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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
Hean1g00231 . Bial10g01364 Bial22g00959 Dapi4g01906 Dapi20g01855 Hetu1g00206 Hetu2g00246 Hetu3g00196 Amtr12g00553 Smso1g03664 Smso28g00449 . Fro14g01339 Fso1g02199 Ftr2g00619 Fra18g01492 Fli3g00696 Stre1g04393 Mimi16g02152 . . . . . . . . . . . . . . . . . . . .
Hean1g00232 . Bial10g01366 Bial22g00960 Dapi4g01907 Dapi20g01856 Hetu1g00207 Hetu2g00247 Hetu3g00197 Amtr12g00554 Smso1g03665 . . . . Ftr2g00617 . Fli3g00695 Stre1g04394 Mimi16g02153 Hean11g02672 Cobi6g01000 Bial12g02767 Bial24g02610 Dapi4g01907 Dapi31g02101 Hetu32g02281 Hetu31g02256 Hetu33g02214 Amtr07g06229 . Smso20g01731 . . . . . . Stre1g04394 Mimi16g02153
Hean1g00233 . Bial10g01367 Bial22g00961 Dapi4g01908 Dapi20g01857 Hetu1g00208 Hetu2g00248 Hetu3g00198 Amtr12g00555 Smso1g03666 Smso28g00448 . Fro14g01342 Fso1g02202 Ftr2g00616 Fra18g01495 Fli3g00693 Stre1g04395 Mimi16g02154 . . . . . . . . . . . . . . . . . . . .
Hean1g00234 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00235 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00236 . . . . . Hetu1g00210 . Hetu3g00200 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00237 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00238 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00239 . Bial10g01368 Bial22g00962 Dapi4g01909 Dapi20g01858 Hetu1g00212 . Hetu3g00201 Amtr12g00558 Smso1g03669 Smso28g00447 . Fro14g01343 Fso1g02203 Ftr2g00613 Fra18g01496 Fli3g00692 Stre1g04396 Mimi16g02155 . . . . . . . . . . . . . . . . . . . .
Hean1g00240 . Bial10g01369 Bial22g00963 Dapi4g01910 . Hetu1g00215 . Hetu3g00205 Amtr12g00559 Smso1g03671 Smso28g00446 . Fro14g01344 Fso1g02204 Ftr2g00612 Fra18g01497 Fli3g00690 Stre1g04397 . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 132097549 132101615 - AtrifAMIRv0_Chr07g0513761 Amtr07g06229 6229
12 17329001 17329984 + AtrifAMIRv0_Chr12g0722851 Amtr12g00553 553
12 17345691 17351468 + AtrifAMIRv0_Chr12g0722861 Amtr12g00554 554
12 17365926 17368466 - AtrifAMIRv0_Chr12g0722871 Amtr12g00555 555
12 17456063 17459458 - AtrifAMIRv0_Chr12g0722901 Amtr12g00558 558
12 17461376 17464344 - AtrifAMIRv0_Chr12g0722911 Amtr12g00559 559
10 13669376 13670260 + g86805.t1 Bial10g01364 1364
10 13680557 13681544 + g86803.t1 Bial10g01366 1366
10 13682578 13687102 - g86802.t1 Bial10g01367 1367
10 13691515 13694621 - g86801.t1 Bial10g01368 1368
10 13697102 13699378 - g86800.t1 Bial10g01369 1369
12 57737653 57741648 + g35966.t1 Bial12g02767 2767
22 9246165 9247148 + g147075.t1 Bial22g00959 959
22 9254075 9257829 + g147074.t1 Bial22g00960 960
22 9258809 9260882 - g147073.t1 Bial22g00961 961
22 9263449 9266460 - g147072.t1 Bial22g00962 962
22 9268304 9271789 - g147071.t1 Bial22g00963 963
24 56846457 56850445 + g68276.t1 Bial24g02610 2610
6 8039811 8043908 - h2tg000031l_1.g19313.t1 Cobi6g01000 1000
4 117663140 117664111 + h1tg000193l.g132830.t1 Dapi4g01906 1906
4 117700378 117705399 + h1tg000193l.g132829.t1 Dapi4g01907 1907
4 117707705 117712183 - h1tg000193l.g132828.t1 Dapi4g01908 1908
4 117720780 117726324 - h1tg000193l.g132827.t1 Dapi4g01909 1909
4 117734016 117735770 - h1tg000193l.g132826.t1 Dapi4g01910 1910
20 109496959 109497930 + h1tg000169l.g129542.t1 Dapi20g01855 1855
20 109511827 109516356 + h1tg000169l.g129541.t1 Dapi20g01856 1856
20 109518257 109527516 - h1tg000169l.g129540.t1 Dapi20g01857 1857
20 109537126 109541496 - h1tg000169l.g129539.t1 Dapi20g01858 1858
31 103524203 103528793 + h2tg000063l.g12186.t1 Dapi31g02101 2101
3 18566438 18569091 + FliAMIRv0_Chr03g0079591 Fli3g00690 690
3 18620084 18626949 + FliAMIRv0_Chr03g0079611 Fli3g00692 692
3 18675635 18678921 + FliAMIRv0_Chr03g0079621 Fli3g00693 693
3 18692026 18692944 - FliAMIRv0_Chr03g0079641 Fli3g00695 695
3 18723746 18724723 - FliAMIRv0_Chr03g0079651 Fli3g00696 696
18 59655801 59656775 + FraAMIRv0_Chr18g0356891 Fra18g01492 1492
18 59676411 59679347 - FraAMIRv0_Chr18g0356921 Fra18g01495 1495
18 59699056 59702852 - FraAMIRv0_Chr18g0356931 Fra18g01496 1496
18 59722876 59724669 - FraAMIRv0_Chr18g0356941 Fra18g01497 1497
14 21296092 21297087 + FroAMIRv0_Chr14g0254931 Fro14g01339 1339
14 21327898 21330866 - FroAMIRv0_Chr14g0254961 Fro14g01342 1342
14 21340093 21343603 - FroAMIRv0_Chr14g0254971 Fro14g01343 1343
14 21346125 21347868 - FroAMIRv0_Chr14g0254981 Fro14g01344 1344
1 62710360 62711343 + FsoAMIRv0_Chr01g0021981 Fso1g02199 2199
1 62737773 62741036 - FsoAMIRv0_Chr01g0022011 Fso1g02202 2202
1 62748736 62752712 - FsoAMIRv0_Chr01g0022021 Fso1g02203 2203
1 62764521 62766286 - FsoAMIRv0_Chr01g0022031 Fso1g02204 2204
2 11040203 11042400 + FtrAMIRv0_Chr02g0034791 Ftr2g00612 612
2 11048166 11052228 + FtrAMIRv0_Chr02g0034801 Ftr2g00613 613
2 11107880 11110841 + FtrAMIRv0_Chr02g0034831 Ftr2g00616 616
2 11112450 11117254 - FtrAMIRv0_Chr02g0034841 Ftr2g00617 617
2 11148956 11149930 - FtrAMIRv0_Chr02g0034861 Ftr2g00619 619
1 6212792 6213784 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002651 Hean1g00231 231
1 6218258 6225425 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002661 Hean1g00232 232
1 6225509 6229608 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002671 Hean1g00233 233
1 6232592 6240828 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002681 Hean1g00234 234
1 6271283 6273671 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002691 Hean1g00235 235
1 6273673 6274860 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002711 Hean1g00236 236
1 6278652 6283563 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002721 Hean1g00237 237
1 6280024 6281154 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002731 Hean1g00238 238
1 6285003 6289728 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002741 Hean1g00239 239
1 6291466 6294330 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002751 Hean1g00240 240
11 122324057 122327845 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0497891 Hean11g02672 2672
1 8215841 8216833 + >Htub.h1tg003050l.g473.t1 Hetu1g00206 206
1 8264718 8272000 + >Htub.h1tg003050l.g474.t1 Hetu1g00207 207
1 8273472 8278201 - >Htub.h1tg003050l.g475.t1 Hetu1g00208 208
1 8347087 8352469 + >Htub.h1tg003050l.g478.t1 Hetu1g00210 210
1 8428511 8430441 - >Htub.h1tg003050l.g480.t1 Hetu1g00212 212
1 8471735 8474601 - >Htub.h1tg003050l.g484.t1 Hetu1g00215 215
2 8793193 8794185 + >Htub.h1tg000710l.g132.t1 Hetu2g00246 246
2 8799157 8805375 + >Htub.h1tg000710l.g133.t1 Hetu2g00247 247
2 8806524 8810955 - >Htub.h1tg000710l.g134.t1 Hetu2g00248 248
3 8144644 8145636 + >Htub.h1tg000727l.g97.t1 Hetu3g00196 196
3 8151496 8160166 + >Htub.h1tg000727l.g98.t1 Hetu3g00197 197
3 8161336 8165392 - >Htub.h1tg000727l.g99.t1 Hetu3g00198 198
3 8195234 8195551 + >Htub.h1tg000727l.g102.t1 Hetu3g00200 200
3 8307929 8309940 - >Htub.h1tg000727l.g103.t1 Hetu3g00201 201
3 8467683 8469992 - >Htub.h1tg000727l.g107.t1 Hetu3g00205 205
31 131560433 131563819 + >Htub.h1tg000896l.g465.t1 Hetu31g02256 2256
32 133562326 133565469 + >Htub.h1tg001196l.g166.t1 Hetu32g02281 2281
33 125515708 125518930 + >Htub.h1tg000866l.g340.t1 Hetu33g02214 2214
16 84249487 84250518 + KAD3338222.1 Mimi16g02152 2152
16 84254249 84258615 + KAD3338223.1 Mimi16g02153 2153
16 84260400 84264420 - KAD3338224.1 Mimi16g02154 2154
16 84270658 84273919 - KAD3338225.1 Mimi16g02155 2155
1 122507838 122508800 + KAI3829627.1 Smso1g03664 3664
1 122511968 122518341 + KAI3829628.1 Smso1g03665 3665
1 122520045 122522879 - KAI3829629.1 Smso1g03666 3666
1 122538592 122539211 - KAI3829632.1 Smso1g03669 3669
1 122543424 122545604 - KAI3829634.1 Smso1g03671 3671
20 58524689 58530555 + KAI3742727.1 Smso20g01731 1731
28 11913079 11915213 + KAI3682726.1 Smso28g00446 446
28 11918043 11921587 + KAI3682727.1 Smso28g00447 447
28 11956715 11963985 + KAI3682728.1 Smso28g00448 448
28 11978097 11979059 - KAI3682729.1 Smso28g00449 449
1 130490567 130491648 + Streb.1G043930.1 Stre1g04393 4393
1 130494272 130499298 + Streb.1G043940.1 Stre1g04394 4394
1 130500402 130503094 - Streb.1G043950.1 Stre1g04395 4395
1 130504222 130508434 - Streb.1G043960.1 Stre1g04396 4396
1 130510365 130511707 - Streb.1G043970.1 Stre1g04397 4397
       
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