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
Vvi16g0669 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca06g01722 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g1615 . . . . . . . Mtr5g0383 . . . . . . Psa2g4087 . . . . . . . . . . . . . . . . . . . . . . Tpr2g3800 . . . Tsu05g00350 . . . . . . . . . . . .
Vvi16g0670 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0671 Acco01g0403 . Accr1g00214 . . Adu09g01790 Aed8g1978 Aed7g0468 Aev05g3028 Aev09g1615 Ahy15g3389 Ahy19g1925 Aip05g03698 Aip09g02242 Alju02g3501 . . Amo19g2367 . Apr6g0814 Arst5g02629 Arst9g02366 Bach1g01279 . Bisa01g0616 . Bva03g01533 Bva04g01051 . . Cca02g01699 Cca08g00511 Dere06g1491 . Dod02g3177 Dod06g1486 Enph12g1000 . Glsi01g1694 . Gma10g01729 . . . Gso10g1613 . . . Lal1g0787 Lal2g0794 . . . . . . . . . . . Lapu7g01534 Lasa1g02357 Lasa6g02741 Lele45g0278 Lele46g0302 Lele47g1108 Lele48g1171 . . . . Lja2g2484 . . . Mepo7g01054 Mepo4g03124 Mesa22g02575 Mesa1g03377 Mibi01g3262 . . Mtr6g1692 . . Phco5g00553 Phco6g02012 Prci14g1988 . . . Pste9g01279 Pste4g00466 Pte16g00187 Pte9g00256 . Pte9g00256 Pumo6g02731 Pumo3g01687 Pvu4g1355 Pvu7g1147 Rops5g00693 Rops6g01573 Seca10g04289 . Spst4g01661 Spst10g00312 Ssu7g1448 . Sto10g2601 . . . . Trre1g03476 . Tsu06g03323 Vian8g01195 Vian3g01175 Vifa1g03938 Vifa3g01659 Vimu8g01901 Vimu3g02367 Viun4g02378 Viun7g02420 . Vivi1g06082 Vra8g1710 Vra1g0897
Vvi16g0672 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0673 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0674 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0675 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0676 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma16g01689 . . . Gso16g1655 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g3171 . . . . . . . . . . . . . . . . . .
Vvi16g0677 Acco01g0402 . Accr1g00213 . . . . Aed7g0469 Aev05g3027 Aev09g1617 Ahy15g3390 Ahy19g1927 Aip05g03699 Aip09g02244 Alju02g3502 . . . . Apr6g0813 Arst5g02627 . Bach1g01278 . Bisa01g0617 . Bva03g01532 Bva04g01052 . . . Cca08g00512 Dere06g1489 . Dod02g3176 Dod06g1485 Enph12g0999 . Glsi01g1693 . Gma16g01672 . . . Gso16g1641 . . . Lal1g0788 Lal2g0793 . . . . . . . . . . . . . . Lele45g0277 Lele46g0301 Lele47g1109 Lele48g1172 . . . . Lja2g2483 . . Mal6g3137 Mepo7g01057 . Mesa22g02572 . Mibi01g3263 . . Mtr6g1690 Phac4g01662 . . . Prci14g1989 . . . Pste9g01278 . . Pte9g00258 . . Pumo6g02730 . Pvu4g1354 . Rops5g00694 . Seca10g04287 . Spst4g03048 . . . Sto10g2600 . . Tpr2g4498 Trre11g01560 . . Tsu06g03317 Vian8g01194 . Vifa1g03947 . Vimu8g01903 . Viun4g02377 . Vivi2g05660 . . Vra1g0898
Vvi16g0678 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g0669 Chr16 13667614 13670773 -
Cca Cca06g01722 Chr06 32541520 32543899 -
Mal Mal6g1615 Chr6 30006943 30009340 -
Mtr Mtr5g0383 Chr5 3521111 3523985 +
Psa Psa2g4087 Chr2 418681034 418683510 -
Tpr Tpr2g3800 Chr2 40882040 40884440 -
Tsu Tsu05g00350 Chr05 2595231 2597482 +
Vvi Vvi16g0670 Chr16 13705272 13707994 +
Vvi Vvi16g0671 Chr16 13715872 13716626 -
Acco Acco01g0403 Chr01 4787250 4788663 +
Accr Accr1g00214 Chr1 3901380 3902784 +
Adu Adu09g01790 Chr09 87136882 87138117 -
Aed Aed8g1978 Chr8 24288542 24289442 -
Aed Aed7g0468 Chr7 3338470 3339450 -
Aev Aev05g3028 Chr05 30874230 30875107 +
Aev Aev09g1615 Chr09 20075921 20076958 -
Ahy Ahy15g3389 Chr15 156375200 156376257 -
Ahy Ahy19g1925 Chr19 111482192 111483500 -
Aip Aip05g03698 Chr05 144961882 144962972 -
Aip Aip09g02242 Chr09 103081429 103082786 -
Alju Alju02g3501 Chr02 53441253 53442451 -
Amo Amo19g2367 Chr19 108404363 108405207 -
Apr Apr6g0814 Chr6 12642693 12643490 +
Arst Arst5g02629 Chr5 80622305 80623350 +
Arst Arst9g02366 Chr9 85005422 85006537 -
Bach Bach1g01279 Chr1 26203490 26204253 +
Bisa Bisa01g0616 Chr01 9480152 9480965 -
Bva Bva03g01533 Chr03 14414375 14415203 +
Bva Bva04g01051 Chr04 6909000 6909850 -
Cca Cca02g01699 Chr02 35948158 35949248 -
Cca Cca08g00511 Chr08 8246343 8247759 -
Dere Dere06g1491 Chr06 27972594 27973429 +
Dod Dod02g3177 Chr02 66753007 66754230 +
Dod Dod06g1486 Chr06 19913061 19913844 +
Enph Enph12g1000 Chr12 16549286 16550564 +
Glsi Glsi01g1694 Chr01 78036331 78038695 +
Gma Gma10g01729 Chr10 44455398 44456428 -
Gso Gso10g1613 Chr10 42652139 42653243 -
Lal Lal1g0787 Chr1 5331888 5332424 -
Lal Lal2g0794 Chr2 5114473 5118668 +
Lapu Lapu7g01534 Chr7 30756323 30757135 -
Lasa Lasa1g02357 Chr1 266865410 266866169 -
Lasa Lasa6g02741 Chr6 515694122 515694908 +
Lele Lele45g0278 Chr45 2271874 2273316 +
Lele Lele46g0302 Chr46 2010944 2012192 +
Lele Lele47g1108 Chr47 16712979 16714363 -
Lele Lele48g1171 Chr48 16249336 16250535 -
Lja Lja2g2484 Chr2 31734034 31734997 +
Mepo Mepo7g01054 Chr7 16062907 16077417 -
Mepo Mepo4g03124 Chr4 40623465 40624584 +
Mesa Mesa22g02575 Chr22 68062033 68062987 +
Mesa Mesa1g03377 Chr1 57599561 57600118 +
Mibi Mibi01g3262 Chr01 57712148 57713755 -
Mtr Mtr6g1692 Chr6 31362661 31364034 +
Phco Phco5g00553 Chr5 5179576 5180433 -
Phco Phco6g02012 Chr6 39851298 39852109 -
Prci Prci14g1988 Chr14 27428853 27430297 -
Pste Pste9g01279 Chr9 11283353 11284381 +
Pste Pste4g00466 Chr4 3542580 3543431 +
Pte Pte16g00187 Chr16 2198579 2199341 -
Pte Pte9g00256 Chr9 2875094 2875849 -
Pte Pte9g00256 Chr9 2875094 2875849 -
Pumo Pumo6g02731 Chr6 65598356 65599634 +
Pumo Pumo3g01687 Chr3 25994836 25995879 +
Pvu Pvu4g1355 Chr4 40370716 40371795 +
Pvu Pvu7g1147 Chr7 14457164 14458282 +
Rops Rops5g00693 Chr5 12262247 12263087 -
Rops Rops6g01573 Chr6 32726223 32727387 +
Seca Seca10g04289 Chr10 97227123 97228967 +
Spst Spst4g01661 Chr4 56352853 56353961 -
Spst Spst10g00312 Chr10 3134831 3135634 -
Ssu Ssu7g1448 Chr7 30977162 30977964 +
Sto Sto10g2601 Chr10 36291410 36292243 +
Trre Trre1g03476 Chr1 31253766 31254558 +
Tsu Tsu06g03323 Chr06 44218451 44218912 +
Vian Vian8g01195 Chr8 30617167 30618021 +
Vian Vian3g01175 Chr3 13047676 13048436 +
Vifa Vifa1g03938 Chr1 604526325 604527064 +
Vifa Vifa3g01659 Chr3 429158888 429159695 +
Vimu Vimu8g01901 Chr8 24649110 24649966 -
Vimu Vimu3g02367 Chr3 38124105 38124870 -
Viun Viun4g02378 Chr4 39216216 39217492 +
Viun Viun7g02420 Chr7 28234594 28235660 -
Vivi Vivi1g06082 Chr1 135510623 135511828 -
Vra Vra8g1710 Chr8 34245055 34246199 -
Vra Vra1g0897 Chr1 10427063 10428557 -
Vvi Vvi16g0672 Chr16 13726172 13727636 -
Vvi Vvi16g0673 Chr16 13733026 13735779 +
Vvi Vvi16g0674 Chr16 13741409 13743620 -
Vvi Vvi16g0675 Chr16 13753821 13757896 +
Vvi Vvi16g0676 Chr16 13772824 13774725 -
Gma Gma16g01689 Chr16 37853515 37855243 -
Gso Gso16g1655 Chr16 37208053 37208720 -
Sto Sto8g3171 Chr8 25666960 25675150 -
Vvi Vvi16g0677 Chr16 13779285 13784833 +
Acco Acco01g0402 Chr01 4773089 4775835 -
Accr Accr1g00213 Chr1 3875543 3878265 -
Aed Aed7g0469 Chr7 3342830 3344619 +
Aev Aev05g3027 Chr05 30860560 30862474 -
Aev Aev09g1617 Chr09 20083761 20094414 +
Ahy Ahy15g3390 Chr15 156391741 156393664 +
Ahy Ahy19g1927 Chr19 111995387 111998186 +
Aip Aip05g03699 Chr05 144976708 144978654 +
Aip Aip09g02244 Chr09 103611091 103613562 +
Alju Alju02g3502 Chr02 53457063 53459787 +
Apr Apr6g0813 Chr6 12629400 12631645 -
Arst Arst5g02627 Chr5 80569992 80571809 -
Bach Bach1g01278 Chr1 26194023 26196670 -
Bisa Bisa01g0617 Chr01 9490774 9493521 +
Bva Bva03g01532 Chr03 14406682 14409590 -
Bva Bva04g01052 Chr04 6914145 6916932 +
Cca Cca08g00512 Chr08 8276396 8279032 +
Dere Dere06g1489 Chr06 27956120 27958858 -
Dod Dod02g3176 Chr02 66726366 66731750 -
Dod Dod06g1485 Chr06 19901937 19905442 -
Enph Enph12g0999 Chr12 16540247 16543544 -
Glsi Glsi01g1693 Chr01 78021032 78025707 -
Gma Gma16g01672 Chr16 37748823 37751343 -
Gso Gso16g1641 Chr16 37104602 37106501 -
Lal Lal1g0788 Chr1 5341751 5345479 +
Lal Lal2g0793 Chr2 5100184 5102949 -
Lele Lele45g0277 Chr45 2264072 2266182 -
Lele Lele46g0301 Chr46 2001389 2003854 -
Lele Lele47g1109 Chr47 16721973 16724077 +
Lele Lele48g1172 Chr48 16257006 16259462 +
Lja Lja2g2483 Chr2 31693807 31696695 -
Mal Mal6g3137 Chr6 91682096 91686770 -
Mepo Mepo7g01057 Chr7 16100628 16105801 +
Mesa Mesa22g02572 Chr22 67999654 68009269 -
Mibi Mibi01g3263 Chr01 57727852 57730530 +
Mtr Mtr6g1690 Chr6 31333644 31338067 -
Phac Phac4g01662 Chr4 43861252 43866099 -
Prci Prci14g1989 Chr14 27440722 27443629 +
Pste Pste9g01278 Chr9 11251111 11254506 -
Pte Pte9g00258 Chr9 2909423 2913132 +
Pumo Pumo6g02730 Chr6 65585897 65588397 -
Pvu Pvu4g1354 Chr4 40354210 40359015 -
Rops Rops5g00694 Chr5 12280714 12283225 +
Seca Seca10g04287 Chr10 97195201 97197997 -
Spst Spst4g03048 Chr4 69854109 69856549 +
Sto Sto10g2600 Chr10 36279393 36282072 -
Tpr Tpr2g4498 Chr2 49517234 49521445 -
Trre Trre11g01560 Chr11 15244075 15247748 -
Tsu Tsu06g03317 Chr06 44103051 44107260 -
Vian Vian8g01194 Chr8 30604402 30608790 -
Vifa Vifa1g03947 Chr1 605405866 605408351 +
Vimu Vimu8g01903 Chr8 24669182 24672164 +
Viun Viun4g02377 Chr4 39198868 39202144 -
Vivi Vivi2g05660 Chr2 184901048 184903956 -
Vra Vra1g0898 Chr1 10443872 10447139 +
Vvi Vvi16g0678 Chr16 13816501 13816713 -