AGRP Logo

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
Hean1g00341 . . . . . . . . . . . Taer4g02566 . . Ftr2g00519 . Fli3g00611 . . . . . . . . . . . . . . . . . . . . . .
Hean1g00342 . . . Dapi4g01992 . . . Hetu3g00292 Amtr12g00879 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00343 . . . . . . . . . . . Taer4g02574 Fro14g01398 . Ftr2g00510 . Fli3g00603 . . . . . . . . . . . . . . . . . . . . . .
Hean1g00344 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00345 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00346 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00347 Cobi2g02445 Bial10g01440 . Dapi4g01998 . Hetu1g00320 Hetu2g00306 Hetu3g00301 Amtr12g00903 Smso1g03751 Smso28g00396 . . . . . . Stre1g04474 Mimi16g02219 . . . . . . . . . . . . . . . . . . . .
Hean1g00348 Cobi2g02446 Bial10g01441 . Dapi4g01999 . Hetu1g00337 . Hetu3g00302 Amtr12g00907 Smso1g03752 . . . . . . . Stre1g04475 Mimi16g02220 Hean11g02478 . Bial12g02658 Bial24g02500 . Dapi31g02007 Hetu32g02098 Hetu31g02088 . Amtr07g04504 . Smso20g01636 . . . . . . . .
Hean1g00349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00350 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 94506392 94509784 - AtrifAMIRv0_Chr07g0496511 Amtr07g04504 4504
12 24273110 24273518 + AtrifAMIRv0_Chr12g0726111 Amtr12g00879 879
12 24774552 24777893 - AtrifAMIRv0_Chr12g0726351 Amtr12g00903 903
12 24848979 24853271 + AtrifAMIRv0_Chr12g0726391 Amtr12g00907 907
10 14581753 14583954 - g86729.t1 Bial10g01440 1440
10 14604199 14606998 + g86728.t1 Bial10g01441 1441
12 56833051 56833797 + g35857.t1 Bial12g02658 2658
24 55852749 55855319 + g68166.t1 Bial24g02500 2500
2 73510532 73512572 - h2tg000016l_1.g4801.t1 Cobi2g02445 2445
2 73571294 73573724 + h2tg000016l_1.g4800.t1 Cobi2g02446 2446
4 120626099 120627272 - h1tg000121l.g120124.t1 Dapi4g01992 1992
4 121093743 121097306 - h1tg000121l.g120118.t1 Dapi4g01998 1998
4 121182423 121185299 + h1tg000121l.g120117.t1 Dapi4g01999 1999
31 98929734 98932378 - h2tg000063l.g12092.t1 Dapi31g02007 2007
3 15194023 15200471 + FliAMIRv0_Chr03g0078721 Fli3g00603 603
3 15683571 15684392 + FliAMIRv0_Chr03g0078801 Fli3g00611 611
14 22182824 22270271 - FroAMIRv0_Chr14g0255511 Fro14g01398 1398
2 8475976 8476665 + FtrAMIRv0_Chr02g0033771 Ftr2g00510 510
2 9030899 9043556 + FtrAMIRv0_Chr02g0033861 Ftr2g00519 519
1 9658639 9672765 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003821 Hean1g00341 341
1 9722520 9723003 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003831 Hean1g00342 342
1 9741411 9776580 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003841 Hean1g00343 343
1 9745848 9747436 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003851 Hean1g00344 344
1 9750003 9754343 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003861 Hean1g00345 345
1 9758338 9762063 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003871 Hean1g00346 346
1 9780704 9785349 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003881 Hean1g00347 347
1 9875783 9879438 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003891 Hean1g00348 348
1 9907580 9910047 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003901 Hean1g00349 349
1 9965683 9967483 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003921 Hean1g00350 350
11 108120468 108124928 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495501 Hean11g02478 2478
1 13912506 13916812 - >Htub.h1tg000484l.g192.t1 Hetu1g00320 320
1 15092147 15095153 + >Htub.h1tg000484l.g175.t1 Hetu1g00337 337
2 11706957 11711968 - >Htub.h2tg001440l.g160.t1 Hetu2g00306 306
3 12305652 12306043 - >Htub.h1tg001937l.g73.t1 Hetu3g00292 292
3 12412659 12416918 - >Htub.h1tg001937l.g64.t1 Hetu3g00301 301
3 12577288 12580355 + >Htub.h1tg001937l.g63.t1 Hetu3g00302 302
31 118861349 118865527 - >Htub.h1tg001293l.g163.t1 Hetu31g02088 2088
32 119926297 119930512 - >Htub.h1tg000110l.g88.t1 Hetu32g02098 2098
16 85783672 85786251 - KAD3338289.1 Mimi16g02219 2219
16 85874329 85877231 + KAD3338290.1 Mimi16g02220 2220
1 124620496 124624910 - KAI3829714.1 Smso1g03751 3751
1 124701761 124704726 + KAI3829715.1 Smso1g03752 3752
20 54218256 54221028 + KAI3742632.1 Smso20g01636 1636
28 10328473 10335015 + KAI3682676.1 Smso28g00396 396
1 132314092 132316362 - Streb.1G044740.1 Stre1g04474 4474
1 132353343 132356647 + Streb.1G044750.1 Stre1g04475 4475
4 56567254 56574939 + >KAK1428343.1 Taer4g02566 2566
4 56668149 56668928 + >KAK1428351.1 Taer4g02574 2574
       
DecoBrowse