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
Vvi3g1003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1004 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g01116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3990 . . . . . . . . . . . . . . . . Psa7g2346 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1006 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal15g0549 . . . . . Lan18g0624 . . . . . . . . . . . . . . . . . . Lja4g3992 Mal7g3767 . . . . . . . Mtr4g3139 . . . . . . . Psa7g2345 . . . . . . . . . . . . . . . . . . . . . Tpr3g1686 . . . Tsu02g01658 . . . . . . . . . . . . .
Vvi3g1007 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1008 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g01114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1010 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3993 Mal7g3768 . . . . . . . Mtr4g3140 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g1684 . . . Tsu02g01656 . . . . . . . . . . . . .
Vvi3g1011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1012 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi3g1003 Chr3 11335813 11336655 -
Vvi Vvi3g1004 Chr3 11341077 11346309 +
Bva Bva14g01116 Chr14 5344012 5352435 +
Lja Lja4g3990 Chr4 72974437 72990933 -
Psa Psa7g2346 Chr7 167179448 167190326 -
Vvi Vvi3g1005 Chr3 11359880 11360865 -
Vvi Vvi3g1006 Chr3 11383713 11402018 +
Lal Lal15g0549 Chr15 3812125 3815878 +
Lan Lan18g0624 Chr18 11327813 11332218 -
Lja Lja4g3992 Chr4 73030221 73033615 -
Mal Mal7g3767 Chr7 103343459 103349012 -
Mtr Mtr4g3139 Chr4 44899549 44904151 -
Psa Psa7g2345 Chr7 167113215 167116799 -
Tpr Tpr3g1686 Chr3 15006313 15008365 +
Tsu Tsu02g01658 Chr02 14589800 14602852 +
Vvi Vvi3g1007 Chr3 11392608 11393075 -
Vvi Vvi3g1008 Chr3 11420640 11421187 +
Bva Bva14g01114 Chr14 5329745 5345286 +
Vvi Vvi3g1009 Chr3 11421788 11424852 +
Vvi Vvi3g1010 Chr3 11437388 11441895 +
Lja Lja4g3993 Chr4 73046703 73049331 -
Mal Mal7g3768 Chr7 103391586 103394776 -
Mtr Mtr4g3140 Chr4 44905003 44910777 -
Tpr Tpr3g1684 Chr3 14991396 14993855 +
Tsu Tsu02g01656 Chr02 14574515 14576264 +
Vvi Vvi3g1011 Chr3 11455226 11455462 -
Vvi Vvi3g1012 Chr3 11468536 11468835 +