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Asteraceae Genomic Research Platform

Gene Search

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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
Eupl14g01140 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01141 Eupl8g00874 . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01142 . Nenu1g00518 Nenu6g01012 Tesi1g00414 Tesi1g00875 Tesi21g00729 None . Busi8g00487 . . . . . . . . . . . . . . .
Eupl14g01143 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01144 Eupl8g00888 Nenu1g00507 Nenu6g01008 . . Tesi21g00735 None . Busi8g00474 . . . . . Nin5g00101 . . . . . . . . .
Eupl14g01145 . Nenu1g00497 Nenu6g01000 . . Tesi21g00737 None . Busi8g00467 . Vivi16g00268 . . . . . . . . Arla3g03343 . . . .
Eupl14g01146 Eupl8g00905 Nenu1g00496 Nenu6g00999 Tesi1g00420 . Tesi21g00738 None Busi12g00352 Busi8g01185 . . . . . Nin5g00104 . . . . . . . . .
Eupl14g01147 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl14g01148 . . . Tesi1g00421 . . None . . . Vivi16g00263 . . . . . . . . . Arla2g00682 . . .
Eupl14g01149 . . . . . . None . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 20698193 20713828 - evm.model.000001F.685 Arla2g00682 682
3 134809797 134814667 - evm.model.000120F.223 Arla3g03343 3343
12 17348868 17352033 - BUSI_022901-RA Busi12g00352 352
8 6354967 6363519 - BUSI_015952-RA Busi8g00467 467
8 6518633 6521293 - BUSI_015960-RA Busi8g00474 474
8 6607263 6618804 - BUSI_015966-RA Busi8g00487 487
8 19134868 19136123 + BUSI_016671-RA Busi8g01185 1185
8 24758834 24771326 - evm.model.CTG_282.18 Eupl8g00874 874
8 25198663 25206499 + evm.model.CTG_282.39 Eupl8g00888 888
8 25462341 25464826 - evm.model.CTG_282.58 Eupl8g00905 905
14 22980115 22980735 + evm.model.CTG_403.105 Eupl14g01140 1140
14 23021857 23030245 - evm.model.CTG_112.2 Eupl14g01141 1141
14 23101432 23110759 + evm.model.CTG_112.5 Eupl14g01142 1142
14 23152589 23155712 - evm.model.CTG_112.6 Eupl14g01143 1143
14 23367164 23374612 + evm.model.CTG_112.19 Eupl14g01144 1144
14 23735756 23757382 + evm.model.CTG_112.26.2 Eupl14g01145 1145
14 23758397 23770976 - evm.model.CTG_112.27 Eupl14g01146 1146
14 23903907 23907567 + evm.model.CTG_112.34 Eupl14g01147 1147
14 23920071 24018365 - evm.model.CTG_112.36 Eupl14g01148 1148
14 24018869 24019908 + evm.model.CTG_104.1 Eupl14g01149 1149
1 13778660 13797805 + OF09798.mRNA1 Nenu1g00496 496
1 13811457 13818998 - OF09799.mRNA1 Nenu1g00497 497
1 14023860 14032109 - OF09809.mRNA1 Nenu1g00507 507
1 14527105 14533827 - OF00532.mRNA1 Nenu1g00518 518
6 35425147 35433779 + OF11145.mRNA1 Nenu6g00999 999
6 35438340 35450260 - OF11144.mRNA1 Nenu6g01000 1000
6 35558852 35566013 - OF11136.mRNA1 Nenu6g01008 1008
6 35695375 35716408 - OF11132.mRNA1 Nenu6g01012 1012
5 966503 974170 + NinS12914.t1 Nin5g00101 101
5 987134 989624 - NinS12917.t1 Nin5g00104 104
1 8312628 8315810 + Tesin01G0044000.1 Tesi1g00414 414
1 8387847 8389322 - Tesin01G0044800.1 Tesi1g00420 420
1 8414530 8428242 - Tesin01G0044900.1 Tesi1g00421 421
1 19629032 19642550 - Tesin01G0092200.1 Tesi1g00875 875
21 16037756 16042057 + Tesin21G0078600.1 Tesi21g00729 729
21 16188982 16197019 + Tesin21G0079200.1 Tesi21g00735 735
21 16323006 16351660 + Tesin21G0079800.1 Tesi21g00737 737
21 16356832 16366773 - Tesin21G0079900.1 Tesi21g00738 738
16 5234832 5316204 - GSVIVT01013853001 Vivi16g00263 263
16 5421949 5437497 - GSVIVT01013859001 Vivi16g00268 268
       
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