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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
Eupl1g00101 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00102 Eupl5g00160 . Nenu7g01063 Tesi7g01083 . . None . . . . . . . . . . . . . . . . .
Eupl1g00103 Eupl5g00161 . Nenu7g01062 Tesi7g01084 . . None . . Vivi8g00052 . . . . . Arla3g02387 . . . . . . . .
Eupl1g00104 Eupl5g00162 . Nenu7g01060 Tesi7g01085 . . None . . . . . . . . . . . . . . . . .
Eupl1g00105 Eupl5g00163 Nenu2g03995 Nenu7g01058 . . . None . . . . . . . . . . . . . . . . .
Eupl1g00106 . . . . Tesi11g01022 . None . . Vivi8g00013 . . . . . . . . . . . . . .
Eupl1g00107 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00108 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00109 Eupl5g00169 . Nenu7g01052 . . . None . . Vivi8g00452 . . . . . . . . . . . . . .
Eupl1g00110 Eupl5g00170 . . . . . None . . . . Vivi13g00835 . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
3 113209112 113214543 + evm.model.000063F.22 Arla3g02387 2387
1 3313753 3332167 + evm.model.CTG_212.47 Eupl1g00101 101
1 3359207 3373882 - evm.model.CTG_212.50 Eupl1g00102 102
1 3386991 3410256 + evm.model.CTG_212.51_evm.model.CTG_212.52 Eupl1g00103 103
1 3412572 3467264 - evm.model.CTG_212.53 Eupl1g00104 104
1 3480765 3489810 - evm.model.CTG_212.58 Eupl1g00105 105
1 3495399 3509647 + evm.model.CTG_212.59 Eupl1g00106 106
1 3517281 3546487 + evm.model.CTG_212.60_evm.model.CTG_212.63 Eupl1g00107 107
1 3568897 3570722 + evm.model.CTG_212.65 Eupl1g00108 108
1 3571645 3586587 - evm.model.CTG_212.66 Eupl1g00109 109
1 3729318 3837106 + evm.model.CTG_212.68_evm.model.CTG_212.67 Eupl1g00110 110
5 4060123 4065594 - evm.model.CTG_219.18 Eupl5g00160 160
5 4094726 4129235 + evm.model.CTG_219.17.1 Eupl5g00161 161
5 4141178 4151810 - evm.model.CTG_219.16 Eupl5g00162 162
5 4175083 4211953 - evm.model.CTG_219.15 Eupl5g00163 163
5 4346214 4354321 - evm.model.CTG_219.8 Eupl5g00169 169
5 4394936 4472737 + evm.model.CTG_219.7.1 Eupl5g00170 170
2 108006496 108010668 - OF23220.mRNA1 Nenu2g03995 3995
7 23253430 23259120 + OF21042.mRNA1 Nenu7g01052 1052
7 23458208 23468992 + OF21048.mRNA1 Nenu7g01058 1058
7 23490553 23498882 + OF21050.mRNA1 Nenu7g01060 1060
7 23501299 23531741 - OF21052.mRNA1 Nenu7g01062 1062
7 23541886 23543412 + OF21053.mRNA1 Nenu7g01063 1063
7 28651933 28653420 - Tesin07G0114300.1 Tesi7g01083 1083
7 28725003 28736345 + Tesin07G0114400.1 Tesi7g01084 1084
7 28770611 28783660 - Tesin07G0114500.1 Tesi7g01085 1085
11 24227147 24267782 + Tesin11G0106300.1 Tesi11g01022 1022
8 301073 310664 - GSVIVT01029836001 Vivi8g00013 13
8 995521 1021768 + GSVIVT01029892001 Vivi8g00052 52
8 11455514 11461492 - GSVIVT01025825001 Vivi8g00452 452
13 15348468 15363814 + GSVIVT01027391001 Vivi13g00835 835
       
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