Markers + reference

Polygonatum

54 species · Asparagaceae · Asparagales

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Species 54
Genome length 154–156 kb
Candidate markers 270
Primer pairs —

Genome-wide nucleotide diversity

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

Candidate markers

13 hotspot labels from the diversity plot in genomic order, plus the top 8 remaining regions by MarkerSeek score (out of 270 candidates).

Label Region Length (bp) Pi Alignment reliability MarkerSeek score Primer available Action
trnK-UUU-rps16 LSC 641 0.0105 0.99 60.6 no View details
rps16-trnQ-UUG LSC 1219 0.0099 1.00 63.1 no View details
trnS-GCU-trnG-UCC LSC 1325 0.0118 0.99 62.3 no View details
rpoB-trnC-GCA LSC 1243 0.0085 1.00 66.0 no View details
trnC-GCA-petN LSC 881 0.0135 1.00 60.2 no View details
petA-psbJ LSC 1067 0.0093 1.00 53.4 no View details
rps19 IRb 210 0.0000 1.00 19.7 no View details
ycf1 IRb 897 0.0006 1.00 48.2 no View details
ndhF-rpl32 SSC 991 0.0100 1.00 62.6 no View details
rpl32-trnL-UAG SSC 947 0.0166 1.00 76.4 no View details
ccsA SSC 972 0.0048 1.00 38.6 no View details
ycf1 SSC 5340 0.0056 1.00 55.3 no View details
rps19 IRa 210 0.0000 1.00 26.0 no View details
rps19-psbA LSC 104 0.0636 1.00 80.5 no View details
rpl22-rps19 LSC 47 0.0315 1.00 66.8 no View details
ndhC-trnV-UAC LSC 1619 0.0066 1.00 64.2 no View details
ycf4-cemA LSC 571 0.0110 1.00 61.8 no View details
psaJ-rpl33 LSC 558 0.0084 0.96 60.9 no View details
trnT-UGU-trnL-UAA LSC 868 0.0071 0.99 59.4 no View details
psbE-petL LSC 961 0.0040 1.00 57.0 no View details
petD-rpoA LSC 150 0.0097 1.00 57.0 no 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.

Result downloads

candidate_marker_features.tsv primers.tsv

Reference species (54)

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

Species Accession Length (bp) Link
Polygonatum acuminatifolium NC_058569.1 155354 View on NCBI ↗
Polygonatum amabile PP346800.1 154537 View on NCBI ↗
Polygonatum campanulatum NC_081478.1 155487 View on NCBI ↗
Polygonatum caulialatum NC_068899.1 155318 View on NCBI ↗
Polygonatum cirrhifolium NC_053687.1 155583 View on NCBI ↗
Polygonatum cryptanthum PP346797.1 155323 View on NCBI ↗
Polygonatum curvistylum NC_058554.1 155939 View on NCBI ↗
Polygonatum cyrtonema var. gutianshanicum PV055053.1 155635 View on NCBI ↗
Polygonatum falcatum NC_068132.1 154579 View on NCBI ↗
Polygonatum falcatum var. hyugaense PP346794.1 154566 View on NCBI ↗
Polygonatum falcatum var. trichosanthum PP346793.1 154572 View on NCBI ↗
Polygonatum filipes NC_058555.1 155334 View on NCBI ↗
Polygonatum franchetii NC_065351.1 155228 View on NCBI ↗
Polygonatum gongshanense PP346795.1 155281 View on NCBI ↗
Polygonatum gracile OM219010.1 155736 View on NCBI ↗
Polygonatum grandicaule PV199344.1 154578 View on NCBI ↗
Polygonatum griffithii NC_073539.1 155977 View on NCBI ↗
Polygonatum hirtellum OR492287.1 155697 View on NCBI ↗
Polygonatum hirtum NC_058556.1 155490 View on NCBI ↗
Polygonatum hookeri NC_058557.1 155976 View on NCBI ↗
Polygonatum humile NC_058558.1 155015 View on NCBI ↗
Polygonatum hunanense NC_058226.1 155609 View on NCBI ↗
Polygonatum inflatum NC_058559.1 154898 View on NCBI ↗
Polygonatum infundiflorum NC_071870.1 154578 View on NCBI ↗
Polygonatum involucratum NC_058560.1 155370 View on NCBI ↗
Polygonatum jinzhaiense NC_058561.1 155510 View on NCBI ↗
Polygonatum kingianum NC_047406.1 155399 View on NCBI ↗
Polygonatum langyaense PV055060.1 154578 View on NCBI ↗
Polygonatum lasianthum PP346787.1 154540 View on NCBI ↗
Polygonatum lasianthum var. coreanum PP346788.1 154593 View on NCBI ↗
Polygonatum macranthum PP346786.1 155203 View on NCBI ↗
Polygonatum macropodum NC_058562.1 154610 View on NCBI ↗
Polygonatum megaphyllum OM219004.1 155473 View on NCBI ↗
Polygonatum mengtzense NC_065358.1 155590 View on NCBI ↗
Polygonatum multiflorum NC_058563.1 155495 View on NCBI ↗
Polygonatum nodosum NC_058564.1 155205 View on NCBI ↗
Polygonatum odoratum NC_050926.1 154468 View on NCBI ↗
Polygonatum odoratum f. variegatum PP346785.1 155353 View on NCBI ↗
Polygonatum odoratum var. maximowiczii PP346784.1 155352 View on NCBI ↗
Polygonatum odoratum var. pluriflorum PP346783.1 155315 View on NCBI ↗
Polygonatum odoratum var. thunbergii PV199346.1 154578 View on NCBI ↗
Polygonatum oppositifolium NC_085202.1 155970 View on NCBI ↗
Polygonatum praecox NC_068900.1 155121 View on NCBI ↗
Polygonatum prattii NC_058565.1 155915 View on NCBI ↗
Polygonatum punctatum NC_058566.1 155657 View on NCBI ↗
Polygonatum roseum NC_085204.1 155662 View on NCBI ↗
Polygonatum singalilense PP346778.1 155939 View on NCBI ↗
Polygonatum sinopubescens NC_080376.1 155327 View on NCBI ↗
Polygonatum stenophyllum NC_035995.1 156028 View on NCBI ↗
Polygonatum stewartianum NC_065352.1 155847 View on NCBI ↗
Polygonatum tessellatum NC_058567.1 155688 View on NCBI ↗
Polygonatum uncinatum NC_058568.1 155797 View on NCBI ↗
Polygonatum x desoulavyi NC_085203.1 155334 View on NCBI ↗
Polygonatum zanlanscianense NC_058227.1 155911 View on NCBI ↗