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
Vvi4g0594 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2878 . . . . . . . . . . . . . . . . . Psa6g0657 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0595 . . . . . . . . . Aev08g0562 . Ahy20g2058 . Aip10g02411 . . . Amo20g2639 . . . . . . . . . . . . . . . . . Dod09g1848 . . . . . . . . . . . . Lal21g0317 . . . Lal8g1570 . Lan3g1099 . . . Lan3g1099 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0656 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0596 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0597 . . . . . . . . Aev07g1206 . Ahy16g3167 . Aip06g03416 . . . Amo16g3688 . . . . . . . . . . . . . . . . . Dod08g1718 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0655 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0598 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0653 . . . . . . . . . . . . . . . . . . Sto5g0892 . . . . . . . . . . . . . . . . . . .
Vvi4g0599 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0600 Acco13g1005 . Accr12g00976 . . . . . . Aev08g0565 . Ahy20g2045 . Aip10g02404 Alju13g1152 . . . . . . . Bach2g01732 . Bisa02g0365 . Bva10g00415 . . . . . Dere14g0127 . . Dod09g1845 Enph5g0805 . Glsi13g0852 . . . . . . . . . . Lal4g0206 . Lal25g1039 . . . . . . . . Lapu9g00249 . . . Lele17g0709 Lele18g0812 Lele19g0847 Lele20g0611 . . . . Lja1g3913 . . . . . . . Mibi13g0973 . . . . . . . Prci9g1163 . . Psa6g0650 Pste2g00951 . Pte3g00517 . . . . . Pvu9g2161 . . . . . Spst9g02652 . . . . . . . . . . . . . . . Vimu10g00715 . . . . . . .
Vvi4g0601 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0602 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0603 . . . . . . . . . Aev08g0567 . Ahy20g2043 . Aip10g02401 . . . . . . . . . . . . . . . . . . . . . Dod09g1844 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g0718 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0594 Chr4 5725900 5739296 +
Lja Lja5g2878 Chr5 56597358 56603282 -
Psa Psa6g0657 Chr6 22283423 22286340 -
Vvi Vvi4g0595 Chr4 5740606 5743885 -
Aev Aev08g0562 Chr08 3225769 3228710 -
Ahy Ahy20g2058 Chr20 116106678 116110416 +
Aip Aip10g02411 Chr10 108830744 108834401 +
Amo Amo20g2639 Chr20 122675548 122679141 +
Dod Dod09g1848 Chr09 40072795 40075763 +
Lal Lal21g0317 Chr21 2119601 2125415 -
Lal Lal8g1570 Chr8 20024752 20028974 +
Lan Lan3g1099 Chr3 23337648 23342193 +
Lan Lan3g1099 Chr3 23337648 23342193 +
Psa Psa6g0656 Chr6 22279806 22282472 +
Vvi Vvi4g0596 Chr4 5775817 5775951 +
Vvi Vvi4g0597 Chr4 5783972 5809616 -
Aev Aev07g1206 Chr07 10654687 10660212 +
Ahy Ahy16g3167 Chr16 147958788 147965172 +
Aip Aip06g03416 Chr06 131044996 131050319 +
Amo Amo16g3688 Chr16 147851395 147857923 +
Dod Dod08g1718 Chr08 40878673 40884956 +
Psa Psa6g0655 Chr6 22259401 22264444 +
Vvi Vvi4g0598 Chr4 5819653 5849181 +
Psa Psa6g0653 Chr6 22173262 22180979 -
Sto Sto5g0892 Chr5 5974864 5982757 -
Vvi Vvi4g0599 Chr4 5851877 5852980 +
Vvi Vvi4g0600 Chr4 5879538 5887882 +
Acco Acco13g1005 Chr13 8163048 8166703 -
Accr Accr12g00976 Chr12 10250262 10254005 -
Aev Aev08g0565 Chr08 3264130 3267628 +
Ahy Ahy20g2045 Chr20 115601638 115605483 -
Aip Aip10g02404 Chr10 108351210 108354646 -
Alju Alju13g1152 Chr13 30284467 30288316 +
Bach Bach2g01732 Chr2 25749086 25752838 +
Bisa Bisa02g0365 Chr02 6271791 6276868 +
Bva Bva10g00415 Chr10 4420159 4423493 -
Dere Dere14g0127 Chr14 1398896 1403158 +
Dod Dod09g1845 Chr09 40012044 40016402 -
Enph Enph5g0805 Chr5 6610716 6615703 -
Glsi Glsi13g0852 Chr13 27020105 27024487 +
Lal Lal4g0206 Chr4 1287870 1291405 +
Lal Lal25g1039 Chr25 13773394 13784620 +
Lapu Lapu9g00249 Chr9 2419459 2426100 +
Lele Lele17g0709 Chr17 18856848 18860391 +
Lele Lele18g0812 Chr18 5096088 5099762 -
Lele Lele19g0847 Chr19 5122577 5126099 -
Lele Lele20g0611 Chr20 13432102 13435829 +
Lja Lja1g3913 Chr1 49459946 49464140 -
Mibi Mibi13g0973 Chr13 12372346 12376389 -
Prci Prci9g1163 Chr9 25720469 25724607 +
Psa Psa6g0650 Chr6 22063036 22066670 -
Pste Pste2g00951 Chr2 10129169 10136397 +
Pte Pte3g00517 Chr3 4067108 4070137 -
Pvu Pvu9g2161 Chr9 30970361 30976280 +
Spst Spst9g02652 Chr9 60594539 60599389 +
Vimu Vimu10g00715 Chr10 6208924 6213981 -
Vvi Vvi4g0601 Chr4 5890837 5891235 -
Vvi Vvi4g0602 Chr4 5897184 5897582 -
Vvi Vvi4g0603 Chr4 5905223 5929924 +
Aev Aev08g0567 Chr08 3271231 3276365 +
Ahy Ahy20g2043 Chr20 115533843 115540538 -
Aip Aip10g02401 Chr10 108284463 108290588 -
Dod Dod09g1844 Chr09 39999114 40007505 -
Psa Psa5g0718 Chr5 57302981 57319244 -
Acco Acco13g1005 Chr13 8163048 8166703 -
Accr Accr12g00976 Chr12 10250262 10254005 -
Alju Alju13g1152 Chr13 30284467 30288316 +
Bach Bach2g01732 Chr2 25749086 25752838 +
Bisa Bisa02g0365 Chr02 6271791 6276868 +
Dere Dere14g0127 Chr14 1398896 1403158 +
Enph Enph5g0805 Chr5 6610716 6615703 -
Glsi Glsi13g0852 Chr13 27020105 27024487 +
Lapu Lapu9g00249 Chr9 2419459 2426100 +
Lele Lele17g0709 Chr17 18856848 18860391 +
Lele Lele18g0812 Chr18 5096088 5099762 -
Lele Lele19g0847 Chr19 5122577 5126099 -
Lele Lele20g0611 Chr20 13432102 13435829 +
Mibi Mibi13g0973 Chr13 12372346 12376389 -
Prci Prci9g1163 Chr9 25720469 25724607 +
Pste Pste2g00951 Chr2 10129169 10136397 +
Pte Pte3g00517 Chr3 4067108 4070137 -
Pte Pte3g00517 Chr3 4067108 4070137 -
Pvu Pvu9g2161 Chr9 30970361 30976280 +
Spst Spst9g02652 Chr9 60594539 60599389 +
Vimu Vimu10g00715 Chr10 6208924 6213981 -