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
Vvi3g0303 . . . . . Adu03g00777 . . . Aev05g0370 Ahy13g0997 Ahy15g0348 Aip03g01092 Aip05g00343 . . Amo13g1301 . . . . Arst3g00997 . . . . . . Car06g02112 . Cca04g00241 . . . Dod03g3361 Dod02g0395 . . . . . . . . . . . . Lal1g0102 Lal2g0055 . . . . Lan13g0121 Lan13g0121 . . . . . Lapu11g00939 . Lasa7g02420 . . . . . . . . . . Mal7g2858 . . Mepo2g02596 . . . . Mtr4g2348 . . . . Phco9g00300 . . Psa7g4100 . . Pste1g01032 . . . . . Pumo11g02052 . Pvu11g0257 . Rops3g00318 . Seca6g00513 . Spst2g02749 Ssu3g3067 . . . Tpr3g2589 . . Trre7g02448 Tsu02g02751 . . Vian5g01668 . Vifa6g01404 . Vimu5g02588 . Viun11g02707 . Vivi5g03124 Vra2g0248 .
Vvi3g0304 . . . . . Adu03g04512 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02600 . Lasa7g03915 . . . . . . . . . . . . . Mepo2g03841 . . . . . . . Phac2g02759 . Phco4g02053 . . Psa7g4103 . . Pste3g02693 . . . . . . . Pvu2g1816 . . . . . Spst3g00124 . . . . . . . . . . . . . . . Vimu11g01820 . . . . . .
Vvi3g0305 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0306 . . . . . . . . Aev04g3566 . Ahy13g0984 . Aip03g01068 . . . Amo13g1322 . . . . Arst3g00996 . . . . . . Car06g02113 . Cca04g00242 . . . Dod03g3360 . . . . . . . . . . . . . Lal1g0103 Lal2g0057 . . . . Lan13g0122 Lan13g0122 . . . . . Lapu11g00938 . Lasa7g02417 . . . . . . . . . . Mal7g2856 . . Mepo2g02595 . Mesa13g02413 . . Mtr4g2347 . . . . Phco9g00301 . . Psa7g4104 . . Pste1g01034 . . . . . Pumo11g02051 . Pvu11g0258 . Rops3g00319 . Seca6g00518 . Spst2g02748 Ssu3g3066 . . . Tpr3g2587 . . Trre7g02453 Tsu02g02745 . . Vian5g01667 . Vifa6g01405 . Vimu5g02587 . Viun11g02706 . Vivi5g03123 Vra2g0249 .
Vvi3g0307 . . . . . Adu03g00774 . . Aev04g3565 . Ahy13g0983 . Aip03g01067 . . . Amo13g1323 . . . . Arst3g00995 . . . . . . Car06g02114 . Cca04g00243 . . . Dod03g3359 . . . . . . . . . . . . . . Lal2g0058 . . . . . . . . . . . Lapu11g00937 . Lasa7g02416 . . . . . . . . . . Mal7g2855 . . Mepo2g02593 . Mesa13g02414 . . Mtr4g2346 . . . . Phco9g00302 . . Psa7g4105 . . Pste1g01037 . . . . . Pumo11g02050 . Pvu11g0259 . Rops3g00320 . . . Spst2g02746 Ssu3g3065 . . . Tpr3g2586 . . Trre7g02456 Tsu02g02743 . . Vian5g01666 . Vifa6g01407 . Vimu5g02585 . Viun11g02704 . Vivi5g03120 Vra2g0251 .
Vvi3g0308 . . . . . Adu03g00772 . . Aev04g3564 . Ahy13g0981 . Aip03g01064 . . . Amo13g1326 . . . . Arst3g00993 . . . . . . Car06g02115 . Cca04g00244 . . . Dod03g3358 . . . . . . . . . . . . . Lal1g0104 Lal2g0059 Lal9g0732 . . . Lan13g0123 Lan13g0123 Lan13g0123 . . . . Lapu11g00936 . Lasa7g02414 . . . . . . . . . . Mal7g2852 . . Mepo2g02591 . . . . Mtr4g2345 . . . . Phco9g00303 . . Psa7g4106 . . Pste1g01039 . . . . . Pumo11g02049 . Pvu11g0260 . Rops3g00322 . Seca6g00519 . Spst2g02745 Ssu3g3064 . . . Tpr3g2584 . . Trre7g02461 Tsu02g02739 . . Vian5g01665 . Vifa6g01409 . Vimu5g02584 . Viun11g02703 . Vivi5g03119 Vra2g0252 .
Vvi3g0309 . . . . . . . . . . Ahy13g0006 . Aip03g00008 . . . Amo13g5636 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu9g0186 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0310 Acco10g1316 . Accr4g01437 . Adu08g00173 . . . . . . . . . Alju08g1496 . . . . . . . . . Bisa09g2081 . . . . . . . Dere04g0060 . . . Enph1g1037 . Glsi08g2061 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo3g07836 . . . Mibi05g1388 . . . . . Phco7g00265 . Prci8g0730 . . . . . . . . . . . Pvu9g0188 . Rops10g02483 . . . . . . . . . . . . . . . Vian4g02408 . Vifa2g00442 . . . Viun9g03693 . . . . .
Vvi3g0311 . . . . . . Aed5g0326 . . . . . . . . . . . . Apr5g1853 . . . . . . . . . . Cca04g00354 . . . . . . . . . . . . Gma12g00310 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2383 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g2936 . . . . . . . . . . . . . . . . . . . Vra2g0350 .
Vvi3g0312 . . . . . . . . . . . . . . . . . . . Apr5g1878 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g04512 Chr03 134496626 134499762 +
Lapu Lapu3g02600 Chr3 48344710 48346909 -
Lasa Lasa7g03915 Chr7 625484839 625486930 +
Mepo Mepo2g03841 Chr2 47626440 47629678 +
Phac Phac2g02759 Chr2 29157551 29159480 -
Phco Phco4g02053 Chr4 40705035 40707074 -
Pste Pste3g02693 Chr3 19811763 19813623 +
Pvu Pvu2g1816 Chr2 32724650 32726691 -
Spst Spst3g00124 Chr3 2205615 2207519 +
Vimu Vimu11g01820 Chr11 25245841 25247922 +
Apr Apr5g1853 Chr5 21654908 21658022 +
Gma Gma12g00310 Chr12 2516327 2519945 +
Lja Lja1g2383 Chr1 27537223 27541826 +
Vvi Vvi3g0303 Chr3 2545483 2548797 +
Adu Adu03g00777 Chr03 7325677 7330586 -
Aev Aev05g0370 Chr05 2603864 2607871 +
Ahy Ahy13g0997 Chr13 10915645 10921108 -
Ahy Ahy15g0348 Chr15 4110621 4113792 -
Aip Aip03g01092 Chr03 10586165 10590804 -
Aip Aip05g00343 Chr05 3813410 3816802 -
Amo Amo13g1301 Chr13 17010929 17016303 +
Arst Arst3g00997 Chr3 7408942 7413652 -
Car Car06g02112 Chr06 21580980 21584699 +
Cca Cca04g00241 Chr04 2372854 2376161 +
Dod Dod03g3361 Chr03 66221990 66227318 -
Dod Dod02g0395 Chr02 5317526 5322073 +
Lal Lal1g0102 Chr1 693418 700146 +
Lal Lal2g0055 Chr2 329300 333150 +
Lan Lan13g0121 Chr13 715679 718309 +
Lan Lan13g0121 Chr13 715679 718309 +
Lapu Lapu11g00939 Chr11 11852020 11855924 -
Lasa Lasa7g02420 Chr7 521758878 521760727 +
Mal Mal7g2858 Chr7 91114053 91118238 -
Mepo Mepo2g02596 Chr2 35609873 35614155 -
Mtr Mtr4g2348 Chr4 36956107 36960392 -
Phco Phco9g00300 Chr9 2062659 2065667 +
Psa Psa7g4100 Chr7 335767156 335768977 -
Pste Pste1g01032 Chr1 3311444 3314216 +
Pumo Pumo11g02052 Chr11 52534167 52538072 -
Pvu Pvu11g0257 Chr11 2097740 2101663 +
Rops Rops3g00318 Chr3 4065099 4069679 +
Seca Seca6g00513 Chr6 15397727 15403236 +
Spst Spst2g02749 Chr2 27226105 27229058 -
Ssu Ssu3g3067 Chr3 86203025 86207406 -
Tpr Tpr3g2589 Chr3 25029099 25032428 -
Trre Trre7g02448 Chr7 20124368 20126064 +
Tsu Tsu02g02751 Chr02 29232489 29235994 -
Vian Vian5g01668 Chr5 39091914 39094943 -
Vifa Vifa6g01404 Chr6 511693065 511695002 +
Vimu Vimu5g02588 Chr5 36097883 36103438 -
Viun Viun11g02707 Chr11 39708562 39711780 -
Vivi Vivi5g03124 Chr5 120131281 120135810 -
Vra Vra2g0248 Chr2 1924715 1928029 +
Vvi Vvi3g0304 Chr3 2563386 2565520 +
Adu Adu03g04512 Chr03 134496626 134499762 +
Lapu Lapu3g02600 Chr3 48344710 48346909 -
Lasa Lasa7g03915 Chr7 625484839 625486930 +
Mepo Mepo2g03841 Chr2 47626440 47629678 +
Phac Phac2g02759 Chr2 29157551 29159480 -
Phco Phco4g02053 Chr4 40705035 40707074 -
Psa Psa7g4103 Chr7 335840644 335842818 +
Pste Pste3g02693 Chr3 19811763 19813623 +
Pvu Pvu2g1816 Chr2 32724650 32726691 -
Spst Spst3g00124 Chr3 2205615 2207519 +
Vimu Vimu11g01820 Chr11 25245841 25247922 +
Vvi Vvi3g0305 Chr3 2566980 2567627 +
Vvi Vvi3g0306 Chr3 2570317 2571239 -
Aev Aev04g3566 Chr04 33622267 33625793 +
Ahy Ahy13g0984 Chr13 10853772 10857070 +
Aip Aip03g01068 Chr03 10527082 10530366 +
Amo Amo13g1322 Chr13 17629497 17632657 -
Arst Arst3g00996 Chr3 7307107 7310391 +
Car Car06g02113 Chr06 21592170 21596466 -
Cca Cca04g00242 Chr04 2379401 2381629 -
Dod Dod03g3360 Chr03 66217680 66220838 +
Lal Lal1g0103 Chr1 693422 700146 -
Lal Lal2g0057 Chr2 334871 337052 -
Lan Lan13g0122 Chr13 718465 721014 -
Lan Lan13g0122 Chr13 718465 721014 -
Lapu Lapu11g00938 Chr11 11846527 11849044 +
Lasa Lasa7g02417 Chr7 521594845 521598694 +
Mal Mal7g2856 Chr7 91093261 91097680 +
Mepo Mepo2g02595 Chr2 35599415 35603333 +
Mesa Mesa13g02413 Chr13 28303344 28308152 -
Mtr Mtr4g2347 Chr4 36939082 36944960 +
Phco Phco9g00301 Chr9 2069638 2071512 -
Psa Psa7g4104 Chr7 335955172 335957964 -
Pste Pste1g01034 Chr1 3318960 3322373 -
Pumo Pumo11g02051 Chr11 52527635 52531435 +
Pvu Pvu11g0258 Chr11 2105832 2108061 -
Rops Rops3g00319 Chr3 4074770 4080184 -
Seca Seca6g00518 Chr6 15583488 15589334 -
Spst Spst2g02748 Chr2 27215030 27217830 +
Ssu Ssu3g3066 Chr3 86194100 86195180 +
Tpr Tpr3g2587 Chr3 25004585 25007848 +
Trre Trre7g02453 Chr7 20170090 20174039 -
Tsu Tsu02g02745 Chr02 29131028 29138155 +
Vian Vian5g01667 Chr5 39084898 39088809 +
Vifa Vifa6g01405 Chr6 512520508 512527786 -
Vimu Vimu5g02587 Chr5 36092891 36094770 +
Viun Viun11g02706 Chr11 39702122 39704476 +
Vivi Vivi5g03123 Chr5 120074036 120080932 +
Vra Vra2g0249 Chr2 1931364 1933590 -
Vvi Vvi3g0307 Chr3 2574883 2576004 -
Adu Adu03g00774 Chr03 7281663 7282755 +
Aev Aev04g3565 Chr04 33619276 33620415 +
Ahy Ahy13g0983 Chr13 10848716 10850194 +
Aip Aip03g01067 Chr03 10523692 10525233 +
Amo Amo13g1323 Chr13 17647698 17648828 -
Arst Arst3g00995 Chr3 7291569 7292904 +
Car Car06g02114 Chr06 21602565 21604388 -
Cca Cca04g00243 Chr04 2395938 2397432 -
Dod Dod03g3359 Chr03 66214821 66216537 +
Lal Lal2g0058 Chr2 338203 339482 -
Lapu Lapu11g00937 Chr11 11841033 11842443 +
Lasa Lasa7g02416 Chr7 521580651 521581793 +
Mal Mal7g2855 Chr7 91058753 91059919 +
Mepo Mepo2g02593 Chr2 35591216 35592376 +
Mesa Mesa13g02414 Chr13 28315450 28316610 -
Mtr Mtr4g2346 Chr4 36931982 36933427 +
Phco Phco9g00302 Chr9 2074610 2077941 -
Psa Psa7g4105 Chr7 336048492 336050090 -
Pste Pste1g01037 Chr1 3332497 3333612 -
Pumo Pumo11g02050 Chr11 52521605 52522750 +
Pvu Pvu11g0259 Chr11 2112554 2114278 -
Rops Rops3g00320 Chr3 4082622 4084043 -
Spst Spst2g02746 Chr2 27210478 27211602 +
Ssu Ssu3g3065 Chr3 86181529 86182662 +
Tpr Tpr3g2586 Chr3 24996676 24998346 +
Trre Trre7g02456 Chr7 20205714 20206889 -
Tsu Tsu02g02743 Chr02 29121689 29123048 +
Vian Vian5g01666 Chr5 39079419 39080549 +
Vifa Vifa6g01407 Chr6 513015938 513017083 -
Vimu Vimu5g02585 Chr5 36087196 36089401 +
Viun Viun11g02704 Chr11 39698477 39700110 +
Vivi Vivi5g03120 Chr5 120019936 120021280 -
Vra Vra2g0251 Chr2 1952816 1954171 -
Vvi Vvi3g0308 Chr3 2582160 2584929 +
Adu Adu03g00772 Chr03 7256784 7261052 -
Aev Aev04g3564 Chr04 33610574 33615366 -
Ahy Ahy13g0981 Chr13 10807706 10811908 -
Aip Aip03g01064 Chr03 10497558 10501822 -
Amo Amo13g1326 Chr13 17669449 17674147 +
Arst Arst3g00993 Chr3 7267025 7271120 -
Car Car06g02115 Chr06 21613458 21618222 +
Cca Cca04g00244 Chr04 2402655 2407857 +
Dod Dod03g3358 Chr03 66204641 66209447 -
Lal Lal1g0104 Chr1 701637 705620 +
Lal Lal2g0059 Chr2 340195 343647 +
Lal Lal9g0732 Chr9 5076734 5081157 +
Lan Lan13g0123 Chr13 724888 728442 +
Lan Lan13g0123 Chr13 724888 728442 +
Lan Lan13g0123 Chr13 724888 728442 +
Lapu Lapu11g00936 Chr11 11834955 11838998 -
Lasa Lasa7g02414 Chr7 521559696 521563264 -
Mal Mal7g2852 Chr7 91034489 91038644 -
Mepo Mepo2g02591 Chr2 35564659 35568628 -
Mtr Mtr4g2345 Chr4 36917455 36921571 -
Phco Phco9g00303 Chr9 2078324 2081464 +
Psa Psa7g4106 Chr7 336125000 336129276 +
Pste Pste1g01039 Chr1 3341939 3347058 +
Pumo Pumo11g02049 Chr11 52512272 52516562 -
Pvu Pvu11g0260 Chr11 2116069 2120231 +
Rops Rops3g00322 Chr3 4094490 4098497 +
Seca Seca6g00519 Chr6 15633031 15637683 +
Spst Spst2g02745 Chr2 27205052 27208524 -
Ssu Ssu3g3064 Chr3 86169391 86174530 -
Tpr Tpr3g2584 Chr3 24969159 24974828 -
Trre Trre7g02461 Chr7 20276949 20281760 +
Tsu Tsu02g02739 Chr02 29049060 29055074 -
Vian Vian5g01665 Chr5 39073820 39077146 -
Vifa Vifa6g01409 Chr6 514436376 514439807 +
Vimu Vimu5g02584 Chr5 36082927 36086180 -
Viun Viun11g02703 Chr11 39693205 39696749 -
Vivi Vivi5g03119 Chr5 119996572 120000597 -
Vra Vra2g0252 Chr2 1956325 1959933 +
Vvi Vvi3g0309 Chr3 2585954 2587664 +
Ahy Ahy13g0006 Chr13 104418 106375 +
Aip Aip03g00008 Chr03 99122 100538 +
Amo Amo13g5636 Chr13 158238637 158239822 -
Pvu Pvu9g0186 Chr9 3221224 3230232 +
Vvi Vvi3g0310 Chr3 2588819 2591048 +
Acco Acco10g1316 Chr10 27044849 27047541 +
Accr Accr4g01437 Chr4 14462762 14464890 -
Adu Adu08g00173 Chr08 2700737 2705645 +
Alju Alju08g1496 Chr08 11626444 11628522 -
Bisa Bisa09g2081 Chr09 33351111 33351397 +
Dere Dere04g0060 Chr04 688587 690430 -
Enph Enph1g1037 Chr1 36576901 36579486 -
Glsi Glsi08g2061 Chr08 14473042 14475876 +
Mepo Mepo3g07836 Chr3 91441513 91444774 -
Mibi Mibi05g1388 Chr05 16466052 16468667 -
Phco Phco7g00265 Chr7 1842801 1844785 -
Prci Prci8g0730 Chr8 4686280 4690079 -
Pvu Pvu9g0188 Chr9 3316110 3318492 +
Rops Rops10g02483 Chr10 43385934 43390666 +
Vian Vian4g02408 Chr4 40743849 40747133 +
Vifa Vifa2g00442 Chr2 75197048 75198719 -
Viun Viun9g03693 Chr9 42158263 42161675 +
Vvi Vvi3g0311 Chr3 2591511 2593945 -
Aed Aed5g0326 Chr5 2239189 2241846 +
Apr Apr5g1853 Chr5 21654908 21658022 +
Cca Cca04g00354 Chr04 3451349 3462008 +
Gma Gma12g00310 Chr12 2516327 2519945 +
Lja Lja1g2383 Chr1 27537223 27541826 +
Ssu Ssu3g2936 Chr3 84348583 84351030 -
Vra Vra2g0350 Chr2 2684648 2687499 +
Vvi Vvi3g0312 Chr3 2596195 2599972 -
Apr Apr5g1878 Chr5 21834448 21837676 +
Ahy Ahy13g0006 Chr13 104418 106375 +
Aip Aip03g00008 Chr03 99122 100538 +
Amo Amo13g5636 Chr13 158238637 158239822 -