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
Vvi4g0414 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0415 . . . . Adu08g02463 . . . . Aev08g2645 . Ahy18g2601 . Aip08g02996 . . . . Apr5g1216 Apr9g0145 Arst8g03396 . Bach12g00534 . . . Bva10g00323 . . . . . . . . Dod09g0966 . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01845 . Lasa5g04127 . . . . . . . . . . . . . Mepo3g07483 . Mesa9g05101 . . . . . . . Phco7g00802 . . . Psa5g0621 . Pste2g01878 . . . . . Pumo10g00029 . Pvu9g1000 . Rops10g01449 . Seca4g00882 . Spst9g00834 . . . Sto5g0796 . . . . . . . Vian4g01928 . Vifa2g04075 . Vimu10g02888 . Viun9g03005 . Vivi3g01261 . . .
Vvi4g0416 Acco10g2045 . Accr4g00743 . Adu08g02459 . . . . . . Ahy18g2597 . Aip08g02992 Alju08g0761 . . . Apr5g1215 Apr9g0144 Arst10g02715 . Bach12g00535 . Bisa09g1243 . Bva10g00322 Bva06g02444 . . . . Dere04g0609 . . . Enph1g1419 . Glsi08g1541 . . . . . . . . . . . . . . . . . . . . . Lapu9g01844 . Lasa5g04130 . . . . . . . . . . . Mal2g0825 . Mepo3g05969 . Mesa9g03667 . Mibi05g0681 . Mtr3g3962 . . . Phco7g00803 . Prci15g0954 . Psa5g0622 Psa6g0700 Pste2g01880 . Pte3g01097 . . . Pumo10g00028 . Pvu9g1001 . Rops10g01450 . Seca4g00880 . Spst9g00835 . . . Sto5g0794 . Tpr7g0565 . Trre5g02517 . Tsu07g00602 . Vian4g01927 . Vifa2g04078 . Vimu10g02887 . Viun9g03003 . Vivi3g01251 . . .
Vvi4g0417 . . . . . . . . . . . . . . . . . . Apr5g1214 Apr9g0142 . . . . . . Bva10g00321 . . . . . . . . . . . . . . Gma17g01932 . . . . . . . . . . Lal8g1549 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0791 . . . . . . . . . . . . . . . . . . .
Vvi4g0418 . . . . Adu08g02457 . . . . Aev08g2648 . Ahy18g2593 . Aip08g02988 . . . . Apr5g1213 . Arst8g03383 . Bach12g00537 . . . Bva10g00320 . . . . . . . . Dod09g0970 . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01843 . Lasa5g04132 . . . . . . . . . . . . . Mepo3g07486 . Mesa9g05121 . . . . . . . Phco7g00805 . . . . . Pste2g01882 . Pte3g01094 . . . Pumo10g00027 . Pvu9g1002 . Rops10g01453 . Seca4g00873 . Spst9g00836 . . . Sto5g0789 . . . Trre5g05290 . . . Vian4g01926 . Vifa2g04081 . Vimu10g02886 . Viun9g03002 . Vivi3g01249 . . .
Vvi4g0419 Acco10g2048 . Accr4g00741 . Adu08g02456 . . . . Aev08g2649 . Ahy18g2592 . Aip08g02987 Alju08g0758 . . . Apr5g1212 . Arst8g03382 . . . Bisa09g1248 . . . . . . . Dere04g0625 . . Dod09g0971 Enph1g1421 . Glsi08g1537 . . . . . . . . . Lal21g0370 . . . . . . . . . . . Lapu9g01842 . Lasa5g04133 . Lele01g0603 Lele02g0591 Lele03g0605 Lele04g0611 . . . . . . . . Mepo3g07487 . . . Mibi05g0678 . . . . . Phco7g00806 . Prci15g0946 . . . Pste2g01884 . . . . . . . Pvu9g1003 . Rops10g01454 . Seca4g00872 . Spst9g00837 . . . . . . . Trre5g05291 . . . Vian4g01925 . Vifa2g04082 . Vimu10g02885 . Viun9g03000 . Vivi3g01248 . . .
Vvi4g0420 Acco10g2051 . Accr4g00739 . Adu08g02453 . . . . . . Ahy18g2589 . Aip08g02984 Alju08g0756 . . . Apr5g1210 . Arst8g03379 . . . Bisa09g1253 . Bva10g00318 . . . . . Dere04g0626 . . Dod09g0973 Enph1g1422 . . . . . . . . . . . Lal21g0368 . . . . . Lan3g1037 . . . . . Lapu9g01840 . Lasa5g04134 . Lele01g0601 Lele02g0590 Lele03g0603 Lele04g0609 . . . . . . . . Mepo3g07488 . Mesa9g05123 . Mibi05g0674 . . . . . Phco7g00808 . Prci15g0944 . . . Pste2g01892 . Pte3g01092 . . . . . Pvu9g1005 . . . . . Spst9g00838 . . . . . . . Trre5g05292 . . . . . . . Vimu10g02883 . . . Vivi3g01247 . . .
Vvi4g0421 Acco10g2052 . Accr4g00738 . . . . . . . . . . . Alju08g0755 . . . Apr5g1209 . . . . . Bisa09g1255 . Bva10g00317 . . . . . Dere04g0627 . . . Enph1g1423 . Glsi08g1532 . . . . . . . . . . . . . . . . . . . . . Lapu9g01839 . Lasa5g04135 . Lele01g0600 Lele02g0589 Lele03g0602 Lele04g0608 . . . . . . . . . . . . Mibi05g0673 . . . . . . . Prci15g0942 . . . Pste2g01895 . . . . . . . Pvu9g1006 . . . . . . . . . Sto5g0787 . . . . . . . . . . . Vimu10g02882 . . . Vivi3g01246 . . .
Vvi4g0422 . . . . . . . . . . . . . . . . . . . Apr9g0140 . . Bach12g00538 . . . . . . . . . . . . . . . . . . Gma17g01934 . . . . . . . Lal4g0239 . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo3g07490 . Mesa9g05147 . . . . . . . Phco7g00809 . . . . . . . . . . . . . Pvu9g1007 . . . . . Spst9g00839 . . . . . . . Trre5g05293 . . . . . . . . . . . . . . .
Vvi4g0423 . . . . . . . . . . . . . . . . . . Apr5g1208 . . . . . . . Bva10g00316 . . . . . . . . . . . . . . . . . . . . . Lal21g0367 . . . . . Lan3g1039 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g0624 . . . . . . . . . . . . . . . . . . . Sto5g0786 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0414 Chr4 3613756 3623291 -
Vvi Vvi4g0415 Chr4 3632037 3637487 +
Adu Adu08g02463 Chr08 40429131 40434840 -
Aev Aev08g2645 Chr08 24870892 24875271 +
Ahy Ahy18g2601 Chr18 128232950 128242911 -
Aip Aip08g02996 Chr08 118806790 118816727 -
Apr Apr5g1216 Chr5 16615398 16619419 -
Apr Apr9g0145 Chr9 1722565 1729171 -
Arst Arst8g03396 Chr8 44793998 44860101 -
Bach Bach12g00534 Chr12 3625572 3629423 +
Bva Bva10g00323 Chr10 3973368 3979379 -
Dod Dod09g0966 Chr09 29907135 29912962 +
Lapu Lapu9g01845 Chr9 33311447 33317731 -
Lasa Lasa5g04127 Chr5 632688400 632691991 +
Mepo Mepo3g07483 Chr3 88168296 88173411 +
Mesa Mesa9g05101 Chr9 85585690 85587000 -
Phco Phco7g00802 Chr7 6271341 6276182 +
Psa Psa5g0621 Chr5 49295690 49300641 +
Pste Pste2g01878 Chr2 19171644 19177723 +
Pumo Pumo10g00029 Chr10 862727 866063 -
Pvu Pvu9g1000 Chr9 14960125 14965937 +
Rops Rops10g01449 Chr10 27735174 27740080 +
Seca Seca4g00882 Chr4 14534342 14538964 -
Spst Spst9g00834 Chr9 7279335 7284833 +
Sto Sto5g0796 Chr5 5420859 5426914 -
Vian Vian4g01928 Chr4 35848673 35853261 -
Vifa Vifa2g04075 Chr2 1193163236 1193166983 +
Vimu Vimu10g02888 Chr10 40041441 40050212 -
Viun Viun9g03005 Chr9 37896747 37902156 -
Vivi Vivi3g01261 Chr3 21004823 21009373 -
Vvi Vvi4g0416 Chr4 3643214 3646296 -
Acco Acco10g2045 Chr10 32883825 32886219 -
Accr Accr4g00743 Chr4 7151158 7153551 +
Adu Adu08g02459 Chr08 40400326 40402263 +
Ahy Ahy18g2597 Chr18 128187946 128191457 +
Aip Aip08g02992 Chr08 118760441 118762382 +
Alju Alju08g0761 Chr08 5673339 5675791 +
Apr Apr5g1215 Chr5 16610303 16613429 +
Apr Apr9g0144 Chr9 1714591 1718440 +
Arst Arst10g02715 Chr10 92671219 92676103 +
Bach Bach12g00535 Chr12 3630757 3633584 -
Bisa Bisa09g1243 Chr09 17931790 17934084 -
Bva Bva10g00322 Chr10 3968816 3971860 +
Bva Bva06g02444 Chr06 15617980 15621368 -
Dere Dere04g0609 Chr04 6066853 6069481 -
Enph Enph1g1419 Chr1 39644085 39646769 -
Glsi Glsi08g1541 Chr08 11131143 11133462 +
Lapu Lapu9g01844 Chr9 33305000 33307975 +
Lasa Lasa5g04130 Chr5 632890464 632892416 +
Mal Mal2g0825 Chr2 9568530 9570823 +
Mepo Mepo3g05969 Chr3 73936148 73943732 -
Mesa Mesa9g03667 Chr9 68225653 68233931 +
Mibi Mibi05g0681 Chr05 6417999 6420245 +
Mtr Mtr3g3962 Chr3 53349962 53353133 -
Phco Phco7g00803 Chr7 6277981 6280302 -
Prci Prci15g0954 Chr15 6033157 6036695 +
Psa Psa5g0622 Chr5 49393520 49396162 -
Psa Psa6g0700 Chr6 24081357 24083056 +
Pste Pste2g01880 Chr2 19178743 19182060 -
Pte Pte3g01097 Chr3 9354080 9357117 +
Pumo Pumo10g00028 Chr10 857974 860971 +
Pvu Pvu9g1001 Chr9 14967273 14970349 -
Rops Rops10g01450 Chr10 27742185 27745367 -
Seca Seca4g00880 Chr4 14522078 14525227 +
Spst Spst9g00835 Chr9 7285034 7287041 -
Sto Sto5g0794 Chr5 5416865 5419538 +
Tpr Tpr7g0565 Chr7 4742778 4746001 +
Trre Trre5g02517 Chr5 19591353 19596420 +
Tsu Tsu07g00602 Chr07 4793194 4796108 +
Vian Vian4g01927 Chr4 35844846 35847131 +
Vifa Vifa2g04078 Chr2 1193178830 1193180788 -
Vimu Vimu10g02887 Chr10 40040393 40042684 +
Viun Viun9g03003 Chr9 37892717 37895910 +
Vivi Vivi3g01251 Chr3 20905304 20908142 +
Vvi Vvi4g0417 Chr4 3662685 3668731 +
Apr Apr5g1214 Chr5 16602231 16605817 -
Apr Apr9g0142 Chr9 1674431 1682010 -
Bva Bva10g00321 Chr10 3962653 3967340 -
Gma Gma17g01932 Chr17 33750710 33759561 +
Lal Lal8g1549 Chr8 19822941 19827043 -
Sto Sto5g0791 Chr5 5409035 5411701 -
Vvi Vvi4g0418 Chr4 3672493 3680199 +
Adu Adu08g02457 Chr08 40375862 40381517 -
Aev Aev08g2648 Chr08 24888199 24893487 +
Ahy Ahy18g2593 Chr18 128120164 128125936 -
Aip Aip08g02988 Chr08 118698642 118703342 -
Apr Apr5g1213 Chr5 16594101 16600550 -
Arst Arst8g03383 Chr8 44740902 44746562 -
Bach Bach12g00537 Chr12 3641242 3645897 +
Bva Bva10g00320 Chr10 3955064 3961096 -
Dod Dod09g0970 Chr09 29945529 29951464 +
Lapu Lapu9g01843 Chr9 33294593 33300866 -
Lasa Lasa5g04132 Chr5 633062196 633067884 +
Mepo Mepo3g07486 Chr3 88200101 88206242 +
Mesa Mesa9g05121 Chr9 85759987 85765477 +
Phco Phco7g00805 Chr7 6302150 6308052 +
Pste Pste2g01882 Chr2 19199833 19207984 +
Pte Pte3g01094 Chr3 9343133 9348957 -
Pumo Pumo10g00027 Chr10 824733 831504 -
Pvu Pvu9g1002 Chr9 14985419 14991983 +
Rops Rops10g01453 Chr10 27770156 27776146 +
Seca Seca4g00873 Chr4 14455369 14462305 -
Spst Spst9g00836 Chr9 7291471 7302888 +
Sto Sto5g0789 Chr5 5400352 5405511 -
Trre Trre5g05290 Chr5 53840328 53845522 +
Vian Vian4g01926 Chr4 35817724 35823078 -
Vifa Vifa2g04081 Chr2 1193547997 1193553784 +
Vimu Vimu10g02886 Chr10 40023993 40029925 -
Viun Viun9g03002 Chr9 37874681 37880706 -
Vivi Vivi3g01249 Chr3 20882920 20888818 -
Vvi Vvi4g0419 Chr4 3681080 3684446 -
Acco Acco10g2048 Chr10 32900512 32902318 -
Accr Accr4g00741 Chr4 7137618 7139494 +
Adu Adu08g02456 Chr08 40357428 40360357 +
Aev Aev08g2649 Chr08 24894200 24896166 -
Ahy Ahy18g2592 Chr18 128107890 128110671 +
Aip Aip08g02987 Chr08 118686567 118688923 +
Alju Alju08g0758 Chr08 5654789 5656673 +
Apr Apr5g1212 Chr5 16589692 16591980 +
Arst Arst8g03382 Chr8 44722458 44725440 +
Bisa Bisa09g1248 Chr09 17996331 17997416 -
Dere Dere04g0625 Chr04 6246058 6247188 -
Dod Dod09g0971 Chr09 29952596 29954781 -
Enph Enph1g1421 Chr1 39656696 39661755 -
Glsi Glsi08g1537 Chr08 11112255 11113816 +
Lal Lal21g0370 Chr21 2508243 2510344 +
Lapu Lapu9g01842 Chr9 33291893 33293788 +
Lasa Lasa5g04133 Chr5 633068400 633069954 -
Lele Lele01g0603 Chr01 3540421 3542561 +
Lele Lele02g0591 Chr02 3552190 3553284 +
Lele Lele03g0605 Chr03 3560641 3562774 +
Lele Lele04g0611 Chr04 3698892 3700982 +
Mepo Mepo3g07487 Chr3 88206578 88208277 -
Mibi Mibi05g0678 Chr05 6402927 6405160 +
Phco Phco7g00806 Chr7 6309010 6312411 -
Prci Prci15g0946 Chr15 6005494 6007964 +
Pste Pste2g01884 Chr2 19208483 19210180 -
Pvu Pvu9g1003 Chr9 14992452 14994797 -
Rops Rops10g01454 Chr10 27776971 27779393 -
Seca Seca4g00872 Chr4 14453190 14455440 +
Spst Spst9g00837 Chr9 7304058 7308644 -
Trre Trre5g05291 Chr5 53846175 53848099 -
Vian Vian4g01925 Chr4 35815097 35816693 +
Vifa Vifa2g04082 Chr2 1193554266 1193555912 -
Vimu Vimu10g02885 Chr10 40021245 40023138 +
Viun Viun9g03000 Chr9 37872165 37874106 +
Vivi Vivi3g01248 Chr3 20880779 20882811 +
Vvi Vvi4g0420 Chr4 3691425 3695091 +
Acco Acco10g2051 Chr10 32908096 32911998 +
Accr Accr4g00739 Chr4 7127665 7131542 -
Adu Adu08g02453 Chr08 40329708 40333746 -
Ahy Ahy18g2589 Chr18 128045178 128049439 -
Aip Aip08g02984 Chr08 118549869 118553905 -
Alju Alju08g0756 Chr08 5646133 5650034 -
Apr Apr5g1210 Chr5 16579794 16584641 -
Arst Arst8g03379 Chr8 44694749 44698797 -
Bisa Bisa09g1253 Chr09 18126409 18130133 +
Bva Bva10g00318 Chr10 3945989 3949464 -
Dere Dere04g0626 Chr04 6248644 6252598 +
Dod Dod09g0973 Chr09 29979373 29983638 +
Enph Enph1g1422 Chr1 39662723 39666780 +
Lal Lal21g0368 Chr21 2499095 2503449 -
Lan Lan3g1037 Chr3 22718976 22723163 +
Lapu Lapu9g01840 Chr9 33280866 33285072 -
Lasa Lasa5g04134 Chr5 633082879 633084987 +
Lele Lele01g0601 Chr01 3532787 3536639 -
Lele Lele02g0590 Chr02 3547045 3549820 -
Lele Lele03g0603 Chr03 3552851 3556701 -
Lele Lele04g0609 Chr04 3691987 3693897 -
Mepo Mepo3g07488 Chr3 88209819 88213823 +
Mesa Mesa9g05123 Chr9 85770652 85774596 +
Mibi Mibi05g0674 Chr05 6384475 6388204 -
Phco Phco7g00808 Chr7 6317564 6321095 +
Prci Prci15g0944 Chr15 6000341 6004727 -
Pste Pste2g01892 Chr2 19275296 19279899 +
Pte Pte3g01092 Chr3 9335357 9338904 -
Pvu Pvu9g1005 Chr9 15000916 15004707 +
Spst Spst9g00838 Chr9 7311668 7318848 +
Trre Trre5g05292 Chr5 53849718 53852849 +
Vimu Vimu10g02883 Chr10 40012684 40016796 -
Vivi Vivi3g01247 Chr3 20874906 20877287 -
Vvi Vvi4g0421 Chr4 3696127 3702954 -
Acco Acco10g2052 Chr10 32912572 32929667 -
Accr Accr4g00738 Chr4 7111379 7127087 +
Alju Alju08g0755 Chr08 5622581 5645327 +
Apr Apr5g1209 Chr5 16554957 16578626 +
Bisa Bisa09g1255 Chr09 18131308 18156631 -
Bva Bva10g00317 Chr10 3925307 3945277 +
Dere Dere04g0627 Chr04 6258817 6289315 -
Enph Enph1g1423 Chr1 39667600 39687005 -
Glsi Glsi08g1532 Chr08 11087783 11105036 +
Lapu Lapu9g01839 Chr9 33251019 33280156 +
Lasa Lasa5g04135 Chr5 633085249 633094664 -
Lele Lele01g0600 Chr01 3527608 3532070 +
Lele Lele02g0589 Chr02 3532259 3545580 +
Lele Lele03g0602 Chr03 3549238 3552218 +
Lele Lele04g0608 Chr04 3675883 3689245 +
Mibi Mibi05g0673 Chr05 6367579 6383860 +
Prci Prci15g0942 Chr15 5981071 6000031 +
Pste Pste2g01895 Chr2 19294612 19330452 -
Pvu Pvu9g1006 Chr9 15005349 15022181 -
Sto Sto5g0787 Chr5 5373639 5395153 +
Vimu Vimu10g02882 Chr10 39984143 40011829 +
Vivi Vivi3g01246 Chr3 20864610 20874786 +
Vvi Vvi4g0422 Chr4 3703002 3740570 -
Apr Apr9g0140 Chr9 1633535 1664607 +
Bach Bach12g00538 Chr12 3653357 3667595 -
Gma Gma17g01934 Chr17 34037866 34084782 -
Lal Lal4g0239 Chr4 1500373 1516530 -
Mepo Mepo3g07490 Chr3 88218994 88236907 -
Mesa Mesa9g05147 Chr9 86095717 86105851 -
Phco Phco7g00809 Chr7 6322321 6349082 -
Pvu Pvu9g1007 Chr9 15031059 15039226 -
Spst Spst9g00839 Chr9 7319915 7339982 -
Trre Trre5g05293 Chr5 53853402 53866692 -
Vvi Vvi4g0423 Chr4 3744654 3747772 -
Apr Apr5g1208 Chr5 16548054 16551803 +
Bva Bva10g00316 Chr10 3921119 3924335 +
Lal Lal21g0367 Chr21 2495334 2498539 +
Lan Lan3g1039 Chr3 22729424 22731752 -
Psa Psa5g0624 Chr5 49816724 49818663 -
Sto Sto5g0786 Chr5 5369329 5372640 +
Vifa Vifa2g04078 Chr2 1193178830 1193180788 -