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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
Eupl14g00890 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00891 . Nenu1g00715 Nenu6g01180 . . . Tesi22g00323 Busi12g00625 Busi8g00394 . . . . . Nin5g01605 . . . . . . . . .
Eupl14g00892 . Nenu1g00713 Nenu6g01178 . . . . . . . . Vivi2g00518 . . Nin5g01604 . . . . . . Arla7g00045 . Arla9g01058
Eupl14g00893 . Nenu1g00711 Nenu6g01177 . Tesi1g00953 . . Busi12g00621 . . . Vivi2g00519 . . . . . . . . . . . Arla9g01057
Eupl14g00894 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00895 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00896 . . Nenu6g01172 . . . Tesi22g00322 . . . . . Nin6g00904 . . . . . . . . . . .
Eupl14g00897 . . Nenu6g01171 . . . . . . . . Vivi2g00523 . . Nin5g01599 . . . . . . . Arla11g01285 .
Eupl14g00898 . . Nenu6g01167 . . . . . . . . Vivi2g00524 . . . . . . . . . . . .
Eupl14g00899 . Nenu1g00707 Nenu6g01165 . Tesi1g00951 . Tesi22g00320 Busi12g00619 . . . Vivi2g00525 Nin6g00908 . Nin5g01594 . . . . . . Arla7g00038 . Arla9g01055
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 795259 798724 + evm.model.000016F.775 Arla7g00038 38
7 947882 948367 + evm.model.000016F.765 Arla7g00045 45
9 24909016 24912141 + evm.model.000004F.55 Arla9g01055 1055
9 24929212 24941446 + evm.model.000004F.53 Arla9g01057 1057
9 24943988 24944254 - evm.model.000004F.52 Arla9g01058 1058
11 74957308 74961957 + evm.model.000067F.338 Arla11g01285 1285
12 29980589 29985301 + BUSI_023170-RA Busi12g00619 619
12 30011990 30012556 + BUSI_023173-RA Busi12g00621 621
12 30023311 30023727 + BUSI_023174-RA Busi12g00625 625
8 5392833 5397675 - BUSI_015876-RA Busi8g00394 394
14 12546257 12547267 + evm.model.CTG_303.228 Eupl14g00890 890
14 12548342 12549126 - evm.model.CTG_303.229 Eupl14g00891 891
14 12565646 12566131 - evm.model.CTG_303.230 Eupl14g00892 892
14 12583224 12589353 - evm.model.CTG_303.231 Eupl14g00893 893
14 12618169 12622760 + evm.model.CTG_303.234 Eupl14g00894 894
14 12635965 12638618 - evm.model.CTG_303.235 Eupl14g00895 895
14 12640300 12645205 - evm.model.CTG_303.236 Eupl14g00896 896
14 12647050 12665549 + evm.model.CTG_303.237 Eupl14g00897 897
14 12667297 12669039 - evm.model.CTG_303.238 Eupl14g00898 898
14 12682603 12690075 - evm.model.CTG_303.239 Eupl14g00899 899
1 19721574 19725819 + OF19823.mRNA1 Nenu1g00707 707
1 19774764 19804285 + OF19819.mRNA1 Nenu1g00711 711
1 19816562 19816963 + OF19817.mRNA1 Nenu1g00713 713
1 19860589 19860987 - OF19815.mRNA1 Nenu1g00715 715
6 39516005 39520038 + OF10979.mRNA1 Nenu6g01165 1165
6 39545668 39547038 + OF10977.mRNA1 Nenu6g01167 1167
6 39575922 39589836 - OF10973.mRNA1 Nenu6g01171 1171
6 39590234 39596525 + OF10972.mRNA1 Nenu6g01172 1172
6 39617082 39625098 + OF10967.mRNA1 Nenu6g01177 1177
6 39628262 39628675 + OF10966.mRNA1 Nenu6g01178 1178
6 39645708 39646115 - OF10964.mRNA1 Nenu6g01180 1180
5 27221601 27241737 + NinS14407.t1 Nin5g01594 1594
5 27662461 27676554 - NinS14412.t1 Nin5g01599 1599
5 28091139 28092097 + NinS14417.t1 Nin5g01604 1604
5 28115835 28116711 + NinS14418.t1 Nin5g01605 1605
6 10393301 10397740 - NinS16357.t1 Nin6g00904 904
6 10440628 10456694 - NinS16361.t1 Nin6g00908 908
1 21793238 21801186 + Tesin01G0099900.1 Tesi1g00951 951
1 21825398 21843491 + Tesin01G0100100.1 Tesi1g00953 953
22 21992886 22000661 + Tesin22G0034600.1 Tesi22g00320 320
22 22022835 22036319 + Tesin22G0034800.1 Tesi22g00322 322
22 22048203 22048610 + Tesin22G0034900.1 Tesi22g00323 323
2 5141540 5142274 - GSVIVT01001299001 Vivi2g00518 518
2 5147926 5157582 - GSVIVT01001301001 Vivi2g00519 519
2 5167369 5172416 + GSVIVT01001305001 Vivi2g00523 523
2 5173996 5175801 - GSVIVT01001306001 Vivi2g00524 524
2 5185047 5189256 - GSVIVT01001307001 Vivi2g00525 525
       
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