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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
Eupl14g01050 . Nenu1g00606 . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01051 . Nenu1g00603 Nenu6g01076 . Tesi1g00907 . . . . . . . . . . . . . . . . . . .
Eupl14g01052 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01053 . Nenu1g00602 Nenu6g01074 . Tesi1g00906 Tesi21g00667 . . . Vivi15g00348 . . Nin6g01010 . . Arla13g00370 . . . . . . . .
Eupl14g01054 . . Nenu6g01073 . . Tesi21g00668 . . . . . . . . . . . . . . . . . .
Eupl14g01055 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01056 Eupl8g00784 Nenu1g00598 Nenu6g01072 Tesi1g00387 Tesi1g00905 . . Busi12g00272 Busi8g00501 . . . . . . . . . . . . . . .
Eupl14g01057 . . . Tesi1g00389 . . . . . . . . Nin6g01011 . . . . . . . . . . .
Eupl14g01058 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01059 . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
13 30664339 30668807 - evm.model.000064F.188 Arla13g00370 370
12 13604025 13612498 - BUSI_022818-RA Busi12g00272 272
8 6842307 6849333 - BUSI_015984-RA Busi8g00501 501
8 21953250 21978637 + evm.model.CTG_451.15 Eupl8g00784 784
14 17596209 17600854 - evm.model.CTG_446.91 Eupl14g01050 1050
14 17634617 17644682 - evm.model.CTG_446.92 Eupl14g01051 1051
14 17664171 17702487 - evm.model.CTG_446.93 Eupl14g01052 1052
14 17715659 17720111 + evm.model.CTG_446.94 Eupl14g01053 1053
14 17723168 17727658 - evm.model.CTG_446.95 Eupl14g01054 1054
14 17798005 17801568 - evm.model.CTG_446.96 Eupl14g01055 1055
14 17964566 17969045 - evm.model.CTG_446.98 Eupl14g01056 1056
14 17981914 17984035 - evm.model.CTG_446.99 Eupl14g01057 1057
14 18018713 18019849 + evm.model.CTG_446.101 Eupl14g01058 1058
14 18025251 18109670 - evm.model.CTG_446.102_evm.model.CTG_446.103 Eupl14g01059 1059
1 16662520 16665459 + OF00612.mRNA1 Nenu1g00598 598
1 16708616 16723162 - OF00616.mRNA1 Nenu1g00602 602
1 16753446 16769581 + OF00617.mRNA1 Nenu1g00603 603
1 16778161 16784493 + OF00620.mRNA1 Nenu1g00606 606
6 36989999 36993053 + OF11072.mRNA1 Nenu6g01072 1072
6 37000580 37002226 + OF11071.mRNA1 Nenu6g01073 1073
6 37037487 37040669 - OF11070.mRNA1 Nenu6g01074 1074
6 37099583 37106604 + OF11068.mRNA1 Nenu6g01076 1076
6 12478573 12481543 + NinS16463.t1 Nin6g01010 1010
6 12481637 12483319 - NinS16464.t1 Nin6g01011 1011
1 7720109 7724688 - Tesin01G0041200.1 Tesi1g00387 387
1 7759476 7763504 - Tesin01G0041400.1 Tesi1g00389 389
1 20597434 20602359 + Tesin01G0095200.1 Tesi1g00905 905
1 20604723 20607724 - Tesin01G0095300.1 Tesi1g00906 906
1 20612336 20630455 + Tesin01G0095400.1 Tesi1g00907 907
21 14144062 14147167 + Tesin21G0072000.1 Tesi21g00667 667
21 14147265 14153123 - Tesin21G0072100.1 Tesi21g00668 668
15 12774946 12779580 - GSVIVT01018233001 Vivi15g00348 348
       
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