Hierarchical alignments with the V. vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Fabaceae genomes. We used P. vulgaris as a reference, and by comparing homologous gene locus maps and Ks values between P. vulgaris and other Fabaceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We created two hierarchical lists of homologous genes using P. vulgaris as a reference.
  The relevant gene ids can be obtained from the Fabaceae blast and match under the Tools module. This link is Fabaceae blast and match.
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Select Download Tree Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi1g1191 . . . . . . . . . . Ahy15g2009 . Aip05g02218 . . . Amo15g1161 . . . . . . . . . . . . Car07g02156 Cca06g00466 . . . . . . . . . . Gma01g00691 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1338 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra11g1456 .
Vvi1g1192 . . . . . . Aed11g0558 . . . Ahy15g2012 . Aip05g02226 . . . . . . . . . . . . . . . . . Cca06g00465 . . . Dod02g1842 . . . . . . Gma01g00693 . . . . . . . Lal22g0651 . . . . . . . . . . . . . . . . . . . . . . Lja2g1337 . . . . . . . . . . . . . . . . . Psa2g2216 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra11g1455 .
Vvi1g1193 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva01g01183 . Car02g00928 . Cca06g00464 . . . . . . . . . Gma02g01155 Gma01g00699 . . Gso2g1048 Gso2g1048 . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1336 . . . . . . . . . . . . . . . . . Psa2g2215 . . . . . . . . . . . . . . . . . Ssu2g1377 . . Sto6g2881 . . . . . . . . . . . . . . . . Vra11g1453 .
Vvi1g1194 . . . . . . . . Aev05g2027 . Ahy15g2013 . Aip05g02227 . . . Amo15g1170 . . . . . . . . . Bva01g01835 . Car02g00937 . Cca06g00463 . . . Dod02g1843 . . . . . Gma02g01158 . . . Gso2g1049 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1335 . . . . . . . . . . . . . . . . . Psa2g2214 . . . . . . . . . . . . . . . . . Ssu2g1376 . . Sto6g2879 . . . . . . . . . . . . . . . . . .
Vvi1g1195 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1196 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1197 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1199 . . . . . . . . Aev05g2026 . Ahy15g2015 . Aip05g02228 . . . Amo15g1171 . . . . . . . . . . . . . . . . . . . . . . . Gma02g01160 . . . Gso2g1052 . . . . . Lal18g0960 . . . . . . . . . . . . . . . . . . . . . Lja2g1332 . Mal6g2677 . . . . . . . Mtr5g1906 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g2191 . . . . . . . . . . . . . . . . .
Vvi1g1200 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g00858 . . . . . . . . . . . . . . . . . . . . Lal6g0739 . . . . . Lan11g0751 . . . . . . . . . . . . . . . . . Lja2g1331 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1191 Chr1 16536015 16537097 +
Ahy Ahy15g2009 Chr15 112423389 112426328 +
Aip Aip05g02218 Chr05 103465460 103465825 +
Amo Amo15g1161 Chr15 92182639 92183715 -
Car Car07g02156 Chr07 29105761 29152407 +
Cca Cca06g00466 Chr06 14184825 14188475 -
Gma Gma01g00691 Chr01 13265107 13266174 +
Lja Lja2g1338 Chr2 12805688 12806752 -
Vra Vra11g1456 Chr11 17774341 17775772 -
Vvi Vvi1g1192 Chr1 16552575 16555651 +
Aed Aed11g0558 Chr11 5197404 5202901 -
Ahy Ahy15g2012 Chr15 113021838 113028235 +
Aip Aip05g02226 Chr05 104019263 104024844 +
Cca Cca06g00465 Chr06 14146264 14151792 -
Dod Dod02g1842 Chr02 24956208 24961595 +
Gma Gma01g00693 Chr01 13317517 13321349 +
Lal Lal22g0651 Chr22 4642029 4646792 +
Lja Lja2g1337 Chr2 12789121 12793787 -
Psa Psa2g2216 Chr2 242828763 242833149 -
Vra Vra11g1455 Chr11 17752574 17756146 -
Vvi Vvi1g1193 Chr1 16556925 16558437 -
Bva Bva01g01183 Chr01 10800785 10802393 -
Car Car02g00928 Chr02 15273341 15276979 -
Cca Cca06g00464 Chr06 14140216 14143092 +
Gma Gma02g01155 Chr02 12785745 12787584 +
Gma Gma01g00699 Chr01 13473308 13474845 -
Gso Gso2g1048 Chr2 12578405 12580356 +
Gso Gso2g1048 Chr2 12578405 12580356 +
Lja Lja2g1336 Chr2 12786991 12788304 +
Psa Psa2g2215 Chr2 242826689 242828784 +
Ssu Ssu2g1377 Chr2 57805070 57806897 -
Sto Sto6g2881 Chr6 35998825 36000851 -
Vra Vra11g1453 Chr11 17735355 17737426 -
Vvi Vvi1g1194 Chr1 16584583 16586022 -
Aev Aev05g2027 Chr05 19276080 19277622 +
Ahy Ahy15g2013 Chr15 113055356 113058541 -
Aip Aip05g02227 Chr05 104054178 104057307 -
Amo Amo15g1170 Chr15 92755171 92758413 -
Bva Bva01g01835 Chr01 18915269 18917375 -
Car Car02g00937 Chr02 15754391 15757339 +
Cca Cca06g00463 Chr06 14111967 14128509 +
Dod Dod02g1843 Chr02 24963384 24964955 -
Gma Gma02g01158 Chr02 12811569 12813420 +
Gso Gso2g1049 Chr2 12603994 12605968 +
Lja Lja2g1335 Chr2 12767443 12769520 +
Psa Psa2g2214 Chr2 242314833 242316630 +
Ssu Ssu2g1376 Chr2 57799738 57801270 -
Sto Sto6g2879 Chr6 35990470 35995372 -
Vvi Vvi1g1195 Chr1 16609653 16612318 +
Vvi Vvi1g1196 Chr1 16612824 16612988 +
Vvi Vvi1g1197 Chr1 16613785 16614111 -
Vvi Vvi1g1198 Chr1 16618744 16619231 -
Vvi Vvi1g1199 Chr1 16623760 16636932 -
Aev Aev05g2026 Chr05 19264383 19273782 +
Ahy Ahy15g2015 Chr15 113132016 113141313 -
Aip Aip05g02228 Chr05 104132728 104141183 -
Amo Amo15g1171 Chr15 92771600 92780916 -
Gma Gma02g01160 Chr02 12852213 12869279 +
Gso Gso2g1052 Chr2 12642036 12661303 +
Lal Lal18g0960 Chr18 12518158 12524819 +
Lja Lja2g1332 Chr2 12748847 12758092 +
Mal Mal6g2677 Chr6 67413880 67429835 +
Mtr Mtr5g1906 Chr5 22548520 22550368 +
Tpr Tpr2g2191 Chr2 26252887 26265903 +
Vvi Vvi1g1200 Chr1 16683286 16684598 -
Bva Bva11g00858 Chr11 11028794 11030810 -
Lal Lal6g0739 Chr6 4923281 4925234 -
Lan Lan11g0751 Chr11 6779674 6782723 -
Lja Lja2g1331 Chr2 12723814 12730446 +