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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Helianthus annuus genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Helianthus annuus as a reference, and by comparing homologous gene locus maps and Ks values between Helianthus annuus and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 40×70, 843 macro-matrices.


Select Hean_1 Cobi_1 Bial_1 Bial_2 Dapi_1 Dapi_2 Hetu_1 Hetu_2 Hetu_3 Amtr_1 Smso_1 Smso_2 Taer_1 Fro_1 Fso_1 Ftr_1 Fra_1 Fli_1 Stre_1 Mimi_1 Hean_2 Cobi_2 Bial_3 Bial_4 Dapi_3 Dapi_4 Hetu_4 Hetu_5 Hetu_6 Amtr_2 Smso_3 Smso_4 Taer_2 Fro_2 Fso_2 Ftr_2 Fra_2 Fli_2 Stre_2 Mimi_2
Hean1g00431 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00432 . . . . . Hetu1g01899 . Hetu3g01673 . . . . . . . . . . . Hean11g02978 Cobi6g00894 Bial12g02882 Bial24g02720 . . Hetu32g02545 Hetu31g02539 Hetu33g02451 Amtr05g01331 . Smso20g01878 . . . . . . Stre1g01858 Mimi16g00717
Hean1g00433 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00434 Cobi9g01274 Bial10g02035 Bial22g01573 . . Hetu1g01898 . Hetu3g01672 . Smso1g03308 Smso28g00669 . . . . . . Stre1g04043 Mimi16g01776 . . . . . . . . . . . . . . . . . . . .
Hean1g00435 Cobi9g01273 Bial10g02033 Bial22g01570 Dapi4g01521 Dapi20g01417 Hetu1g01897 . Hetu3g01669 . . . . . . . . . Stre1g04046 Mimi16g01780 . . . . . . . . . . . . . . . . . . . .
Hean1g00436 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00437 Cobi9g01272 Bial10g02032 Bial22g01569 . . Hetu1g01896 . Hetu3g01668 . . . . . . . . . . . Hean11g02982 Cobi6g00893 Bial12g02884 Bial24g02722 . . Hetu32g02549 Hetu31g02542 Hetu33g02454 Amtr05g01335 . Smso29g01634 Taer4g00719 Fro13g01402 Fso12g01954 Ftr6g02369 Fra13g01376 Fli9g01459 . Mimi16g00725
Hean1g00438 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00439 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00440 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
5 22457192 22458397 + AtrifAMIRv0_Chr05g0337251 Amtr05g01331 1331
5 22507177 22509443 - AtrifAMIRv0_Chr05g0337291 Amtr05g01335 1335
10 21727937 21732299 + g86137.t1 Bial10g02032 2032
10 21734433 21738385 + g86136.t1 Bial10g02033 2033
10 21748457 21751573 - g86134.t1 Bial10g02035 2035
12 58893012 58894217 + g36081.t1 Bial12g02882 2882
12 58906281 58907674 - g36083.t1 Bial12g02884 2884
22 16817456 16819254 + g112794.t1 Bial22g01569 1569
22 16821760 16825676 + g112793.t1 Bial22g01570 1570
22 16836182 16839557 - g112790.t1 Bial22g01573 1573
24 57888463 57889668 + g68386.t1 Bial24g02720 2720
24 57902094 57903487 - g68388.t1 Bial24g02722 2722
6 7258326 7259574 + h2tg000031l_1.g19206.t1 Cobi6g00893 893
6 7260954 7266068 - h2tg000031l_1.g19207.t1 Cobi6g00894 894
9 48715499 48716651 - h2tg000008l_1.g40713.t1 Cobi9g01272 1272
9 48753080 48757525 + h2tg000008l_1.g40714.t1 Cobi9g01273 1273
9 48757931 48761277 - h2tg000008l_1.g40715.t1 Cobi9g01274 1274
4 88918786 88926497 - h2tg000259l.g76589.t1 Dapi4g01521 1521
20 79730560 79738271 - h1tg000190l.g132793.t1 Dapi20g01417 1417
9 72730165 72732412 + FliAMIRv0_Chr09g0222251 Fli9g01459 1459
13 41990736 41993237 - FraAMIRv0_Chr13g0266841 Fra13g01376 1376
13 23457925 23460170 + FroAMIRv0_Chr13g0235841 Fro13g01402 1402
12 58110701 58112897 + FsoAMIRv0_Chr12g0309181 Fso12g01954 1954
6 90684353 90686580 + FtrAMIRv0_Chr06g0185171 Ftr6g02369 2369
1 12422691 12424182 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004801 Hean1g00431 431
1 12608969 12610875 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004811 Hean1g00432 432
1 12612151 12615589 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004821 Hean1g00433 433
1 12647862 12651272 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004831 Hean1g00434 434
1 12742383 12746746 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004851 Hean1g00435 435
1 12752927 12754572 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004861 Hean1g00436 436
1 12764866 12768192 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004871 Hean1g00437 437
1 12770589 12774573 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004881 Hean1g00438 438
1 12905258 12906362 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004891 Hean1g00439 439
1 12907302 12908249 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0004901 Hean1g00440 440
11 140301166 140305305 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0501781 Hean11g02978 2978
11 140441598 140445951 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0501821 Hean11g02982 2982
1 114129387 114132595 + >Htub.h1tg001853l.g208.t1 Hetu1g01896 1896
1 114182178 114186835 + >Htub.h1tg001853l.g209.t1 Hetu1g01897 1897
1 114344378 114347376 - >Htub.h1tg001853l.g210.t1 Hetu1g01898 1898
1 114614791 114615999 - >Htub.h1tg001853l.g211.t1 Hetu1g01899 1899
3 101847916 101851047 + >Htub.h1tg002641l.g81.t1 Hetu3g01668 1668
3 101870314 101874640 + >Htub.h1tg002641l.g82.t1 Hetu3g01669 1669
3 101929873 101932849 - >Htub.h1tg002641l.g85.t1 Hetu3g01672 1672
3 102223010 102224218 - >Htub.h1tg002641l.g86.t1 Hetu3g01673 1673
31 147158742 147159932 + >Htub.h1tg000896l.g755.t1 Hetu31g02539 2539
31 147192173 147193383 - >Htub.h1tg000896l.g758.t1 Hetu31g02542 2542
32 148959730 148960935 + >Htub.h1tg001892l.g204.t1 Hetu32g02545 2545
32 149001080 149001956 - >Htub.h1tg001892l.g200.t1 Hetu32g02549 2549
33 139903390 139904595 + >Htub.h1tg002022l.g383.t1 Hetu33g02451 2451
33 139947027 139947901 - >Htub.h1tg002022l.g386.t1 Hetu33g02454 2454
16 35603806 35605014 + KAD3336787.1 Mimi16g00717 717
16 36714973 36717860 + KAD3336795.1 Mimi16g00725 725
16 77205301 77210520 + KAD3337846.1 Mimi16g01776 1776
16 77234796 77242475 - KAD3337850.1 Mimi16g01780 1780
1 114312813 114317152 + KAI3829271.1 Smso1g03308 3308
20 62722545 62723753 - KAI3742874.1 Smso20g01878 1878
28 31110001 31113258 - KAI3682949.1 Smso28g00669 669
29 43495802 43498283 + KAI3676628.1 Smso29g01634 1634
1 47677829 47679759 + Streb.1G018580.1 Stre1g01858 1858
1 125357794 125359972 + Streb.1G040430.1 Stre1g04043 4043
1 125378025 125382441 - Streb.1G040460.1 Stre1g04046 4046
4 5446105 5448681 - >KAK1426652.1 Taer4g00719 719
       
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