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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
Hean1g00141 Cobi2g02296 Bial10g01323 Bial22g00914 . Dapi20g01810 Hetu1g00128 Hetu2g00192 Hetu3g00129 Amtr12g00400 Smso1g03628 Smso28g00474 Taer4g02410 Fro14g01299 Fso1g02122 Ftr2g00698 . Fli3g00763 Stre1g04348 Mimi16g02119 . . . . . . . . . . . . . . . . . . . .
Hean1g00142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00143 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00144 . . . . . Hetu1g00129 . Hetu3g00130 . . . . . . . . . Stre1g04351 . . . . . . . . . . . . . . . . . . . . .
Hean1g00145 . . . . Dapi20g01811 Hetu1g00131 Hetu2g00194 Hetu3g00132 Amtr12g00411 Smso1g03629 . . . . . . . . Mimi16g02121 . . . . . . . . . . . . . . . . . . . .
Hean1g00146 . . . . . Hetu1g00132 . Hetu3g00133 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00147 . . . . Dapi20g01812 Hetu1g00133 . Hetu3g00134 Amtr12g00412 Smso1g03630 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00148 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00149 Cobi2g02298 Bial10g01325 . . . Hetu1g00134 Hetu2g00198 Hetu3g00135 Amtr12g00413 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean1g00150 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
12 13323168 13323512 - AtrifAMIRv0_Chr12g0721321 Amtr12g00400 400
12 13563733 13565295 - AtrifAMIRv0_Chr12g0721431 Amtr12g00411 411
12 13563733 13668748 - AtrifAMIRv0_Chr12g0721441 Amtr12g00412 412
12 13764490 13765787 - AtrifAMIRv0_Chr12g0721451 Amtr12g00413 413
10 13205426 13205773 - g86846.t1 Bial10g01323 1323
10 13216366 13217665 - g86844.t1 Bial10g01325 1325
22 8780943 8781287 - g147120.t1 Bial22g00914 914
2 70274384 70274719 + h2tg000016l_1.g4950.t1 Cobi2g02296 2296
2 70307177 70308487 - h2tg000016l_1.g4948.t1 Cobi2g02298 2298
20 107648065 107648403 - h1tg000169l.g129587.t1 Dapi20g01810 1810
20 107685451 107689150 - h1tg000169l.g129586.t1 Dapi20g01811 1811
20 107754847 107756218 - h1tg000169l.g129585.t1 Dapi20g01812 1812
3 21004256 21004621 + FliAMIRv0_Chr03g0080321 Fli3g00763 763
14 20652009 20652356 - FroAMIRv0_Chr14g0254531 Fro14g01299 1299
1 61032566 61032946 - FsoAMIRv0_Chr01g0021211 Fso1g02122 2122
2 13149222 13149422 + FtrAMIRv0_Chr02g0035651 Ftr2g00698 698
1 2941756 2942371 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001591 Hean1g00141 141
1 2949081 2950682 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001611 Hean1g00142 142
1 3018419 3019006 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001621 Hean1g00143 143
1 3023928 3026130 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001631 Hean1g00144 144
1 3026974 3028709 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001641 Hean1g00145 145
1 3029115 3031106 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001651 Hean1g00146 146
1 3062547 3064639 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001661 Hean1g00147 147
1 3062628 3064143 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001671 Hean1g00148 148
1 3065899 3067614 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001681 Hean1g00149 149
1 3066197 3081906 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr01g0001691 Hean1g00150 150
1 4953135 4953494 - >Htub.h1tg003050l.g389.t1 Hetu1g00128 128
1 5023142 5024985 - >Htub.h1tg003050l.g390.t1 Hetu1g00129 129
1 5071531 5071887 - >Htub.h1tg003050l.g392.t1 Hetu1g00131 131
1 5083283 5084957 - >Htub.h1tg003050l.g393.t1 Hetu1g00132 132
1 5158241 5158597 - >Htub.h1tg003050l.g395.t1 Hetu1g00133 133
1 5160352 5162266 - >Htub.h1tg003050l.g396.t1 Hetu1g00134 134
2 5999043 5999405 - >Htub.h1tg000710l.g72.t1 Hetu2g00192 192
2 6047690 6049897 - >Htub.h1tg000710l.g74.t1 Hetu2g00194 194
2 6079760 6081611 - >Htub.h1tg000710l.g79.t1 Hetu2g00198 198
3 4968417 4968776 - >Htub.h1tg000727l.g27.t1 Hetu3g00129 129
3 5019918 5023127 - >Htub.h1tg000727l.g28.t1 Hetu3g00130 130
3 5039924 5041340 - >Htub.h1tg000727l.g30.t1 Hetu3g00132 132
3 5080436 5081959 - >Htub.h1tg000727l.g32.t1 Hetu3g00133 133
3 5082350 5084242 - >Htub.h1tg000727l.g33.t1 Hetu3g00134 134
3 5099420 5099812 - >Htub.h1tg000727l.g34.t1 Hetu3g00135 135
16 83605159 83605686 - KAD3338189.1 Mimi16g02119 2119
16 83631212 83633665 - KAD3338191.1 Mimi16g02121 2121
1 121705525 121705872 - KAI3829591.1 Smso1g03628 3628
1 121728571 121730630 - KAI3829592.1 Smso1g03629 3629
1 121750425 121751604 - KAI3829593.1 Smso1g03630 3630
28 13098624 13098962 + KAI3682754.1 Smso28g00474 474
1 129772471 129772964 - Streb.1G043480.1 Stre1g04348 4348
1 129810299 129812021 - Streb.1G043510.1 Stre1g04351 4351
4 54305594 54305929 - >KAK1428191.1 Taer4g02410 2410
       
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