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
Vvi2g0442 Acco11g1662 . Accr9g00773 . . . . . Aev05g0959 . Ahy15g1020 . Aip05g01049 . Alju09g1661 . . . Apr7g0606 Apr2g1170 Arst3g03755 . Bach4g00167 . Bisa11g0994 . Bva08g00194 Bva11g02094 Car08g00232 Car06g00551 Cca06g01782 . Dere09g0271 . Dod02g1076 . . . Glsi05g2054 . . Gma11g00233 Gma05g02004 . . . . . . . . . . Lal23g1518 . . . . . . Lapu3g03558 . Lasa7g04687 . . . . . . . . . Lja2g0005 . Mal6g0189 . Mepo2g04581 . . . Mibi12g1424 . Mtr5g0312 Mtr8g3424 Phac2g00473 . Phco4g03254 . Prci10g0989 . Psa2g4149 . . . Pte14g01254 . . . . . Pvu2g2951 . Rops2g00592 . . . . . Ssu2g2841 . . . Tpr2g3860 Tpr3g0676 Trre7g05392 . Tsu05g00290 . . . Vifa6g03473 . Vimu11g04364 . . . . . Vra11g0298 .
Vvi2g0443 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0444 . . . . . . . . Aev05g0958 . Ahy15g1019 . Aip05g01048 . . . . . . Apr2g1169 . . Bach4g00168 . . . Bva08g00195 Bva11g02093 . . Cca06g01781 . . . Dod02g1073 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g04684 . . . . . . . . . . . . Mal7g4891 Mepo2g04579 . . . . . . Mtr8g3423 Phac2g00474 . . . . . Psa2g4147 . . . . . . . . . Pvu2g2950 . Rops2g00596 . . . Spst3g01133 . Ssu2g2838 . Sto6g3273 . . Tpr3g0677 . . . Tsu02g00499 Vian1g03798 . Vifa6g03460 . . . Viun3g00619 . . . Vra11g0299 .
Vvi2g0445 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00196 . Car08g00233 Car06g00552 . . . . . . . . . . . . . . . . . . . . . . . Lal23g1516 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr5g0313 Mtr8g3422 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g3859 Tpr3g0678 . . Tsu05g00294 Tsu02g00500 . . . . . . . . . . . .
Vvi2g0446 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00197 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0447 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0448 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0449 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0450 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0451 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0442 Chr2 3754955 3755632 +
Acco Acco11g1662 Chr11 31022048 31022725 -
Accr Accr9g00773 Chr9 9130522 9131199 +
Aev Aev05g0959 Chr05 6764712 6765440 +
Ahy Ahy15g1020 Chr15 15624145 15625179 +
Aip Aip05g01049 Chr05 15082310 15083448 +
Alju Alju09g1661 Chr09 40434781 40435458 -
Apr Apr7g0606 Chr7 12649256 12652694 -
Apr Apr2g1170 Chr2 17966236 17966901 -
Arst Arst3g03755 Chr3 105749911 105750802 -
Bach Bach4g00167 Chr4 1116640 1117302 -
Bisa Bisa11g0994 Chr11 26667306 26667983 -
Bva Bva08g00194 Chr08 957112 957846 -
Bva Bva11g02094 Chr11 17416249 17417234 +
Car Car08g00232 Chr08 1850605 1851740 -
Car Car06g00551 Chr06 5569305 5570208 +
Cca Cca06g01782 Chr06 33136575 33137114 +
Dere Dere09g0271 Chr09 5472386 5477747 -
Dod Dod02g1076 Chr02 13432805 13433143 +
Glsi Glsi05g2054 Chr05 67347436 67348116 +
Gma Gma11g00233 Chr11 1825911 1827349 -
Gma Gma05g02004 Chr05 41409601 41410466 +
Lal Lal23g1518 Chr23 15355476 15356204 +
Lapu Lapu3g03558 Chr3 59026556 59027452 +
Lasa Lasa7g04687 Chr7 679812819 679813352 +
Lja Lja2g0005 Chr2 59651 60382 -
Mal Mal6g0189 Chr6 2669649 2670359 +
Mepo Mepo2g04581 Chr2 54239753 54240714 -
Mibi Mibi12g1424 Chr12 29836676 29837350 -
Mtr Mtr5g0312 Chr5 2902373 2903308 -
Mtr Mtr8g3424 Chr8 44813073 44813826 -
Phac Phac2g00473 Chr2 2402699 2403767 -
Phco Phco4g03254 Chr4 53192891 53193559 +
Prci Prci10g0989 Chr10 6762347 6763222 +
Psa Psa2g4149 Chr2 421307001 421308765 +
Pte Pte14g01254 Chr14 33776606 33777931 +
Pvu Pvu2g2951 Chr2 45052530 45053480 +
Rops Rops2g00592 Chr2 8483931 8484446 +
Ssu Ssu2g2841 Chr2 89459507 89460244 +
Tpr Tpr2g3860 Chr2 41395494 41396628 +
Tpr Tpr3g0676 Chr3 6541274 6542117 +
Trre Trre7g05392 Chr7 59974073 59974602 -
Tsu Tsu05g00290 Chr05 2155942 2156997 -
Vifa Vifa6g03473 Chr6 1144997020 1144997550 -
Vimu Vimu11g04364 Chr11 64959115 64962903 +
Vra Vra11g0298 Chr11 2118780 2119735 -
Vvi Vvi2g0443 Chr2 3773533 3774930 -
Vvi Vvi2g0444 Chr2 3775419 3776096 +
Aev Aev05g0958 Chr05 6760431 6761111 +
Ahy Ahy15g1019 Chr15 15615671 15616615 +
Aip Aip05g01048 Chr05 15076760 15077667 +
Apr Apr2g1169 Chr2 17937576 17938265 +
Bach Bach4g00168 Chr4 1120564 1121226 -
Bva Bva08g00195 Chr08 958638 959434 -
Bva Bva11g02093 Chr11 17412742 17413768 +
Cca Cca06g01781 Chr06 33124140 33125185 +
Dod Dod02g1073 Chr02 13392911 13394164 +
Lasa Lasa7g04684 Chr7 679694453 679694986 -
Mal Mal7g4891 Chr7 117541499 117542171 -
Mepo Mepo2g04579 Chr2 54227554 54228515 -
Mtr Mtr8g3423 Chr8 44806776 44807587 -
Phac Phac2g00474 Chr2 2406989 2407708 -
Psa Psa2g4147 Chr2 421278171 421279715 +
Pvu Pvu2g2950 Chr2 45042905 45043859 +
Rops Rops2g00596 Chr2 8530228 8530761 +
Spst Spst3g01133 Chr3 14662128 14662799 -
Ssu Ssu2g2838 Chr2 89438553 89439290 +
Sto Sto6g3273 Chr6 39033545 39034234 -
Tpr Tpr3g0677 Chr3 6544017 6549190 +
Tsu Tsu02g00499 Chr02 4168019 4170692 +
Vian Vian1g03798 Chr1 61038113 61038790 +
Vifa Vifa6g03460 Chr6 1141538337 1141538870 +
Viun Viun3g00619 Chr3 3801111 3801870 -
Vra Vra11g0299 Chr11 2120912 2121876 -
Vvi Vvi2g0445 Chr2 3790321 3790998 +
Bva Bva08g00196 Chr08 962165 963066 -
Car Car08g00233 Chr08 1855948 1856940 -
Car Car06g00552 Chr06 5572056 5574924 +
Lal Lal23g1516 Chr23 15344564 15345292 +
Mtr Mtr5g0313 Chr5 2907201 2908279 -
Mtr Mtr8g3422 Chr8 44802501 44803473 -
Tpr Tpr2g3859 Chr2 41388967 41390193 +
Tpr Tpr3g0678 Chr3 6548306 6549190 +
Tsu Tsu05g00294 Chr05 2168976 2170122 -
Tsu Tsu02g00500 Chr02 4185514 4186445 +
Vvi Vvi2g0446 Chr2 3796865 3797542 +
Bva Bva08g00197 Chr08 964879 965541 -
Vvi Vvi2g0447 Chr2 3799837 3800550 +
Bva Bva08g00198 Chr08 967457 968369 -
Vvi Vvi2g0448 Chr2 3804712 3805386 +
Vvi Vvi2g0449 Chr2 3808937 3809614 +
Vvi Vvi2g0450 Chr2 3811953 3812630 +
Vvi Vvi2g0451 Chr2 3817057 3817341 +