AGRP Logo

AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
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
Eupl14g01040 . Nenu1g00613 . . . . . Busi12g00564 . Vivi15g00355 . . . . . . . . . . . . . .
Eupl14g01041 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01042 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g01043 . Nenu1g00611 . . Tesi1g00913 . . . . Vivi15g00352 . . Nin6g00998 . . . . Arla5g01042 . . . . . .
Eupl14g01044 . . Nenu6g01083 . . Tesi21g00661 . Busi12g00556 . . . . . . . . . . . . . . . .
Eupl14g01045 . . Nenu6g01082 . Tesi1g00912 . . Busi12g00555 . Vivi15g00351 . . . . . . . . . . . . . .
Eupl14g01046 . . Nenu6g01080 . Tesi1g00911 . . . . . . . . . . . . . . . . . . .
Eupl14g01047 Eupl8g00779 Nenu1g00609 Nenu6g01079 . . Tesi21g00662 Tesi22g00274 . . Vivi15g00349 . . Nin6g01001 . . . Arla11g00221 Arla5g01043 . . . . . .
Eupl14g01048 . Nenu1g00607 Nenu6g01078 Tesi1g00386 . Tesi21g00663 . . Busi8g00514 . . . Nin6g01003 . . . . . . . . . . .
Eupl14g01049 . . Nenu6g01077 . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
5 28742020 28760422 + evm.model.000213F.80 Arla5g01042 1042
5 28943268 28944404 - evm.model.000213F.76 Arla5g01043 1043
11 7086663 7093528 - evm.model.000200F.67 Arla11g00221 221
12 28939722 28950739 + BUSI_023107-RA Busi12g00555 555
12 28955054 28955841 + BUSI_023108-RA Busi12g00556 556
12 28991380 29015298 - BUSI_023111-RA Busi12g00564 564
8 7100592 7101591 + BUSI_015997-RA Busi8g00514 514
8 20389052 20390007 + evm.model.CTG_92.13 Eupl8g00779 779
14 17242123 17313681 - evm.model.CTG_446.80 Eupl14g01040 1040
14 17318320 17318793 + evm.model.CTG_446.81 Eupl14g01041 1041
14 17323213 17343772 + evm.model.CTG_446.82 Eupl14g01042 1042
14 17390192 17419268 + evm.model.CTG_446.83.1 Eupl14g01043 1043
14 17421346 17422214 - evm.model.CTG_446.84 Eupl14g01044 1044
14 17428547 17441322 - evm.model.CTG_446.85.4 Eupl14g01045 1045
14 17444513 17453715 - evm.model.CTG_446.86 Eupl14g01046 1046
14 17510818 17511950 - evm.model.CTG_446.88 Eupl14g01047 1047
14 17530047 17542464 - evm.model.CTG_446.89 Eupl14g01048 1048
14 17578431 17592942 + evm.model.CTG_446.90 Eupl14g01049 1049
1 16842696 16847053 + OF00621.mRNA1 Nenu1g00607 607
1 17046454 17047131 + OF00623.mRNA1 Nenu1g00609 609
1 17178949 17207796 - OF00625.mRNA1 Nenu1g00611 611
1 17290209 17345923 - OF00627.mRNA1 Nenu1g00613 613
6 37107108 37119900 - OF11067.mRNA1 Nenu6g01077 1077
6 37142103 37168477 + OF11066.mRNA1 Nenu6g01078 1078
6 37214570 37215397 + OF11065.mRNA1 Nenu6g01079 1079
6 37256064 37269341 + OF11064.mRNA1 Nenu6g01080 1080
6 37282177 37295932 + OF11062.mRNA1 Nenu6g01082 1082
6 37303930 37304598 - OF11061.mRNA1 Nenu6g01083 1083
6 12098922 12137649 + NinS16451.t1 Nin6g00998 998
6 12197084 12198435 - NinS16454.t1 Nin6g01001 1001
6 12228449 12243910 - NinS16456.t1 Nin6g01003 1003
1 7695549 7714203 - Tesin01G0041100.1 Tesi1g00386 386
1 20702827 20714213 + Tesin01G0095800.1 Tesi1g00911 911
1 20724955 20742097 + Tesin01G0095900.1 Tesi1g00912 912
1 20756983 20757682 - Tesin01G0096000.1 Tesi1g00913 913
21 13966799 13967323 - Tesin21G0071400.1 Tesi21g00661 661
21 13996610 14012682 - Tesin21G0071500.1 Tesi21g00662 662
21 14026553 14031988 - Tesin21G0071600.1 Tesi21g00663 663
22 20723854 20724603 - Tesin22G0029300.1 Tesi22g00274 274
15 12895594 12935971 + GSVIVT01018226001 Vivi15g00349 349
15 12967748 12988542 + GSVIVT01018224001 Vivi15g00351 351
15 12989262 13025566 - GSVIVT01018223001 Vivi15g00352 352
15 13101371 13117884 - GSVIVT01018218001 Vivi15g00355 355
       
DecoBrowse