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
Vvi4g0104 . . . . . . . . . Aev08g0465 . Ahy17g3160 . Aip07g03431 . . . . . . . . . . . . . . . . . . . . . Dod08g1901 . . . . Gma14g00871 . . . Gso14g0846 . . . . . . Lal25g0627 . . . . . . . . . . . . . . . . . . . . . . Mal2g1060 . . . . . . . Mtr3g3773 . . . . . . . . Psa6g0878 . . . . . . . . . . . . . . . . . . . . . . . . Tsu07g00809 . . . . . . . . . . . . .
Vvi4g0105 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma14g00866 . . . Gso14g0841 . . . . . . . Lal8g0841 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0107 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0108 . . . . . . . . . Aev08g0463 . Ahy17g3161 . Aip07g03432 . . . . . . . . . . . . . Bva06g02238 . . . Cca05g00831 . . . Dod08g1903 . . . . Gma14g00865 . . . Gso14g0840 . . . Lal21g0266 . Lal17g0152 . . . Lan3g1150 . Lan3g1150 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0410 . . . . . . . . . . . . . . . . . . . .
Vvi4g0109 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0110 . . . . . . . . . . . Ahy20g2183 . Aip10g02571 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0908 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0111 . . . . . . . . . Aev08g0462 . Ahy17g3162 . Aip07g03434 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g1064 . . . . . . . Mtr3g3771 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0798 . . . Tsu07g00811 . . . . . . . . . . . . .
Vvi4g0112 . . . . . . . . . . . Ahy17g3163 . Aip07g03435 . . . . . . . . . . . . . . . . . . . . . Dod08g1904 . . . . . . . . . . . . . . . . Lal8g0842 . . . . . . . . . . . . . . . . . . . . . Mal2g1065 . . . . . . . Mtr3g3770 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0799 . . . Tsu07g00812 . . . . . . . . . . . . .
Vvi4g0113 . . . . . . . Aed6g1310 . . . . . . . . . . . . . . . . . . . . . . . Cca05g00830 . . . . . . . . Gma14g00864 . . . Gso14g0839 . . . . . . . Lal8g0843 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra6g1727
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0104 Chr4 961854 971341 +
Aev Aev08g0465 Chr08 2617480 2620776 -
Ahy Ahy17g3160 Chr17 133409911 133415429 +
Aip Aip07g03431 Chr07 124148220 124153942 +
Dod Dod08g1901 Chr08 45516370 45520623 +
Gma Gma14g00871 Chr14 9384660 9391407 -
Gso Gso14g0846 Chr14 9328474 9335586 -
Lal Lal25g0627 Chr25 4812286 4818334 -
Mal Mal2g1060 Chr2 12335969 12340491 +
Mtr Mtr3g3773 Chr3 51583623 51589375 -
Psa Psa6g0878 Chr6 31621433 31631347 -
Tsu Tsu07g00809 Chr07 6629889 6635321 +
Vvi Vvi4g0105 Chr4 973293 978039 +
Gma Gma14g00866 Chr14 9321802 9325433 -
Gso Gso14g0841 Chr14 9262516 9267345 -
Lal Lal8g0841 Chr8 6106065 6109636 +
Vvi Vvi4g0106 Chr4 979154 980824 -
Vvi Vvi4g0107 Chr4 982375 986690 -
Vvi Vvi4g0108 Chr4 991937 993280 +
Aev Aev08g0463 Chr08 2605582 2606937 -
Ahy Ahy17g3161 Chr17 133415533 133418749 +
Aip Aip07g03432 Chr07 124155032 124156911 +
Bva Bva06g02238 Chr06 14631436 14633065 -
Cca Cca05g00831 Chr05 22862622 22865893 -
Dod Dod08g1903 Chr08 45539326 45544138 +
Gma Gma14g00865 Chr14 9303229 9304575 -
Gso Gso14g0840 Chr14 9246328 9248486 -
Lal Lal21g0266 Chr21 1771545 1772909 -
Lal Lal17g0152 Chr17 936117 937481 -
Lan Lan3g1150 Chr3 23789325 23791204 +
Lan Lan3g1150 Chr3 23789325 23791204 +
Ssu Ssu5g0410 Chr5 8549954 8551297 -
Vvi Vvi4g0109 Chr4 996291 996836 +
Vvi Vvi4g0110 Chr4 998252 1000178 -
Ahy Ahy20g2183 Chr20 120816163 120817855 +
Aip Aip10g02571 Chr10 113349747 113351439 +
Psa Psa6g0908 Chr6 34165701 34168958 -
Vvi Vvi4g0111 Chr4 1005517 1006314 -
Aev Aev08g0462 Chr08 2601366 2602154 +
Ahy Ahy17g3162 Chr17 133425664 133427072 -
Aip Aip07g03434 Chr07 124165632 124166420 -
Mal Mal2g1064 Chr2 12395671 12396453 -
Mtr Mtr3g3771 Chr3 51559463 51560697 +
Tpr Tpr7g0798 Chr7 7042863 7044047 -
Tsu Tsu07g00811 Chr07 6664923 6666148 -
Vvi Vvi4g0112 Chr4 1015630 1016584 -
Ahy Ahy17g3163 Chr17 133432292 133436086 -
Aip Aip07g03435 Chr07 124172232 124175009 -
Dod Dod08g1904 Chr08 45548724 45552824 -
Lal Lal8g0842 Chr8 6110814 6113848 -
Mal Mal2g1065 Chr2 12403630 12407680 -
Mtr Mtr3g3770 Chr3 51541713 51547303 +
Tpr Tpr7g0799 Chr7 7050734 7055470 -
Tsu Tsu07g00812 Chr07 6671195 6675725 -
Vvi Vvi4g0113 Chr4 1028936 1029670 -
Aed Aed6g1310 Chr6 17851031 17851915 -
Cca Cca05g00830 Chr05 22832088 22833476 +
Gma Gma14g00864 Chr14 9292493 9293976 +
Gso Gso14g0839 Chr14 9236296 9237764 +
Lal Lal8g0843 Chr8 6115973 6118030 -
Psa Psa6g0460 Chr6 15296576 15297661 -
Vra Vra6g1727 Chr6 33506634 33507846 -
Psa Psa6g0908 Chr6 34165701 34168958 -
Lal Lal25g0627 Chr25 4812286 4818334 -