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
Eupl14g00910 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00911 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00912 . . . . . . . . Busi8g00405 . . . . . . . . . . . . . . .
Eupl14g00913 . Nenu1g00702 . . . . . . . . . Vivi2g00529 . . Nin5g01549 . . . . . . Arla7g00034 . .
Eupl14g00914 . . . . . . . . . . . . . . . . . . . . . . . .
Eupl14g00915 . Nenu1g00701 Nenu6g01158 . . . Tesi22g00315 Busi12g00614 . . Vivi16g00419 . . Nin9g02311 . . . . . Arla3g03379 Arla2g00003 . . .
Eupl14g00916 . Nenu1g00700 . . . . Tesi22g00314 . . Vivi15g00417 . . Nin6g00912 . . . . Arla5g00924 . . . . . .
Eupl14g00917 . Nenu1g00697 Nenu6g01155 . . Tesi21g00618 Tesi22g00312 . . . Vivi16g00417 Vivi2g00532 . Nin9g02310 . . . . . . . . Arla11g01288 .
Eupl14g00918 . Nenu1g00693 Nenu6g01153 Tesi1g00362 . . . . . Vivi15g00416 . Vivi2g00534 Nin6g00913 . . Arla13g00294 Arla11g00191 . . . . . Arla11g01331 Arla9g01575
Eupl14g00919 . Nenu1g00690 . . Tesi1g00945 . . . . . Vivi16g00416 . . Nin9g02309 . . . . . . Arla2g00004 . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
2 78548 81220 - evm.model.000353F.8 Arla2g00003 3
2 108849 117961 + evm.model.000353F.10 Arla2g00004 4
3 135241372 135244266 + evm.model.000120F.271 Arla3g03379 3379
5 24457706 24461331 - evm.model.000083F.43 Arla5g00924 924
7 759330 764466 - evm.model.000016F.780 Arla7g00034 34
9 55051528 55055832 + evm.model.000048F.314.1 Arla9g01575 1575
11 5613384 5626398 - evm.model.000200F.128 Arla11g00191 191
11 74981253 74984734 + evm.model.000067F.341 Arla11g01288 1288
11 75629009 75636458 + evm.model.000067F.395 Arla11g01331 1331
13 13620262 13629451 + evm.model.000017F.76 Arla13g00294 294
12 29824070 29825950 + BUSI_023164-RA Busi12g00614 614
8 5533875 5538754 - BUSI_015887-RA Busi8g00405 405
14 12936536 12937400 + evm.model.CTG_330.26 Eupl14g00910 910
14 12937772 12938723 + evm.model.CTG_330.25 Eupl14g00911 911
14 12950046 12952670 - evm.model.CTG_330.23 Eupl14g00912 912
14 12953800 12968071 + evm.model.CTG_330.22 Eupl14g00913 913
14 12978786 12983517 + evm.model.CTG_330.21 Eupl14g00914 914
14 12998713 13002123 - evm.model.CTG_330.20 Eupl14g00915 915
14 13021458 13027329 + evm.model.CTG_330.19.6 Eupl14g00916 916
14 13054376 13056118 - evm.model.CTG_330.18.1 Eupl14g00917 917
14 13059421 13078132 - evm.model.CTG_330.17 Eupl14g00918 918
14 13090320 13112339 + evm.model.CTG_330.16 Eupl14g00919 919
1 19311380 19331265 - OF19840.mRNA1 Nenu1g00690 690
1 19381863 19383015 + OF19837.mRNA1 Nenu1g00693 693
1 19459126 19459898 + OF19833.mRNA1 Nenu1g00697 697
1 19504400 19510065 - OF19830.mRNA1 Nenu1g00700 700
1 19536729 19540563 + OF19829.mRNA1 Nenu1g00701 701
1 19547455 19565125 - OF19828.mRNA1 Nenu1g00702 702
6 39231158 39240613 + OF10991.mRNA1 Nenu6g01153 1153
6 39252389 39253179 + OF10989.mRNA1 Nenu6g01155 1155
6 39307680 39309388 + OF10986.mRNA1 Nenu6g01158 1158
5 24810962 24842660 - NinS14362.t1 Nin5g01549 1549
6 10552712 10562961 + NinS16365.t1 Nin6g00912 912
6 10563254 10569542 - NinS16366.t1 Nin6g00913 913
9 34750701 34761332 - NinS26759.t1 Nin9g02309 2309
9 34763002 34764496 + NinS26760.t1 Nin9g02310 2310
9 34772093 34778803 + NinS26761.t1 Nin9g02311 2311
1 7026883 7028040 + Tesin01G0038600.1 Tesi1g00362 362
1 21627088 21636138 - Tesin01G0099200.1 Tesi1g00945 945
21 12673362 12674090 + Tesin21G0067000.1 Tesi21g00618 618
22 21739991 21740732 + Tesin22G0033700.1 Tesi22g00312 312
22 21768295 21779297 - Tesin22G0033900.1 Tesi22g00314 314
22 21803782 21806923 + Tesin22G0034100.1 Tesi22g00315 315
2 5231388 5241248 + GSVIVT01001312001 Vivi2g00529 529
2 5248528 5250185 - GSVIVT01001315001 Vivi2g00532 532
2 5258569 5261179 - GSVIVT01001317001 Vivi2g00534 534
15 14343591 14350488 + GSVIVT01027683001 Vivi15g00416 416
15 14350696 14353989 - GSVIVT01027682001 Vivi15g00417 417
16 11544451 11558689 - GSVIVT01018659001 Vivi16g00416 416
16 11604752 11606447 + GSVIVT01018654001 Vivi16g00417 417
16 11683724 11687206 + GSVIVT01018648001 Vivi16g00419 419
       
DecoBrowse