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
Vvi17g0053 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0055 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0056 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma05g01984 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0058 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0059 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0060 . . . . . . . . . . . . . . . . . . Apr1g0326 Apr2g1144 . . . . . . Bva06g01544 . . Car05g02621 Cca03g00293 Cca09g02375 . . . . . . . . Gma06g01481 Gma08g00091 Gma05g01986 . Gso6g1405 Gso6g1405 Gso6g1405 . Lal19g1011 Lal7g0864 Lal14g1434 . . . Lan1g1488 Lan1g1488 Lan1g1488 . . . . . . . . . . . . . . . . Lja4g0476 Mal7g4862 Mal2g1357 . . . . . . Mtr8g3398 Mtr3g3485 . . . . . . . Psa7g0879 . . . . . . . . . . . . . . . . Ssu1g2416 Ssu5g2984 . . Tpr3g0706 Tpr3g3294 . . Tsu02g00529 Tsu07g01162 . . . . . . . . . . . Vra7g3445
Vvi17g0061 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01543 Bva05g00212 . Car05g02622 . . . . . . . . . . . . . . . . . . . . . Lal17g0825 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0062 . . . . . Adu03g02869 Aed10g0780 Aed5g2230 Aev01g1979 . Ahy11g1641 . Aip01g01789 . . . Amo11g1796 . Apr1g0324 Apr2g1145 . Arst3g03789 . . . . Bva06g01541 Bva05g00213 . Car05g02624 Cca03g00296 Cca09g02377 . . Dod05g1575 . . . . . Gma06g01483 Gma08g00092 Gma05g00476 . Gso6g1407 Gso6g1407 Gso6g1407 . . Lal7g0866 . . . Lal21g0705 . . . . . . . Lapu3g03529 . . . . . . . . . . . Lja4g2455 . Mal2g1354 . . . . . . . Mtr3g3487 . . . Phco4g03224 . . . . . Pste3g01215 . . . . . . . Pvu2g2919 . . . Seca12g06412 . Spst3g01170 Ssu1g2414 Ssu5g2986 . . . Tpr3g3296 . . . Tsu07g01159 . . . Vifa2g03403 . Vimu11g04332 . Viun3g00662 . . . Vra7g3446
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja4g0476 Chr4 3900860 3902745 +
Mal Mal7g4862 Chr7 117148443 117149692 -
Mtr Mtr8g3398 Chr8 44493630 44495075 -
Psa Psa7g0879 Chr7 66029800 66031305 -
Tpr Tpr3g0706 Chr3 6815542 6817264 +
Tsu Tsu02g00529 Chr02 4483614 4485316 +
Gma Gma05g00476 Chr05 4522558 4527133 +
Lja Lja4g2455 Chr4 28648382 28653401 +
Vvi Vvi17g0053 Chr17 443228 443585 +
Vvi Vvi17g0054 Chr17 443980 451657 -
Vvi Vvi17g0055 Chr17 455532 455699 +
Vvi Vvi17g0056 Chr17 467822 476354 +
Gma Gma05g01984 Chr05 41188436 41192393 +
Vvi Vvi17g0057 Chr17 479152 483524 +
Vvi Vvi17g0058 Chr17 493210 501940 +
Vvi Vvi17g0059 Chr17 502998 504060 -
Vvi Vvi17g0060 Chr17 507624 508606 -
Apr Apr1g0326 Chr1 3924418 3925850 +
Apr Apr2g1144 Chr2 17699982 17701408 -
Bva Bva06g01544 Chr06 11078150 11079564 +
Car Car05g02621 Chr05 71253764 71254872 -
Cca Cca03g00293 Chr03 4417713 4419722 -
Cca Cca09g02375 Chr09 49096328 49098704 -
Gma Gma06g01481 Chr06 14225383 14227098 -
Gma Gma08g00091 Chr08 776051 777794 -
Gma Gma05g01986 Chr05 41196995 41198872 -
Gso Gso6g1405 Chr6 13946256 13947995 -
Gso Gso6g1405 Chr6 13946256 13947995 -
Gso Gso6g1405 Chr6 13946256 13947995 -
Lal Lal19g1011 Chr19 13974574 13976692 -
Lal Lal7g0864 Chr7 15201668 15203828 -
Lal Lal14g1434 Chr14 15554391 15556209 -
Lan Lan1g1488 Chr1 25024806 25026806 +
Lan Lan1g1488 Chr1 25024806 25026806 +
Lan Lan1g1488 Chr1 25024806 25026806 +
Lja Lja4g0476 Chr4 3900860 3902745 +
Mal Mal7g4862 Chr7 117148443 117149692 -
Mal Mal2g1357 Chr2 16288097 16289106 +
Mtr Mtr8g3398 Chr8 44493630 44495075 -
Mtr Mtr3g3485 Chr3 48728058 48729345 -
Psa Psa7g0879 Chr7 66029800 66031305 -
Ssu Ssu1g2416 Chr1 67430494 67431944 +
Ssu Ssu5g2984 Chr5 76788747 76790687 -
Tpr Tpr3g0706 Chr3 6815542 6817264 +
Tpr Tpr3g3294 Chr3 36271230 36272751 -
Tsu Tsu02g00529 Chr02 4483614 4485316 +
Tsu Tsu07g01162 Chr07 9921988 9922927 +
Vra Vra7g3445 Chr7 53773846 53775075 -
Vvi Vvi17g0061 Chr17 514389 514559 +
Bva Bva06g01543 Chr06 11073713 11074952 -
Bva Bva05g00212 Chr05 1057526 1058650 +
Car Car05g02622 Chr05 71256922 71258659 +
Lal Lal17g0825 Chr17 6117102 6118844 +
Vvi Vvi17g0062 Chr17 515636 519444 -
Adu Adu03g02869 Chr03 108897652 108899753 +
Aed Aed10g0780 Chr10 6452547 6458698 -
Aed Aed5g2230 Chr5 24300903 24304284 -
Aev Aev01g1979 Chr01 24520965 24522785 +
Ahy Ahy11g1641 Chr11 87572168 87576047 +
Aip Aip01g01789 Chr01 80996129 80997925 +
Amo Amo11g1796 Chr11 86495331 86497913 +
Apr Apr1g0324 Chr1 3909499 3913582 +
Apr Apr2g1145 Chr2 17714777 17723348 -
Arst Arst3g03789 Chr3 107623445 107625460 +
Bva Bva06g01541 Chr06 11068113 11072369 +
Bva Bva05g00213 Chr05 1058923 1064773 -
Car Car05g02624 Chr05 71261097 71264723 -
Cca Cca03g00296 Chr03 4454833 4459603 -
Cca Cca09g02377 Chr09 49114422 49119310 -
Dod Dod05g1575 Chr05 40725188 40728821 +
Gma Gma06g01483 Chr06 14239385 14245268 -
Gma Gma08g00092 Chr08 783249 786915 -
Gma Gma05g00476 Chr05 4522558 4527133 +
Gso Gso6g1407 Chr6 13959340 13965182 -
Gso Gso6g1407 Chr6 13959340 13965182 -
Gso Gso6g1407 Chr6 13959340 13965182 -
Lal Lal7g0866 Chr7 15208473 15212298 -
Lal Lal21g0705 Chr21 5638509 5642637 -
Lapu Lapu3g03529 Chr3 58680294 58684831 -
Lja Lja4g2455 Chr4 28648382 28653401 +
Mal Mal2g1354 Chr2 16277634 16280617 +
Mtr Mtr3g3487 Chr3 48739529 48743346 -
Phco Phco4g03224 Chr4 52909340 52913392 -
Pste Pste3g01215 Chr3 7738725 7741632 +
Pvu Pvu2g2919 Chr2 44718969 44723448 -
Seca Seca12g06412 Chr12 156125228 156130513 -
Spst Spst3g01170 Chr3 15245105 15248367 +
Ssu Ssu1g2414 Chr1 67403816 67408713 +
Ssu Ssu5g2986 Chr5 76844371 76849538 -
Tpr Tpr3g3296 Chr3 36278634 36282351 -
Tsu Tsu07g01159 Chr07 9907590 9911193 +
Vifa Vifa2g03403 Chr2 980031632 980033617 -
Vimu Vimu11g04332 Chr11 64643853 64647811 -
Viun Viun3g00662 Chr3 4069867 4073885 +
Vra Vra7g3446 Chr7 53786170 53790468 -
Aev Aev01g1979 Chr01 24520965 24522785 +
Ahy Ahy11g1641 Chr11 87572168 87576047 +
Aip Aip01g01789 Chr01 80996129 80997925 +
Amo Amo11g1796 Chr11 86495331 86497913 +
Dod Dod05g1575 Chr05 40725188 40728821 +