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Asteraceae Genomic Research Platform

Gene Search

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Example:

Hierarchical alignments with the Euptelea pleiosperma genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Euptelea pleiosperma as a reference, and by comparing homologous gene locus maps and Ks values between Euptelea pleiosperma and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 25×25,104 macro-matrices.


Select Eupl_1 Eupl_2 Nenu_1 Nenu_2 Tesi_1 Tesi_2 Tesi_3 Tesi_4 Busi_1 Busi_2 Vivi_1 Vivi_2 Vivi_3 Nin_1 Nin_2 Nin_3 Arla_1 Arla_2 Arla_3 Arla_4 Arla_5 Arla_6 Arla_7 Arla_8 Arla_9
Eupl14g01020 . . Nenu6g01104 . . . . . . . Vivi16g00411 . . . . . . . . . . . . .
Eupl14g01021 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01022 . Nenu1g00632 . . Tesi1g00921 . . . . . . . . . . . . . . . . . . .
Eupl14g01023 . Nenu1g00631 Nenu6g01102 Tesi1g00381 Tesi1g00920 Tesi21g00652 . Busi12g00575 . . Vivi16g00412 . Nin6g00976 Nin9g02305 . . . . . Arla3g03376 Arla2g00006 . . .
Eupl14g01024 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01025 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01026 . Nenu1g00627 . Tesi1g00382 . . . . . . . . . . . . . . . . . . . .
Eupl14g01027 . . Nenu6g01099 . . . . . . . . . . . . . . . . . . . . .
Eupl14g01028 . . Nenu6g01098 . . . . . . . . . . . . . . . . . . . . .
Eupl14g01029 . . . . . . Tesi22g00279 . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 126640 132748 + evm.model.000353F.12 Arla2g00006 6
3 135197112 135199473 - evm.model.000120F.266.1 Arla3g03376 3376
12 29234267 29238070 + BUSI_023126-RA Busi12g00575 575
14 16693454 16694444 - evm.model.CTG_446.54 Eupl14g01020 1020
14 16695015 16705394 - evm.model.CTG_446.55 Eupl14g01021 1021
14 16707440 16753899 - evm.model.CTG_446.56.1 Eupl14g01022 1022
14 16755463 16767909 - evm.model.CTG_446.57 Eupl14g01023 1023
14 16781126 16792875 + evm.model.CTG_446.58 Eupl14g01024 1024
14 16798260 16802105 - evm.model.CTG_446.59 Eupl14g01025 1025
14 16851414 16860800 + evm.model.CTG_446.61 Eupl14g01026 1026
14 16918696 16986614 + evm.model.CTG_446.66 Eupl14g01027 1027
14 16996813 16998409 + evm.model.CTG_446.67 Eupl14g01028 1028
14 17000079 17030442 - evm.model.CTG_446.68 Eupl14g01029 1029
1 17643817 17685463 - OF00641.mRNA1 Nenu1g00627 627
1 17770825 17790059 + OF00645.mRNA1 Nenu1g00631 631
1 17796069 17815506 + OF00646.mRNA1 Nenu1g00632 632
6 37596281 37597978 - OF11046.mRNA1 Nenu6g01098 1098
6 37636603 37697814 - OF11045.mRNA1 Nenu6g01099 1099
6 37761586 37782208 + OF11042.mRNA1 Nenu6g01102 1102
6 37837521 37838319 + OF11040.mRNA1 Nenu6g01104 1104
6 11734997 11736414 + NinS16429.t1 Nin6g00976 976
9 34727522 34731394 - NinS26755.t1 Nin9g02305 2305
1 7593364 7595141 - Tesin01G0040600.1 Tesi1g00381 381
1 7621151 7632614 + Tesin01G0040700.1 Tesi1g00382 382
1 20951918 20957766 + Tesin01G0096700.1 Tesi1g00920 920
1 20958905 20993528 + Tesin01G0096800.1 Tesi1g00921 921
21 13700601 13710379 - Tesin21G0070500.1 Tesi21g00652 652
22 20767554 20776870 + Tesin22G0029800.1 Tesi22g00279 279
16 11479681 11480701 - GSVIVT01018666001 Vivi16g00411 411
16 11481262 11488666 - GSVIVT01018665001 Vivi16g00412 412
       
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