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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
Eupl1g00081 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00082 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00083 . . . . . . None . . Vivi8g00489 . . . . . . . Arla1g02502 . . . . . .
Eupl1g00084 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00085 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00086 Eupl5g00126 . . . Tesi11g01000 . None . . . . . . . . . . . . . . . . .
Eupl1g00087 . . . Tesi7g01025 Tesi11g01001 . None . . . . . . . . . . . . . . . . .
Eupl1g00088 Eupl5g00130 . . . . . None . . Vivi8g00064 . . . . . . . . . . . . . .
Eupl1g00089 Eupl5g00132 . . . Tesi11g01015 . None . . Vivi8g00060 . Vivi13g00846 . . . . . . . . . . . .
Eupl1g00090 Eupl5g00135 . Nenu7g01089 Tesi7g01038 . . None Busi1g02593 . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 170637079 170641109 - evm.model.000176F.65 Arla1g02502 2502
1 60519155 60521785 + BUSI_002593-RA Busi1g02593 2593
1 2744483 2751255 - evm.model.CTG_212.27 Eupl1g00081 81
1 2756241 2760649 - evm.model.CTG_212.28 Eupl1g00082 82
1 2777424 2786365 + evm.model.CTG_212.29 Eupl1g00083 83
1 2800624 2801121 + evm.model.CTG_212.30 Eupl1g00084 84
1 2802877 2818092 + evm.model.CTG_212.31 Eupl1g00085 85
1 2818710 2819111 + evm.model.CTG_212.32 Eupl1g00086 86
1 2830104 2831928 - evm.model.CTG_212.33 Eupl1g00087 87
1 2871669 2881588 + evm.model.CTG_212.34 Eupl1g00088 88
1 2894815 2904151 + evm.model.CTG_212.35 Eupl1g00089 89
1 2917153 2920277 - evm.model.CTG_212.36 Eupl1g00090 90
5 3191788 3194023 + evm.model.CTG_219.64 Eupl5g00126 126
5 3345041 3346378 + evm.model.CTG_219.59 Eupl5g00130 130
5 3380455 3395401 + evm.model.CTG_219.55 Eupl5g00132 132
5 3456101 3459032 - evm.model.CTG_219.51 Eupl5g00135 135
7 24135306 24138618 - OF21079.mRNA1 Nenu7g01089 1089
7 23518730 23520006 - Tesin07G0107900.1 Tesi7g01025 1025
7 24033875 24037315 - Tesin07G0109200.1 Tesi7g01038 1038
11 22896604 22898382 + Tesin11G0104100.1 Tesi11g01000 1000
11 23007299 23008631 - Tesin11G0104200.1 Tesi11g01001 1001
11 23843817 23867797 - Tesin11G0105600.1 Tesi11g01015 1015
8 1240889 1259995 - GSVIVT01029902001 Vivi8g00060 60
8 1298951 1300396 - GSVIVT01029908001 Vivi8g00064 64
8 11923426 11925207 + GSVIVT01025782001 Vivi8g00489 489
13 15573700 15574034 + GSVIVT01027372001 Vivi13g00846 846
       
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