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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
Hean1g00281 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00282 Cobi2g02380 Bial10g01400 . Dapi4g01945 . Hetu1g00246 Hetu2g00272 Hetu3g00241 Amtr12g01661 Smso1g03721 . Taer4g02514 Fro14g01370 Fso1g02232 Ftr2g00567 . Fli3g00655 Stre1g04421 Mimi16g02180 . . . . . . . . . . . . . . . . . . . .
Hean1g00283 Cobi2g02382 Bial10g01401 . Dapi4g01946 . Hetu1g00247 Hetu2g00273 Hetu3g00242 Amtr12g01660 Smso1g03722 Smso28g00427 Taer4g02515 Fro14g01371 Fso1g02233 Ftr2g00566 . Fli3g00654 Stre1g04422 Mimi16g02181 . . . . . . . . . . . . . . . . . . . .
Hean1g00284 Cobi2g02383 Bial10g01402 . Dapi4g01947 . Hetu1g00248 . Hetu3g00243 Amtr12g01659 Smso1g03723 Smso28g00426 . . . . . . Stre1g04423 Mimi16g02182 . . . . . . . . . . . . . . . . . . . .
Hean1g00285 Cobi2g02385 Bial10g01403 . Dapi4g01949 . Hetu1g00249 . Hetu3g00244 . . . . . . . . . Stre1g04424 . . . . . . . . . . . . . . . . . . . . .
Hean1g00286 Cobi2g02386 Bial10g01404 . Dapi4g01952 . Hetu1g00250 . Hetu3g00245 Amtr12g01657 Smso1g03724 Smso28g00425 Taer4g02517 . Fso1g02237 Ftr2g00562 . Fli3g00651 Stre1g04426 Mimi16g02183 . . . . . . . . . . . . . . . . . . . .
Hean1g00287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00288 . Bial10g01406 . Dapi4g01957 . Hetu1g00251 . Hetu3g00246 . . . Taer4g02526 Fro14g01374 . Ftr2g00561 Fra18g01531 Fli3g00643 Stre1g04427 . Hean11g02512 Cobi6g01057 Bial12g02709 Bial24g02552 . Dapi31g02027 Hetu32g02135 Hetu31g02124 Hetu33g02073 Amtr07g04564 . Smso20g01608 . . . . . . . .
Hean1g00289 Cobi2g02391 Bial10g01407 . . . Hetu1g00252 . Hetu3g00247 Amtr12g01656 Smso1g03725 Smso28g00424 Taer4g02527 Fro14g01375 Fso1g02240 Ftr2g00560 Fra18g01532 Fli3g00642 Stre1g04428 Mimi16g02184 . . . . . . . . . . . . . . . . . . . .
Hean1g00290 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 96713412 96716383 - AtrifAMIRv0_Chr07g0497111 Amtr07g04564 4564
12 39430630 39431250 + AtrifAMIRv0_Chr12g0733881 Amtr12g01656 1656
12 39445003 39447180 - AtrifAMIRv0_Chr12g0733891 Amtr12g01657 1657
12 39469416 39470324 - AtrifAMIRv0_Chr12g0733911 Amtr12g01659 1659
12 39474262 39475537 - AtrifAMIRv0_Chr12g0733921 Amtr12g01660 1660
12 39480287 39484943 - AtrifAMIRv0_Chr12g0733931 Amtr12g01661 1661
10 14062220 14067438 + g86769.t1 Bial10g01400 1400
10 14068391 14073816 + g86768.t1 Bial10g01401 1401
10 14074965 14075888 - g86767.t1 Bial10g01402 1402
10 14082164 14083957 - g86766.t1 Bial10g01403 1403
10 14084784 14087631 + g86765.t1 Bial10g01404 1404
10 14112897 14114551 + g86763.t1 Bial10g01406 1406
10 14121111 14121737 - g86762.t1 Bial10g01407 1407
12 57293232 57297290 - g35908.t1 Bial12g02709 2709
24 56356385 56360855 - g68218.t1 Bial24g02552 2552
2 72226787 72230856 + h2tg000016l_1.g4866.t1 Cobi2g02380 2380
2 72236350 72238439 + h2tg000016l_1.g4864.t1 Cobi2g02382 2382
2 72239093 72239938 - h2tg000016l_1.g4863.t1 Cobi2g02383 2383
2 72272755 72274311 - h2tg000016l_1.g4861.t1 Cobi2g02385 2385
2 72279392 72280919 + h2tg000016l_1.g4860.t1 Cobi2g02386 2386
2 72363689 72364243 - h2tg000016l_1.g4855.t1 Cobi2g02391 2391
6 8498696 8500675 + h2tg000031l_1.g19370.t1 Cobi6g01057 1057
4 118696294 118701778 + h1tg000121l.g120171.t1 Dapi4g01945 1945
4 118703019 118704572 + h1tg000121l.g120170.t1 Dapi4g01946 1946
4 118705238 118706161 - h1tg000121l.g120169.t1 Dapi4g01947 1947
4 118752012 118753622 - h1tg000121l.g120167.t1 Dapi4g01949 1949
4 118805442 118810297 + h1tg000121l.g120164.t1 Dapi4g01952 1952
4 119188623 119191032 + h1tg000121l.g120159.t1 Dapi4g01957 1957
31 99904283 99906616 - h2tg000063l.g12112.t1 Dapi31g02027 2027
3 16942635 16943252 + FliAMIRv0_Chr03g0079111 Fli3g00642 642
3 16953283 16955728 - FliAMIRv0_Chr03g0079121 Fli3g00643 643
3 17092062 17135716 - FliAMIRv0_Chr03g0079191 Fli3g00651 651
3 17200909 17202365 - FliAMIRv0_Chr03g0079231 Fli3g00654 654
3 17206954 17211671 - FliAMIRv0_Chr03g0079241 Fli3g00655 655
18 60221393 60224186 + FraAMIRv0_Chr18g0357281 Fra18g01531 1531
18 60229729 60230334 - FraAMIRv0_Chr18g0357291 Fra18g01532 1532
14 21685867 21690838 + FroAMIRv0_Chr14g0255241 Fro14g01370 1370
14 21692339 21693810 + FroAMIRv0_Chr14g0255251 Fro14g01371 1371
14 21719836 21722537 + FroAMIRv0_Chr14g0255281 Fro14g01374 1374
14 21728613 21729215 - FroAMIRv0_Chr14g0255291 Fro14g01375 1375
1 63370237 63374932 + FsoAMIRv0_Chr01g0022311 Fso1g02232 2232
1 63376736 63378122 + FsoAMIRv0_Chr01g0022321 Fso1g02233 2233
1 63423347 63424799 + FsoAMIRv0_Chr01g0022361 Fso1g02237 2237
1 63445906 63446520 - FsoAMIRv0_Chr01g0022391 Fso1g02240 2240
2 10158548 10159150 + FtrAMIRv0_Chr02g0034271 Ftr2g00560 560
2 10166009 10168272 - FtrAMIRv0_Chr02g0034281 Ftr2g00561 561
2 10170057 10171562 - FtrAMIRv0_Chr02g0034291 Ftr2g00562 562
2 10251312 10252795 - FtrAMIRv0_Chr02g0034331 Ftr2g00566 566
2 10254121 10258625 - FtrAMIRv0_Chr02g0034341 Ftr2g00567 567
1 7287948 7289786 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003181 Hean1g00281 281
1 7289961 7297206 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003191 Hean1g00282 282
1 7297926 7299461 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003201 Hean1g00283 283
1 7308630 7309834 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003211 Hean1g00284 284
1 7330369 7334066 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003221 Hean1g00285 285
1 7336114 7338216 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003231 Hean1g00286 286
1 7340799 7341491 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003241 Hean1g00287 287
1 7348686 7353318 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003251 Hean1g00288 288
1 7372363 7373212 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003261 Hean1g00289 289
1 7518627 7527505 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003271 Hean1g00290 290
11 111523960 111526415 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0495891 Hean11g02512 2512
1 9559648 9567456 + >Htub.h1tg000402l.g43.t1 Hetu1g00246 246
1 9570614 9571897 + >Htub.h1tg000402l.g42.t1 Hetu1g00247 247
1 9589439 9590362 - >Htub.h1tg000402l.g41.t1 Hetu1g00248 248
1 9601058 9611900 - >Htub.h1tg000402l.g40.t1 Hetu1g00249 249
1 9621698 9623476 + >Htub.h1tg000402l.g39.t1 Hetu1g00250 250
1 9669265 9674450 + >Htub.h1tg000402l.g38.t1 Hetu1g00251 251
1 9692280 9692876 - >Htub.h1tg000402l.g37.t1 Hetu1g00252 252
2 9625531 9632609 + >Htub.h2tg002589l.g192.t1 Hetu2g00272 272
2 9635243 9636824 + >Htub.h2tg002589l.g191.t1 Hetu2g00273 273
3 9769397 9776508 + >Htub.h1tg000727l.g144.t1 Hetu3g00241 241
3 9779142 9780723 + >Htub.h1tg000727l.g145.t1 Hetu3g00242 242
3 9789725 9790651 - >Htub.h1tg000727l.g146.t1 Hetu3g00243 243
3 9803080 9804747 - >Htub.h1tg000727l.g147.t1 Hetu3g00244 244
3 9822202 9823981 + >Htub.h1tg000727l.g148.t1 Hetu3g00245 245
3 9827261 9830893 + >Htub.h1tg000727l.g149.t1 Hetu3g00246 246
3 9872238 9872822 - >Htub.h1tg000727l.g150.t1 Hetu3g00247 247
31 121508091 121510163 - >Htub.h1tg001293l.g202.t1 Hetu31g02124 2124
32 123312167 123313933 - >Htub.h1tg000110l.g49.t1 Hetu32g02135 2135
33 115983056 115984876 - >Htub.h1tg000866l.g489.t1 Hetu33g02073 2073
16 84905100 84910786 + KAD3338250.1 Mimi16g02180 2180
16 84911784 84913236 + KAD3338251.1 Mimi16g02181 2181
16 84948992 84949903 - KAD3338252.1 Mimi16g02182 2182
16 84958962 84967678 + KAD3338253.1 Mimi16g02183 2183
16 84973688 84974302 - KAD3338254.1 Mimi16g02184 2184
1 123740259 123744609 + KAI3829684.1 Smso1g03721 3721
1 123756578 123757225 + KAI3829685.1 Smso1g03722 3722
1 123760279 123761196 - KAI3829686.1 Smso1g03723 3723
1 123788624 123791141 + KAI3829687.1 Smso1g03724 3724
1 123808378 123808992 - KAI3829688.1 Smso1g03725 3725
20 52782424 52785254 + KAI3742604.1 Smso20g01608 1608
28 11348961 11349569 + KAI3682704.1 Smso28g00424 424
28 11377782 11381213 - KAI3682705.1 Smso28g00425 425
28 11402654 11403568 + KAI3682706.1 Smso28g00426 426
28 11404737 11406063 - KAI3682707.1 Smso28g00427 427
1 131019795 131025521 + Streb.1G044210.1 Stre1g04421 4421
1 131031748 131033460 + Streb.1G044220.1 Stre1g04422 4422
1 131035942 131037755 - Streb.1G044230.1 Stre1g04423 4423
1 131057762 131060506 - Streb.1G044240.1 Stre1g04424 4424
1 131110979 131113242 + Streb.1G044260.1 Stre1g04426 4426
1 131114650 131116482 + Streb.1G044270.1 Stre1g04427 4427
1 131130702 131131557 - Streb.1G044280.1 Stre1g04428 4428
4 55772120 55776999 + >KAK1428293.1 Taer4g02514 2514
4 55779007 55780103 + >KAK1428294.1 Taer4g02515 2515
4 55792974 55794226 + >KAK1428296.1 Taer4g02517 2517
4 55932768 55934447 + >KAK1428304.1 Taer4g02526 2526
4 55945253 55945879 - >KAK1428305.1 Taer4g02527 2527
       
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