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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Vitis vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Vitis vinifera as a reference, and by comparing homologous gene locus maps and Ks values between Vitis vinifera and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 219×23,647 macro-matrices.
Select Vivi_1 Arla_1 Armi_1 Sain_1 Ceso_1 Cati_1 Ccar_1 Cien_1 Cich_1 Lssa_1 Laca_1 Tako_1 Tamo_1 Pslu_1 Lomi_1 Lomi_2 Enbr_1 Ecan_1 Soca_1 Glco_1 Artr_1 Aary_1 Aary_2 Aann_1 Chma_1 Chmo_1 Chmo_2 Chmo_3 Chla_1 Chna_1 Cind_1 Pdy_1 Cobi_1 Hean_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 Cobi_2 Hean_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
Vivi19g00994 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00996 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00997 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00998 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00999 Arla1g00111 Armi1g00126 Sain12g00126 . Cati3g00169 Ccar2g02293 Cien5g03603 Cich4g04902 Lssa7g03832 Laca7g03132 . . . . Lomi2g04168 Enbr6g01671 Ecan3g00163 Soca5g05318 . . . . . . . . . . . . Pdy4g00891 . Hean6g02893 . Bial21g01676 . . . Hetu16g02415 . . . . . Fro2g01332 Fso6g01674 Ftr15g00588 Fra10g00404 Fli14g01558 . . . . . . . . . . . . . . . . . . . .
Vivi19g01000 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01001 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 2419028 2421286 - evm.model.000012F.143 Arla1g00111 111
1 2545016 2548744 - AmiAMIRv0_Chr01g0001261 Armi1g00126 126
21 40344947 40348133 - g82161.t1 Bial21g01676 1676
3 1274301 1281213 - CtAH03T0009400.1 Cati3g00169 169
2 69992436 69997406 + gnl|WGS:LEKV|Ccrd_011344.mRNA.1_mrna Ccar2g02293 2293
4 139055466 139057474 - KAI3754037.1 Cich4g04902 4902
5 82462841 82465022 - KAI3510123.1 Cien5g03603 3603
3 1556449 1560990 + XM_043765406.1 Ecan3g00163 163
6 58926464 58929437 - evm.model.ctg9269.1 Enbr6g01671 1671
14 48187130 48189672 - FliAMIRv0_Chr14g0327031 Fli14g01558 1558
10 12645269 12647737 + FraAMIRv0_Chr10g0185691 Fra10g00404 404
2 16515777 16518199 - FroAMIRv0_Chr02g0027191 Fro2g01332 1332
6 38516672 38519175 - FsoAMIRv0_Chr06g0148391 Fso6g01674 1674
15 19087533 19090040 + FtrAMIRv0_Chr15g0424811 Ftr15g00588 588
6 104061700 104064510 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr06g0271391 Hean6g02893 2893
16 125242583 125244169 - >Htub.h1tg000461l.g422.t1 Hetu16g02415 2415
7 147795509 147798716 - CAI9295335.1 Laca7g03132 3132
2 47238445 47240842 + LmiAMIRv0_Chr02g0087011 Lomi2g04168 4168
7 202963327 202966748 - >KAJ0195740.1 Lssa7g03832 3832
4 16907377 16909511 - PdyAMIRv0_Chr04g0156981 Pdy4g00891 891
12 2075054 2078707 - SinAMIRv0_Chr12g0356911 Sain12g00126 126
5 73070711 73075442 + transfrag23864.t02 Soca5g05318 5318
19 19553944 19559065 + GSVIVT01020430001 Vivi19g00994 994
19 19592331 19597027 + GSVIVT01020427001 Vivi19g00995 995
19 19618651 19619493 + GSVIVT01020426001 Vivi19g00996 996
19 19625057 19625757 + GSVIVT01020425001 Vivi19g00997 997
19 19626826 19643204 + GSVIVT01020424001 Vivi19g00998 998
19 19655290 19660706 + GSVIVT01020422001 Vivi19g00999 999
19 19680046 19684077 - GSVIVT01020421001 Vivi19g01000 1000
19 19731050 19731340 - GSVIVT01020419001 Vivi19g01001 1001
19 19775640 19783293 + GSVIVT01020418001 Vivi19g01002 1002
19 19783335 19783547 - GSVIVT01020417001 Vivi19g01003 1003
       
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