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
Vvi2g0922 . . . . . . Aed6g0114 . Aev05g0193 . Ahy15g0156 . Aip05g00155 . . . . . Apr7g1812 . . . . . . . Bva08g01100 Bva11g01329 . . Cca06g01042 . . . Dod02g0206 . . . . . Gma01g00094 Gma09g01958 . . Gso1g0090 Gso1g0090 . . Lal15g0369 Lal16g0426 . . . . Lan18g0799 Lan18g0799 . . . . . . . . . . . . . . . . Lja2g0775 . Mal6g0607 . . . . . . . Mtr5g1156 . . . . . . . Psa2g3188 . . . . . . . . . . . . . . . . . Ssu2g2013 . Sto6g4138 Sto11g1273 Tpr2g1400 . . . Tsu05g01153 . . . . . . . . . . . Vra11g1006 .
Vvi2g0923 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0924 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0925 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0926 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0927 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g4133 . . . . . . . . . . . . . . . . . . .
Vvi2g0928 . . . . . . Aed6g0113 . Aev05g0194 . Ahy15g0157 . Aip05g00157 . . . . . Apr7g1813 . . . . . . . Bva08g01096 . . . Cca06g01043 . . . Dod02g0208 . . . . . Gma01g00093 Gma09g01959 . . Gso1g0089 Gso1g0089 . . Lal15g0368 Lal16g0425 . . . . Lan18g0801 Lan18g0801 . . . . . . . . . . . . . . . . Lja2g0774 . Mal6g0606 . . . . . . . Mtr5g1155 . . . . . . . . Psa4g2582 . . . . . . . . . . . . . . . . Ssu2g2014 . . Sto11g1270 Tpr2g1399 . . . Tsu05g01152 . . . . . . . . . . . Vra11g1005 .
Vvi2g0929 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0930 . . . . . . Aed6g0112 . Aev05g0195 . Ahy15g0158 . Aip05g00158 . . . . . Apr7g1814 Apr3g0493 . . . . . . . Bva11g01332 . . Cca06g01044 . . . Dod02g0209 . . . . . Gma01g00092 Gma09g01960 . . Gso1g0088 Gso1g0088 . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0773 . . . . . . . . . Mtr5g1154 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g2015 . . . Tpr2g1397 . . . Tsu05g01148 . . . . . . . . . . . Vra11g1003 .
Vvi2g0931 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0922 Chr2 12236409 12239679 +
Aed Aed6g0114 Chr6 1047399 1051590 -
Aev Aev05g0193 Chr05 1484805 1487185 +
Ahy Ahy15g0156 Chr15 1901538 1906948 +
Aip Aip05g00155 Chr05 1763688 1771446 +
Apr Apr7g1812 Chr7 25491103 25494775 +
Bva Bva08g01100 Chr08 5613530 5616370 -
Bva Bva11g01329 Chr11 13539610 13542271 +
Cca Cca06g01042 Chr06 24375441 24379515 +
Dod Dod02g0206 Chr02 2808683 2812130 +
Gma Gma01g00094 Chr01 1024291 1028734 -
Gma Gma09g01958 Chr09 45212571 45217029 +
Gso Gso1g0090 Chr1 1019551 1023939 -
Gso Gso1g0090 Chr1 1019551 1023939 -
Lal Lal15g0369 Chr15 2494060 2497637 -
Lal Lal16g0426 Chr16 2582327 2585800 -
Lan Lan18g0799 Chr18 13423613 13430646 +
Lan Lan18g0799 Chr18 13423613 13430646 +
Lja Lja2g0775 Chr2 7054061 7056732 -
Mal Mal6g0607 Chr6 8119249 8122035 -
Mtr Mtr5g1156 Chr5 11504173 11507678 -
Psa Psa2g3188 Chr2 365151636 365154719 +
Ssu Ssu2g2013 Chr2 73463394 73467084 +
Sto Sto6g4138 Chr6 44774946 44776976 -
Sto Sto11g1273 Chr11 12479445 12482590 -
Tpr Tpr2g1400 Chr2 16357729 16361712 -
Tsu Tsu05g01153 Chr05 10115796 10119602 -
Vra Vra11g1006 Chr11 8991842 8995159 -
Vvi Vvi2g0923 Chr2 12310840 12329071 -
Vvi Vvi2g0924 Chr2 12445349 12445822 +
Vvi Vvi2g0925 Chr2 12528921 12529307 +
Vvi Vvi2g0926 Chr2 12530483 12531853 +
Vvi Vvi2g0927 Chr2 12671015 12671992 -
Sto Sto6g4133 Chr6 44748253 44750554 +
Vvi Vvi2g0928 Chr2 12679599 12696794 +
Aed Aed6g0113 Chr6 1035847 1042867 -
Aev Aev05g0194 Chr05 1493776 1500013 +
Ahy Ahy15g0157 Chr15 1913665 1919604 +
Aip Aip05g00157 Chr05 1787230 1790973 +
Apr Apr7g1813 Chr7 25501020 25508825 +
Bva Bva08g01096 Chr08 5596120 5600282 +
Cca Cca06g01043 Chr06 24394136 24402646 +
Dod Dod02g0208 Chr02 2830719 2838705 +
Gma Gma01g00093 Chr01 1012075 1019009 -
Gma Gma09g01959 Chr09 45221540 45227490 +
Gso Gso1g0089 Chr1 1007106 1014037 -
Gso Gso1g0089 Chr1 1007106 1014037 -
Lal Lal15g0368 Chr15 2482425 2488590 -
Lal Lal16g0425 Chr16 2572193 2578401 -
Lan Lan18g0801 Chr18 13444700 13453521 +
Lan Lan18g0801 Chr18 13444700 13453521 +
Lja Lja2g0774 Chr2 7040938 7047674 -
Mal Mal6g0606 Chr6 8097200 8103122 -
Mtr Mtr5g1155 Chr5 11487384 11493113 -
Psa Psa4g2582 Chr4 206448249 206453873 -
Ssu Ssu2g2014 Chr2 73478810 73486763 +
Sto Sto11g1270 Chr11 12454252 12460622 +
Tpr Tpr2g1399 Chr2 16344016 16350255 -
Tsu Tsu05g01152 Chr05 10103896 10109611 -
Vra Vra11g1005 Chr11 8950332 8957230 -
Vvi Vvi2g0929 Chr2 12702814 12703038 -
Vvi Vvi2g0930 Chr2 12710240 12715877 -
Aed Aed6g0112 Chr6 1031423 1034739 -
Aev Aev05g0195 Chr05 1500892 1504584 +
Ahy Ahy15g0158 Chr15 1924055 1927582 +
Aip Aip05g00158 Chr05 1794663 1798028 +
Apr Apr7g1814 Chr7 25511015 25515476 +
Apr Apr3g0493 Chr3 10235532 10255307 -
Bva Bva11g01332 Chr11 13550212 13554388 -
Cca Cca06g01044 Chr06 24403738 24408651 +
Dod Dod02g0209 Chr02 2842609 2846304 +
Gma Gma01g00092 Chr01 1003264 1009054 -
Gma Gma09g01960 Chr09 45230560 45244126 +
Gso Gso1g0088 Chr1 999449 1004919 -
Gso Gso1g0088 Chr1 999449 1004919 -
Lja Lja2g0773 Chr2 7032188 7036050 -
Mtr Mtr5g1154 Chr5 11483245 11487223 -
Ssu Ssu2g2015 Chr2 73491922 73496322 +
Tpr Tpr2g1397 Chr2 16332937 16335235 +
Tsu Tsu05g01148 Chr05 10063584 10065804 +
Vra Vra11g1003 Chr11 8936455 8942449 -
Vvi Vvi2g0931 Chr2 12756733 12764293 -