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
Vvi2g0732 . Acco12g1771 . Accr10g00300 . Adu01g01225 . . . . . . . . . Alju12g0370 . . . Apr3g0008 . Arst1g01639 . Bach10g00335 . Bisa01g2177 . . . . . . . Dere13g0335 . . . Enph14g0342 . Glsi09g0290 . . Gma05g01136 Gma17g01413 . . . . . . Lal23g0779 . . . . . . . . . . Lapu3g01416 . . . . . . Lele53g0257 Lele54g0261 Lele55g1229 Lele56g1176 . Lja4g2671 . . . Mepo1g01735 . . . Mibi10g0334 . . . . . Phco8g00887 . Prci5g0388 . Psa4g1851 . Pste7g00762 . . Pte14g01046 . . Pumo4g01798 . Pvu3g2366 . Rops2g04380 . Seca12g02168 . Spst3g04177 . . . . . . . Trre15g03566 . . . Vian1g01519 . Vifa4g02783 . Vimu11g00280 . Viun3g04022 . Vivi1g02645 . .
Vvi2g0733 . . . . . . . . . . . . . . . . . . . Apr3g0007 . . . . . . . . . . . . . . . . . . . . . . Gma05g01138 Gma17g01412 . . . . . . Lal23g0778 . . . . . . . . . . . . . . . . . . . . . . Lja4g2670 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0734 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0735 Acco11g1937 . Accr9g00512 . Adu05g00516 . . . Aev05g0783 . Ahy15g0487 . Aip05g00492 . Alju09g1937 . . . Apr7g0780 . . . Bach4g00381 . Bisa11g1290 . Bva08g00441 . . . . . Dere09g0531 . Dod02g0870 . Enph13g1172 . Glsi05g1773 . . . Gma05g01139 Gma17g01410 . . . . . . Lal23g0777 . . . . . . . . . Lapu2g00447 . Lasa2g02985 . Lele49g0417 Lele50g0446 Lele51g0428 Lele52g0444 . . . . . Lja4g2669 . . Mepo5g00580 . . . Mibi12g1668 . . . Phac2g00786 . Phco4g01252 . Prci10g0663 . . Psa4g1853 Pste1g01569 . . Pte12g00252 . . Pumo8g02091 . Pvu2g0064 . Rops1g01942 . Seca12g02165 . Spst2g00527 . . . . . . . . . . . Vian10g00461 . Vifa1g07554 . Vimu7g02679 . Viun2g02261 . Vivi2g03579 . . .
Vvi2g0736 . . . . . . . Aed6g0654 . . . . . . . . . . . . . . . . . . . . Car08g00376 . . Cca11g01491 . . . . . . . . . . Gma05g01142 Gma17g01409 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0190 Lja4g2668 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1727 Sto6g3523 Sto11g1829 . . . . . . . . . . . . . . . . . Vra7g1288
Vvi2g0737 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g1467 . . . . . . . Mtr5g0511 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g5606 . . . Tsu05g00473 . . . . . . . . . . . . .
Vvi2g0738 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma11g00387 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0739 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0740 . . . . . . . . . . . . . . . . . . . Apr10g1688 . . . . . . . . . Car07g01329 . . . . . . . . . . . . Gma05g01144 Gma17g01405 . . . . . . . . Lal16g0852 . . . . . . . . . . . . . . . . . . . . Lja4g2667 . Mal5g3766 . . . . . . . Mtr4g3498 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g3891 . . . Tsu04g02256 . . . . . . . . . . . .
Vvi2g0741 . . . . . . . . . . . . . . . . . . . Apr10g1689 . . . . . . . Bva11g01879 . Car07g01330 . . . . . . . . . . . . Gma05g01145 Gma17g01404 . . . . . . Lal23g0776 . Lal16g0851 . . . . . . . . . . . . . . . . . . . . Lja4g2666 . Mal5g3765 . . . . . . . Mtr4g3497 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g3892 . . . Tsu04g02255 . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0732 Chr2 6975345 6977444 -
Acco Acco12g1771 Chr12 28846198 28848573 +
Accr Accr10g00300 Chr10 5045628 5048306 -
Adu Adu01g01225 Chr01 27336462 27338884 -
Alju Alju12g0370 Chr12 4488602 4490721 -
Apr Apr3g0008 Chr3 138211 140386 +
Arst Arst1g01639 Chr1 27610858 27613285 -
Bach Bach10g00335 Chr10 2332684 2334831 +
Bisa Bisa01g2177 Chr01 38901368 38903574 -
Dere Dere13g0335 Chr13 4558520 4560945 +
Enph Enph14g0342 Chr14 5501710 5505564 +
Glsi Glsi09g0290 Chr09 2074258 2076363 +
Gma Gma05g01136 Chr05 32358896 32361773 -
Gma Gma17g01413 Chr17 13274777 13277213 +
Lal Lal23g0779 Chr23 10315648 10318270 +
Lapu Lapu3g01416 Chr3 15966581 15969318 -
Lele Lele53g0257 Chr53 2136412 2140272 -
Lele Lele54g0261 Chr54 2206528 2208752 -
Lele Lele55g1229 Chr55 18865478 18869055 +
Lele Lele56g1176 Chr56 15222346 15224562 +
Lja Lja4g2671 Chr4 36626785 36629701 +
Mepo Mepo1g01735 Chr1 17157516 17160091 +
Mibi Mibi10g0334 Chr10 5378793 5381473 -
Phco Phco8g00887 Chr8 9050188 9052496 +
Prci Prci5g0388 Chr5 5246064 5248852 -
Psa Psa4g1851 Chr4 132356134 132358699 -
Pste Pste7g00762 Chr7 6955561 6958102 +
Pte Pte14g01046 Chr14 32097961 32100523 +
Pumo Pumo4g01798 Chr4 24173028 24175393 +
Pvu Pvu3g2366 Chr3 45028124 45030704 +
Rops Rops2g04380 Chr2 79838154 79840354 +
Seca Seca12g02168 Chr12 28012924 28015040 +
Spst Spst3g04177 Chr3 93160363 93162388 -
Trre Trre15g03566 Chr15 42953904 42956280 +
Vian Vian1g01519 Chr1 16861410 16863492 +
Vifa Vifa4g02783 Chr4 880346766 880348807 -
Vimu Vimu11g00280 Chr11 2803222 2805236 +
Viun Viun3g04022 Chr3 47815705 47817822 -
Vivi Vivi1g02645 Chr1 56029409 56032043 +
Vvi Vvi2g0733 Chr2 6980890 6987333 +
Apr Apr3g0007 Chr3 129790 137944 -
Gma Gma05g01138 Chr05 32401325 32408962 +
Gma Gma17g01412 Chr17 13250071 13256016 -
Lal Lal23g0778 Chr23 10297790 10303809 -
Lja Lja4g2670 Chr4 36504023 36510296 -
Vvi Vvi2g0734 Chr2 6993896 6994717 +
Vvi Vvi2g0735 Chr2 7000696 7003620 +
Acco Acco11g1937 Chr11 33656648 33658871 -
Accr Accr9g00512 Chr9 5801684 5803903 +
Adu Adu05g00516 Chr05 5413177 5416460 -
Aev Aev05g0783 Chr05 5489065 5492185 +
Ahy Ahy15g0487 Chr15 5798528 5800996 -
Aip Aip05g00492 Chr05 5597495 5599567 -
Alju Alju09g1937 Chr09 43187958 43190301 -
Apr Apr7g0780 Chr7 14735125 14739220 -
Bach Bach4g00381 Chr4 2521501 2523723 -
Bisa Bisa11g1290 Chr11 31981525 31983564 -
Bva Bva08g00441 Chr08 2266172 2268662 -
Dere Dere09g0531 Chr09 8171406 8173480 -
Dod Dod02g0870 Chr02 11185857 11189084 +
Enph Enph13g1172 Chr13 17468560 17469431 +
Glsi Glsi05g1773 Chr05 65490247 65492571 +
Gma Gma05g01139 Chr05 32432464 32435869 +
Gma Gma17g01410 Chr17 13195625 13217788 -
Lal Lal23g0777 Chr23 10291208 10297408 -
Lapu Lapu2g00447 Chr2 3736544 3739905 -
Lasa Lasa2g02985 Chr2 516445120 516448017 -
Lele Lele49g0417 Chr49 2420630 2422786 +
Lele Lele50g0446 Chr50 2560880 2563009 +
Lele Lele51g0428 Chr51 2468466 2470590 +
Lele Lele52g0444 Chr52 2627610 2629712 +
Lja Lja4g2669 Chr4 36493480 36501283 -
Mepo Mepo5g00580 Chr5 5184643 5186497 -
Mibi Mibi12g1668 Chr12 32757571 32759783 -
Phac Phac2g00786 Chr2 4846762 4850255 +
Phco Phco4g01252 Chr4 10599126 10614205 +
Prci Prci10g0663 Chr10 4466546 4473880 +
Psa Psa4g1853 Chr4 132475718 132478767 +
Pste Pste1g01569 Chr1 4873790 4878193 -
Pte Pte12g00252 Chr12 2019733 2023177 -
Pumo Pumo8g02091 Chr8 57852989 57857294 +
Pvu Pvu2g0064 Chr2 708706 712376 -
Rops Rops1g01942 Chr1 39506298 39509899 +
Seca Seca12g02165 Chr12 27913358 27925361 -
Spst Spst2g00527 Chr2 4243932 4246966 -
Vian Vian10g00461 Chr10 4248855 4251750 -
Vifa Vifa1g07554 Chr1 1172288937 1172292060 +
Vimu Vimu7g02679 Chr7 22543847 22546696 -
Viun Viun2g02261 Chr2 30250048 30252784 +
Vivi Vivi2g03579 Chr2 143982106 143985115 +
Vvi Vvi2g0736 Chr2 7008499 7010385 -
Aed Aed6g0654 Chr6 5581759 5582491 +
Car Car08g00376 Chr08 3057892 3060432 +
Cca Cca11g01491 Chr11 37753410 37756060 -
Gma Gma05g01142 Chr05 32469894 32471576 -
Gma Gma17g01409 Chr17 13190130 13192383 +
Lja Lja2g0190 Chr2 1633390 1635713 +
Lja Lja4g2668 Chr4 36489436 36492263 +
Ssu Ssu6g1727 Chr6 29101878 29103589 +
Sto Sto6g3523 Chr6 40786122 40787610 +
Sto Sto11g1829 Chr11 16979408 16982958 +
Vra Vra7g1288 Chr7 29631061 29634039 -
Vvi Vvi2g0737 Chr2 7019541 7021585 +
Mal Mal6g1467 Chr6 27017140 27020167 +
Mtr Mtr5g0511 Chr5 4772268 4775692 -
Tpr Tpr2g5606 Chr2 64878582 64882136 -
Tsu Tsu05g00473 Chr05 3668720 3672305 -
Vvi Vvi2g0738 Chr2 7042619 7043308 +
Gma Gma11g00387 Chr11 3150778 3152551 -
Vvi Vvi2g0739 Chr2 7043740 7046954 +
Vvi Vvi2g0740 Chr2 7060012 7062183 +
Apr Apr10g1688 Chr10 29676575 29679050 +
Car Car07g01329 Chr07 12264760 12267140 +
Gma Gma05g01144 Chr05 32534203 32536341 +
Gma Gma17g01405 Chr17 13143164 13145305 -
Lal Lal16g0852 Chr16 5530590 5532731 +
Lja Lja4g2667 Chr4 36480947 36483446 -
Mal Mal5g3766 Chr5 105812519 105814654 -
Mtr Mtr4g3498 Chr4 48604057 48606791 -
Tpr Tpr4g3891 Chr4 45167829 45170413 +
Tsu Tsu04g02256 Chr04 25137190 25139859 -
Vvi Vvi2g0741 Chr2 7063170 7078684 -
Apr Apr10g1689 Chr10 29679457 29685670 -
Bva Bva11g01879 Chr11 16311295 16316598 -
Car Car07g01330 Chr07 12268333 12274001 -
Gma Gma05g01145 Chr05 32537217 32542622 -
Gma Gma17g01404 Chr17 13137534 13141636 +
Lal Lal23g0776 Chr23 10285043 10290845 +
Lal Lal16g0851 Chr16 5530551 5539036 -
Lja Lja4g2666 Chr4 36474129 36480494 +
Mal Mal5g3765 Chr5 105804749 105810406 +
Mtr Mtr4g3497 Chr4 48595602 48601809 +
Tpr Tpr4g3892 Chr4 45171297 45177062 -
Tsu Tsu04g02255 Chr04 25130730 25136310 +
Gma Gma17g01409 Chr17 13190130 13192383 +