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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
Hean17g04521 . . . . . Hetu50g03521 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04522 . . . Dapi5g00111 Dapi21g00155 Hetu50g03520 Hetu51g03889 Hetu49g03828 Amtr10g04243 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04523 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04524 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04525 . . . Dapi5g00114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04526 Cobi5g02840 . Bial9g02648 . . Hetu50g03517 Hetu51g03887 Hetu49g03825 Amtr10g04252 Smso4g01360 Smso21g01323 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04527 . . . . . . . . . . . Taer9g03088 Fro13g00137 . Ftr6g00109 . Fli9g00153 Stre11g00220 Mimi2g00112 . . . . . . . . . . . . . . . . . . . .
Hean17g04528 Cobi5g02839 . Bial9g02647 Dapi5g00115 Dapi21g00158 Hetu50g03516 Hetu51g03886 Hetu49g03824 . Smso4g01359 Smso21g01322 Taer9g03087 Fro13g00138 Fso12g00142 Ftr6g00110 Fra13g00689 Fli9g00154 Stre11g00221 Mimi2g00113 . . . . . . . . . . . . . . . . . . . .
Hean17g04529 Cobi5g00142 Bial18g00186 Bial9g02646 Dapi5g00116 Dapi21g00159 Hetu50g03514 Hetu51g03885 Hetu49g03823 Amtr10g04255 Smso4g01358 Smso21g01321 Taer9g03085 Fro13g00139 Fso12g00143 . Fra13g00688 Fli9g00156 . . . . . . . . . . . . . . . . . . . . . .
Hean17g04530 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
10 98738696 98739148 - AtrifAMIRv0_Chr10g0666171 Amtr10g04243 4243
10 98881341 98888719 + AtrifAMIRv0_Chr10g0666261 Amtr10g04252 4252
10 98940085 98942949 - AtrifAMIRv0_Chr10g0666291 Amtr10g04255 4255
9 71303807 71311315 + g77026.t1 Bial9g02646 2646
9 71315441 71315923 - g77027.t1 Bial9g02647 2647
9 71323313 71327328 - g77028.t1 Bial9g02648 2648
18 2798262 2800207 - g121530.t1 Bial18g00186 186
5 2139346 2141530 - h2tg000038l_1.g23744.t1 Cobi5g00142 142
5 79016044 79019482 - h2tg000020l_1.g9941.t1 Cobi5g02839 2839
5 79027987 79032668 - h2tg000020l_1.g9940.t1 Cobi5g02840 2840
5 2559428 2559850 - h1tg000132l.g124168.t1 Dapi5g00111 111
5 2601653 2606790 + h1tg000132l.g124171.t1 Dapi5g00114 114
5 2624604 2626887 + h1tg000132l.g124172.t1 Dapi5g00115 115
5 2629035 2631898 - h1tg000132l.g124173.t1 Dapi5g00116 116
21 3183116 3183538 - h1tg000096l.g113407.t1 Dapi21g00155 155
21 3344540 3346811 + h1tg000096l.g113404.t1 Dapi21g00158 158
21 3349000 3351883 - h1tg000096l.g113403.t1 Dapi21g00159 159
9 3198963 3203468 + FliAMIRv0_Chr09g0209201 Fli9g00153 153
9 3211788 3214715 + FliAMIRv0_Chr09g0209211 Fli9g00154 154
9 3221579 3224354 - FliAMIRv0_Chr09g0209231 Fli9g00156 156
13 34103267 34105923 + FraAMIRv0_Chr13g0259971 Fra13g00688 688
13 34107494 34110432 - FraAMIRv0_Chr13g0259981 Fra13g00689 689
13 1818387 1823008 + FroAMIRv0_Chr13g0223211 Fro13g00137 137
13 1829145 1832160 + FroAMIRv0_Chr13g0223221 Fro13g00138 138
13 1834482 1836265 - FroAMIRv0_Chr13g0223231 Fro13g00139 139
12 2261636 2264645 + FsoAMIRv0_Chr12g0291071 Fso12g00142 142
12 2266710 2267985 - FsoAMIRv0_Chr12g0291081 Fso12g00143 143
6 1368688 1373210 + FtrAMIRv0_Chr06g0162591 Ftr6g00109 109
6 1380555 1383471 + FtrAMIRv0_Chr06g0162601 Ftr6g00110 110
17 193900731 193901174 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831271 Hean17g04521 4521
17 193953754 193954471 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831281 Hean17g04522 4522
17 194045817 194050726 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831291 Hean17g04523 4523
17 194131328 194132869 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831301 Hean17g04524 4524
17 194165925 194166416 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831311 Hean17g04525 4525
17 194167223 194167510 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831321 Hean17g04526 4526
17 194168465 194168960 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831331 Hean17g04527 4527
17 194222555 194227111 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831361 Hean17g04528 4528
17 194228209 194232726 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831371 Hean17g04529 4529
17 194237659 194239326 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831381 Hean17g04530 4530
49 221006735 221009751 + >Htub.h1tg001001l.g554.t1 Hetu49g03823 3823
49 221011222 221013503 - >Htub.h1tg001001l.g555.t1 Hetu49g03824 3824
49 221030406 221038299 - >Htub.h1tg001001l.g556.t1 Hetu49g03825 3825
49 221345535 221345993 - >Htub.h1tg001001l.g559.t1 Hetu49g03828 3828
50 206025652 206028853 + >Htub.h1tg000531l.g312.t1 Hetu50g03514 3514
50 206030255 206032566 - >Htub.h1tg000531l.g314.t1 Hetu50g03516 3516
50 206048486 206052504 - >Htub.h1tg000531l.g315.t1 Hetu50g03517 3517
50 206272134 206272598 - >Htub.h1tg000531l.g318.t1 Hetu50g03520 3520
50 206306226 206306684 - >Htub.h1tg000531l.g319.t1 Hetu50g03521 3521
51 227322227 227325113 + >Htub.h1tg000558l.g115.t1 Hetu51g03885 3885
51 227326289 227328912 - >Htub.h1tg000558l.g116.t1 Hetu51g03886 3886
51 227356083 227361354 - >Htub.h1tg000558l.g117.t1 Hetu51g03887 3887
51 227594511 227594957 - >Htub.h1tg000558l.g119.t1 Hetu51g03889 3889
2 2967362 2973157 + KAD7116528.1 Mimi2g00112 112
2 2982963 2988714 + KAD7116529.1 Mimi2g00113 113
4 18467228 18469865 + KAI3818211.1 Smso4g01358 1358
4 18472462 18474227 - KAI3818212.1 Smso4g01359 1359
4 18488740 18492598 - KAI3818213.1 Smso4g01360 1360
21 13992927 13996580 + KAI3731527.1 Smso21g01321 1321
21 13998706 14000290 - KAI3731528.1 Smso21g01322 1322
21 14004726 14008885 - KAI3731529.1 Smso21g01323 1323
11 7159047 7164411 + Streb.11G002200.1 Stre11g00220 220
11 7208205 7210517 + Streb.11G002210.1 Stre11g00221 221
9 31024395 31026683 + >KAK1413725.1 Taer9g03085 3085
9 31029067 31030347 - >KAK1413727.1 Taer9g03087 3087
9 31034872 31038481 - >KAK1413728.1 Taer9g03088 3088
       
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