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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
Eupl1g00111 . . Nenu7g01047 . . . None . . Vivi8g00451 . Vivi13g00834 . . . . . . . . . . . .
Eupl1g00112 . . Nenu7g01046 . . . None . . . . Vivi13g00833 . . . . . . . . . . . .
Eupl1g00113 Eupl5g00179 . Nenu7g01045 . . . None . . . . . . . . . . . . . . . . .
Eupl1g00114 Eupl5g00180 . Nenu7g01044 . . . None . . . Vivi6g00917 . . . . . . . . . . . . .
Eupl1g00115 . . Nenu7g01041 . . . None Busi1g02838 . Vivi8g00449 . . . . . . . . . . . . . .
Eupl1g00116 . . Nenu7g01032 . . . None . . Vivi8g00448 . . . . . . . . . . . . . .
Eupl1g00117 . . . . . . None . . . . . . . . . . . . . . . . .
Eupl1g00118 Eupl5g00182 . Nenu7g01027 Tesi7g01113 . . None . . Vivi8g00447 . . . . . . . Arla1g02526 . . . . . .
Eupl1g00119 Eupl5g00183 . Nenu7g01026 . . . None . . Vivi8g00446 . . . . . . . . . . . . . .
Eupl1g00120 . . . . . . None . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 171398763 171403466 - evm.model.000176F.98 Arla1g02526 2526
1 84281717 84283697 - BUSI_002838-RA Busi1g02838 2838
1 3841632 3893008 + evm.model.CTG_212.69 Eupl1g00111 111
1 3912382 4055449 + evm.model.CTG_212.70 Eupl1g00112 112
1 4069716 4076063 - evm.model.CTG_212.71 Eupl1g00113 113
1 4096569 4104362 + evm.model.CTG_212.74 Eupl1g00114 114
1 4118485 4120086 + evm.model.CTG_212.75 Eupl1g00115 115
1 4128247 4130854 + evm.model.CTG_212.76 Eupl1g00116 116
1 4132031 4144720 - evm.model.CTG_212.77 Eupl1g00117 117
1 4167345 4170908 + evm.model.CTG_212.78 Eupl1g00118 118
1 4172353 4179331 - evm.model.CTG_212.79 Eupl1g00119 119
1 4193591 4213746 - evm.model.CTG_212.80 Eupl1g00120 120
5 4756452 4778827 - evm.model.CTG_83.3 Eupl5g00179 179
5 4799527 4817175 + evm.model.CTG_83.4 Eupl5g00180 180
5 4885632 4889502 + evm.model.CTG_83.6 Eupl5g00182 182
5 4890036 4896150 - evm.model.CTG_83.7 Eupl5g00183 183
7 22249673 22251897 + OF21016.mRNA1 Nenu7g01026 1026
7 22252826 22256336 - OF21017.mRNA1 Nenu7g01027 1027
7 22387279 22425096 - OF21022.mRNA1 Nenu7g01032 1032
7 22718277 22721922 - OF21031.mRNA1 Nenu7g01041 1041
7 22783249 22795484 - OF21034.mRNA1 Nenu7g01044 1044
7 22804118 22814633 - OF21035.mRNA1 Nenu7g01045 1045
7 22823681 22944307 - OF21036.mRNA1 Nenu7g01046 1046
7 22957652 23046397 - OF21037.mRNA1 Nenu7g01047 1047
7 31006439 31009100 + Tesin07G0117300.1 Tesi7g01113 1113
6 14133581 14138528 - GSVIVT01037416001 Vivi6g00917 917
8 11398555 11422512 + GSVIVT01025833001 Vivi8g00446 446
8 11422958 11425757 - GSVIVT01025831001 Vivi8g00447 447
8 11427217 11429596 - GSVIVT01025830001 Vivi8g00448 448
8 11430916 11432159 - GSVIVT01025829001 Vivi8g00449 449
8 11436840 11452917 - GSVIVT01025827001 Vivi8g00451 451
13 15304226 15312797 + GSVIVT01027394001 Vivi13g00833 833
13 15320680 15327839 - GSVIVT01027393001 Vivi13g00834 834
       
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