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AGRP

Asteraceae Genomic Research Platform

Gene Search

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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
Hean17g04471 . Bial21g02647 . Dapi5g00071 Dapi21g00110 Hetu50g03603 Hetu51g03970 . Amtr10g04156 Smso4g01322 Smso21g01290 Taer9g03131 Fro13g00105 Fso12g00098 Ftr6g00072 Fra13g00726 Fli9g00102 Stre11g00143 . . . . . . . . . . . . . . . . . . . . .
Hean17g04472 . . . Dapi5g00072 Dapi21g00111 . . . Amtr10g04157 Smso4g01323 Smso21g01291 . . . . . . Stre11g00144 . . . . . . . . . . . . . . . . . . . . .
Hean17g04473 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04474 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04475 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04476 Cobi5g00101 Bial18g00134 . . . Hetu50g03600 Hetu51g03964 Hetu49g03895 . . . . . . . . . Stre11g00146 . . . . . . . . . . . . . . . . . . . . .
Hean17g04477 Cobi5g00102 Bial21g02650 . Dapi5g00074 Dapi21g00114 Hetu50g03599 Hetu51g03962 Hetu49g03893 Amtr10g04162 Smso4g01325 Smso21g01293 Taer9g03129 Fro13g00107 Fso12g00100 . Fra13g00724 Fli9g00104 Stre11g00147 . . . . . . . . . . . . . . . . . . . . .
Hean17g04478 . Bial21g02651 . Dapi5g00075 Dapi21g00115 Hetu50g03598 Hetu51g03961 Hetu49g03892 Amtr10g04163 Smso4g01326 . Taer9g03128 Fro13g00108 Fso12g00101 Ftr6g00076 Fra13g00723 Fli9g00105 Stre11g00148 . . . . . . . . . . . . . . . . . . . . .
Hean17g04479 . . . . . . . . . . . . Fro13g00109 Fso12g00102 . . Fli9g00106 . . . . . . . . . . . . . . . . . . . . . .
Hean17g04480 . Bial21g02653 . Dapi5g00077 Dapi21g00117 Hetu50g03596 Hetu51g03959 Hetu49g03889 . Smso4g01328 Smso21g01296 Taer9g03126 Fro13g00110 Fso12g00103 Ftr6g00078 Fra13g00721 Fli9g00107 Stre11g00152 . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
10 96464618 96469965 - AtrifAMIRv0_Chr10g0665301 Amtr10g04156 4156
10 96521446 96523197 - AtrifAMIRv0_Chr10g0665311 Amtr10g04157 4157
10 96614120 96616118 + AtrifAMIRv0_Chr10g0665361 Amtr10g04162 4162
10 96616680 96620375 - AtrifAMIRv0_Chr10g0665371 Amtr10g04163 4163
18 2088085 2092914 + g121582.t1 Bial18g00134 134
21 69867771 69872678 - g62415.t1 Bial21g02647 2647
21 69900668 69901165 + g62418.t1 Bial21g02650 2650
21 69901502 69905845 - g62419.t1 Bial21g02651 2651
21 69911493 69918062 + g62421.t1 Bial21g02653 2653
5 1761416 1763199 + h2tg000038l_1.g23785.t1 Cobi5g00101 101
5 1765925 1768909 + h2tg000038l_1.g23784.t1 Cobi5g00102 102
5 1592299 1596016 - h1tg000132l.g124128.t1 Dapi5g00071 71
5 1601756 1602436 - h1tg000132l.g124129.t1 Dapi5g00072 72
5 1690934 1692583 + h1tg000132l.g124131.t1 Dapi5g00074 74
5 1692946 1696525 - h1tg000132l.g124132.t1 Dapi5g00075 75
5 1704862 1717680 + h1tg000132l.g124134.t1 Dapi5g00077 77
21 2355373 2359161 - h1tg000096l.g113452.t1 Dapi21g00110 110
21 2361403 2364605 - h1tg000096l.g113451.t1 Dapi21g00111 111
21 2408324 2410863 + h1tg000096l.g113448.t1 Dapi21g00114 114
21 2411195 2415174 - h1tg000096l.g113447.t1 Dapi21g00115 115
21 2421576 2428692 + h1tg000096l.g113445.t1 Dapi21g00117 117
9 2289384 2294929 - FliAMIRv0_Chr09g0208691 Fli9g00102 102
9 2335462 2336878 + FliAMIRv0_Chr09g0208711 Fli9g00104 104
9 2337754 2341317 - FliAMIRv0_Chr09g0208721 Fli9g00105 105
9 2342842 2344695 - FliAMIRv0_Chr09g0208731 Fli9g00106 106
9 2364703 2369206 + FliAMIRv0_Chr09g0208741 Fli9g00107 107
13 34512562 34517091 - FraAMIRv0_Chr13g0260291 Fra13g00721 721
13 34523122 34527057 + FraAMIRv0_Chr13g0260311 Fra13g00723 723
13 34527547 34529281 - FraAMIRv0_Chr13g0260321 Fra13g00724 724
13 34551398 34555540 + FraAMIRv0_Chr13g0260341 Fra13g00726 726
13 1384868 1388369 - FroAMIRv0_Chr13g0222891 Fro13g00105 105
13 1404683 1406381 + FroAMIRv0_Chr13g0222911 Fro13g00107 107
13 1406955 1410830 - FroAMIRv0_Chr13g0222921 Fro13g00108 108
13 1412120 1413973 - FroAMIRv0_Chr13g0222931 Fro13g00109 109
13 1416399 1421059 + FroAMIRv0_Chr13g0222941 Fro13g00110 110
12 1616898 1620610 - FsoAMIRv0_Chr12g0290631 Fso12g00098 98
12 1664180 1665905 + FsoAMIRv0_Chr12g0290651 Fso12g00100 100
12 1666960 1670998 - FsoAMIRv0_Chr12g0290661 Fso12g00101 101
12 1673139 1674992 - FsoAMIRv0_Chr12g0290671 Fso12g00102 102
12 1676612 1681161 + FsoAMIRv0_Chr12g0290681 Fso12g00103 103
6 874486 878193 - FtrAMIRv0_Chr06g0162221 Ftr6g00072 72
6 901366 905062 - FtrAMIRv0_Chr06g0162261 Ftr6g00076 76
6 915168 919801 + FtrAMIRv0_Chr06g0162281 Ftr6g00078 78
17 192072603 192077390 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830591 Hean17g04471 4471
17 192089799 192091632 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830631 Hean17g04472 4472
17 192103117 192106464 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830641 Hean17g04473 4473
17 192109001 192116695 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830651 Hean17g04474 4474
17 192114464 192115157 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830661 Hean17g04475 4475
17 192156137 192158574 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830671 Hean17g04476 4476
17 192167842 192171261 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830681 Hean17g04477 4477
17 192171595 192179527 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830691 Hean17g04478 4478
17 192184802 192186661 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830701 Hean17g04479 4479
17 192188302 192196222 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830711 Hean17g04480 4480
49 223913987 223919956 - >Htub.h1tg001001l.g623.t1 Hetu49g03889 3889
49 223928840 223930710 + >Htub.h1tg001001l.g626.t1 Hetu49g03892 3892
49 223931709 223934056 - >Htub.h1tg001001l.g627.t1 Hetu49g03893 3893
49 223952939 223955309 - >Htub.h1tg001001l.g629.t1 Hetu49g03895 3895
50 209134300 209140915 - >Htub.h1tg000531l.g397.t1 Hetu50g03596 3596
50 209200535 209206146 + >Htub.h1tg000531l.g400.t1 Hetu50g03598 3598
50 209207113 209210412 - >Htub.h1tg000531l.g401.t1 Hetu50g03599 3599
50 209227614 209229019 - >Htub.h1tg000531l.g402.t1 Hetu50g03600 3600
50 209443551 209447126 + >Htub.h1tg000531l.g405.t1 Hetu50g03603 3603
51 230258546 230264834 - >Htub.h1tg000558l.g191.t1 Hetu51g03959 3959
51 230271728 230278119 + >Htub.h1tg000558l.g193.t1 Hetu51g03961 3961
51 230279154 230281381 - >Htub.h1tg000558l.g194.t1 Hetu51g03962 3962
51 230289562 230291922 - >Htub.h1tg000558l.g196.t1 Hetu51g03964 3964
51 230633684 230637229 + >Htub.h1tg000558l.g202.t1 Hetu51g03970 3970
4 17771308 17775208 - KAI3818175.1 Smso4g01322 1322
4 17790501 17792279 - KAI3818176.1 Smso4g01323 1323
4 17836123 17837490 + KAI3818178.1 Smso4g01325 1325
4 17837802 17842246 - KAI3818179.1 Smso4g01326 1326
4 17859396 17864128 + KAI3818181.1 Smso4g01328 1328
21 13583562 13587980 - KAI3731496.1 Smso21g01290 1290
21 13594363 13596141 - KAI3731497.1 Smso21g01291 1291
21 13649556 13651095 + KAI3731499.1 Smso21g01293 1293
21 13665391 13670372 + KAI3731502.1 Smso21g01296 1296
11 4236844 4240527 - Streb.11G001430.1 Stre11g00143 143
11 4243127 4244940 - Streb.11G001440.1 Stre11g00144 144
11 4279795 4283012 + Streb.11G001460.1 Stre11g00146 146
11 4338884 4341460 + Streb.11G001470.1 Stre11g00147 147
11 4346645 4350730 - Streb.11G001480.1 Stre11g00148 148
11 4464966 4469046 + Streb.11G001520.1 Stre11g00152 152
9 31332812 31337343 - >KAK1413763.1 Taer9g03126 3126
9 31342021 31345026 + >KAK1413765.1 Taer9g03128 3128
9 31348030 31350149 - >KAK1413766.1 Taer9g03129 3129
9 31365507 31368984 + >KAK1413768.1 Taer9g03131 3131
       
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