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
Pvu9g2028 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02349 . . . . . . . . . . . . . . . . . Vra3g1162
Pvu9g2029 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02350 . . . . . . . . . . . . . . Vimu10g00904 . . Vra3g1163
Pvu9g2030 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02351 . . . . . . . . . . . . . . Vimu10g00903 . . Vra3g1164
Pvu9g2031 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02352 . . . . . . . . . . . . . . Vimu10g00902 . . Vra3g1165
Pvu9g2032 . . Adu10g02206 . Aev08g1706 . Ahy10g1954 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02354 . . . . . . . . . . . . . . Vimu10g00900 . . Vra3g1167
Pvu9g2033 Acco13g0912 Accr12g00868 . . . Ahy20g2433 . . Alju13g1250 . . . Arst10g02834 Bach2g01816 Bisa02g0476 Bva06g00984 . . Dere14g0242 . Enph5g0734 Glsi13g0945 Gma04g01395 Gma06g02006 Gso4g1221 . . . . . . . . . Lele17g0788 . Lele19g0777 . . . . . Mibi13g0876 . . Phco7g02355 Prci9g1299 . Pste2g00125 . . . . Ssu1g1895 Sto12g1091 . . . . . Vimu10g00897 . . Vra3g1168
Pvu9g2034 Acco13g0911 Accr12g00867 . . . . . . Alju13g1251 Amo10g2581 . . . Bach2g01817 Bisa02g0477 Bva06g00987 . . Dere14g0243 . Enph5g0733 Glsi13g0946 Gma04g01396 . Gso4g1222 . . . Lal4g1287 . . . . Lasa1g04304 Lele17g0789 Lele18g0733 Lele19g0776 Lele20g0683 . Mal4g2415 . . Mibi13g0875 . . Phco7g02356 Prci9g1301 . Pste2g00129 . . . Spst9g02549 Ssu1g1896 Sto12g1090 . . Tsu03g02751 . . Vimu10g00896 . Vivi4g01488 Vra3g1169
Pvu9g2035 . . . Aed10g1304 . . . . . . . . . . . Bva06g00988 . . . . . . . Gma06g02005 . . . . Lal4g1285 . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g1904 . . . . . . . . . Vra3g1170
Pvu9g2036 . . . . . . . . . . . . . . . . Car01g01554 . . . . . . . . . . . . . . . . Lasa1g04268 . . . . . . . Mesa5g02245 . Mtr2g2004 . Phco7g02358 . . Pste2g00197 . . . . . . Tpr3g2804 Trre11g02422 . . . Vimu10g00893 . Vivi4g01581 Vra3g1171
Pvu9g2037 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lan14g0311 . . Lasa1g04265 . . . . . Mal4g2353 . . . . . Phco7g02359 . . Pste2g00193 . . . . . . Tpr3g2807 . . . . Vimu10g00891 . Vivi4g01537 Vra3g1173
   
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Select Species Gene Chromosome Start End Strand
Ahy Ahy20g2433 Chr20 129990555 129994492 -
Ahy Ahy10g1954 Chr10 105593894 105597883 -
Pvu Pvu9g2028 Chr9 29099423 29102094 +
Phco Phco7g02349 Chr7 41192609 41194890 +
Vra Vra3g1162 Chr3 12290550 12292967 +
Pvu Pvu9g2029 Chr9 29103454 29107074 -
Phco Phco7g02350 Chr7 41197513 41200579 -
Vimu Vimu10g00904 Chr10 8062742 8065687 +
Vra Vra3g1163 Chr3 12294882 12298394 -
Pvu Pvu9g2030 Chr9 29111608 29112875 -
Phco Phco7g02351 Chr7 41208825 41209942 -
Vimu Vimu10g00903 Chr10 8059269 8060319 +
Vra Vra3g1164 Chr3 12300265 12302113 -
Pvu Pvu9g2031 Chr9 29114645 29117785 -
Phco Phco7g02352 Chr7 41211909 41213335 -
Vimu Vimu10g00902 Chr10 8055752 8057129 +
Vra Vra3g1165 Chr3 12303856 12307074 -
Pvu Pvu9g2032 Chr9 29123045 29149306 +
Adu Adu10g02206 Chr10 95629328 95633301 -
Aev Aev08g1706 Chr08 13705702 13707261 +
Ahy Ahy10g1954 Chr10 105593894 105597883 -
Phco Phco7g02354 Chr7 41224347 41251757 +
Vimu Vimu10g00900 Chr10 8034177 8043864 -
Vra Vra3g1167 Chr3 12319131 12355446 +
Pvu Pvu9g2033 Chr9 29159605 29160767 +
Acco Acco13g0912 Chr13 7035330 7036129 -
Accr Accr12g00868 Chr12 8717034 8717962 -
Ahy Ahy20g2433 Chr20 129990555 129994492 -
Alju Alju13g1250 Chr13 31260721 31261712 +
Arst Arst10g02834 Chr10 94913793 94917777 -
Bach Bach2g01816 Chr2 26360366 26361161 +
Bisa Bisa02g0476 Chr02 8154094 8155571 +
Bva Bva06g00984 Chr06 8234431 8235664 +
Dere Dere14g0242 Chr14 2528939 2530437 +
Enph Enph5g0734 Chr5 5913019 5913895 -
Glsi Glsi13g0945 Chr13 27723022 27723819 +
Gma Gma04g01395 Chr04 31451807 31453931 +
Gma Gma06g02006 Chr06 27829240 27831231 +
Gso Gso4g1221 Chr4 28443679 28446517 +
Lele Lele17g0788 Chr17 19434917 19435782 +
Lele Lele19g0777 Chr19 4576737 4577594 -
Mibi Mibi13g0876 Chr13 11118406 11119390 -
Phco Phco7g02355 Chr7 41262853 41263765 +
Prci Prci9g1299 Chr9 26700429 26701736 +
Pste Pste2g00125 Chr2 498322 501716 +
Ssu Ssu1g1895 Chr1 50808311 50810066 +
Sto Sto12g1091 Chr12 6819544 6820085 -
Vimu Vimu10g00897 Chr10 7996986 7997783 -
Vra Vra3g1168 Chr3 12365819 12366635 +
Pvu Pvu9g2034 Chr9 29166213 29169188 +
Acco Acco13g0911 Chr13 7005780 7008080 -
Accr Accr12g00867 Chr12 8691658 8694049 -
Alju Alju13g1251 Chr13 31285870 31288434 +
Amo Amo10g2581 Chr10 88800215 88814292 +
Bach Bach2g01817 Chr2 26376081 26378665 +
Bisa Bisa02g0477 Chr02 8175616 8178024 +
Bva Bva06g00987 Chr06 8257655 8259952 +
Dere Dere14g0243 Chr14 2544511 2547391 +
Enph Enph5g0733 Chr5 5896435 5899469 -
Glsi Glsi13g0946 Chr13 27731705 27734327 +
Gma Gma04g01396 Chr04 31632188 31635141 +
Gso Gso4g1222 Chr4 28607985 28611511 +
Lal Lal4g1287 Chr4 16935366 16938526 -
Lasa Lasa1g04304 Chr1 724185992 724186881 -
Lele Lele17g0789 Chr17 19451937 19454039 +
Lele Lele18g0733 Chr18 4478102 4481039 -
Lele Lele19g0776 Chr19 4563387 4565463 -
Lele Lele20g0683 Chr20 14014090 14017070 +
Mal Mal4g2415 Chr4 61850423 61851632 -
Mibi Mibi13g0875 Chr13 11102206 11104715 -
Phco Phco7g02356 Chr7 41271110 41273977 +
Prci Prci9g1301 Chr9 26720750 26723574 +
Pste Pste2g00129 Chr2 527728 531212 +
Spst Spst9g02549 Chr9 59370963 59372401 +
Ssu Ssu1g1896 Chr1 51018179 51023204 +
Sto Sto12g1090 Chr12 6807898 6810337 -
Tsu Tsu03g02751 Chr03 36659788 36661876 -
Vimu Vimu10g00896 Chr10 7989613 7992095 -
Vivi Vivi4g01488 Chr4 57173931 57175125 +
Vra Vra3g1169 Chr3 12370884 12373959 +
Pvu Pvu9g2035 Chr9 29177561 29179718 +
Aed Aed10g1304 Chr10 14306699 14309137 +
Bva Bva06g00988 Chr06 8260888 8262519 +
Gma Gma06g02005 Chr06 27573110 27575994 -
Lal Lal4g1285 Chr4 16895288 16898662 -
Ssu Ssu1g1904 Chr1 52158207 52159727 +
Vra Vra3g1170 Chr3 12394898 12396917 +
Pvu Pvu9g2036 Chr9 29180113 29185231 +
Car Car01g01554 Chr01 32535911 32536231 +
Lasa Lasa1g04268 Chr1 721142553 721150686 -
Mesa Mesa5g02245 Chr5 36827098 36833576 -
Mtr Mtr2g2004 Chr2 29025082 29031789 +
Phco Phco7g02358 Chr7 41285776 41291438 +
Pste Pste2g00197 Chr2 1046718 1047425 -
Tpr Tpr3g2804 Chr3 29004378 29008350 +
Trre Trre11g02422 Chr11 28842186 28847743 -
Vimu Vimu10g00893 Chr10 7958197 7968674 -
Vivi Vivi4g01581 Chr4 63042679 63045750 -
Vra Vra3g1171 Chr3 12397009 12405505 +
Pvu Pvu9g2037 Chr9 29197423 29205165 -
Lan Lan14g0311 Chr14 5894935 5919253 -
Lasa Lasa1g04265 Chr1 720808926 720814194 -
Mal Mal4g2353 Chr4 58910739 58918170 +
Phco Phco7g02359 Chr7 41304271 41311559 -
Pste Pste2g00193 Chr2 1002893 1015045 +
Tpr Tpr3g2807 Chr3 29036512 29047945 -
Vimu Vimu10g00891 Chr10 7931184 7937203 +
Vivi Vivi4g01537 Chr4 60333705 60343793 -
Vra Vra3g1173 Chr3 12456245 12463111 -