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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
Eupl14g00960 . Nenu1g00665 Nenu6g01137 Tesi1g00376 Tesi1g00932 Tesi21g00634 Tesi22g00303 . . Vivi15g00394 . . . . . . Arla11g00197 Arla5g01026 . . . . . .
Eupl14g00961 . . Nenu6g01136 . . Tesi21g00635 Tesi22g00302 . Busi8g00422 . . . . . . . . . . . . . . .
Eupl14g00962 . . Nenu6g01135 . . . Tesi22g00301 . Busi8g00426 . Vivi16g00370 . . Nin9g02293 . . . . . . . . . .
Eupl14g00963 . . . . . . Tesi22g00300 Busi12g00549 . . . . . . . . . . . . . . . .
Eupl14g00964 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00965 . . . . . . . Busi12g00550 . . . . Nin6g00942 . . . . . . . . . . .
Eupl14g00966 . . . . . . Tesi22g00299 Busi12g00559 . . . . Nin6g00943 . . . . . . . . . . .
Eupl14g00967 . Nenu1g00663 . . . . . . . Vivi15g00393 . . Nin6g00944 Nin9g02278 . . . . . . . . . .
Eupl14g00968 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00969 . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
5 28023275 28024816 - evm.model.000213F.110 Arla5g01026 1026
11 5742289 5743758 - evm.model.000200F.122 Arla11g00197 197
12 28810559 28812603 + BUSI_023099-RA Busi12g00549 549
12 28847915 28849938 + BUSI_023103-RA Busi12g00550 550
12 28899729 28901299 - BUSI_023106-RA Busi12g00559 559
8 5739730 5744087 - BUSI_015909-RA Busi8g00422 422
8 5772276 5796029 + BUSI_015910-RA Busi8g00426 426
14 14072063 14073806 - evm.model.CTG_520.7 Eupl14g00960 960
14 14088194 14093644 - evm.model.CTG_520.6 Eupl14g00961 961
14 14104478 14172050 + evm.model.CTG_520.5 Eupl14g00962 962
14 14173234 14178515 - evm.model.CTG_520.4 Eupl14g00963 963
14 14180899 14190066 + evm.model.CTG_520.3 Eupl14g00964 964
14 14209236 14217793 - evm.model.CTG_520.2 Eupl14g00965 965
14 14222294 14235385 - evm.model.CTG_520.1 Eupl14g00966 966
14 14244908 14247678 - evm.model.CTG_122.1 Eupl14g00967 967
14 14281352 14355127 + evm.model.CTG_122.5 Eupl14g00968 968
14 14355653 14364165 - evm.model.CTG_122.6 Eupl14g00969 969
1 18591036 18592330 + OF00677.mRNA1 Nenu1g00663 663
1 18622028 18623509 + OF00679.mRNA1 Nenu1g00665 665
6 38673961 38772281 - OF11009.mRNA1 Nenu6g01135 1135
6 38784153 38793289 + OF11008.mRNA1 Nenu6g01136 1136
6 38809723 38811195 + OF11007.mRNA1 Nenu6g01137 1137
6 11069263 11070391 - NinS16395.t1 Nin6g00942 942
6 11081960 11083147 - NinS16396.t1 Nin6g00943 943
6 11086844 11088238 - NinS16397.t1 Nin6g00944 944
9 34508093 34514196 + NinS26728.t1 Nin9g02278 2278
9 34628798 34659062 + NinS26743.t1 Nin9g02293 2293
1 7434307 7435653 - Tesin01G0040100.1 Tesi1g00376 376
1 21321783 21323156 + Tesin01G0097900.1 Tesi1g00932 932
21 13034803 13036083 - Tesin21G0068600.1 Tesi21g00634 634
21 13044959 13049159 - Tesin21G0068700.1 Tesi21g00635 635
22 21366140 21368047 + Tesin22G0032200.1 Tesi22g00299 299
22 21375259 21377017 + Tesin22G0032300.1 Tesi22g00300 300
22 21381461 21435332 - Tesin22G0032400.1 Tesi22g00301 301
22 21504257 21508797 + Tesin22G0032500.1 Tesi22g00302 302
22 21518865 21520205 + Tesin22G0032700.1 Tesi22g00303 303
15 13735905 13737759 + GSVIVT01018163001 Vivi15g00393 393
15 13742179 13744203 + GSVIVT01018162001 Vivi15g00394 394
16 9892377 9893363 + GSVIVT01014041001 Vivi16g00370 370
       
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