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
Vvi3g0333 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0334 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0335 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0336 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0337 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0338 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2373 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0339 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0012 . . . . . . . . . . . . . . . . . .
Vvi3g0340 . . . . . Adu01g00855 . . . . Ahy20g0082 . Aip10g00076 . . . . . . . . Arst1g01165 . Bach10g00686 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco8g00324 . . . . . . . . . Pte12g00563 . . . Pvu3g2783 . . . . . Spst3g03714 . . . . . . . . . . . . . . . Vimu11g00876 . . . Vivi1g03249 . .
Vvi3g0341 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0342 . Acco12g0318 . Accr10g01693 . Adu01g00870 . . . . Ahy20g0077 . Aip10g00071 . . Alju12g1766 . . . . . Arst1g01175 . . . . . . . . . . . Dere13g0822 . . . Enph14g0832 . Glsi09g0730 . . . . . . . . . . . . . . . . . . . . . . . Lasa4g02036 . . . . . . . . . . . . . Mepo1g02252 . . . Mibi10g1702 . . . . . Phco8g00319 . Prci5g2146 . Psa2g3377 . Pste7g01976 . . . . . . . Pvu3g2788 . . . . . . . . . . . . . . . . . . . . . Vimu7g03199 . . . Vivi1g03256 . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0333 Chr3 2766406 2771200 -
Vvi Vvi3g0334 Chr3 2772318 2778369 -
Vvi Vvi3g0335 Chr3 2799982 2801628 -
Vvi Vvi3g0336 Chr3 2812534 2814381 +
Vvi Vvi3g0337 Chr3 2814533 2815054 -
Vvi Vvi3g0338 Chr3 2822364 2823398 -
Lja Lja1g2373 Chr1 27408553 27409477 -
Vvi Vvi3g0339 Chr3 2833989 2846646 +
Sto Sto10g0012 Chr10 101845 109816 +
Vvi Vvi3g0340 Chr3 2857356 2858636 -
Adu Adu01g00855 Chr01 11453103 11454380 -
Ahy Ahy20g0082 Chr20 678947 680161 +
Aip Aip10g00076 Chr10 696269 697533 +
Arst Arst1g01165 Chr1 11450327 11451604 -
Bach Bach10g00686 Chr10 4834978 4836246 +
Phco Phco8g00324 Chr8 3009876 3016975 -
Pte Pte12g00563 Chr12 5029724 5032024 -
Pvu Pvu3g2783 Chr3 49644856 49646433 +
Spst Spst3g03714 Chr3 87170707 87171957 -
Vimu Vimu11g00876 Chr11 9027236 9028480 +
Vivi Vivi1g03249 Chr1 70613013 70614830 -
Vvi Vvi3g0341 Chr3 2864534 2865862 +
Vvi Vvi3g0342 Chr3 2868608 2872367 +
Acco Acco12g0318 Chr12 2750449 2763548 +
Accr Accr10g01693 Chr10 40973846 40976141 -
Adu Adu01g00870 Chr01 11555342 11560429 +
Ahy Ahy20g0077 Chr20 632606 634005 -
Aip Aip10g00071 Chr10 653894 656263 -
Alju Alju12g1766 Chr12 38786202 38792140 -
Arst Arst1g01175 Chr1 11552536 11557768 +
Dere Dere13g0822 Chr13 10191747 10195829 +
Enph Enph14g0832 Chr14 10228108 10233448 +
Glsi Glsi09g0730 Chr09 4996414 5001153 +
Lasa Lasa4g02036 Chr4 415470457 415473848 +
Mepo Mepo1g02252 Chr1 23153930 23158457 +
Mibi Mibi10g1702 Chr10 38251493 38256529 -
Phco Phco8g00319 Chr8 2969290 2973280 -
Prci Prci5g2146 Chr5 38821484 38826814 -
Psa Psa2g3377 Chr2 378848008 378852226 +
Pste Pste7g01976 Chr7 18022827 18026787 +
Pvu Pvu3g2788 Chr3 49677600 49682587 +
Vimu Vimu7g03199 Chr7 27050956 27054976 +
Vivi Vivi1g03256 Chr1 70786483 70790784 +
Pte Pte12g00563 Chr12 5029724 5032024 -
Spst Spst3g03714 Chr3 87170707 87171957 -
Psa Psa2g3377 Chr2 378848008 378852226 +
Vimu Vimu7g03199 Chr7 27050956 27054976 +