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Asteraceae Genomic Research Platform

Gene Search

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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.


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
Eupl14g00830 . . . . Tesi1g00970 Tesi21g00594 . . . . Vivi16g00441 . . Nin9g02345 Nin5g01506 . . . Arla4g00843 . . . . .
Eupl14g00831 . Nenu1g00756 Nenu6g01220 Tesi1g00351 . . . . . . Vivi16g00440 . . Nin9g02344 Nin5g01507 . . . Arla4g00844 Arla3g03393 . . . .
Eupl14g00832 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00833 . Nenu1g00755 . . Tesi1g00969 Tesi21g00595 . . . . Vivi16g00439 . . Nin9g02343 . . . . Arla4g00845 . . . . .
Eupl14g00834 . Nenu1g00754 Nenu6g01219 . . . Tesi22g00355 . Busi8g00350 . . . . Nin9g02342 Nin5g01516 . . . . . . . . .
Eupl14g00835 . Nenu1g00753 . . Tesi1g00968 Tesi21g00596 . . Busi8g00351 . Vivi16g00438 . . Nin9g02341 . . . . Arla4g00863 Arla3g03392 . . . .
Eupl14g00836 . . Nenu6g01218 . . Tesi21g00597 . . Busi8g00352 . . . . . Nin5g01518 . . . . . . . . .
Eupl14g00837 . . . . Tesi1g00966 . Tesi22g00354 . . . . . . . Nin5g01523 . . . . . . . . .
Eupl14g00838 . . . . . Tesi21g00598 . . . . Vivi16g00437 . . Nin9g02340 . . . . . . . . . .
Eupl14g00839 . . . . . . . . . . . . . . . . . . . . . . . .
Gene_GFF
Chromosome Start End Strand Old_gene Gene Num
3 135536247 135539859 + evm.model.000120F.286 Arla3g03392 3392
3 135559614 135560703 - evm.model.000120F.288 Arla3g03393 3393
4 66444129 66445448 - evm.model.000210F.17 Arla4g00843 843
4 66470074 66470897 + evm.model.000210F.15 Arla4g00844 844
4 66543075 66543930 - evm.model.000210F.11 Arla4g00845 845
4 67271012 67275585 + evm.model.000034F.490 Arla4g00863 863
8 4899530 4906580 + BUSI_015834-RA Busi8g00350 350
8 4886738 4887364 + BUSI_015832-RA Busi8g00351 351
8 4880630 4881244 + BUSI_015831-RA Busi8g00352 352
14 11367139 11368033 + evm.model.CTG_303.162 Eupl14g00830 830
14 11377543 11378881 - evm.model.CTG_303.163 Eupl14g00831 831
14 11388745 11396714 + evm.model.CTG_303.164 Eupl14g00832 832
14 11400943 11401898 - evm.model.CTG_303.165 Eupl14g00833 833
14 11411609 11412491 + evm.model.CTG_303.166 Eupl14g00834 834
14 11422178 11424189 + evm.model.CTG_303.167 Eupl14g00835 835
14 11444721 11445557 + evm.model.CTG_303.168 Eupl14g00836 836
14 11456475 11462214 + evm.model.CTG_303.169 Eupl14g00837 837
14 11463251 11473666 - evm.model.CTG_303.170 Eupl14g00838 838
14 11470473 11470688 + evm.model.CTG_303.171 Eupl14g00839 839
1 20875842 20876474 - OF19777.mRNA1 Nenu1g00753 753
1 20957483 20958118 + OF19776.mRNA1 Nenu1g00754 754
1 20985190 20985804 + OF19775.mRNA1 Nenu1g00755 755
1 21065135 21065743 - OF19774.mRNA1 Nenu1g00756 756
6 40563278 40563904 - OF10926.mRNA1 Nenu6g01218 1218
6 40625099 40625728 + OF10925.mRNA1 Nenu6g01219 1219
6 40651692 40652285 - OF10924.mRNA1 Nenu6g01220 1220
5 22851405 22852019 + NinS14319.t1 Nin5g01506 1506
5 22937120 22938146 + NinS14320.t1 Nin5g01507 1507
5 23374155 23375205 + NinS14329.t1 Nin5g01516 1516
5 23410829 23411919 + NinS14331.t1 Nin5g01518 1518
5 23590316 23597007 + NinS14336.t1 Nin5g01523 1523
9 35057740 35064132 + NinS26790.t1 Nin9g02340 2340
9 35077579 35078238 - NinS26791.t1 Nin9g02341 2341
9 35083960 35084684 - NinS26792.t1 Nin9g02342 2342
9 35086387 35090981 + NinS26793.t1 Nin9g02343 2343
9 35096590 35097358 + NinS26794.t1 Nin9g02344 2344
9 35101307 35103022 - NinS26795.t1 Nin9g02345 2345
1 6848015 6848632 + Tesin01G0037400.1 Tesi1g00351 351
1 22179636 22189992 - Tesin01G0101600.1 Tesi1g00966 966
1 22220336 22220941 - Tesin01G0101800.1 Tesi1g00968 968
1 22232040 22232654 - Tesin01G0101900.1 Tesi1g00969 969
1 22245828 22246235 - Tesin01G0102000.1 Tesi1g00970 970
21 11957081 11957683 + Tesin21G0064400.1 Tesi21g00594 594
21 11989772 11990323 + Tesin21G0064500.1 Tesi21g00595 595
21 12017501 12018115 + Tesin21G0064600.1 Tesi21g00596 596
21 12034895 12041365 + Tesin21G0064700.1 Tesi21g00597 597
21 12044688 12053050 - Tesin21G0064800.1 Tesi21g00598 598
22 22816751 22824792 - Tesin22G0038500.1 Tesi22g00354 354
22 22826645 22830904 + Tesin22G0038600.1 Tesi22g00355 355
16 12208841 12231095 + GSVIVT01018613001 Vivi16g00437 437
16 12323616 12324499 - GSVIVT01018608001 Vivi16g00438 438
16 12343319 12344155 - GSVIVT01018607001 Vivi16g00439 439
16 12359339 12360092 - GSVIVT01018606001 Vivi16g00440 440
16 12380477 12381408 + GSVIVT01018604001 Vivi16g00441 441
       
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