACAAAAA 2218–2573 0.821 83.7
trnC-GCA-petN_p1 trnC-GCA-petN GGGTGTCGCCTGATTAACAA AGAGTCCACTTCTTCCCCAT 682–947 0.955 85.9
trnC-GCA-petN_p2 trnC-GCA-petN AGTTCAAATCTGGGTGTCGC AGAGTCCACTTCTTCCCCAT 534–958 1.000 85.4
trnC-GCA-petN_p3 trnC-GCA-petN GGGTGTCGCCTGATTAACAA TACCATTAAAGCAGCCCAGG 633–898 0.955 85.3
trnC-GCA-petN_p4 trnC-GCA-petN GGGGGACTGCAAATCCTTTT AGAGTCCACTTCTTCCCCAT 559–983 0.970 85.2
trnC-GCA-petN_p5 trnC-GCA-petN GGGGGACTGCAAATCCTTTT TACCATTAAAGCAGCCCAGG 510–934 0.970 84.5
petN-psbM_p1 petN-psbM CCCTTTTGACTCTGCGCTAT GCGCACTGAGCTCTTGATAT 1684–1763 0.657 76.9
petN-psbM_p2 petN-psbM TTTTTGTGCGATGTCACTGC GCGCACTGAGCTCTTGATAT 1782–1887 0.567 72.6
petN-psbM_p3 petN-psbM CCCTTTTGACTCTGCGCTAT AATAGCGCACTGAGCTCTTG 1744–1762 0.104 43.0
petN-psbM_p4 petN-psbM CCCTTTTGACTCTGCGCTAT CAAATAGCGCACTGAGCTCT 1746–1764 0.104 43.0
petN-psbM_p5 petN-psbM CCCTTTTGACTCTGCGCTAT TCAAATAGCGCACTGAGCTC 1747–1765 0.104 43.0

Result downloads

candidate_marker_features.tsv primers.tsv

Reference species (67)

One GenBank record per species. Use the NCBI button to open the Nucleotide entry for the listed accession.

Species Accession Length (bp) Link
Impatiens apalophylla PQ612860.1 152628 View on NCBI ↗
Impatiens aquatilis PQ612861.1 152590 View on NCBI ↗
Impatiens arguta NC_071770.1 152075 View on NCBI ↗
Impatiens auriculata MW683061.1 152612 View on NCBI ↗
Impatiens baishaensis PQ647014.1 152248 View on NCBI ↗
Impatiens balsamina NC_059942.1 152271 View on NCBI ↗
Impatiens bijieensis PQ156316.1 152294 View on NCBI ↗
Impatiens blepharosepala PQ643224.1 152345 View on NCBI ↗
Impatiens cavaleriei PQ156320.1 151940 View on NCBI ↗
Impatiens chishuiensis PQ877664.1 151939 View on NCBI ↗
Impatiens chlorosepala NC_059943.1 152763 View on NCBI ↗
Impatiens clavigera MW683062.1 152346 View on NCBI ↗
Impatiens commelinoides PQ877663.1 151589 View on NCBI ↗
Impatiens conchibracteata NC_071771.1 152142 View on NCBI ↗
Impatiens corchorifolia MW683063.1 151889 View on NCBI ↗
Impatiens cyanantha NC_058204.1 152391 View on NCBI ↗
Impatiens cyathiflora MW683064.1 152169 View on NCBI ↗
Impatiens davidii NC_058801.1 152214 View on NCBI ↗
Impatiens delavayi MW646913.1 151659 View on NCBI ↗
Impatiens dicentra PQ611764.1 151084 View on NCBI ↗
Impatiens duclouxii PQ516714.1 151607 View on NCBI ↗
Impatiens faberi PQ652174.1 152130 View on NCBI ↗
Impatiens fanjingshanica NC_059944.1 151538 View on NCBI ↗
Impatiens forrestii PQ877659.1 152273 View on NCBI ↗
Impatiens glandulifera NC_044718.1 152203 View on NCBI ↗
Impatiens gongshanensis MW646917.1 152051 View on NCBI ↗
Impatiens guizhouensis NC_059945.1 152774 View on NCBI ↗
Impatiens hawkeri NC_048520.1 151691 View on NCBI ↗
Impatiens labordei PQ156317.1 151579 View on NCBI ↗
Impatiens lasiophyton PQ156319.1 152421 View on NCBI ↗
Impatiens lateristachys PQ612862.1 152088 View on NCBI ↗
Impatiens liupanshuiensis PQ156318.1 152329 View on NCBI ↗
Impatiens longialata PQ452967.1 151568 View on NCBI ↗
Impatiens loulanensis NC_059947.1 152472 View on NCBI ↗
Impatiens macrovexilla NC_060668.1 152437 View on NCBI ↗
Impatiens macrovexilla var. yaoshanensis NC_060669.1 152286 View on NCBI ↗
Impatiens malipoensis MW646914.1 152341 View on NCBI ↗
Impatiens membranifolia PQ612863.1 152222 View on NCBI ↗
Impatiens menghuochengensis PQ612864.1 152184 View on NCBI ↗
Impatiens mengtszeana NC_058215.1 152928 View on NCBI ↗
Impatiens monticola NC_058205.1 152656 View on NCBI ↗
Impatiens napoensis MW683065.1 152988 View on NCBI ↗
Impatiens noli-tangere MW683066.1 152057 View on NCBI ↗
Impatiens omeiana NC_072171.1 152527 View on NCBI ↗
Impatiens oxyanthera PQ647016.1 151655 View on NCBI ↗
Impatiens pinetorum MW646915.1 152761 View on NCBI ↗
Impatiens pingxiangensis PQ452963.1 152229 View on NCBI ↗
Impatiens piufanensis NC_037401.1 152238 View on NCBI ↗
Impatiens piufanensis var. villosa PQ877660.1 152221 View on NCBI ↗
Impatiens platychlaena PQ611766.1 151115 View on NCBI ↗
Impatiens platysepala NC_068751.1 152243 View on NCBI ↗
Impatiens pritzelii NC_047191.1 152487 View on NCBI ↗
Impatiens rectangula MW683067.1 151731 View on NCBI ↗
Impatiens rectirostrata PQ647017.1 150810 View on NCBI ↗
Impatiens repens PQ649850.1 151996 View on NCBI ↗
Impatiens rostellata PQ647018.1 152306 View on NCBI ↗
Impatiens rubrostriata MW683068.1 151772 View on NCBI ↗
Impatiens siculifer PQ612866.1 152390 View on NCBI ↗
Impatiens sigmoidea PQ156321.1 152406 View on NCBI ↗
Impatiens soulieana PQ452968.1 152067 View on NCBI ↗
Impatiens sunii PQ877661.1 151840 View on NCBI ↗
Impatiens tienchuanensis PQ647019.1 152004 View on NCBI ↗
Impatiens tubulosa MW683070.1 152642 View on NCBI ↗
Impatiens uliginosa NC_059760.1 152608 View on NCBI ↗
Impatiens walleriana NC_059949.1 151953 View on NCBI ↗
Impatiens yingjingensis OR978441.1 151642 View on NCBI ↗
Impatiens yui MW646916.1 151452 View on NCBI ↗