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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
Eupl14g01030 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01031 . Nenu1g00623 Nenu6g01094 Tesi1g00383 . Tesi21g00653 Tesi22g00276 Busi12g00573 . . . . . . . . . . . . . . . .
Eupl14g01032 . Nenu1g00622 Nenu6g01092 . Tesi1g00918 . . Busi12g00571 . Vivi15g00358 . . Nin6g00981 . . . Arla11g00217 . . . . . . .
Eupl14g01033 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01034 . . Nenu6g01087 . Tesi1g00915 . . . . . Vivi16g00281 . . . . . . . . . . . . .
Eupl14g01035 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01036 . Nenu1g00619 . . Tesi1g00914 Tesi21g00658 . . . . . . . . . . . . . . . . . .
Eupl14g01037 . . . . . . . . . . . . . . Nin5g01482 . . . . . . . . .
Eupl14g01038 . Nenu1g00615 . . . . . . . Vivi15g00356 . . Nin6g00990 . . . Arla11g00218 . . . . . . .
Eupl14g01039 . . Nenu6g01086 . . . . . . . . . Nin6g00994 . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
11 6652858 6672801 + evm.model.000200F.77 Arla11g00217 217
11 6674074 6680477 - evm.model.000200F.76 Arla11g00218 218
12 29103242 29105095 - BUSI_023116-RA Busi12g00571 571
12 29194888 29197068 + BUSI_023123-RA Busi12g00573 573
14 17031299 17071906 - evm.model.CTG_446.69 Eupl14g01030 1030
14 17074104 17077884 - evm.model.CTG_446.70 Eupl14g01031 1031
14 17098152 17107158 + evm.model.CTG_446.71 Eupl14g01032 1032
14 17117790 17118680 - evm.model.CTG_446.73 Eupl14g01033 1033
14 17120820 17131895 - evm.model.CTG_446.74 Eupl14g01034 1034
14 17132220 17140476 - evm.model.CTG_446.75 Eupl14g01035 1035
14 17158958 17163873 - evm.model.CTG_446.76 Eupl14g01036 1036
14 17194204 17196283 + evm.model.CTG_446.77 Eupl14g01037 1037
14 17216715 17227267 + evm.model.CTG_446.78 Eupl14g01038 1038
14 17237423 17238817 - evm.model.CTG_446.79 Eupl14g01039 1039
1 17444187 17459250 + OF00629.mRNA1 Nenu1g00615 615
1 17561214 17563769 + OF00633.mRNA1 Nenu1g00619 619
1 17597934 17601277 - OF00636.mRNA1 Nenu1g00622 622
1 17627778 17630489 + OF00637.mRNA1 Nenu1g00623 623
6 37349067 37350399 - OF11058.mRNA1 Nenu6g01086 1086
6 37352317 37361406 + OF11057.mRNA1 Nenu6g01087 1087
6 37481885 37485536 - OF11052.mRNA1 Nenu6g01092 1092
6 37522474 37525474 + OF11050.mRNA1 Nenu6g01094 1094
5 22103846 22115065 - NinS14295.t1 Nin5g01482 1482
6 11830107 11833357 + NinS16434.t1 Nin6g00981 981
6 11979607 11984805 - NinS16443.t1 Nin6g00990 990
6 12059377 12060682 + NinS16447.t1 Nin6g00994 994
1 7633809 7643047 - Tesin01G0040800.1 Tesi1g00383 383
1 20812973 20821148 + Tesin01G0096100.1 Tesi1g00914 914
1 20833475 20840140 + Tesin01G0096200.1 Tesi1g00915 915
1 20918719 20931527 - Tesin01G0096500.1 Tesi1g00918 918
21 13714712 13729130 - Tesin21G0070600.1 Tesi21g00653 653
21 13868357 13870924 - Tesin21G0071100.1 Tesi21g00658 658
22 20744542 20747798 - Tesin22G0029500.1 Tesi22g00276 276
15 13131131 13135439 + GSVIVT01018217001 Vivi15g00356 356
15 13153421 13155862 - GSVIVT01018215001 Vivi15g00358 358
16 5875435 5877514 + GSVIVT01013879001 Vivi16g00281 281
       
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