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
Vvi4g0624 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0625 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0626 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0627 . . . . Adu03g02405 . . . . . . . . . . . . . . . Arst3g03225 . Bach2g01759 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g00273 . . . . . . . . . . . . . . . Mepo6g02127 . . . . . . . Phac9g03188 . Phco7g02529 . . . . . Pste2g01011 . Pte3g00496 . . . . . Pvu9g2190 . . . . . Spst9g02409 . . . . . . . Trre3g03280 . . . . . . . Vimu10g00671 . . . Vivi4g01215 . . .
Vvi4g0628 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0629 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal8g1568 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0639 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0630 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0631 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca05g00748 . . . . . . . . Gma14g00951 Gma17g02116 . . Gso14g0904 Gso14g0904 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00494 . . . Psa6g0638 . Pste8g00315 . . . . . . . Pvu1g0432 . . . . . Spst8g01857 . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0632 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0633 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0624 Chr4 6284550 6286042 +
Vvi Vvi4g0625 Chr4 6286454 6286723 +
Vvi Vvi4g0626 Chr4 6327029 6327610 +
Vvi Vvi4g0627 Chr4 6370154 6380258 +
Adu Adu03g02405 Chr03 62001003 62004719 +
Arst Arst3g03225 Chr3 63216589 63220662 +
Bach Bach2g01759 Chr2 25917126 25920202 +
Lapu Lapu9g00273 Chr9 2669638 2674100 +
Mepo Mepo6g02127 Chr6 25373244 25377782 -
Phac Phac9g03188 Chr9 31405052 31415271 +
Phco Phco7g02529 Chr7 44106932 44110598 +
Pste Pste2g01011 Chr2 10742745 10747812 +
Pte Pte3g00496 Chr3 3938628 3942093 -
Pvu Pvu9g2190 Chr9 31453794 31457916 +
Spst Spst9g02409 Chr9 57022236 57031886 +
Trre Trre3g03280 Chr3 40982093 40986660 -
Vimu Vimu10g00671 Chr10 5747018 5750617 -
Vivi Vivi4g01215 Chr4 38474219 38477816 -
Vvi Vvi4g0628 Chr4 6381596 6389416 -
Vvi Vvi4g0629 Chr4 6390858 6400947 -
Lal Lal8g1568 Chr8 20009684 20015893 +
Psa Psa6g0639 Chr6 21677889 21681736 +
Vvi Vvi4g0630 Chr4 6409348 6414408 -
Vvi Vvi4g0631 Chr4 6416674 6424321 -
Cca Cca05g00748 Chr05 20702553 20708774 -
Gma Gma14g00951 Chr14 11024233 11026768 -
Gma Gma17g02116 Chr17 38618707 38624296 +
Gso Gso14g0904 Chr14 10984862 10985960 -
Gso Gso14g0904 Chr14 10984862 10985960 -
Phco Phco2g00494 Chr2 4533223 4537928 -
Psa Psa6g0638 Chr6 21656360 21661391 +
Pste Pste8g00315 Chr8 1691609 1694923 +
Pvu Pvu1g0432 Chr1 4407412 4412002 -
Spst Spst8g01857 Chr8 22713124 22717240 +
Vvi Vvi4g0632 Chr4 6429028 6430173 -
Vvi Vvi4g0633 Chr4 6435577 6447007 +
Gma Gma17g02116 Chr17 38618707 38624296 +
Adu Adu03g02405 Chr03 62001003 62004719 +
Arst Arst3g03225 Chr3 63216589 63220662 +
Bach Bach2g01759 Chr2 25917126 25920202 +
Lapu Lapu9g00273 Chr9 2669638 2674100 +
Mepo Mepo6g02127 Chr6 25373244 25377782 -
Phac Phac9g03188 Chr9 31405052 31415271 +
Phco Phco7g02529 Chr7 44106932 44110598 +
Pste Pste2g01011 Chr2 10742745 10747812 +
Pte Pte3g00496 Chr3 3938628 3942093 -
Pvu Pvu9g2190 Chr9 31453794 31457916 +
Spst Spst9g02409 Chr9 57022236 57031886 +
Trre Trre3g03280 Chr3 40982093 40986660 -
Vimu Vimu10g00671 Chr10 5747018 5750617 -
Vivi Vivi4g01215 Chr4 38474219 38477816 -
Adu Adu03g02405 Chr03 62001003 62004719 +
Arst Arst3g03225 Chr3 63216589 63220662 +
Bach Bach2g01759 Chr2 25917126 25920202 +
Lapu Lapu9g00273 Chr9 2669638 2674100 +
Mepo Mepo6g02127 Chr6 25373244 25377782 -
Phac Phac9g03188 Chr9 31405052 31415271 +
Phco Phco7g02529 Chr7 44106932 44110598 +
Pste Pste2g01011 Chr2 10742745 10747812 +
Pte Pte3g00496 Chr3 3938628 3942093 -
Pvu Pvu9g2190 Chr9 31453794 31457916 +
Spst Spst9g02409 Chr9 57022236 57031886 +
Trre Trre3g03280 Chr3 40982093 40986660 -
Vimu Vimu10g00671 Chr10 5747018 5750617 -
Vivi Vivi4g01215 Chr4 38474219 38477816 -
Spst Spst9g02409 Chr9 57022236 57031886 +