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
Vvi3g0473 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00290 Bva14g00370 Car06g01719 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3368 . . . . . . . Mtr4g2805 . . . . Phco8g00061 . . . . . . . . . . . . . Pvu3g3011 . . . . . Spst3g02176 . . Sto2g0608 . . . . . Tsu02g03344 . . . . . . Vimu11g01187 . . . . . .
Vvi3g0474 . . . . . . . . . Aev05g0634 Ahy20g1649 Ahy15g0659 Aip10g01920 Aip05g00668 . . . . . . . . . . . . Bva13g00289 Bva14g00369 Car06g01718 Car08g00505 . . . . . Dod02g0691 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02471 . . . . . . . . . . . Lja2g0344 Mal7g3369 . . . . . . . Mtr4g2806 . . . . Phco8g00060 . . . Psa2g3791 . . . . . . . . . Pvu3g3012 . . . . . Spst3g02175 . . Sto2g0609 . . . . . Tsu02g03345 . . . . . . Vimu11g01186 . . . . . .
Vvi3g0475 . . . . . . . . . . . . . . . . . . Apr3g1664 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3370 . . . . . . . Mtr4g2807 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0196 Tpr4g1876 . . . Tsu02g03347 . . . . . . . . . . . . .
Vvi3g0476 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00367 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0610 . . . . . . . . . . . . . . . . . . .
Vvi3g0477 . . . . . . . . . . . . . . . . . . Apr3g1665 . . . . . . . . . Car06g01717 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02469 . . . . . . . . . . . . Mal7g3372 . . . . . . . Mtr4g2809 . . . . Phco8g00058 . . . . . . . . . . . . . Pvu3g3014 . . . . . Spst3g02173 . . . . Tpr4g1874 . . . Tsu02g03350 . . . . . . Vimu11g01184 . . . . . .
Vvi3g0478 . . . . . Adu10g01330 . . . Aev05g1213 . Ahy15g1281 . Aip05g01346 . . . . . . . . . . . . . Bva14g00366 . Car08g00055 . Cca06g02003 . . . Dod02g1356 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02468 . . . . . . . . . . . . . . . . . . . . . . . . . Phco8g00057 . . . . . . . . . . . . . Pvu3g3015 . . . . . Spst3g02172 . Ssu2g3113 . Sto10g0197 . . . . . . . . . . . Vimu11g01181 . . . . . .
Vvi3g0479 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0480 . . . . . . . . . . . . . . . . . . Apr3g1667 . . . . . . . . Bva14g00363 Car06g01715 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02467 . . . . . . . . . . . . Mal7g3374 . . . . . . . Mtr4g2811 . . . . Phco8g00023 . . Psa7g2863 . . . . . Pte3g01830 . . . . Pvu3g3043 . . . . . . . . Sto2g0613 . Tpr4g1871 . . . Tsu02g03352 . . . . . . . . . . . . .
Vvi3g0481 . . . . . . . . . . . . . . . . . . Apr3g1668 . . . . . . . . Bva14g00362 Car06g01714 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02466 . . . . . . . . . . . . . . . . . . . . Mtr4g2812 . . . . Phco8g00024 . . . . . . . . Pte3g01832 . . . . Pvu3g3041 . . . . . . . . . Sto10g0198 Tpr4g1870 . . . . . . . . . . . . . . . . .
Vvi3g0482 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00287 Bva14g00361 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0473 Chr3 4047422 4053753 +
Bva Bva13g00290 Chr13 1359120 1362323 -
Bva Bva14g00370 Chr14 1833360 1836342 -
Car Car06g01719 Chr06 16966833 16968183 -
Mal Mal7g3368 Chr7 98485789 98491012 +
Mtr Mtr4g2805 Chr4 41730359 41734845 +
Phco Phco8g00061 Chr8 536457 543862 -
Pvu Pvu3g3011 Chr3 51843191 51849956 +
Spst Spst3g02176 Chr3 60772179 60773601 -
Sto Sto2g0608 Chr2 5164313 5166875 +
Tsu Tsu02g03344 Chr02 37425703 37429914 +
Vimu Vimu11g01187 Chr11 12846910 12850152 -
Vvi Vvi3g0474 Chr3 4054284 4054832 +
Aev Aev05g0634 Chr05 4396913 4397488 -
Ahy Ahy20g1649 Chr20 69427771 69428971 -
Ahy Ahy15g0659 Chr15 8756881 8757777 +
Aip Aip10g01920 Chr10 65639241 65640398 -
Aip Aip05g00668 Chr05 8434054 8434920 +
Bva Bva13g00289 Chr13 1358141 1359029 -
Bva Bva14g00369 Chr14 1832450 1833312 -
Car Car06g01718 Chr06 16963485 16964387 -
Car Car08g00505 Chr08 4241851 4242747 +
Dod Dod02g0691 Chr02 9039172 9040450 -
Lapu Lapu3g02471 Chr3 46653592 46660730 -
Lja Lja2g0344 Chr2 3139155 3140004 +
Mal Mal7g3369 Chr7 98491531 98492121 +
Mtr Mtr4g2806 Chr4 41734631 41735942 +
Phco Phco8g00060 Chr8 535447 536004 -
Psa Psa2g3791 Chr2 402414691 402416138 -
Pvu Pvu3g3012 Chr3 51850091 51850794 +
Spst Spst3g02175 Chr3 60768465 60769022 -
Sto Sto2g0609 Chr2 5167281 5167844 +
Tsu Tsu02g03345 Chr02 37430434 37431024 +
Vimu Vimu11g01186 Chr11 12845940 12846497 -
Vvi Vvi3g0475 Chr3 4057654 4059435 -
Apr Apr3g1664 Chr3 32192994 32195411 -
Mal Mal7g3370 Chr7 98493608 98495302 -
Mtr Mtr4g2807 Chr4 41737729 41739949 -
Sto Sto10g0196 Chr10 1622164 1624014 -
Tpr Tpr4g1876 Chr4 19718985 19721252 +
Tsu Tsu02g03347 Chr02 37441739 37443959 -
Vvi Vvi3g0476 Chr3 4061081 4066802 -
Bva Bva14g00367 Chr14 1829380 1830703 +
Sto Sto2g0610 Chr2 5168896 5170762 -
Vvi Vvi3g0477 Chr3 4067224 4072020 -
Apr Apr3g1665 Chr3 32197201 32198734 -
Car Car06g01717 Chr06 16957313 16960000 +
Lapu Lapu3g02469 Chr3 46645295 46646935 +
Mal Mal7g3372 Chr7 98540114 98541522 -
Mtr Mtr4g2809 Chr4 41772951 41775288 -
Phco Phco8g00058 Chr8 527242 528647 +
Pvu Pvu3g3014 Chr3 51855082 51856953 -
Spst Spst3g02173 Chr3 60728098 60729631 +
Tpr Tpr4g1874 Chr4 19628491 19631830 +
Tsu Tsu02g03350 Chr02 37494354 37496173 -
Vimu Vimu11g01184 Chr11 12831756 12832497 +
Vvi Vvi3g0478 Chr3 4076753 4093396 +
Adu Adu10g01330 Chr10 37304723 37305939 +
Aev Aev05g1213 Chr05 8482810 8488500 -
Ahy Ahy15g1281 Chr15 20544188 20549861 -
Aip Aip05g01346 Chr05 19830322 19835766 -
Bva Bva14g00366 Chr14 1820481 1828036 -
Car Car08g00055 Chr08 500862 508418 +
Cca Cca06g02003 Chr06 35246166 35253427 -
Dod Dod02g1356 Chr02 16270420 16280878 -
Lapu Lapu3g02468 Chr3 46628913 46629488 -
Phco Phco8g00057 Chr8 521527 522100 -
Pvu Pvu3g3015 Chr3 51863667 51864419 +
Spst Spst3g02172 Chr3 60720091 60720489 -
Ssu Ssu2g3113 Chr2 92965259 92971855 -
Sto Sto10g0197 Chr10 1624471 1631916 +
Vimu Vimu11g01181 Chr11 12815938 12816817 -
Vvi Vvi3g0479 Chr3 4095200 4095827 -
Vvi Vvi3g0480 Chr3 4096054 4121846 -
Apr Apr3g1667 Chr3 32209137 32221920 -
Bva Bva14g00363 Chr14 1804007 1816873 +
Car Car06g01715 Chr06 16931828 16945000 +
Lapu Lapu3g02467 Chr3 46610677 46622667 +
Mal Mal7g3374 Chr7 98555380 98567562 -
Mtr Mtr4g2811 Chr4 41786252 41803971 -
Phco Phco8g00023 Chr8 243826 261555 -
Psa Psa7g2863 Chr7 205490785 205503480 +
Pte Pte3g01830 Chr3 29123134 29134018 +
Pvu Pvu3g3043 Chr3 52098694 52109253 +
Sto Sto2g0613 Chr2 5192959 5195191 -
Tpr Tpr4g1871 Chr4 19582560 19598349 +
Tsu Tsu02g03352 Chr02 37525459 37538053 -
Vvi Vvi3g0481 Chr3 4130708 4161611 +
Apr Apr3g1668 Chr3 32235502 32249714 +
Bva Bva14g00362 Chr14 1794383 1801597 -
Car Car06g01714 Chr06 16909680 16919342 -
Lapu Lapu3g02466 Chr3 46583599 46597049 -
Mtr Mtr4g2812 Chr4 41810374 41818310 +
Phco Phco8g00024 Chr8 268303 279692 +
Pte Pte3g01832 Chr3 29138513 29147037 +
Pvu Pvu3g3041 Chr3 52068807 52081795 -
Sto Sto10g0198 Chr10 1633951 1644018 +
Tpr Tpr4g1870 Chr4 19569920 19577979 -
Vvi Vvi3g0482 Chr3 4166994 4173657 -
Bva Bva13g00287 Chr13 1350425 1352044 +
Bva Bva14g00361 Chr14 1791648 1793660 +