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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
Hean1g00181 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00182 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00183 . . . Dapi4g01873 . . Hetu2g00214 Hetu3g00164 . Smso1g03638 . . . . . . . . Mimi16g02132 Hean11g02635 Cobi6g01018 . Bial24g02596 . Dapi31g02079 Hetu32g02232 Hetu31g02212 Hetu33g02172 Amtr07g06303 . Smso29g01493 Taer4g02431 Fro13g01357 Fso12g01909 Ftr6g02312 Fra13g01422 Fli9g01402 Stre1g04367 Mimi16g02132
Hean1g00184 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00185 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00186 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00187 . . . Dapi4g01874 Dapi20g01827 Hetu1g00172 Hetu2g00215 . Amtr12g00480 . . . . . . . . . Mimi16g02133 . . . . . . . . . . . . . . . . . . . .
Hean1g00188 . Bial10g01344 Bial22g00937 Dapi4g01875 Dapi20g01828 Hetu1g00175 Hetu2g00221 Hetu3g00166 Amtr12g00490 Smso1g03640 . . Fro14g01320 . . . Fli3g00729 Stre1g04368 Mimi16g02134 . . . . . . . . . . . . . . . . . . . .
Hean1g00189 Cobi2g02319 Bial10g01345 Bial22g00939 Dapi4g01876 Dapi20g01829 . . . Amtr12g00495 Smso1g03641 Smso28g00466 Taer4g02434 Fro14g01321 Fso1g02159 . Fra18g01645 Fli3g00727 Stre1g04369 Mimi16g02135 . . . . . . . . . . . . . . . . . . . .
Hean1g00190 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
7 134661413 134661715 + AtrifAMIRv0_Chr07g0514501 Amtr07g06303 6303
12 15328108 15347943 - AtrifAMIRv0_Chr12g0722121 Amtr12g00480 480
12 15519522 15522891 - AtrifAMIRv0_Chr12g0722221 Amtr12g00490 490
12 15701528 15704116 - AtrifAMIRv0_Chr12g0722271 Amtr12g00495 495
10 13453070 13456296 - g86825.t1 Bial10g01344 1344
10 13470528 13473459 - g86824.t1 Bial10g01345 1345
22 9013289 9016516 - g147097.t1 Bial22g00937 937
22 9034969 9037873 - g147095.t1 Bial22g00939 939
24 56705355 56705666 - g68262.t1 Bial24g02596 2596
2 70797409 70801786 - h2tg000016l_1.g4927.t1 Cobi2g02319 2319
6 8193784 8194182 + h2tg000031l_1.g19331.t1 Cobi6g01018 1018
4 116711378 116711686 + h1tg000193l.g132863.t1 Dapi4g01873 1873
4 116744938 116747217 - h1tg000193l.g132862.t1 Dapi4g01874 1874
4 116752302 116755442 - h1tg000193l.g132861.t1 Dapi4g01875 1875
4 116824257 116827640 - h1tg000193l.g132860.t1 Dapi4g01876 1876
20 108372373 108374625 - h1tg000169l.g129570.t1 Dapi20g01827 1827
20 108420699 108423884 - h1tg000169l.g129569.t1 Dapi20g01828 1828
20 108456955 108460498 - h1tg000169l.g129568.t1 Dapi20g01829 1829
31 102126326 102126637 - h2tg000063l.g12164.t1 Dapi31g02079 2079
3 19957167 19959689 + FliAMIRv0_Chr03g0079961 Fli3g00727 727
3 20041398 20042405 + FliAMIRv0_Chr03g0079981 Fli3g00729 729
9 71382790 71383098 - FliAMIRv0_Chr09g0221681 Fli9g01402 1402
13 42531144 42531452 + FraAMIRv0_Chr13g0267301 Fra13g01422 1422
18 63489940 63492863 + FraAMIRv0_Chr18g0358421 Fra18g01645 1645
13 23010021 23010329 - FroAMIRv0_Chr13g0235391 Fro13g01357 1357
14 20954070 20956820 - FroAMIRv0_Chr14g0254741 Fro14g01320 1320
14 20989081 20992573 - FroAMIRv0_Chr14g0254751 Fro14g01321 1321
1 61905323 61907722 - FsoAMIRv0_Chr01g0021581 Fso1g02159 2159
12 57544206 57544514 - FsoAMIRv0_Chr12g0308731 Fso12g01909 1909
6 89917261 89917569 - FtrAMIRv0_Chr06g0184601 Ftr6g02312 2312
1 4597493 4597771 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002091 Hean1g00181 181
1 4597801 4598055 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002101 Hean1g00182 182
1 4634160 4634465 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002121 Hean1g00183 183
1 4765811 4766543 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002131 Hean1g00184 184
1 4774976 4777077 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002141 Hean1g00185 185
1 4790623 4790928 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002151 Hean1g00186 186
1 4793580 4793837 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002161 Hean1g00187 187
1 4836016 4841161 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002171 Hean1g00188 188
1 4864306 4869386 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002181 Hean1g00189 189
1 4880345 4880663 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0002191 Hean1g00190 190
11 118435445 118436002 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0497341 Hean11g02635 2635
1 6989716 6990771 - >Htub.h1tg003050l.g437.t1 Hetu1g00172 172
1 7082768 7085322 - >Htub.h1tg003050l.g440.t1 Hetu1g00175 175
2 7315075 7315380 + >Htub.h1tg000710l.g99.t1 Hetu2g00214 214
2 7355922 7356582 - >Htub.h1tg000710l.g100.t1 Hetu2g00215 215
2 7496374 7499867 - >Htub.h1tg000710l.g107.t1 Hetu2g00221 221
3 6591977 6592282 + >Htub.h1tg000727l.g64.t1 Hetu3g00164 164
3 6823181 6826685 - >Htub.h1tg000727l.g66.t1 Hetu3g00166 166
31 127658612 127658914 - >Htub.h1tg000896l.g419.t1 Hetu31g02212 2212
32 129598196 129598498 - >Htub.h1tg001196l.g217.t1 Hetu32g02232 2232
33 121837968 121838270 - >Htub.h1tg000866l.g387.t1 Hetu33g02172 2172
16 83833477 83834558 + KAD3338202.1 Mimi16g02132 2132
16 83841532 83844042 - KAD3338203.1 Mimi16g02133 2133
16 83853843 83857709 - KAD3338204.1 Mimi16g02134 2134
16 83895042 83899079 - KAD3338205.1 Mimi16g02135 2135
1 121932563 121932871 - KAI3829601.1 Smso1g03638 3638
1 122034645 122037565 - KAI3829603.1 Smso1g03640 3640
1 122061341 122064320 - KAI3829604.1 Smso1g03641 3641
28 12559359 12562303 + KAI3682746.1 Smso28g00466 466
29 41125391 41125699 - KAI3676487.1 Smso29g01493 1493
1 130058337 130059002 + Streb.1G043670.1 Stre1g04367 4367
1 130131927 130136103 - Streb.1G043680.1 Stre1g04368 4368
1 130159838 130163881 - Streb.1G043690.1 Stre1g04369 4369
4 54644779 54645087 - >KAK1428212.1 Taer4g02431 2431
4 54685675 54687839 - >KAK1428215.1 Taer4g02434 2434
       
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