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
Vvi1g1141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1142 . . . . . . . . . . Ahy15g1717 . Aip05g01833 . . Alju06g2734 . . . . . . . Bach10g01084 . Bisa08g1781 . Bva11g00939 . . . . . Dere03g0958 . . . Enph6g0733 . Glsi02g0887 . . . . . . . . . Lal22g0727 . . . . . . . . . . . Lapu3g01000 . Lasa4g03311 . . . . . Lele22g1897 . Lele24g1845 . . . . . Mepo1g01232 . . . Mibi09g0094 . . . Phac3g02877 . Phco8g01379 . Prci4g3084 Psa2g2873 . . Pste6g02620 . . Pte3g00431 . . Pumo4g01258 . Pvu3g1936 . Rops2g03854 . . . Spst3g04728 . . Sto11g0897 . . . . Trre15g04256 . . . Vian1g00803 . Vifa4g03403 . Vimu7g00827 . Viun3g04616 . Vivi1g01891 . .
Vvi1g1143 . . . . . . . . . . Ahy15g1716 . Aip05g01832 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal18g0907 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g2874 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1362 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1145 . . . . . . . . . . Ahy15g1942 . Aip05g02150 . . . Amo15g1025 . . . . . . . . . Bva01g01871 Bva11g00881 Car02g00882 . . . . . Dod02g1793 . . . . . Gma02g01123 . . . Gso2g1021 . . . Lal6g0757 Lal22g0667 . . . . Lan11g0767 Lan11g0767 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2900 . . . . . . . . . . . . . . . . . .
Vvi1g1146 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car02g00883 . . . . . . . . . . . . Gma01g00625 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g2555 . . . . . . . Mtr5g1862 . . . . . . . Psa2g2257 . . . . . . . . . . . . . . . . . . . . . Tpr2g2151 . . . Tsu05g02416 . . . . . . . . . . . . .
Vvi1g1147 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1148 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal18g0944 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1149 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1150 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car07g01953 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1141 Chr1 15296641 15296843 +
Vvi Vvi1g1142 Chr1 15304722 15307570 +
Ahy Ahy15g1717 Chr15 46269196 46271546 -
Aip Aip05g01833 Chr05 43628614 43638543 -
Alju Alju06g2734 Chr06 54337571 54339741 -
Bach Bach10g01084 Chr10 8011926 8013886 -
Bisa Bisa08g1781 Chr08 42477898 42479946 +
Bva Bva11g00939 Chr11 11448959 11450672 +
Dere Dere03g0958 Chr03 14687844 14691968 -
Enph Enph6g0733 Chr6 10326423 10327544 -
Glsi Glsi02g0887 Chr02 5658327 5659420 -
Lal Lal22g0727 Chr22 5205782 5208066 +
Lapu Lapu3g01000 Chr3 10740949 10743433 +
Lasa Lasa4g03311 Chr4 583338045 583338954 -
Lele Lele22g1897 Chr22 23761404 23764010 -
Lele Lele24g1845 Chr24 23360565 23362105 -
Mepo Mepo1g01232 Chr1 12076769 12078381 +
Mibi Mibi09g0094 Chr09 1449282 1450394 +
Phac Phac3g02877 Chr3 30527174 30529215 +
Phco Phco8g01379 Chr8 14310816 14319992 -
Prci Prci4g3084 Chr4 42284016 42285859 -
Psa Psa2g2873 Chr2 333761825 333764641 +
Pste Pste6g02620 Chr6 13597157 13600477 -
Pte Pte3g00431 Chr3 3516254 3517650 +
Pumo Pumo4g01258 Chr4 16073516 16076853 +
Pvu Pvu3g1936 Chr3 39953452 39955378 +
Rops Rops2g03854 Chr2 70872827 70880796 +
Spst Spst3g04728 Chr3 99041113 99041991 -
Sto Sto11g0897 Chr11 9555735 9557714 +
Trre Trre15g04256 Chr15 53232857 53233887 -
Vian Vian1g00803 Chr1 8391856 8392708 -
Vifa Vifa4g03403 Chr4 1062311110 1062311853 -
Vimu Vimu7g00827 Chr7 8175906 8177241 -
Viun Viun3g04616 Chr3 53682146 53683973 -
Vivi Vivi1g01891 Chr1 40074817 40076076 +
Vvi Vvi1g1143 Chr1 15309315 15323250 -
Ahy Ahy15g1716 Chr15 46261967 46267135 +
Aip Aip05g01832 Chr05 43623344 43626216 +
Lal Lal18g0907 Chr18 11731756 11743795 +
Psa Psa2g2874 Chr2 333768083 333772657 -
Vvi Vvi1g1144 Chr1 15343929 15346265 +
Lja Lja2g1362 Chr2 13028506 13030897 -
Vvi Vvi1g1145 Chr1 15387184 15409114 -
Ahy Ahy15g1942 Chr15 99805694 99811854 -
Aip Aip05g02150 Chr05 91967011 91973613 -
Amo Amo15g1025 Chr15 79898632 79904788 -
Bva Bva01g01871 Chr01 19161382 19165576 +
Bva Bva11g00881 Chr11 11134458 11138101 +
Car Car02g00882 Chr02 13679140 13683084 +
Dod Dod02g1793 Chr02 23397405 23413207 +
Gma Gma02g01123 Chr02 12302394 12307118 -
Gso Gso2g1021 Chr2 12101788 12107127 -
Lal Lal6g0757 Chr6 5059236 5070021 +
Lal Lal22g0667 Chr22 4727281 4732295 +
Lan Lan11g0767 Chr11 7052453 7062438 +
Lan Lan11g0767 Chr11 7052453 7062438 +
Sto Sto6g2900 Chr6 36199853 36210623 +
Vvi Vvi1g1146 Chr1 15443313 15464249 +
Car Car02g00883 Chr02 13695244 13704338 -
Gma Gma01g00625 Chr01 10264372 10293423 +
Mal Mal6g2555 Chr6 62539840 62550071 +
Mtr Mtr5g1862 Chr5 21065025 21073893 +
Psa Psa2g2257 Chr2 253561200 253568377 -
Tpr Tpr2g2151 Chr2 25735348 25743003 +
Tsu Tsu05g02416 Chr05 32290213 32297205 -
Vvi Vvi1g1147 Chr1 15479315 15480933 -
Vvi Vvi1g1148 Chr1 15492333 15495175 -
Lal Lal18g0944 Chr18 12314616 12318332 -
Vvi Vvi1g1149 Chr1 15497306 15497946 -
Vvi Vvi1g1150 Chr1 15551017 15555839 +
Car Car07g01953 Chr07 22450072 22453762 +
Alju Alju06g2734 Chr06 54337571 54339741 -
Bach Bach10g01084 Chr10 8011926 8013886 -
Bisa Bisa08g1781 Chr08 42477898 42479946 +
Dere Dere03g0958 Chr03 14687844 14691968 -
Enph Enph6g0733 Chr6 10326423 10327544 -
Glsi Glsi02g0887 Chr02 5658327 5659420 -
Lapu Lapu3g01000 Chr3 10740949 10743433 +
Lasa Lasa4g03311 Chr4 583338045 583338954 -
Lele Lele22g1897 Chr22 23761404 23764010 -
Lele Lele24g1845 Chr24 23360565 23362105 -
Mepo Mepo1g01232 Chr1 12076769 12078381 +
Mibi Mibi09g0094 Chr09 1449282 1450394 +
Phac Phac3g02877 Chr3 30527174 30529215 +
Phco Phco8g01379 Chr8 14310816 14319992 -
Prci Prci4g3084 Chr4 42284016 42285859 -
Pste Pste6g02620 Chr6 13597157 13600477 -
Pte Pte3g00431 Chr3 3516254 3517650 +
Pumo Pumo4g01258 Chr4 16073516 16076853 +
Pvu Pvu3g1936 Chr3 39953452 39955378 +
Rops Rops2g03854 Chr2 70872827 70880796 +
Spst Spst3g04728 Chr3 99041113 99041991 -
Trre Trre15g04256 Chr15 53232857 53233887 -
Vian Vian1g00803 Chr1 8391856 8392708 -
Vifa Vifa4g03403 Chr4 1062311110 1062311853 -
Vimu Vimu7g00827 Chr7 8175906 8177241 -
Viun Viun3g04616 Chr3 53682146 53683973 -
Vivi Vivi1g01891 Chr1 40074817 40076076 +