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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
Hean1g00251 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00252 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00253 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00254 Cobi2g02352 Bial10g01375 Bial22g00968 Dapi4g01916 Dapi20g01865 Hetu1g00221 . Hetu3g00212 Amtr12g00585 Smso1g03700 . . Fro14g01351 Fso1g02212 . Fra18g01507 Fli3g00681 Stre1g04402 Mimi16g02162 Hean11g02682 Cobi6g00993 Bial12g02775 Bial24g02617 Dapi4g01916 Dapi31g02108 Hetu32g02296 Hetu31g02268 Hetu33g02221 Amtr07g06214 . Smso20g01738 Taer4g00754 Fro13g01379 Fso12g01930 Ftr6g02344 Fra13g01401 Fli9g01432 Stre1g04402 Mimi16g02162
Hean1g00255 . . Bial22g00969 Dapi4g01917 Dapi20g01866 Hetu1g00222 . Hetu3g00213 Amtr12g00589 Smso1g03701 Smso28g00440 . . . . . . Stre1g04403 Mimi16g02163 . . . . . . . . . . . . . . . . . . . .
Hean1g00256 Cobi2g02353 . Bial22g00970 Dapi4g01918 Dapi20g01867 Hetu1g00223 . Hetu3g00214 . Smso1g03702 Smso28g00439 . . . . . . Stre1g04404 Mimi16g02164 . . . . . . . . . . . . . . . . . . . .
Hean1g00257 Cobi2g02354 Bial10g01377 Bial22g00971 Dapi4g01919 Dapi20g01868 Hetu1g00224 . Hetu3g00215 Amtr12g00590 Smso1g03703 Smso28g00438 Taer4g02489 Fro14g01353 Fso1g02213 Ftr2g00602 Fra18g01509 Fli3g00680 Stre1g04405 Mimi16g02165 . . . . . . . . . . . . . . . . . . . .
Hean1g00258 Cobi2g02355 Bial10g01381 Bial22g00972 Dapi4g01922 Dapi20g01874 Hetu1g00225 Hetu2g00251 Hetu3g00219 Amtr12g00598 Smso1g03705 . Taer4g02490 Fro14g01356 Fso1g02214 Ftr2g00599 Fra18g01510 Fli3g00678 Stre1g04407 Mimi16g02166 Hean11g02689 Cobi6g00990 Bial12g02778 Bial24g02622 Dapi4g01922 Dapi20g01874 Hetu32g02304 Hetu31g02274 Hetu33g02227 Amtr07g06208 . Smso20g01741 Taer4g02490 Fro13g01382 Fso12g01934 Ftr6g02346 Fra13g01398 Fli9g01435 Stre1g04407 Mimi16g02166
Hean1g00259 Cobi2g02356 . . . Dapi20g01875 . . . Amtr12g00599 . . Taer4g02491 Fro14g01357 Fso1g02215 . Fra18g01511 Fli3g00677 . . Hean11g02690 Cobi6g00989 . . . Dapi31g02112 . . . Amtr07g06204 . Smso20g01742 Taer4g02491 Fro13g01383 Fso12g01935 Ftr6g02348 Fra13g01397 Fli9g01436 . Mimi16g00531
Hean1g00260 Cobi2g02358 . . . . . . . . . . . Fro14g01358 . . Fra18g01514 Fli3g00676 . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 131424432 131430366 + AtrifAMIRv0_Chr07g0513511 Amtr07g06204 6204
7 131506933 131510911 - AtrifAMIRv0_Chr07g0513551 Amtr07g06208 6208
7 131683705 131689202 - AtrifAMIRv0_Chr07g0513611 Amtr07g06214 6214
12 17942535 17948422 + AtrifAMIRv0_Chr12g0723171 Amtr12g00585 585
12 18062055 18065071 - AtrifAMIRv0_Chr12g0723211 Amtr12g00589 589
12 18073212 18074843 - AtrifAMIRv0_Chr12g0723221 Amtr12g00590 590
12 18333814 18337240 + AtrifAMIRv0_Chr12g0723301 Amtr12g00598 598
12 18338002 18347857 - AtrifAMIRv0_Chr12g0723311 Amtr12g00599 599
10 13791936 13796281 + g86794.t1 Bial10g01375 1375
10 13810476 13811510 - g86792.t1 Bial10g01377 1377
10 13838816 13844854 + g86788.t1 Bial10g01381 1381
12 57810650 57815668 + g35974.t1 Bial12g02775 2775
12 57830879 57835459 + g35977.t1 Bial12g02778 2778
22 9374184 9378100 + g147066.t1 Bial22g00968 968
22 9385466 9387544 - g147065.t1 Bial22g00969 969
22 9390195 9390782 + g147064.t1 Bial22g00970 970
22 9391309 9392343 - g147063.t1 Bial22g00971 971
22 9424102 9429039 + g147062.t1 Bial22g00972 972
24 56931218 56937454 + g68283.t1 Bial24g02617 2617
24 56992173 56993099 + g68288.t1 Bial24g02622 2622
2 71520441 71523994 + h2tg000016l_1.g4894.t1 Cobi2g02352 2352
2 71538039 71538554 + h2tg000016l_1.g4893.t1 Cobi2g02353 2353
2 71538990 71540018 - h2tg000016l_1.g4892.t1 Cobi2g02354 2354
2 71551121 71554300 + h2tg000016l_1.g4891.t1 Cobi2g02355 2355
2 71555071 71560753 - h2tg000016l_1.g4890.t1 Cobi2g02356 2356
2 71644522 71646756 + h2tg000016l_1.g4888.t1 Cobi2g02358 2358
6 7947619 7951654 + h2tg000031l_1.g19302.t1 Cobi6g00989 989
6 7952975 7957479 - h2tg000031l_1.g19303.t1 Cobi6g00990 990
6 7981289 7985879 - h2tg000031l_1.g19306.t1 Cobi6g00993 993
4 117919813 117924247 + h1tg000193l.g132820.t1 Dapi4g01916 1916
4 117929419 117931655 - h1tg000193l.g132819.t1 Dapi4g01917 1917
4 117932561 117933154 + h1tg000193l.g132818.t1 Dapi4g01918 1918
4 117933688 117934734 - h1tg000193l.g132817.t1 Dapi4g01919 1919
4 118140825 118144865 + h1tg000193l.g132814.t1 Dapi4g01922 1922
20 109779918 109784335 + h1tg000169l.g129532.t1 Dapi20g01865 1865
20 109790515 109791744 - h1tg000169l.g129531.t1 Dapi20g01866 1866
20 109792646 109793236 + h1tg000169l.g129530.t1 Dapi20g01867 1867
20 109793770 109794816 - h1tg000169l.g129529.t1 Dapi20g01868 1868
20 110081639 110085609 + h1tg000169l.g129523.t1 Dapi20g01874 1874
20 110086475 110093578 - h1tg000169l.g129522.t1 Dapi20g01875 1875
31 103672848 103677614 + h2tg000063l.g12193.t1 Dapi31g02108 2108
31 103947481 103955073 - h2tg000063l.g12197.t1 Dapi31g02112 2112
3 17953853 17957250 - FliAMIRv0_Chr03g0079451 Fli3g00676 676
3 18009473 18013911 + FliAMIRv0_Chr03g0079461 Fli3g00677 677
3 18014670 18019235 - FliAMIRv0_Chr03g0079471 Fli3g00678 678
3 18095864 18096922 + FliAMIRv0_Chr03g0079491 Fli3g00680 680
3 18138922 18145100 - FliAMIRv0_Chr03g0079501 Fli3g00681 681
9 72267098 72272427 + FliAMIRv0_Chr09g0221981 Fli9g01432 1432
9 72300088 72304058 + FliAMIRv0_Chr09g0222011 Fli9g01435 1435
9 72306304 72311857 - FliAMIRv0_Chr09g0222021 Fli9g01436 1436
13 42238769 42244188 + FraAMIRv0_Chr13g0267051 Fra13g01397 1397
13 42246438 42250353 - FraAMIRv0_Chr13g0267061 Fra13g01398 1398
13 42275376 42280929 - FraAMIRv0_Chr13g0267091 Fra13g01401 1401
18 59896101 59901579 + FraAMIRv0_Chr18g0357041 Fra18g01507 1507
18 59922051 59923109 - FraAMIRv0_Chr18g0357061 Fra18g01509 1509
18 59935283 59939090 + FraAMIRv0_Chr18g0357071 Fra18g01510 1510
18 59939844 59944197 - FraAMIRv0_Chr18g0357081 Fra18g01511 1511
18 59999729 60002851 + FraAMIRv0_Chr18g0357111 Fra18g01514 1514
13 23222879 23228074 + FroAMIRv0_Chr13g0235611 Fro13g01379 1379
13 23249405 23253674 + FroAMIRv0_Chr13g0235641 Fro13g01382 1382
13 23259721 23265045 - FroAMIRv0_Chr13g0235651 Fro13g01383 1383
14 21427481 21433411 + FroAMIRv0_Chr14g0255051 Fro14g01351 1351
14 21470870 21471919 - FroAMIRv0_Chr14g0255071 Fro14g01353 1353
14 21486122 21490274 + FroAMIRv0_Chr14g0255101 Fro14g01356 1356
14 21491029 21495876 - FroAMIRv0_Chr14g0255111 Fro14g01357 1357
14 21524409 21528664 + FroAMIRv0_Chr14g0255121 Fro14g01358 1358
1 62895059 62901489 + FsoAMIRv0_Chr01g0022111 Fso1g02212 2212
1 62944254 62945309 - FsoAMIRv0_Chr01g0022121 Fso1g02213 2213
1 62969910 62974154 + FsoAMIRv0_Chr01g0022131 Fso1g02214 2214
1 62974747 62979043 - FsoAMIRv0_Chr01g0022141 Fso1g02215 2215
12 57822259 57828145 + FsoAMIRv0_Chr12g0308941 Fso12g01930 1930
12 57862046 57866069 + FsoAMIRv0_Chr12g0308981 Fso12g01934 1934
12 57870106 57875690 - FsoAMIRv0_Chr12g0308991 Fso12g01935 1935
2 10712530 10716462 - FtrAMIRv0_Chr02g0034661 Ftr2g00599 599
2 10738699 10739808 + FtrAMIRv0_Chr02g0034691 Ftr2g00602 602
6 90333795 90334226 + FtrAMIRv0_Chr06g0184921 Ftr6g02344 2344
6 90413526 90417521 + FtrAMIRv0_Chr06g0184941 Ftr6g02346 2346
6 90423424 90425199 - FtrAMIRv0_Chr06g0184961 Ftr6g02348 2348
1 6375094 6375698 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002871 Hean1g00251 251
1 6375869 6376294 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002881 Hean1g00252 252
1 6376316 6376660 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002891 Hean1g00253 253
1 6565906 6572323 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002901 Hean1g00254 254
1 6629318 6630949 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002921 Hean1g00255 255
1 6632019 6632772 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002931 Hean1g00256 256
1 6632766 6635393 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002941 Hean1g00257 257
1 6688653 6694401 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002951 Hean1g00258 258
1 6693028 6706309 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002961 Hean1g00259 259
1 6836324 6843789 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002971 Hean1g00260 260
11 123034289 123040507 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0498011 Hean11g02682 2682
11 123447515 123452407 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0498111 Hean11g02689 2689
11 123471893 123482293 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0498121 Hean11g02690 2690
1 8596205 8602489 + >Htub.h1tg003050l.g490.t1 Hetu1g00221 221
1 8629380 8630771 - >Htub.h1tg003050l.g491.t1 Hetu1g00222 222
1 8641315 8641872 + >Htub.h1tg003050l.g492.t1 Hetu1g00223 223
1 8642385 8643873 - >Htub.h1tg003050l.g493.t1 Hetu1g00224 224
1 8899760 8903851 + >Htub.h1tg003050l.g494.t1 Hetu1g00225 225
2 9020575 9025036 + >Htub.h2tg002589l.g213.t1 Hetu2g00251 251
3 8843562 8850970 + >Htub.h1tg000727l.g115.t1 Hetu3g00212 212
3 8869013 8870395 - >Htub.h1tg000727l.g116.t1 Hetu3g00213 213
3 8871642 8872202 + >Htub.h1tg000727l.g117.t1 Hetu3g00214 214
3 8872706 8874341 - >Htub.h1tg000727l.g118.t1 Hetu3g00215 215
3 9164469 9168930 + >Htub.h1tg000727l.g122.t1 Hetu3g00219 219
31 132314350 132320189 + >Htub.h1tg000896l.g477.t1 Hetu31g02268 2268
31 132527849 132528347 + >Htub.h1tg000896l.g484.t1 Hetu31g02274 2274
32 134362201 134368306 + >Htub.h1tg001196l.g151.t1 Hetu32g02296 2296
32 134665350 134670097 + >Htub.h1tg001196l.g142.t1 Hetu32g02304 2304
33 126231528 126232001 + >Htub.h1tg000866l.g333.t1 Hetu33g02221 2221
33 126560668 126565031 + >Htub.h1tg003523l.g440.t1 Hetu33g02227 2227
16 16978749 16986466 + KAD3336601.1 Mimi16g00531 531
16 84516294 84522899 + KAD3338232.1 Mimi16g02162 2162
16 84531602 84532981 - KAD3338233.1 Mimi16g02163 2163
16 84533833 84534604 + KAD3338234.1 Mimi16g02164 2164
16 84536286 84542961 - KAD3338235.1 Mimi16g02165 2165
16 84577598 84581689 + KAD3338236.1 Mimi16g02166 2166
1 123390968 123395797 + KAI3829663.1 Smso1g03700 3700
1 123397755 123399050 - KAI3829664.1 Smso1g03701 3701
1 123400184 123400723 + KAI3829665.1 Smso1g03702 3702
1 123401602 123402621 - KAI3829666.1 Smso1g03703 3703
1 123457957 123462337 + KAI3829668.1 Smso1g03705 3705
20 58940189 58946657 + KAI3742734.1 Smso20g01738 1738
20 59122834 59127996 + KAI3742737.1 Smso20g01741 1741
20 59161294 59167184 - KAI3742738.1 Smso20g01742 1742
28 11699884 11700915 + KAI3682718.1 Smso28g00438 438
28 11702646 11703182 - KAI3682719.1 Smso28g00439 439
28 11703978 11705318 + KAI3682720.1 Smso28g00440 440
1 130659610 130665692 + Streb.1G044020.1 Stre1g04402 4402
1 130672079 130673730 - Streb.1G044030.1 Stre1g04403 4403
1 130674841 130675524 + Streb.1G044040.1 Stre1g04404 4404
1 130676452 130677492 - Streb.1G044050.1 Stre1g04405 4405
1 130717357 130721859 + Streb.1G044070.1 Stre1g04407 4407
4 5681190 5687134 - >KAK1426686.1 Taer4g00754 754
4 55367535 55368557 - >KAK1428269.1 Taer4g02489 2489
4 55398458 55404343 + >KAK1428270.1 Taer4g02490 2490
4 55405034 55408952 - >KAK1428271.1 Taer4g02491 2491
       
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