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
Vvi18g1016 . Acco05g2865 . Accr3g00182 . . . . . . . . . . . Alju07g2822 . . Apr9g0492 . . . . . . Bisa05g0743 Bva06g02020 . Car04g03494 . . . . Dere05g2673 . . . Enph7g1394 . Glsi10g0255 . . . . . . . . . . . Lal8g0594 . Lal25g0561 . . . . . . . . . . . . . . Lele25g0156 Lele26g0167 Lele27g1926 Lele28g0170 . Lja5g3221 Mal1g5890 . . Mepo4g01756 . Mesa1g00211 . Mibi08g2518 Mtr1g0593 . . . . Phco2g00181 . Prci2g0257 . . . Pste8g01189 . . Pte3g01868 . . Pumo9g00165 . Pvu1g0162 . . . Seca8g03818 . Spst8g02321 . . Sto5g0258 . Tpr1g3754 . . Trre1g00221 Tsu01g00328 . . Vian7g00800 . . . Vimu1g03084 . Viun8g00228 . . . .
Vvi18g1017 . . . . Adu08g00026 . . Aed9g0310 Aev08g0292 . Ahy17g2412 . Aip07g02582 . . . . . . Apr5g1571 Arst8g00043 . . . . . Bva06g02018 Bva10g00799 . Car05g03185 . Cca07g00376 . . . . . . . . Gma04g00317 Gma06g00303 . . Gso4g0294 Gso4g0294 . . . . . . . . . . . . . . Lapu9g02207 . Lasa5g04414 . . . . . . . . . Lja1g3606 . . Mal2g0580 Mepo3g07951 . . . . . . Mtr3g4173 . . Phco7g00387 . . . . . Pste2g00856 . . . . . . . Pvu9g0585 . Rops10g02361 . Seca4g00574 . Spst9g00392 . . . . Sto9g3620 . Tpr7g0320 Trre5g05567 . . Tsu07g00352 Vian4g02303 . Vifa2g04365 . . . Viun9g03562 . Vivi3g00372 . . Vra5g1568
Vvi18g1018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1019 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma16g01295 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1020 . . . . . Adu03g00451 . . . Aev07g0777 . Ahy16g3632 . Aip06g03893 . . . Amo16g3946 Apr9g0493 . . Arst3g00595 . . . . . Bva10g00800 Car04g03495 . . . . . . Dod08g2161 . . . . . . Gma14g00657 . . . . . . . . Lal8g0593 . Lal25g0560 . . . . . . . Lapu11g00736 . Lasa7g02015 . . . . . . . . . Lja5g3222 Mal1g5892 . . Mepo2g02296 . Mesa13g02816 . . Mtr1g0594 . . . . Phco9g00534 . . . . . Pste1g01910 . . . . . Pumo11g01776 . Pvu11g0482 . Rops3g00585 . Seca4g03544 . Spst2g02499 . . Sto5g0256 . Tpr1g3755 . . . Tsu01g00327 . . Vian5g01474 . . . Vimu5g02318 . Viun11g02404 . . . .
Vvi18g1021 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1022 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1023 . . . . . . Aed11g0140 . Aev08g0291 Aev07g0776 Ahy17g2411 Ahy16g3637 Aip07g02581 Aip06g03894 . . . Amo16g3951 Apr9g0494 . . . . . . . Bva06g02017 Bva10g00801 Car04g03496 . Cca05g00256 . . . Dod08g2162 Dod08g2162 . . . . . . Gma16g01292 Gma17g02378 . . . . . . . Lal8g0592 Lal10g0786 . . . . . . . . . . . . . . . . . . . . Lja5g3223 Mal1g5893 . . . . . . . Mtr1g0595 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0170 . Sto5g0255 . Tpr1g3756 . . . Tsu01g00325 . . . . . . . . . . . Vra6g1928 .
Vvi18g1024 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3621 . . . . . . . . . . . . . . . . . .
Vvi18g1025 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5894 . . . . . . . Mtr1g0596 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3757 . . . Tsu01g00324 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g00451 Chr03 4079235 4081890 -
Arst Arst3g00595 Chr3 4085200 4087884 -
Lapu Lapu11g00736 Chr11 10333149 10335959 -
Lasa Lasa7g02015 Chr7 481966050 481968711 -
Mepo Mepo2g02296 Chr2 32619600 32622787 -
Mesa Mesa13g02816 Chr13 33153629 33158016 +
Phco Phco9g00534 Chr9 3895123 3897264 +
Pste Pste1g01910 Chr1 5926151 5928207 +
Pumo Pumo11g01776 Chr11 49377602 49380196 -
Pvu Pvu11g0482 Chr11 4075952 4078721 +
Rops Rops3g00585 Chr3 7318016 7320706 +
Seca Seca4g03544 Chr4 61774589 61777108 +
Spst Spst2g02499 Chr2 24565237 24567394 -
Vian Vian5g01474 Chr5 37305395 37307566 -
Vimu Vimu5g02318 Chr5 34084707 34085027 -
Viun Viun11g02404 Chr11 37852602 37855301 -
Gma Gma16g01295 Chr16 31559873 31564407 -
Aev Aev08g0291 Chr08 1590042 1594779 +
Ahy Ahy17g2411 Chr17 115685067 115689297 +
Aip Aip07g02581 Chr07 107376412 107380598 +
Dod Dod08g2162 Chr08 49386813 49391975 -
Gma Gma16g01292 Chr16 31510343 31514819 +
Vvi Vvi18g1016 Chr18 10288804 10291782 -
Acco Acco05g2865 Chr05 43602329 43605385 -
Accr Accr3g00182 Chr3 1977784 1979812 +
Alju Alju07g2822 Chr07 53502771 53506406 -
Apr Apr9g0492 Chr9 6906281 6910638 -
Bisa Bisa05g0743 Chr05 12226652 12228329 +
Bva Bva06g02020 Chr06 13514882 13518397 +
Car Car04g03494 Chr04 64094698 64097009 -
Dere Dere05g2673 Chr05 37528476 37530496 -
Enph Enph7g1394 Chr7 19287747 19292023 -
Glsi Glsi10g0255 Chr10 1720112 1722023 +
Lal Lal8g0594 Chr8 4117592 4122383 +
Lal Lal25g0561 Chr25 4109643 4118116 +
Lele Lele25g0156 Chr25 953125 956177 +
Lele Lele26g0167 Chr26 965063 969005 +
Lele Lele27g1926 Chr27 23770384 23773417 -
Lele Lele28g0170 Chr28 980290 986595 +
Lja Lja5g3221 Chr5 62346185 62350526 -
Mal Mal1g5890 Chr1 136585919 136587603 -
Mepo Mepo4g01756 Chr4 22826626 22829699 -
Mesa Mesa1g00211 Chr1 2426322 2427699 +
Mibi Mibi08g2518 Chr08 42897063 42899087 -
Mtr Mtr1g0593 Chr1 6818694 6821796 -
Phco Phco2g00181 Chr2 1418690 1421383 -
Prci Prci2g0257 Chr2 1840625 1845500 +
Pste Pste8g01189 Chr8 6294185 6297575 +
Pte Pte3g01868 Chr3 29737482 29737802 +
Pumo Pumo9g00165 Chr9 2263638 2267688 -
Pvu Pvu1g0162 Chr1 1318994 1322960 -
Seca Seca8g03818 Chr8 109299961 109304765 -
Spst Spst8g02321 Chr8 34193260 34195817 +
Sto Sto5g0258 Chr5 1506725 1508413 +
Tpr Tpr1g3754 Chr1 41631034 41634891 -
Trre Trre1g00221 Chr1 1604953 1606799 +
Tsu Tsu01g00328 Chr01 2671017 2674088 +
Vian Vian7g00800 Chr7 16310953 16311935 +
Vimu Vimu1g03084 Chr1 43281216 43283214 +
Viun Viun8g00228 Chr8 1447093 1449561 -
Vvi Vvi18g1017 Chr18 10298728 10306566 -
Adu Adu08g00026 Chr08 306251 311581 -
Aed Aed9g0310 Chr9 2166748 2173001 +
Aev Aev08g0292 Chr08 1595726 1599296 +
Ahy Ahy17g2412 Chr17 115689553 115694816 +
Aip Aip07g02582 Chr07 107380869 107386211 +
Apr Apr5g1571 Chr5 19534560 19541009 -
Arst Arst8g00043 Chr8 306225 311442 -
Bva Bva06g02018 Chr06 13508460 13510765 +
Bva Bva10g00799 Chr10 6334584 6340780 -
Car Car05g03185 Chr05 76723016 76728753 -
Cca Cca07g00376 Chr07 4886863 4894303 +
Gma Gma04g00317 Chr04 2698465 2706996 +
Gma Gma06g00303 Chr06 2631629 2638572 +
Gso Gso4g0294 Chr4 2649512 2657706 +
Gso Gso4g0294 Chr4 2649512 2657706 +
Lapu Lapu9g02207 Chr9 36777580 36788306 -
Lasa Lasa5g04414 Chr5 661136946 661140174 -
Lja Lja1g3606 Chr1 44774311 44779562 +
Mal Mal2g0580 Chr2 6682495 6687614 +
Mepo Mepo3g07951 Chr3 92396352 92400907 +
Mtr Mtr3g4173 Chr3 55645965 55651450 -
Phco Phco7g00387 Chr7 2725778 2736094 +
Pste Pste2g00856 Chr2 9175765 9186877 +
Pvu Pvu9g0585 Chr9 10404008 10412322 -
Rops Rops10g02361 Chr10 41632254 41638701 -
Seca Seca4g00574 Chr4 9345206 9352409 +
Spst Spst9g00392 Chr9 3466533 3474972 +
Sto Sto9g3620 Chr9 34848071 34854758 -
Tpr Tpr7g0320 Chr7 2581443 2586165 +
Trre Trre5g05567 Chr5 56046487 56049610 -
Tsu Tsu07g00352 Chr07 2645155 2649868 +
Vian Vian4g02303 Chr4 39869510 39878699 -
Vifa Vifa2g04365 Chr2 1283016014 1283019426 -
Viun Viun9g03562 Chr9 41339863 41347737 -
Vivi Vivi3g00372 Chr3 6600458 6605148 -
Vra Vra5g1568 Chr5 22258768 22266105 -
Vvi Vvi18g1018 Chr18 10308323 10309560 +
Vvi Vvi18g1019 Chr18 10309606 10313551 +
Gma Gma16g01295 Chr16 31559873 31564407 -
Vvi Vvi18g1020 Chr18 10315268 10317126 -
Adu Adu03g00451 Chr03 4079235 4081890 -
Aev Aev07g0777 Chr07 5129813 5131795 +
Ahy Ahy16g3632 Chr16 154183475 154186441 -
Aip Aip06g03893 Chr06 136658049 136666784 -
Amo Amo16g3946 Chr16 151377711 151380681 -
Apr Apr9g0493 Chr9 6922284 6924552 -
Arst Arst3g00595 Chr3 4085200 4087884 -
Bva Bva10g00800 Chr10 6341140 6343607 -
Car Car04g03495 Chr04 64105222 64107615 -
Dod Dod08g2161 Chr08 49382002 49384985 -
Gma Gma14g00657 Chr14 6442636 6445552 -
Lal Lal8g0593 Chr8 4112081 4114646 +
Lal Lal25g0560 Chr25 4101773 4104082 +
Lapu Lapu11g00736 Chr11 10333149 10335959 -
Lasa Lasa7g02015 Chr7 481966050 481968711 -
Lja Lja5g3222 Chr5 62364764 62366558 -
Mal Mal1g5892 Chr1 136605002 136607142 -
Mepo Mepo2g02296 Chr2 32619600 32622787 -
Mesa Mesa13g02816 Chr13 33153629 33158016 +
Mtr Mtr1g0594 Chr1 6831448 6834263 -
Phco Phco9g00534 Chr9 3895123 3897264 +
Pste Pste1g01910 Chr1 5926151 5928207 +
Pumo Pumo11g01776 Chr11 49377602 49380196 -
Pvu Pvu11g0482 Chr11 4075952 4078721 +
Rops Rops3g00585 Chr3 7318016 7320706 +
Seca Seca4g03544 Chr4 61774589 61777108 +
Spst Spst2g02499 Chr2 24565237 24567394 -
Sto Sto5g0256 Chr5 1500534 1502418 +
Tpr Tpr1g3755 Chr1 41639659 41642725 -
Tsu Tsu01g00327 Chr01 2664290 2666802 +
Vian Vian5g01474 Chr5 37305395 37307566 -
Vimu Vimu5g02318 Chr5 34084707 34085027 -
Viun Viun11g02404 Chr11 37852602 37855301 -
Vvi Vvi18g1021 Chr18 10319988 10320188 -
Vvi Vvi18g1022 Chr18 10333851 10334042 +
Vvi Vvi18g1023 Chr18 10334806 10341233 -
Aed Aed11g0140 Chr11 1058452 1063384 -
Aev Aev08g0291 Chr08 1590042 1594779 +
Aev Aev07g0776 Chr07 5126072 5128548 +
Ahy Ahy17g2411 Chr17 115685067 115689297 +
Ahy Ahy16g3637 Chr16 154228262 154231746 -
Aip Aip07g02581 Chr07 107376412 107380598 +
Aip Aip06g03894 Chr06 136669681 136672385 -
Amo Amo16g3951 Chr16 151422384 151425974 -
Apr Apr9g0494 Chr9 6925550 6932081 -
Bva Bva06g02017 Chr06 13504162 13508459 +
Bva Bva10g00801 Chr10 6344555 6348324 -
Car Car04g03496 Chr04 64108936 64114828 -
Cca Cca05g00256 Chr05 5494996 5499778 +
Dod Dod08g2162 Chr08 49386813 49391975 -
Dod Dod08g2162 Chr08 49386813 49391975 -
Gma Gma16g01292 Chr16 31510343 31514819 +
Gma Gma17g02378 Chr17 41848259 41854150 +
Lal Lal8g0592 Chr8 4104237 4110622 +
Lal Lal10g0786 Chr10 15568343 15575213 +
Lja Lja5g3223 Chr5 62367300 62372029 -
Mal Mal1g5893 Chr1 136608251 136612710 -
Mtr Mtr1g0595 Chr1 6835718 6840921 -
Ssu Ssu5g0170 Chr5 3341679 3346314 -
Sto Sto5g0255 Chr5 1495357 1499185 +
Tpr Tpr1g3756 Chr1 41647796 41653824 -
Tsu Tsu01g00325 Chr01 2649270 2654690 +
Vra Vra6g1928 Chr6 35904039 35908442 +
Vvi Vvi18g1024 Chr18 10347098 10348852 -
Sto Sto9g3621 Chr9 34855642 34858985 -
Vvi Vvi18g1025 Chr18 10356445 10357244 -
Mal Mal1g5894 Chr1 136614826 136619177 -
Mtr Mtr1g0596 Chr1 6848668 6852159 -
Tpr Tpr1g3757 Chr1 41655161 41658231 -
Tsu Tsu01g00324 Chr01 2645568 2648168 +