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
Vvi19g1320 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01095 Bva07g01454 . . . . . . . . . . . . . . . . . . . . . . Lal2g0677 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1321 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g3239 . . . . . . . Mtr3g1738 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1322 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g3237 . . . . . . . Mtr3g1740 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g3705 . . . Tsu03g00853 . . . . . . . . . . . . .
Vvi19g1323 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g1486 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1324 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1325 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1326 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1327 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1328 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1329 . . . . Adu07g02097 . . . . . . . . . . . . . . . Arst7g02664 . . . . . Bva09g01109 Bva07g01449 . . . . . . . . . . . . Gma08g01546 . . . Gso8g1399 . . . Lal9g0587 . Lal2g0674 Lal20g0472 . Lal11g1530 . . . . . . . . Lasa1g04614 . . . . . . . . . Lja3g3940 . . . . . . . . . . . . . Phco10g00615 Phco9g01899 . . . Psa1g0151 Pste3g01863 . Pte17g00202 . Pte1g01173 . . . Pvu5g0622 Pvu11g1792 . . . . Spst5g01693 Spst11g00485 . . . . . . . . . . . . . . Vimu4g01726 . . . . Vivi7g00388 . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1320 Chr19 22135840 22136448 +
Bva Bva09g01095 Chr09 5625717 5626530 +
Bva Bva07g01454 Chr07 14597822 14598695 -
Lal Lal2g0677 Chr2 4118111 4118707 -
Vvi Vvi19g1321 Chr19 22137647 22139255 -
Mal Mal2g3239 Chr2 46959501 46967841 +
Mtr Mtr3g1738 Chr3 29775939 29781764 -
Vvi Vvi19g1322 Chr19 22143585 22145090 -
Mal Mal2g3237 Chr2 46909077 46913438 +
Mtr Mtr3g1740 Chr3 29805103 29810327 -
Tpr Tpr3g3705 Chr3 41262478 41266959 +
Tsu Tsu03g00853 Chr03 7803989 7810161 +
Vvi Vvi19g1323 Chr19 22155094 22156601 -
Mtr Mtr8g1486 Chr8 19314117 19317890 +
Vvi Vvi19g1324 Chr19 22163257 22164693 -
Vvi Vvi19g1325 Chr19 22201655 22201861 -
Vvi Vvi19g1326 Chr19 22215008 22227868 +
Vvi Vvi19g1327 Chr19 22233245 22233463 -
Vvi Vvi19g1328 Chr19 22249604 22257340 +
Vvi Vvi19g1329 Chr19 22279157 22279552 +
Adu Adu07g02097 Chr07 69240985 69241748 +
Arst Arst7g02664 Chr7 68093329 68094232 +
Bva Bva09g01109 Chr09 5773304 5774074 +
Bva Bva07g01449 Chr07 14576957 14577642 -
Gma Gma08g01546 Chr08 13623178 13623843 -
Gso Gso8g1399 Chr8 13439693 13440611 -
Lal Lal9g0587 Chr9 3962790 3963170 -
Lal Lal2g0674 Chr2 4080561 4080929 -
Lal Lal20g0472 Chr20 3889383 3890369 +
Lal Lal11g1530 Chr11 18434904 18435323 +
Lasa Lasa1g04614 Chr1 758679894 758680322 -
Lja Lja3g3940 Chr3 77614018 77614911 +
Phco Phco10g00615 Chr10 6897795 6898208 -
Phco Phco9g01899 Chr9 43677480 43677851 +
Psa Psa1g0151 Chr1 9926308 9927365 -
Pste Pste3g01863 Chr3 12419776 12420183 -
Pte Pte17g00202 Chr17 2566052 2567211 +
Pte Pte1g01173 Chr1 32236040 32237564 +
Pvu Pvu5g0622 Chr5 8332463 8333547 -
Pvu Pvu11g1792 Chr11 44465565 44466394 +
Spst Spst5g01693 Chr5 52082360 52082773 -
Spst Spst11g00485 Chr11 26612468 26612839 -
Vimu Vimu4g01726 Chr4 18755902 18757383 +
Vivi Vivi7g00388 Chr7 22814918 22815388 +