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Asteraceae Genomic Research Platform

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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
Vivi19g01194 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01195 Arla1g00069 Armi1g00080 Sain12g00083 Ceso2g03202 Cati3g00104 . Cien5g03524 Cich4g04843 Lssa7g03766 Laca7g03078 Tako4g03012 Tamo4g02108 Pslu1g20749 Lomi1g00443 Lomi2g04201 Enbr6g03206 Ecan3g00230 Soca5g05385 Glco3g01529 Artr3g10802 . . Aann4g00778 Chma7g07445 Chmo13g01098 Chmo14g01024 Chmo15g00964 Chla6g05644 Chna2g00940 Cind3g02062 Pdy4g00830 . . . . . . . . . . . . . . . . . . . . Cobi4g02815 Hean11g01559 Bial4g03038 Bial16g02466 Dapi7g00548 Dapi23g00568 . Hetu31g00945 Hetu33g01070 Amtr02g06577 Smso7g00488 Smso29g00635 Taer1g05912 Fro12g02173 Fso2g00446 Ftr4g03480 Fra11g02350 Fli1g00510
Vivi19g01196 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01197 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01199 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g01200 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
First Page 2365 of 2365 Next Last
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 49947280 49956339 - chr4g0766561 Aann4g00778 778
2 119304089 119307957 - AtrifAMIRv0_Chr02g0161731 Amtr02g06577 6577
1 1301543 1309947 + evm.model.000012F.89 Arla1g00069 69
1 1254848 1263112 + AmiAMIRv0_Chr01g0000801 Armi1g00080 80
3 364119690 364126414 - AtridAMIRv0_Chr03g0415381 Artr3g10802 10802
4 69489458 69491134 - g42877.t1 Bial4g03038 3038
16 64130028 64133802 - g150116.t1 Bial16g02466 2466
3 514512 521278 + CtAH03T0005500.1 Cati3g00104 104
2 80854696 80860815 + >KAJ9562975.1 Ceso2g03202 3202
6 223565134 223573950 - ClaG1_Chr06g0428911 Chla6g05644 5644
7 255546285 255553378 + CmaNakai_Chr07g0697471 Chma7g07445 7445
13 56683142 56688032 + evm.model.scaffold_1239.94 Chmo13g01098 1098
14 51380322 51387416 + evm.model.scaffold_490.23 Chmo14g01024 1024
15 56389415 56398951 + evm.model.scaffold_1049.119 Chmo15g00964 964
2 71981238 71986054 + Cn1274900 Chna2g00940 940
4 137174240 137182528 + KAI3753978.1 Cich4g04843 4843
5 81164282 81167370 + KAI3510044.1 Cien5g03524 3524
3 311813411 311820773 - D.indicum_Contig21_G00106.t1 Cind3g02062 2062
4 75893802 75897432 - h2tg000009l_1.g42464.t1 Cobi4g02815 2815
7 11880966 11885080 + h1tg000030l.g77138.t1 Dapi7g00548 548
23 12632936 12637380 + h2tg000020l.g165131.t1 Dapi23g00568 568
3 2591021 2596114 - XM_043764569.1 Ecan3g00230 230
6 116871927 116878358 - evm.model.ctg633.6 Enbr6g03206 3206
1 10409938 10414063 + FliAMIRv0_Chr01g0005051 Fli1g00510 510
11 77249926 77253985 - FraAMIRv0_Chr11g0223721 Fra11g02350 2350
12 29145181 29149285 - FroAMIRv0_Chr12g0217211 Fro12g02173 2173
2 5950708 5955037 + FsoAMIRv0_Chr02g0032651 Fso2g00446 446
4 117657223 117661276 - FtrAMIRv0_Chr04g0129141 Ftr4g03480 3480
3 99298534 99304818 + GcoAMIRv0_Chr03g0171581 Glco3g01529 1529
11 47496708 47502358 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0484231 Hean11g01559 1559
31 42177601 42182972 + >Htub.h1tg002121l.g177.t1 Hetu31g00945 945
33 44862767 44868351 + >Htub.h1tg001052l.g292.t1 Hetu33g01070 1070
7 145510457 145514281 + CAI9295278.1 Laca7g03078 3078
1 4046745 4048944 + LmiAMIRv0_Chr01g0004431 Lomi1g00443 443
2 47517847 47521109 - LmiAMIRv0_Chr02g0087341 Lomi2g04201 4201
7 198518599 198522030 + >KAJ0198470.1 Lssa7g03766 3766
4 14716612 14727350 + PdyAMIRv0_Chr04g0156371 Pdy4g00830 830
1 149656786 149660172 - PluAMIRv0_Chr01g0206581 Pslu1g20749 20749
12 1057880 1066329 + SinAMIRv0_Chr12g0356481 Sain12g00083 83
7 8174139 8176444 + KAI3810068.1 Smso7g00488 488
29 9014862 9020047 + KAI3675629.1 Smso29g00635 635
5 74131645 74136725 - augustus35993.t02 Soca5g05385 5385
6 19969177 19974120 + Streb.6G006890.1 Stre6g00689 689
1 53354214 53357352 + >KAK1440087.1 Taer1g05912 5912
4 58146736 58151277 + TkA04G228690.2 Tako4g03012 3012
4 34172995 34177845 + TbA04G053070.1 Tamo4g02108 2108
19 23853480 23873991 + GSVIVT01036686001 Vivi19g01194 1194
19 23874564 23889349 + GSVIVT01036685001 Vivi19g01195 1195
19 23921594 23931529 + GSVIVT01036683001 Vivi19g01196 1196
19 23954168 23955962 - GSVIVT01036682001 Vivi19g01197 1197
19 23985952 23997831 + GSVIVT01036681001 Vivi19g01198 1198
19 23998364 23999284 + GSVIVT01036680001 Vivi19g01199 1199
19 24013271 24013696 + GSVIVT01036678001 Vivi19g01200 1200
       
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