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
Vvi4g0704 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0705 Acco10g1923 . Accr4g00864 . Adu10g01904 . Aed4g1712 . . Aev08g0531 . Ahy20g2112 . Aip10g02486 Alju08g0878 . . Amo20g2726 . . Arst10g02427 . Bach12g00431 . Bisa09g1105 . Bva10g00469 Bva06g02311 Car05g02895 Car04g03248 Cca03g01648 . Dere04g0478 . . Dod09g1886 Enph1g1322 . Glsi08g1678 . . . Gma04g00545 Gma06g00536 . . . . Lal21g0293 . Lal17g0188 . . . Lan3g1121 . Lan3g1121 . . . Lapu9g01965 . Lasa5g03962 . Lele01g0697 Lele02g0683 Lele03g0694 Lele04g0699 . . . . Lja1g3965 Lja5g2931 Mal2g0968 . Mepo3g07356 . Mesa9g04903 . Mibi05g0794 . Mtr3g3841 Mtr1g0307 . . Phco7g00665 . Prci8g0069 . . . Pste2g01474 . Pte3g01271 Pte1g02425 . . Pumo10g00181 . Pvu9g0876 . Rops10g01330 . Seca4g01116 . Spst9g00687 . Ssu1g3552 . . Sto9g3378 Tpr7g0723 Tpr1g3484 Trre5g05093 . Tsu07g00729 Tsu01g00608 Vian4g02060 . Vifa2g03895 . Vimu10g03054 . Viun9g03187 . Vivi3g01478 . Vra5g1317 .
Vvi4g0706 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0707 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0708 . . . . Adu10g01906 . Aed4g1711 Aed6g1236 . Aev08g0530 . Ahy20g2113 . Aip10g02489 . . . Amo20g2728 . Apr9g0243 Arst10g02428 . Bach12g00430 . . . Bva10g00470 Bva06g02310 Car05g02894 . Cca03g01649 Cca05g00445 . . . Dod09g1887 . . . . . . Gma04g00544 Gma06g00535 . . . . Lal21g0292 Lal4g0191 Lal17g0187 . . . . . . . . . Lapu9g01966 . Lasa5g03961 . . . . . . . . . Lja1g3967 Lja5g2932 Mal2g0978 . Mepo3g07355 . Mesa9g04901 . . . Mtr3g3839 . . . Phco7g00664 . . . . . . . Pte3g01270 Pte1g02426 . . Pumo10g00182 . Pvu9g0875 . Rops10g01329 . Seca4g01118 . Spst9g00686 . Ssu1g3553 Ssu5g0493 . . Tpr7g0725 . Trre5g05092 . Tsu07g00730 . Vian4g02061 . Vifa2g03890 . Vimu10g03055 . Viun9g03188 . Vivi3g01479 . Vra5g1318 .
Vvi4g0709 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0710 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0711 Acco10g1921 . Accr4g00866 . . . Aed4g1710 . . Aev08g0529 . Ahy20g2114 . Aip10g02491 Alju08g0881 . . Amo20g2729 . . Arst10g02429 . Bach12g00429 . Bisa09g1102 . Bva10g00471 Bva06g02309 Car05g02893 . Cca03g01650 . Dere04g0475 . . Dod09g1888 Enph1g1320 . Glsi08g1679 . . . . . . . . . . Lal4g0190 Lal17g0186 . . . . . . . . . Lapu9g01967 . Lasa5g03958 . Lele01g0699 Lele02g0685 Lele03g0697 Lele04g0702 . . . . Lja1g3970 . Mal2g0979 . Mepo3g07354 . Mesa9g04900 . Mibi05g0796 . Mtr3g3838 . . . Phco7g00663 . Prci8g0071 . . . Pste2g01468 . Pte3g01269 . . . Pumo10g00183 . Pvu9g0874 . . . Seca4g01120 . Spst9g00683 . Ssu1g3554 . . Sto9g3381 Tpr7g0726 . Trre5g05091 . Tsu07g00733 . Vian4g02062 . Vifa2g03889 . Vimu10g03058 . Viun9g03189 . Vivi3g01480 . Vra5g1319 .
Vvi4g0712 . . . . . . . . . . . . . . . . . . . Apr9g0244 . . . . . . Bva10g00472 . Car05g02891 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0713 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0704 Chr4 7664432 7664905 +
Vvi Vvi4g0705 Chr4 7669873 7671263 -
Acco Acco10g1923 Chr10 32058518 32059588 +
Accr Accr4g00864 Chr4 8188637 8189701 -
Adu Adu10g01904 Chr10 86519701 86521065 -
Aed Aed4g1712 Chr4 21559153 21574856 +
Aev Aev08g0531 Chr08 3015315 3016407 +
Ahy Ahy20g2112 Chr20 118305146 118306781 -
Aip Aip10g02486 Chr10 110938315 110939904 -
Alju Alju08g0878 Chr08 6673446 6674516 -
Amo Amo20g2726 Chr20 125267495 125269711 -
Arst Arst10g02427 Chr10 85436869 85438229 -
Bach Bach12g00431 Chr12 2923313 2924420 +
Bisa Bisa09g1105 Chr09 16047097 16048174 +
Bva Bva10g00469 Chr10 4711561 4713006 -
Bva Bva06g02311 Chr06 14975644 14977268 +
Car Car05g02895 Chr05 73928344 73930005 +
Car Car04g03248 Chr04 60890005 60892013 -
Cca Cca03g01648 Chr03 35527277 35529139 -
Dere Dere04g0478 Chr04 4799005 4800484 +
Dod Dod09g1886 Chr09 40427034 40428934 -
Enph Enph1g1322 Chr1 38915536 38917354 +
Glsi Glsi08g1678 Chr08 11978374 11982316 -
Gma Gma04g00545 Chr04 4907149 4908187 +
Gma Gma06g00536 Chr06 4756484 4757998 +
Lal Lal21g0293 Chr21 1956434 1957904 +
Lal Lal17g0188 Chr17 1157658 1162659 +
Lan Lan3g1121 Chr3 23542384 23543715 -
Lan Lan3g1121 Chr3 23542384 23543715 -
Lapu Lapu9g01965 Chr9 34487109 34489594 -
Lasa Lasa5g03962 Chr5 614178741 614179725 +
Lele Lele01g0697 Chr01 4098537 4105360 -
Lele Lele02g0683 Chr02 4111513 4112575 -
Lele Lele03g0694 Chr03 4109278 4110340 -
Lele Lele04g0699 Chr04 4249275 4250337 -
Lja Lja1g3965 Chr1 50323674 50324964 -
Lja Lja5g2931 Chr5 57679541 57681114 -
Mal Mal2g0968 Chr2 11269416 11270900 -
Mepo Mepo3g07356 Chr3 87013641 87014982 +
Mesa Mesa9g04903 Chr9 83404148 83405126 +
Mibi Mibi05g0794 Chr05 7482999 7484413 -
Mtr Mtr3g3841 Chr3 52211752 52212994 +
Mtr Mtr1g0307 Chr1 3491268 3492702 -
Phco Phco7g00665 Chr7 5084094 5085142 +
Prci Prci8g0069 Chr8 424169 425510 -
Pste Pste2g01474 Chr2 16058718 16060447 +
Pte Pte3g01271 Chr3 10872942 10874978 +
Pte Pte1g02425 Chr1 44875200 44877316 -
Pumo Pumo10g00181 Chr10 2531264 2532659 -
Pvu Pvu9g0876 Chr9 13478326 13479707 +
Rops Rops10g01330 Chr10 26016869 26018009 +
Seca Seca4g01116 Chr4 17832896 17834200 -
Spst Spst9g00687 Chr9 5929433 5930482 +
Ssu Ssu1g3552 Chr1 90449364 90450388 -
Sto Sto9g3378 Chr9 33558942 33560032 -
Tpr Tpr7g0723 Chr7 6401341 6403336 -
Tpr Tpr1g3484 Chr1 39060998 39062367 -
Trre Trre5g05093 Chr5 52274147 52275097 +
Tsu Tsu07g00729 Chr07 5956238 5957999 -
Tsu Tsu01g00608 Chr01 5337504 5339025 +
Vian Vian4g02060 Chr4 37401870 37402919 -
Vifa Vifa2g03895 Chr2 1138492474 1138493453 +
Vimu Vimu10g03054 Chr10 41448407 41449439 -
Viun Viun9g03187 Chr9 39124538 39126001 -
Vivi Vivi3g01478 Chr3 24439535 24440745 -
Vra Vra5g1317 Chr5 20065125 20066630 -
Vvi Vvi4g0706 Chr4 7698369 7698578 +
Vvi Vvi4g0707 Chr4 7704892 7722816 -
Vvi Vvi4g0708 Chr4 7736972 7737487 -
Adu Adu10g01906 Chr10 86577391 86578107 -
Aed Aed4g1711 Chr4 21554715 21555227 +
Aed Aed6g1236 Chr6 17147843 17148352 +
Aev Aev08g0530 Chr08 3012856 3013383 +
Ahy Ahy20g2113 Chr20 118320655 118321492 -
Aip Aip10g02489 Chr10 110952381 110953132 -
Amo Amo20g2728 Chr20 125283362 125284154 -
Apr Apr9g0243 Chr9 3123604 3124183 -
Arst Arst10g02428 Chr10 85494571 85495234 -
Bach Bach12g00430 Chr12 2919424 2920371 +
Bva Bva10g00470 Chr10 4716060 4716909 -
Bva Bva06g02310 Chr06 14971464 14972187 +
Car Car05g02894 Chr05 73918225 73918909 +
Cca Cca03g01649 Chr03 35532529 35533273 -
Cca Cca05g00445 Chr05 9694960 9695867 -
Dod Dod09g1887 Chr09 40435641 40436764 -
Gma Gma04g00544 Chr04 4899556 4900266 +
Gma Gma06g00535 Chr06 4748415 4749174 +
Lal Lal21g0292 Chr21 1952947 1953342 +
Lal Lal4g0191 Chr4 1181501 1181980 +
Lal Lal17g0187 Chr17 1153723 1154208 +
Lapu Lapu9g01966 Chr9 34500217 34501085 -
Lasa Lasa5g03961 Chr5 614002852 614003307 +
Lja Lja1g3967 Chr1 50339031 50339866 -
Lja Lja5g2932 Chr5 57686310 57686690 -
Mal Mal2g0978 Chr2 11446136 11448714 -
Mepo Mepo3g07355 Chr3 87006465 87007296 +
Mesa Mesa9g04901 Chr9 83388131 83388604 +
Mtr Mtr3g3839 Chr3 52202068 52202800 +
Phco Phco7g00664 Chr7 5077216 5077719 +
Pte Pte3g01270 Chr3 10867315 10868185 +
Pte Pte1g02426 Chr1 44881413 44883142 -
Pumo Pumo10g00182 Chr10 2539427 2540395 -
Pvu Pvu9g0875 Chr9 13463741 13464601 +
Rops Rops10g01329 Chr10 26002842 26003547 +
Seca Seca4g01118 Chr4 17897463 17897951 -
Spst Spst9g00686 Chr9 5926032 5929236 +
Ssu Ssu1g3553 Chr1 90469673 90470182 -
Ssu Ssu5g0493 Chr5 10405471 10405848 -
Tpr Tpr7g0725 Chr7 6414930 6415623 -
Trre Trre5g05092 Chr5 52259245 52259709 +
Tsu Tsu07g00730 Chr07 5968526 5968927 -
Vian Vian4g02061 Chr4 37423458 37423931 -
Vifa Vifa2g03890 Chr2 1138338585 1138339034 +
Vimu Vimu10g03055 Chr10 41451711 41465854 -
Viun Viun9g03188 Chr9 39131519 39132358 -
Vivi Vivi3g01479 Chr3 24464697 24465442 -
Vra Vra5g1318 Chr5 20074278 20075232 -
Vvi Vvi4g0709 Chr4 7748680 7749042 +
Vvi Vvi4g0710 Chr4 7749153 7758340 +
Vvi Vvi4g0711 Chr4 7769962 7808931 +
Acco Acco10g1921 Chr10 32039235 32042802 -
Accr Accr4g00866 Chr4 8199859 8203424 +
Aed Aed4g1710 Chr4 21541508 21546831 -
Aev Aev08g0529 Chr08 3001436 3004750 -
Ahy Ahy20g2114 Chr20 118354675 118358237 +
Aip Aip10g02491 Chr10 110986648 110990205 +
Alju Alju08g0881 Chr08 6691036 6694570 +
Amo Amo20g2729 Chr20 125317455 125320995 +
Arst Arst10g02429 Chr10 85531394 85532219 +
Bach Bach12g00429 Chr12 2910539 2914393 -
Bisa Bisa09g1102 Chr09 16010424 16016096 -
Bva Bva10g00471 Chr10 4721533 4725406 +
Bva Bva06g02309 Chr06 14964180 14967732 -
Car Car05g02893 Chr05 73887035 73892531 -
Cca Cca03g01650 Chr03 35548713 35557317 +
Dere Dere04g0475 Chr04 4782284 4786488 -
Dod Dod09g1888 Chr09 40449151 40454869 +
Enph Enph1g1320 Chr1 38899312 38903753 -
Glsi Glsi08g1679 Chr08 11986615 11991580 +
Lal Lal4g0190 Chr4 1173498 1178290 -
Lal Lal17g0186 Chr17 1138290 1146402 -
Lapu Lapu9g01967 Chr9 34505808 34513842 +
Lasa Lasa5g03958 Chr5 613706193 613711073 -
Lele Lele01g0699 Chr01 4115163 4119021 +
Lele Lele02g0685 Chr02 4115851 4119370 +
Lele Lele03g0697 Chr03 4121588 4125429 +
Lele Lele04g0702 Chr04 4255072 4258443 +
Lja Lja1g3970 Chr1 50372266 50378164 +
Mal Mal2g0979 Chr2 11547087 11552439 +
Mepo Mepo3g07354 Chr3 86989858 86995746 -
Mesa Mesa9g04900 Chr9 83370920 83376670 -
Mibi Mibi05g0796 Chr05 7510046 7513997 +
Mtr Mtr3g3838 Chr3 52184700 52190651 -
Phco Phco7g00663 Chr7 5063597 5071803 -
Prci Prci8g0071 Chr8 437700 441790 +
Pste Pste2g01468 Chr2 15982536 15994710 -
Pte Pte3g01269 Chr3 10857944 10862321 -
Pumo Pumo10g00183 Chr10 2552292 2558974 +
Pvu Pvu9g0874 Chr9 13451154 13459204 -
Seca Seca4g01120 Chr4 17999479 18005775 +
Spst Spst9g00683 Chr9 5912818 5919602 -
Ssu Ssu1g3554 Chr1 90503911 90510233 +
Sto Sto9g3381 Chr9 33567742 33571529 +
Tpr Tpr7g0726 Chr7 6426355 6432066 +
Trre Trre5g05091 Chr5 52235964 52242665 -
Tsu Tsu07g00733 Chr07 5997806 6003097 +
Vian Vian4g02062 Chr4 37424578 37439733 +
Vifa Vifa2g03889 Chr2 1136913883 1136918810 -
Vimu Vimu10g03058 Chr10 41480501 41481526 +
Viun Viun9g03189 Chr9 39138667 39146441 +
Vivi Vivi3g01480 Chr3 24504533 24509410 +
Vra Vra5g1319 Chr5 20084770 20092893 +
Vvi Vvi4g0712 Chr4 7856758 7859906 +
Apr Apr9g0244 Chr9 3157542 3161660 +
Bva Bva10g00472 Chr10 4727922 4731337 +
Car Car05g02891 Chr05 73864092 73867876 -
Vvi Vvi4g0713 Chr4 7866048 7866410 -