AGRP Logo

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.
  The relevant gene ids can be obtained from the Asteraceae blast and match under the Tools module. This link is Asteraceae blast and match.


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
Hean1g00091 Cobi2g02267 Bial10g01296 Bial22g00890 . . Hetu1g00101 Hetu2g00162 Hetu3g00094 Amtr12g00353 Smso1g03603 . . . . . . . Stre1g04322 Mimi16g02091 . . . . . . . . . . . . . . . . . . . .
Hean1g00092 Cobi2g02268 Bial10g01298 Bial22g00892 . . Hetu1g00102 Hetu2g00163 Hetu3g00095 Amtr12g00354 Smso1g03604 . . Fro14g01271 Fso1g02079 . Fra18g01754 Fli3g00828 Stre1g04323 Mimi16g02092 Hean11g02606 Cobi6g01032 Bial12g02735 Bial24g02581 Dapi4g01863 Dapi31g02064 Hetu32g02208 Hetu31g02188 . Amtr07g06343 . Smso20g01821 Taer4g00792 Fro13g01341 . Ftr6g02292 Fra13g01440 Fli9g01386 Stre1g04323 Mimi16g02092
Hean1g00093 Cobi2g02269 Bial10g01299 Bial22g00893 . . . Hetu2g00164 Hetu3g00096 Amtr12g00355 Smso1g03605 . . . . . . . Stre1g04324 Mimi16g02093 . . . . . . . . . . . . . . . . . . . .
Hean1g00094 Cobi2g02270 . . . . . . Hetu3g00097 Amtr12g00356 Smso1g03606 . . . . . . . . Mimi16g02094 . . . . . . . . . . . . . . . . . . . .
Hean1g00095 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00096 . Bial10g01300 Bial22g00894 . . Hetu1g00103 . . . . . Taer4g02373 Fro14g01272 Fso1g02080 . Fra18g01755 Fli3g00827 Stre1g04325 . Hean11g02607 Cobi6g01031 Bial12g02736 Bial24g02582 Dapi4g01865 Dapi31g02065 Hetu32g02209 Hetu31g02189 . Amtr07g06341 . Smso20g01822 . . . . . . Stre1g04325 Mimi16g02093
Hean1g00097 . Bial10g01303 Bial22g00895 . . . . . . . Smso28g00485 Taer4g02374 Fro14g01273 Fso1g02081 . Fra18g01756 Fli3g00826 Stre1g04326 . . . . . . . . . . . . . . . . . . . . .
Hean1g00098 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00099 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00100 . . . . . Hetu1g00104 Hetu2g00165 Hetu3g00098 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 135266414 135269143 - AtrifAMIRv0_Chr07g0514881 Amtr07g06341 6341
7 135290922 135292722 + AtrifAMIRv0_Chr07g0514901 Amtr07g06343 6343
12 10128194 10130977 + AtrifAMIRv0_Chr12g0720851 Amtr12g00353 353
12 10131581 10133558 - AtrifAMIRv0_Chr12g0720861 Amtr12g00354 354
12 10134020 10134918 + AtrifAMIRv0_Chr12g0720871 Amtr12g00355 355
12 10135925 10142229 - AtrifAMIRv0_Chr12g0720881 Amtr12g00356 356
10 12913533 12916349 - g86873.t1 Bial10g01296 1296
10 12929000 12930598 - g86871.t1 Bial10g01298 1298
10 12931496 12932615 + g86870.t1 Bial10g01299 1299
10 12935619 12936750 + g86869.t1 Bial10g01300 1300
10 12968702 12979882 - g86866.t1 Bial10g01303 1303
12 57502376 57503873 - g35934.t1 Bial12g02735 2735
12 57504280 57505615 + g35935.t1 Bial12g02736 2736
22 8504747 8507752 - g147144.t1 Bial22g00890 890
22 8517917 8521736 - g147142.t1 Bial22g00892 892
22 8522980 8524106 + g147141.t1 Bial22g00893 893
22 8527544 8528681 + g147140.t1 Bial22g00894 894
22 8541317 8548530 - g147139.t1 Bial22g00895 895
24 56628811 56630311 - g68247.t1 Bial24g02581 2581
24 56630721 56633107 + g68248.t1 Bial24g02582 2582
2 69365366 69368083 - h2tg000016l_1.g4979.t1 Cobi2g02267 2267
2 69397128 69398925 - h2tg000016l_1.g4978.t1 Cobi2g02268 2268
2 69399286 69400204 + h2tg000016l_1.g4977.t1 Cobi2g02269 2269
2 69417692 69430787 - h2tg000016l_1.g4976.t1 Cobi2g02270 2270
6 8283249 8284931 - h2tg000031l_1.g19344.t1 Cobi6g01031 1031
6 8285325 8286981 + h2tg000031l_1.g19345.t1 Cobi6g01032 1032
4 116354280 116355894 - h1tg000180l.g132177.t1 Dapi4g01863 1863
4 116375716 116381393 + h1tg000180l.g132179.t1 Dapi4g01865 1865
31 101828909 101831097 - h2tg000063l.g12149.t1 Dapi31g02064 2064
31 101831517 101833123 + h2tg000063l.g12150.t1 Dapi31g02065 2065
3 22582955 22589008 + FliAMIRv0_Chr03g0080951 Fli3g00826 826
3 22591048 22592160 - FliAMIRv0_Chr03g0080961 Fli3g00827 827
3 22593206 22594989 + FliAMIRv0_Chr03g0080971 Fli3g00828 828
9 71169791 71171973 - FliAMIRv0_Chr09g0221521 Fli9g01386 1386
13 42659326 42661679 + FraAMIRv0_Chr13g0267481 Fra13g01440 1440
18 65895589 65897331 - FraAMIRv0_Chr18g0359511 Fra18g01754 1754
18 65898621 65899949 + FraAMIRv0_Chr18g0359521 Fra18g01755 1755
18 65903524 65909640 - FraAMIRv0_Chr18g0359531 Fra18g01756 1756
13 22920901 22923180 - FroAMIRv0_Chr13g0235231 Fro13g01341 1341
14 20289908 20291571 - FroAMIRv0_Chr14g0254251 Fro14g01271 1271
14 20292597 20293922 + FroAMIRv0_Chr14g0254261 Fro14g01272 1272
14 20295206 20301350 - FroAMIRv0_Chr14g0254271 Fro14g01273 1273
1 60420260 60421946 - FsoAMIRv0_Chr01g0020781 Fso1g02079 2079
1 60422931 60424036 + FsoAMIRv0_Chr01g0020791 Fso1g02080 2080
1 60425674 60432489 - FsoAMIRv0_Chr01g0020801 Fso1g02081 2081
6 89734477 89736891 - FtrAMIRv0_Chr06g0184401 Ftr6g02292 2292
1 2067770 2072626 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001031 Hean1g00091 91
1 2074495 2076625 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001041 Hean1g00092 92
1 2076939 2078046 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001051 Hean1g00093 93
1 2078802 2079054 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001061 Hean1g00094 94
1 2080754 2082316 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001071 Hean1g00095 95
1 2082428 2084309 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001081 Hean1g00096 96
1 2083685 2092688 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001091 Hean1g00097 97
1 2096175 2099158 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001111 Hean1g00098 98
1 2125580 2127842 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001121 Hean1g00099 99
1 2128848 2131467 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001131 Hean1g00100 100
11 116664736 116667584 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496971 Hean11g02606 2606
11 116668805 116670155 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0496981 Hean11g02607 2607
1 3880883 3883470 + >Htub.h1tg003317l.g66.t1 Hetu1g00101 101
1 3887329 3889502 - >Htub.h1tg003317l.g67.t1 Hetu1g00102 102
1 3889601 3890455 + >Htub.h1tg003317l.g68.t1 Hetu1g00103 103
1 3999778 4001928 + >Htub.h1tg003317l.g70.t1 Hetu1g00104 104
2 4815359 4817900 + >Htub.h1tg002382l.g202.t1 Hetu2g00162 162
2 4820332 4822585 - >Htub.h1tg002382l.g203.t1 Hetu2g00163 163
2 4822684 4823528 + >Htub.h1tg002382l.g204.t1 Hetu2g00164 164
2 4850422 4851206 + >Htub.h1tg002382l.g206.t1 Hetu2g00165 165
3 3814313 3816904 + >Htub.h1tg004213l.g245.t1 Hetu3g00094 94
3 3817618 3819617 - >Htub.h1tg004213l.g246.t1 Hetu3g00095 95
3 3819724 3820568 + >Htub.h1tg004213l.g247.t1 Hetu3g00096 96
3 3822080 3831836 - >Htub.h1tg004213l.g248.t1 Hetu3g00097 97
3 3862545 3864436 + >Htub.h1tg004213l.g249.t1 Hetu3g00098 98
31 125615660 125618097 - >Htub.h1tg001293l.g270.t1 Hetu31g02188 2188
31 125619641 125620752 + >Htub.h1tg001293l.g271.t1 Hetu31g02189 2189
32 127690422 127693106 - >Htub.h1tg003616l.g13.t1 Hetu32g02208 2208
32 127693635 127694749 + >Htub.h1tg003616l.g12.t1 Hetu32g02209 2209
16 83038753 83041597 + KAD3338161.1 Mimi16g02091 2091
16 83042127 83043864 - KAD3338162.1 Mimi16g02092 2092
16 83044261 83046908 + KAD3338163.1 Mimi16g02093 2093
16 83050704 83057921 - KAD3338164.1 Mimi16g02094 2094
1 121285369 121288280 + KAI3829566.1 Smso1g03603 3603
1 121288840 121290792 - KAI3829567.1 Smso1g03604 3604
1 121290993 121297259 + KAI3829568.1 Smso1g03605 3605
1 121297940 121304055 - KAI3829569.1 Smso1g03606 3606
20 61672862 61674564 - KAI3742817.1 Smso20g01821 1821
20 61674974 61677696 + KAI3742818.1 Smso20g01822 1822
28 13638529 13645283 + KAI3682765.1 Smso28g00485 485
1 129388916 129392573 + Streb.1G043220.1 Stre1g04322 4322
1 129392890 129394810 - Streb.1G043230.1 Stre1g04323 4323
1 129395215 129396295 + Streb.1G043240.1 Stre1g04324 4324
1 129408963 129409986 + Streb.1G043250.1 Stre1g04325 4325
1 129417519 129424098 - Streb.1G043260.1 Stre1g04326 4326
4 6002778 6004438 + >KAK1426723.1 Taer4g00792 792
4 53860778 53861816 + >KAK1428155.1 Taer4g02373 2373
4 53862849 53868838 - >KAK1428156.1 Taer4g02374 2374
       
DecoBrowse