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
Vvi17g0263 . . . . . Adu03g04042 . Aed5g2628 . . . . . . . . . . . . . Arst3g05322 . Bach1g01470 . . . Bva03g00718 . Car06g00184 . Cca09g02803 . . . . . . . . . Gma08g00489 Gma05g02359 . . . . . . . Lal23g0684 . . . . . . . . . . Lapu3g03926 . Lasa7g05250 . . . . . . . . . Lja4g0044 Mal5g0398 . . Mepo2g05070 . . . . Mtr8g3850 . . Phac2g04894 . Phco4g03697 . . . Psa7g0095 . . . . . . . Pumo6g00087 . Pvu2g3365 . Rops2g00085 . Seca12g06963 . Spst3g00693 . Ssu5g3468 . . Tpr3g0256 . . . Tsu02g00057 . . . . Vifa6g04115 . Vimu11g04892 . Viun3g00093 . . . .
Vvi17g0264 . . . . . . . . Aev05g3490 . Ahy15g2680 . Aip05g02992 . . . . . . . . . . . . . . . . . . Cca09g02716 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g3659 . . . . . . . Mtr6g2106 . . . . . . Psa1g0783 . . . . . . . . . . . . . . . . . . Ssu5g3377 . . . . . . . . . . . . . . . . . . . Vra7g3160
Vvi17g0265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0266 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g00715 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2166 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2225 . . . . . . . . . . . . . . . . . .
Vvi17g0267 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0268 . . . . Adu05g02723 Adu03g02003 Aed7g0264 Aed5g2626 Aev05g3489 . Ahy15g2682 . Aip05g02993 . . . . . Apr6g1011 . Arst5g03452 Arst5g03357 Bach1g01473 . . . Bva04g00855 Bva03g00714 Car08g01643 . Cca08g00284 Cca09g02801 . . Dod02g3713 . . . . . Gma07g00902 Gma08g00487 Gma05g02357 Gma09g01654 Gso7g0848 Gso7g0848 Gso7g0848 Gso7g0848 Lal15g0929 . . Lal8g0459 Lal10g0961 Lal25g0470 . . . . . . Lapu4g00235 . Lasa1g04121 . Lele45g0486 Lele46g0511 Lele47g0914 Lele48g0978 . . . . Lja2g2165 . . Mal6g3662 Mepo7g00633 . . . . . . Mtr6g2107 . . . Phco4g03607 Prci14g1667 . . . Pste9g01451 Pste3g00258 . . . . . Pumo6g03023 Pvu4g1609 Pvu2g3272 . Rops5g00252 . . Spst4g02813 Spst3g00785 . Ssu5g3466 . Sto8g2223 . . . . . . Vian8g01422 Vian1g04101 Vifa1g07219 . Vimu8g01615 Vimu11g04789 . Viun3g00196 . . Vra1g0658 .
Vvi17g0269 . . . . Adu05g02722 . Aed7g0262 . . . . . . . . . . . Apr6g1013 Apr2g1548 Arst5g03451 . . . . . . Bva03g00713 . Car06g00186 Cca08g00283 Cca09g02800 . . . . . . . . . Gma08g00486 . Gma09g01656 . . . . . . . Lal8g0458 . . . . . . . . . . . . . . . . . . . . Lja2g2160 . . Mal6g3675 . . . . . . . Mtr6g2113 . . Phco5g00308 . . . . . . . . . . . . . Pvu4g1610 . . . . . Spst4g02812 . . Ssu5g3464 . Sto8g2222 . . . . . . . . . . Vimu8g01614 . . . . . Vra1g0657 .
Vvi17g0270 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0271 . . . . . Adu03g04036 . . Aev05g3488 . Ahy15g2683 . Aip05g02994 . . . . . Apr6g1014 Apr2g1547 . Arst3g05316 Bach1g01868 . . . Bva04g00854 Bva03g00712 Car08g01644 . . Cca09g02799 . . Dod02g3710 . . . . . . Gma08g00485 . Gma09g01659 . . . . . . Lal23g0683 . . Lal25g0469 . . . . . . . . . . . . . . . . . . Lja2g2159 Lja4g0046 Mal5g0396 Mal6g3678 . Mepo2g05068 . . . . Mtr8g3848 Mtr6g2115 . . Phco5g01328 Phco4g03694 . . . . . . . . . . Pumo2g02251 Pumo6g02966 Pvu4g0704 Pvu2g3362 . . Seca10g02384 . Spst4g00431 Spst3g00696 . Ssu5g3463 . Sto8g2215 Tpr3g0258 . . . Tsu02g00061 . . . . Vifa6g04113 . . . . . . . .
Vvi17g0272 . . . . . . Aed7g0260 Aed5g2624 . . . . . . . . . . Apr6g1015 Apr2g1546 . . . . . . . Bva03g00711 Car08g01645 . Cca08g00282 Cca09g02797 . . . . . . . . Gma07g00901 . . Gma09g01660 Gso7g0846 . . Gso7g0846 . . . Lal8g0457 . . . . . . . . . . . . . . . . . . . . Lja2g2158 Lja4g0047 . Mal6g3681 . . . . . . . Mtr6g2117 . . Phco5g00306 . . . . . . . . . . . . . Pvu4g1612 . . . . . Spst4g02810 . . . . . . . . . . . . . . . Vimu8g01611 . . . . . Vra1g0656 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aed Aed7g0264 Chr7 1862839 1869260 -
Cca Cca08g00284 Chr08 4099908 4104930 -
Lasa Lasa1g04121 Chr1 707477961 707483205 -
Vra Vra1g0658 Chr1 7752324 7756875 -
Adu Adu03g02003 Chr03 36978494 36980815 +
Sto Sto8g2223 Chr8 14710221 14714391 -
Vvi Vvi17g0263 Chr17 2701041 2703021 +
Adu Adu03g04042 Chr03 129484937 129487095 -
Aed Aed5g2628 Chr5 26942832 26944449 -
Arst Arst3g05322 Chr3 128249047 128251190 -
Bach Bach1g01470 Chr1 28206222 28207789 +
Bva Bva03g00718 Chr03 4285817 4287339 -
Car Car06g00184 Chr06 2048513 2051128 +
Cca Cca09g02803 Chr09 53626545 53631201 -
Gma Gma08g00489 Chr08 4058585 4061420 -
Gma Gma05g02359 Chr05 44467495 44473415 -
Lal Lal23g0684 Chr23 9528439 9531753 -
Lapu Lapu3g03926 Chr3 62751078 62754367 -
Lasa Lasa7g05250 Chr7 717978282 717979564 -
Lja Lja4g0044 Chr4 348105 350774 +
Mal Mal5g0398 Chr5 6033581 6035312 -
Mepo Mepo2g05070 Chr2 58607979 58610410 -
Mtr Mtr8g3850 Chr8 49166861 49169191 -
Phac Phac2g04894 Chr2 45291170 45294433 -
Phco Phco4g03697 Chr4 56583108 56586010 -
Psa Psa7g0095 Chr7 6705475 6707664 +
Pumo Pumo6g00087 Chr6 965991 967513 +
Pvu Pvu2g3365 Chr2 48517816 48520823 -
Rops Rops2g00085 Chr2 1406819 1409107 +
Seca Seca12g06963 Chr12 161598501 161601206 -
Spst Spst3g00693 Chr3 10376786 10378712 +
Ssu Ssu5g3468 Chr5 85468788 85471549 -
Tpr Tpr3g0256 Chr3 3001032 3003451 +
Tsu Tsu02g00057 Chr02 361764 364041 +
Vifa Vifa6g04115 Chr6 1353611214 1353612618 -
Vimu Vimu11g04892 Chr11 68607070 68608855 -
Viun Viun3g00093 Chr3 441186 443648 +
Vvi Vvi17g0264 Chr17 2704206 2704955 -
Aev Aev05g3490 Chr05 34170600 34171658 +
Ahy Ahy15g2680 Chr15 143121895 143125164 -
Aip Aip05g02992 Chr05 132207409 132211293 -
Cca Cca09g02716 Chr09 52847586 52856833 +
Mal Mal6g3659 Chr6 106908414 106909842 -
Mtr Mtr6g2106 Chr6 37687097 37690087 -
Psa Psa1g0783 Chr1 50148867 50150323 -
Ssu Ssu5g3377 Chr5 83841908 83844791 +
Vra Vra7g3160 Chr7 51330309 51333092 +
Vvi Vvi17g0265 Chr17 2705780 2706529 -
Vvi Vvi17g0266 Chr17 2707209 2720467 -
Bva Bva03g00715 Chr03 4274730 4275122 +
Lja Lja2g2166 Chr2 24468363 24470914 +
Sto Sto8g2225 Chr8 14718143 14723933 +
Vvi Vvi17g0267 Chr17 2721340 2722098 -
Vvi Vvi17g0268 Chr17 2724794 2742734 +
Adu Adu05g02723 Chr05 94709075 94713251 -
Adu Adu03g02003 Chr03 36978494 36980815 +
Aed Aed7g0264 Chr7 1862839 1869260 -
Aed Aed5g2626 Chr5 26934458 26938601 -
Aev Aev05g3489 Chr05 34158666 34168421 -
Ahy Ahy15g2682 Chr15 143135116 143139559 +
Aip Aip05g02993 Chr05 132220680 132225057 +
Apr Apr6g1011 Chr6 14817065 14821393 +
Arst Arst5g03452 Chr5 93367105 93371427 -
Arst Arst5g03357 Chr5 92108760 92113867 +
Bach Bach1g01473 Chr1 28217746 28222029 +
Bva Bva04g00855 Chr04 5615119 5620173 -
Bva Bva03g00714 Chr03 4267096 4272327 -
Car Car08g01643 Chr08 26251618 26257172 +
Cca Cca08g00284 Chr08 4099908 4104930 -
Cca Cca09g02801 Chr09 53615744 53620729 -
Dod Dod02g3713 Chr02 75874891 75879540 -
Gma Gma07g00902 Chr07 9815594 9820182 -
Gma Gma08g00487 Chr08 4047066 4051106 -
Gma Gma05g02357 Chr05 44457871 44463320 -
Gma Gma09g01654 Chr09 42077046 42082165 +
Gso Gso7g0848 Chr7 9594491 9600021 -
Gso Gso7g0848 Chr7 9594491 9600021 -
Gso Gso7g0848 Chr7 9594491 9600021 -
Gso Gso7g0848 Chr7 9594491 9600021 -
Lal Lal15g0929 Chr15 7129172 7134846 +
Lal Lal8g0459 Chr8 3053725 3057864 -
Lal Lal10g0961 Chr10 16922295 16925288 +
Lal Lal25g0470 Chr25 3244175 3250403 -
Lapu Lapu4g00235 Chr4 2358329 2363922 -
Lasa Lasa1g04121 Chr1 707477961 707483205 -
Lele Lele45g0486 Chr45 3773765 3776716 -
Lele Lele46g0511 Chr46 3528769 3531719 -
Lele Lele47g0914 Chr47 15302192 15309028 +
Lele Lele48g0978 Chr48 14863685 14866629 +
Lja Lja2g2165 Chr2 24453558 24459358 -
Mal Mal6g3662 Chr6 107170631 107179499 +
Mepo Mepo7g00633 Chr7 10514177 10520285 -
Mtr Mtr6g2107 Chr6 37702118 37708381 +
Phco Phco4g03607 Chr4 55944013 55946934 +
Prci Prci14g1667 Chr14 24050344 24054450 +
Pste Pste9g01451 Chr9 13992950 14000586 +
Pste Pste3g00258 Chr3 1151267 1151917 -
Pumo Pumo6g03023 Chr6 72281553 72295302 -
Pvu Pvu4g1609 Chr4 43346494 43351269 +
Pvu Pvu2g3272 Chr2 47821096 47824152 +
Rops Rops5g00252 Chr5 3919722 3922725 +
Spst Spst4g02813 Chr4 67835764 67840467 -
Spst Spst3g00785 Chr3 11392946 11396425 -
Ssu Ssu5g3466 Chr5 85454745 85458312 -
Sto Sto8g2223 Chr8 14710221 14714391 -
Vian Vian8g01422 Chr8 33544919 33548566 +
Vian Vian1g04101 Chr1 64048292 64050980 +
Vifa Vifa1g07219 Chr1 1115599524 1115604565 -
Vimu Vimu8g01615 Chr8 22009005 22012083 -
Vimu Vimu11g04789 Chr11 67970317 67970850 +
Viun Viun3g00196 Chr3 1087217 1090042 -
Vra Vra1g0658 Chr1 7752324 7756875 -
Vvi Vvi17g0269 Chr17 2744210 2747536 -
Adu Adu05g02722 Chr05 94696516 94700945 +
Aed Aed7g0262 Chr7 1847376 1851202 +
Apr Apr6g1013 Chr6 14830039 14834921 -
Apr Apr2g1548 Chr2 21369538 21372638 -
Arst Arst5g03451 Chr5 93354575 93358990 +
Bva Bva03g00713 Chr03 4263666 4266710 +
Car Car06g00186 Chr06 2055925 2058872 -
Cca Cca08g00283 Chr08 4071301 4076285 -
Cca Cca09g02800 Chr09 53610664 53614119 -
Gma Gma08g00486 Chr08 4044182 4046214 +
Gma Gma09g01656 Chr09 42089976 42099944 -
Lal Lal8g0458 Chr8 3050541 3053536 +
Lja Lja2g2160 Chr2 24398136 24400810 +
Mal Mal6g3675 Chr6 107339928 107343643 -
Mtr Mtr6g2113 Chr6 37785433 37795831 -
Phco Phco5g00308 Chr5 2570830 2573378 +
Pvu Pvu4g1610 Chr4 43356493 43361292 -
Spst Spst4g02812 Chr4 67829690 67833982 +
Ssu Ssu5g3464 Chr5 85445356 85446603 +
Sto Sto8g2222 Chr8 14704571 14709320 +
Vimu Vimu8g01614 Chr8 22004305 22005902 +
Vra Vra1g0657 Chr1 7746208 7750870 +
Vvi Vvi17g0270 Chr17 2753756 2763326 -
Vvi Vvi17g0271 Chr17 2768314 2770594 -
Adu Adu03g04036 Chr03 129463426 129468454 +
Aev Aev05g3488 Chr05 34139297 34142341 +
Ahy Ahy15g2683 Chr15 143140959 143145569 -
Aip Aip05g02994 Chr05 132226397 132230934 -
Apr Apr6g1014 Chr6 14837589 14842365 -
Apr Apr2g1547 Chr2 21360148 21364233 -
Arst Arst3g05316 Chr3 128233608 128237585 +
Bach Bach1g01868 Chr1 31682050 31685419 +
Bva Bva04g00854 Chr04 5611778 5614888 +
Bva Bva03g00712 Chr03 4260244 4262519 +
Car Car08g01644 Chr08 26266393 26272570 -
Cca Cca09g02799 Chr09 53604768 53607437 -
Dod Dod02g3710 Chr02 75846979 75852414 +
Gma Gma08g00485 Chr08 4039039 4041925 +
Gma Gma09g01659 Chr09 42109918 42112286 -
Lal Lal23g0683 Chr23 9524572 9528110 +
Lal Lal25g0469 Chr25 3239848 3243767 +
Lja Lja2g2159 Chr2 24393507 24396336 +
Lja Lja4g0046 Chr4 361444 364869 -
Mal Mal5g0396 Chr5 6025641 6028144 +
Mal Mal6g3678 Chr6 107532298 107537222 -
Mepo Mepo2g05068 Chr2 58600391 58603127 +
Mtr Mtr8g3848 Chr8 49159205 49162061 +
Mtr Mtr6g2115 Chr6 37850171 37855176 -
Phco Phco5g01328 Chr5 48259923 48264152 +
Phco Phco4g03694 Chr4 56568861 56571637 +
Pumo Pumo2g02251 Chr2 47823332 47830487 -
Pumo Pumo6g02966 Chr6 70424458 70427330 -
Pvu Pvu4g0704 Chr4 9282802 9285028 -
Pvu Pvu2g3362 Chr2 48502924 48505936 +
Seca Seca10g02384 Chr10 28620805 28623021 -
Spst Spst4g00431 Chr4 5633857 5634868 +
Spst Spst3g00696 Chr3 10388206 10391556 -
Ssu Ssu5g3463 Chr5 85433884 85436459 +
Sto Sto8g2215 Chr8 14668315 14672379 +
Tpr Tpr3g0258 Chr3 3017312 3020424 -
Tsu Tsu02g00061 Chr02 383676 386559 -
Vifa Vifa6g04113 Chr6 1353604883 1353607001 +
Vvi Vvi17g0272 Chr17 2780296 2782669 -
Aed Aed7g0260 Chr7 1829685 1832149 +
Aed Aed5g2624 Chr5 26927103 26929590 +
Apr Apr6g1015 Chr6 14845910 14848796 -
Apr Apr2g1546 Chr2 21352480 21355133 -
Bva Bva03g00711 Chr03 4255462 4258244 +
Car Car08g01645 Chr08 26280101 26293408 -
Cca Cca08g00282 Chr08 4059966 4065181 -
Cca Cca09g02797 Chr09 53595330 53598511 +
Gma Gma07g00901 Chr07 9785618 9813737 +
Gma Gma09g01660 Chr09 42114563 42118561 -
Gso Gso7g0846 Chr7 9577139 9582120 +
Gso Gso7g0846 Chr7 9577139 9582120 +
Lal Lal8g0457 Chr8 3044580 3047827 +
Lja Lja2g2158 Chr2 24384925 24388267 +
Lja Lja4g0047 Chr4 391471 395732 -
Mal Mal6g3681 Chr6 107630351 107638953 -
Mtr Mtr6g2117 Chr6 37864800 37876350 -
Phco Phco5g00306 Chr5 2556042 2559455 +
Pvu Pvu4g1612 Chr4 43378013 43384543 +
Spst Spst4g02810 Chr4 67818925 67823372 +
Vimu Vimu8g01611 Chr8 21994980 21996952 +
Vra Vra1g0656 Chr1 7722994 7727011 +
Arst Arst5g03357 Chr5 92108760 92113867 +
Pumo Pumo6g03023 Chr6 72281553 72295302 -
Rops Rops5g00252 Chr5 3919722 3922725 +