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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
Hean1g00301 Cobi2g02407 Bial10g01414 . Dapi4g01966 . . . Hetu3g00250 . . . . . . . . . Stre1g04431 . . . . . . . . . . . . . . . . . . . . .
Hean1g00302 . . . Dapi4g01967 . Hetu1g00269 . . Amtr12g01645 . . . . . . . . Stre1g04432 Mimi16g02187 . . . . . . . . . . . . . . . . . . . .
Hean1g00303 Cobi2g02411 Bial10g01416 . Dapi4g01968 . . . . Amtr12g01642 Smso1g03729 . Taer4g02540 Fro14g01380 Fso1g02246 . Fra18g01536 Fli3g00634 Stre1g04435 Mimi16g02189 . . . . . . . . . . . . . . . . . . . .
Hean1g00304 Cobi2g02413 Bial10g01417 . Dapi4g01969 . Hetu1g00272 . Hetu3g00254 Amtr12g01641 Smso1g03730 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00305 Cobi2g02415 Bial10g01418 . Dapi4g01970 . Hetu1g00273 . Hetu3g00256 Amtr12g01640 Smso1g03731 Smso28g00419 . . . . . . . Mimi16g02190 . . . . . . . . . . . . . . . . . . . .
Hean1g00306 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00307 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00308 Cobi2g02418 Bial10g01420 . Dapi4g01972 . Hetu1g00275 . . Amtr12g01638 Smso1g03733 Smso28g00415 Taer4g02545 Fro14g01384 Fso1g02250 Ftr2g00552 Fra18g01539 Fli3g00633 Stre1g04449 Mimi16g02192 . . . . . . . . . . . . . . . . . . . .
Hean1g00309 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
12 38826776 38835263 + AtrifAMIRv0_Chr12g0733701 Amtr12g01638 1638
12 38883185 38886784 + AtrifAMIRv0_Chr12g0733721 Amtr12g01640 1640
12 38889462 38891564 + AtrifAMIRv0_Chr12g0733731 Amtr12g01641 1641
12 38903119 38906129 + AtrifAMIRv0_Chr12g0733741 Amtr12g01642 1642
12 39337013 39338457 - AtrifAMIRv0_Chr12g0733771 Amtr12g01645 1645
10 14184057 14185243 - g86755.t1 Bial10g01414 1414
10 14211354 14215020 - g86753.t1 Bial10g01416 1416
10 14231404 14232978 - g86752.t1 Bial10g01417 1417
10 14237345 14240592 - g86751.t1 Bial10g01418 1418
10 14256161 14262693 - g86749.t1 Bial10g01420 1420
2 72700094 72701147 - h2tg000016l_1.g4839.t1 Cobi2g02407 2407
2 72831636 72834041 - h2tg000016l_1.g4835.t1 Cobi2g02411 2411
2 72908127 72910271 - h2tg000016l_1.g4833.t1 Cobi2g02413 2413
2 72932026 72934780 - h2tg000016l_1.g4831.t1 Cobi2g02415 2415
2 73047692 73056555 - h2tg000016l_1.g4828.t1 Cobi2g02418 2418
4 119354494 119359363 - h1tg000121l.g120150.t1 Dapi4g01966 1966
4 119528290 119529302 + h1tg000121l.g120149.t1 Dapi4g01967 1967
4 119546025 119550373 - h1tg000121l.g120148.t1 Dapi4g01968 1968
4 119606787 119610239 - h1tg000121l.g120147.t1 Dapi4g01969 1969
4 119612912 119617453 - h1tg000121l.g120146.t1 Dapi4g01970 1970
4 119657797 119666295 - h1tg000121l.g120144.t1 Dapi4g01972 1972
3 16536536 16544550 + FliAMIRv0_Chr03g0079021 Fli3g00633 633
3 16644184 16647204 + FliAMIRv0_Chr03g0079031 Fli3g00634 634
18 60306997 60309803 - FraAMIRv0_Chr18g0357331 Fra18g01536 1536
18 60376926 60384985 - FraAMIRv0_Chr18g0357361 Fra18g01539 1539
14 21803554 21806357 - FroAMIRv0_Chr14g0255341 Fro14g01380 1380
14 21864158 21876551 - FroAMIRv0_Chr14g0255381 Fro14g01384 1384
1 63577881 63581029 - FsoAMIRv0_Chr01g0022451 Fso1g02246 2246
1 63655800 63667479 - FsoAMIRv0_Chr01g0022491 Fso1g02250 2250
2 9800193 9808290 + FtrAMIRv0_Chr02g0034191 Ftr2g00552 552
1 7885571 7887081 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003381 Hean1g00301 301
1 8008262 8014525 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003391 Hean1g00302 302
1 8077158 8082842 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003401 Hean1g00303 303
1 8102760 8107445 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003421 Hean1g00304 304
1 8113283 8117492 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003431 Hean1g00305 305
1 8133273 8138193 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003441 Hean1g00306 306
1 8140426 8145407 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003451 Hean1g00307 307
1 8230977 8243635 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003471 Hean1g00308 308
1 8278636 8285579 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003481 Hean1g00309 309
1 8294093 8296160 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0003491 Hean1g00310 310
1 10399452 10403478 + >Htub.h1tg000402l.g20.t1 Hetu1g00269 269
1 10486448 10488299 - >Htub.h1tg000402l.g17.t1 Hetu1g00272 272
1 10491504 10496921 - >Htub.h1tg000402l.g16.t1 Hetu1g00273 273
1 10536252 10545667 - >Htub.h1tg000402l.g14.t1 Hetu1g00275 275
3 9970289 9971254 - >Htub.h1tg000727l.g153.t1 Hetu3g00250 250
3 10501637 10503945 - >Htub.h1tg003572l.g290.t1 Hetu3g00254 254
3 10508690 10512946 - >Htub.h1tg003572l.g288.t1 Hetu3g00256 256
16 85036416 85037729 + KAD3338257.1 Mimi16g02187 2187
16 85076983 85081531 - KAD3338259.1 Mimi16g02189 2189
16 85104091 85115926 - KAD3338260.1 Mimi16g02190 2190
16 85136869 85148876 - KAD3338262.1 Mimi16g02192 2192
1 123965652 123968979 - KAI3829692.1 Smso1g03729 3729
1 123995373 123997574 - KAI3829693.1 Smso1g03730 3730
1 124006655 124011778 - KAI3829694.1 Smso1g03731 3731
1 124045842 124059865 - KAI3829696.1 Smso1g03733 3733
28 11084995 11093452 + KAI3682695.1 Smso28g00415 415
28 11146860 11151649 + KAI3682699.1 Smso28g00419 419
1 131200639 131202021 - Streb.1G044310.1 Stre1g04431 4431
1 131213872 131215288 + Streb.1G044320.1 Stre1g04432 4432
1 131361689 131367539 + Streb.1G044350.1 Stre1g04435 4435
1 131611376 131618005 - Streb.1G044490.1 Stre1g04449 4449
4 56079312 56082199 - >17150 Taer4g02540 2540
4 56139430 56149246 - >KAK1428322.1 Taer4g02545 2545
       
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