Hierarchical alignments with the P. vulgaris 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 Pvu Acco Accr Adu Aed Aev Ahy_1 Ahy_2 Aip Alju Amo_1 Amo_2 Apr Arst Bach Bisa Bva Car Cca Dere Dod Enph Glsi Gma_1 Gma_2 Gso_1 Gso_2 Lal_1 Lal_2 Lal_3 Lan_1 Lan_2 Lan_3 Lapu Lasa Lele_1 Lele_2 Lele_3 Lele_4 Lja Mal Mepo Mesa Mibi Mtr Phac Phco Prci Psa Pste Pumo Rops Seca Spst Ssu Sto Tpr Trre Tsu Vian Vifa Vimu Viun Vivi Vra
Pvu11g1538 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01671 . . . . . . . . . . . . . . Vimu5g00418 . . Vra2g1328
Pvu11g1539 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu08g02166 . . . . . .
Pvu11g1540 Acco13g0004 . Adu03g01818 . . . Ahy3g1669 Aip03g02154 Alju13g2176 . . . . . Bisa02g0546 . . . Dere14g1318 . . Glsi13g2003 . . . . . . . . . . . . Lele17g1569 Lele18g0003 Lele19g0003 . Lja3g2453 . . . Mibi13g0004 . . Phco9g01673 . . . . . . . . Sto4g2943 . . . . . Vimu5g00417 . . Vra2g1326
Pvu11g1541 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g2452 . . . . . . Phco9g01674 . . . . . . . . . . . . . . Vimu5g00416 . . Vra2g1325
Pvu11g1542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1543 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lan13g0568 . . . . . . Lja3g2451 . . . . . . . . . . . . . . . . . . . . . . . . Vra2g1324
Pvu11g1544 . . . . . . . . . . Amo03g0075 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01677 . . . . . . . . . Tpr7g2116 . Tsu08g02119 . . . . . .
Pvu11g1545 . . . . Aev10g1421 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01679 . . Pste1g03958 . . . . . . . . . . . . . . Vra2g1190
Pvu11g1546 . . . . . . Ahy13g1936 . . . . . Arst7g03114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1547 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lan13g0571 . . . . . . . . . . . . . Phco9g01681 . . Pste1g03957 . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu11g1538 Chr11 38627524 38628994 -
Phco Phco9g01671 Chr9 39425586 39426470 -
Vimu Vimu5g00418 Chr5 3979525 3980409 -
Vra Vra2g1328 Chr2 21163415 21164722 -
Pvu Pvu11g1539 Chr11 38645005 38647505 +
Tsu Tsu08g02166 Chr08 29430526 29431312 +
Pvu Pvu11g1540 Chr11 38650631 38654259 -
Acco Acco13g0004 Chr13 47685 62180 -
Adu Adu03g01818 Chr03 31322352 31325766 +
Ahy Ahy3g1669 Chr3 32014839 32019850 +
Aip Aip03g02154 Chr03 32234667 32238114 +
Alju Alju13g2176 Chr13 38710959 38714274 +
Bisa Bisa02g0546 Chr02 9453114 9456952 +
Dere Dere14g1318 Chr14 13261709 13266971 -
Glsi Glsi13g2003 Chr13 35464459 35468761 -
Lele Lele17g1569 Chr17 24029443 24038298 +
Lele Lele18g0003 Chr18 36496 45408 -
Lele Lele19g0003 Chr19 28809 35857 -
Lja Lja3g2453 Chr3 30561938 30567046 +
Mibi Mibi13g0004 Chr13 116777 122001 -
Phco Phco9g01673 Chr9 39439846 39452735 -
Sto Sto4g2943 Chr4 29851104 29856190 +
Vimu Vimu5g00417 Chr5 3962062 3969448 +
Vra Vra2g1326 Chr2 21133358 21145272 +
Pvu Pvu11g1541 Chr11 38664695 38665422 +
Lja Lja3g2452 Chr3 30384031 30384760 -
Phco Phco9g01674 Chr9 39456775 39456981 +
Vimu Vimu5g00416 Chr5 3945995 3946789 -
Vra Vra2g1325 Chr2 21116295 21116791 -
Pvu Pvu11g1542 Chr11 38735815 38736420 +
Pvu Pvu11g1543 Chr11 38763831 38767471 +
Lan Lan13g0568 Chr13 4437738 4441327 -
Lja Lja3g2451 Chr3 30339635 30343292 -
Vra Vra2g1324 Chr2 21083118 21086601 -
Pvu Pvu11g1544 Chr11 38803654 38810880 +
Amo Amo03g0075 Chr03 1525874 1532260 -
Phco Phco9g01677 Chr9 39568674 39575574 +
Tpr Tpr7g2116 Chr7 27166588 27170087 -
Tsu Tsu08g02119 Chr08 28665848 28671649 +
Pvu Pvu11g1545 Chr11 38889759 38892592 -
Aev Aev10g1421 Chr10 17559015 17568039 +
Phco Phco9g01679 Chr9 39611568 39613962 -
Pste Pste1g03958 Chr1 20726002 20728815 +
Vra Vra2g1190 Chr2 16026625 16029180 -
Pvu Pvu11g1546 Chr11 38921792 38923255 +
Ahy Ahy13g1936 Chr13 33403770 33404706 +
Arst Arst7g03114 Chr7 77372189 77375861 -
Pvu Pvu11g1547 Chr11 38957794 38968890 -
Lan Lan13g0571 Chr13 4467164 4472734 +
Phco Phco9g01681 Chr9 39643648 39660586 -
Pste Pste1g03957 Chr1 20716380 20723304 +
Lja Lja3g2451 Chr3 30339635 30343292 -