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
Pvu9g2008 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02328 . . . . . . . . . . . . . . . . . Vra1g1112
Pvu9g2009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02329 . . . . . . . . . . . . . . Vimu10g00947 . . Vra3g1137
Pvu9g2010 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02330 . . . . . . . . . . . . . . Vimu10g00945 . . Vra3g1138
Pvu9g2011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02331 . . . . . . . . . . . . . . Vimu10g00944 . . Vra3g1139
Pvu9g2012 Acco13g1060 Accr12g01029 . . . . . . Alju13g1104 . . Apr1g2587 . Bach2g01689 Bisa02g0316 Bva06g00834 . . Dere14g0080 . Enph5g0838 Glsi13g0797 . . . . . . . . . . . Lasa1g04339 Lele17g0671 Lele18g0850 Lele19g0880 Lele20g0568 . . . . Mibi13g1019 . . . Prci9g1093 Psa1g0506 Pste2g00637 . . . Spst9g02617 Ssu1g1844 Sto12g1232 . . . . . Vimu10g00943 . . Vra3g1140
Pvu9g2013 . . . . . . . . . . . . Arst4g00883 . . . . . . . . . . Gma06g02043 . Gso6g1903 . . . . . . . . . . . . . . . . . . . Phco7g02332 . . . . . . . . . . . . . . Vimu10g00942 . . Vra3g1141
Pvu9g2014 . . . . . . . . . . . Apr1g2592 . . . . Car01g01481 . . . . . . . . . . . . . . . . Lasa1g04334 . . . . . . . . . . . Phco7g02333 . . Pste2g00645 . . . . . . . . . . . Vimu10g00941 . Vivi4g01438 Vra3g1142
Pvu9g2015 Acco13g1064 Accr12g01033 . . . . . . Alju13g1101 . . . . Bach2g01686 Bisa02g0312 Bva06g00831 . . Dere14g0077 . Enph5g0841 Glsi13g0794 . . . . . . . . . . . . Lele17g0668 Lele18g0853 Lele19g0883 Lele20g0565 . . . . Mibi13g1022 . . Phco7g02334 Prci9g1089 Psa1g0504 . . . . Spst9g02615 Ssu1g1848 Sto12g1234 . . . . . Vimu10g00938 . . Vra3g1143
Pvu9g2016 . . . . . . . . . . . . Arst10g03621 . . . . . . . . . . . . . . Lal21g1106 . . . . . . . . . . . . . . . . . Phco7g02335 . . . . . . . . . . . . . . . . . Vra3g1144
Pvu9g2017 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g2437 . . . Mtr2g1922 . . . . . . . . . . . Tpr5g0556 . Tsu03g02778 . . . . Vivi4g01447 .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu9g2008 Chr9 28789785 28790495 -
Phco Phco7g02328 Chr7 40889773 40901180 -
Vra Vra1g1112 Chr1 13727512 13731241 -
Pvu Pvu9g2009 Chr9 28804636 28815328 -
Phco Phco7g02329 Chr7 40912905 40919914 -
Vimu Vimu10g00947 Chr10 8502244 8503280 +
Vra Vra3g1137 Chr3 11940899 11957032 -
Pvu Pvu9g2010 Chr9 28818066 28837370 -
Phco Phco7g02330 Chr7 40922770 40944162 -
Vimu Vimu10g00945 Chr10 8458204 8490143 +
Vra Vra3g1138 Chr3 11960076 11987010 -
Pvu Pvu9g2011 Chr9 28848600 28853509 -
Phco Phco7g02331 Chr7 40948320 40952685 -
Vimu Vimu10g00944 Chr10 8453148 8456775 +
Vra Vra3g1139 Chr3 11990432 11994139 -
Pvu Pvu9g2012 Chr9 28856434 28858869 -
Acco Acco13g1060 Chr13 8628276 8630781 -
Accr Accr12g01029 Chr12 10831508 10832566 -
Alju Alju13g1104 Chr13 29856283 29858435 +
Apr Apr1g2587 Chr1 35336946 35339677 +
Bach Bach2g01689 Chr2 25434515 25435699 +
Bisa Bisa02g0316 Chr02 5474414 5475459 +
Bva Bva06g00834 Chr06 7453339 7455481 +
Dere Dere14g0080 Chr14 923922 925927 +
Enph Enph5g0838 Chr5 6923371 6925864 -
Glsi Glsi13g0797 Chr13 26682848 26684855 +
Lasa Lasa1g04339 Chr1 727165309 727166922 +
Lele Lele17g0671 Chr17 18602611 18604406 +
Lele Lele18g0850 Chr18 5346950 5348011 -
Lele Lele19g0880 Chr19 5351334 5353293 -
Lele Lele20g0568 Chr20 13178699 13180552 +
Mibi Mibi13g1019 Chr13 13102866 13105002 -
Prci Prci9g1093 Chr9 25368380 25371307 +
Psa Psa1g0506 Chr1 30683195 30685180 +
Pste Pste2g00637 Chr2 6350906 6354424 -
Spst Spst9g02617 Chr9 60180511 60181581 +
Ssu Ssu1g1844 Chr1 47239022 47241238 -
Sto Sto12g1232 Chr12 7897028 7898092 -
Vimu Vimu10g00943 Chr10 8442215 8445310 +
Vra Vra3g1140 Chr3 11997346 11999815 -
Pvu Pvu9g2013 Chr9 28860763 28868850 -
Arst Arst4g00883 Chr4 7137699 7140684 -
Gma Gma06g02043 Chr06 30637360 30646889 +
Gso Gso6g1903 Chr6 28994156 29005911 +
Phco Phco7g02332 Chr7 40956682 40976831 -
Vimu Vimu10g00942 Chr10 8433302 8436316 +
Vra Vra3g1141 Chr3 12001739 12017198 -
Pvu Pvu9g2014 Chr9 28882053 28890803 -
Apr Apr1g2592 Chr1 35369500 35377571 +
Car Car01g01481 Chr01 25873233 25892871 +
Lasa Lasa1g04334 Chr1 726651060 726660874 +
Phco Phco7g02333 Chr7 40986123 40995457 -
Pste Pste2g00645 Chr2 6512365 6523735 +
Vimu Vimu10g00941 Chr10 8420470 8425776 +
Vivi Vivi4g01438 Chr4 53272234 53286875 -
Vra Vra3g1142 Chr3 12018892 12031703 -
Pvu Pvu9g2015 Chr9 28896535 28899856 +
Acco Acco13g1064 Chr13 8659088 8661958 -
Accr Accr12g01033 Chr12 10872712 10875556 -
Alju Alju13g1101 Chr13 29813269 29816840 +
Bach Bach2g01686 Chr2 25416170 25419251 +
Bisa Bisa02g0312 Chr02 5389715 5392450 +
Bva Bva06g00831 Chr06 7436180 7438851 +
Dere Dere14g0077 Chr14 903030 906303 +
Enph Enph5g0841 Chr5 6944252 6947834 -
Glsi Glsi13g0794 Chr13 26654986 26656894 +
Lele Lele17g0668 Chr17 18583641 18586146 +
Lele Lele18g0853 Chr18 5368916 5371426 -
Lele Lele19g0883 Chr19 5367122 5369708 -
Lele Lele20g0565 Chr20 13158347 13160721 +
Mibi Mibi13g1022 Chr13 13136756 13139439 -
Phco Phco7g02334 Chr7 41000281 41003153 +
Prci Prci9g1089 Chr9 25340350 25343516 +
Psa Psa1g0504 Chr1 30580125 30596990 +
Spst Spst9g02615 Chr9 60152783 60156812 +
Ssu Ssu1g1848 Chr1 47373250 47376001 -
Sto Sto12g1234 Chr12 7914922 7917673 -
Vimu Vimu10g00938 Chr10 8407395 8411206 -
Vra Vra3g1143 Chr3 12035732 12042790 +
Pvu Pvu9g2016 Chr9 28905568 28913126 -
Arst Arst10g03621 Chr10 103966528 103970808 +
Lal Lal21g1106 Chr21 13631492 13636179 -
Phco Phco7g02335 Chr7 41009764 41016654 -
Vra Vra3g1144 Chr3 12050250 12053769 -
Pvu Pvu9g2017 Chr9 28933674 28935333 -
Mal Mal4g2437 Chr4 62984838 62995835 -
Mtr Mtr2g1922 Chr2 24268550 24278989 +
Tpr Tpr5g0556 Chr5 8484910 8486500 +
Tsu Tsu03g02778 Chr03 37145168 37153866 -
Vivi Vivi4g01447 Chr4 53744898 53755043 +
Tpr Tpr5g0556 Chr5 8484910 8486500 +