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
Pvu1g0731 . . . . . . . . . . . Apr9g0795 . . . . . Cca05g00920 . . . . . Gma14g01424 . Gso13g0167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra6g1394
Pvu1g0732 . . . . Aev07g1700 . . . . . . Apr9g0796 . . . . . Cca05g00921 . . . . . . Gso14g1219 Gso13g0165 . . . . . . . . . . . . Lja1g5828 . Mepo4g01027 Mesa1g01111 . Mtr1g0890 . . . . . Pumo9g01161 . . . Ssu5g0725 . . Trre1g01078 Tsu01g01012 . . . . . Vra6g1393
Pvu1g0733 . . . . . . . . . . . Apr9g0797 . . . . . Cca05g00922 . . . . . . . Gso13g0164 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra6g1392
Pvu1g0734 . . . . . . . . . . . Apr9g0798 . . . . . Cca05g00923 . Dod08g1406 . . . . . Gso13g0162 . . . . . . . . . . . . . . . . . . . . . . . Pumo9g01163 . . . . . . . . . . . . . Vra6g1390
Pvu1g0735 . . . . . . . . . . . Apr9g0799 . . . . . Cca05g00926 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra6g1389
Pvu1g0736 . . . . Aev07g1697 Ahy16g2964 . . . . . Apr9g0023 . Bach3g01763 . Bva10g00137 Car04g02918 Cca05g00927 . Dod08g1405 . . . . Gso14g1212 Gso13g0160 . . . . . . . . . . . . . . . . . . Phac1g01070 Phco2g00806 . Psa6g0834 Pste8g01975 Pumo9g01165 Rops9g02519 . Spst8g01793 . Sto5g0369 . . . Vian7g00251 Vifa3g04055 Vimu1g02307 Viun8g01064 . Vra6g1388
Pvu1g0737 . . . . . . . . . . . Apr9g0803 . . . . . Cca05g00928 . . . . . Gma14g01422 . Gso13g0159 . . . . . . . Lasa5g02828 . . . . . . . . . . . Phco2g00807 . . Pste8g01973 Pumo9g00314 . Seca4g02360 Spst8g01384 . . . . . Vian7g00247 . Vimu1g02302 Viun8g01071 Vivi3g03074 Vra6g1387
Pvu1g0738 . . . . . . . . . . . Apr9g0806 . . . . . Cca05g00930 . . . . . . . Gso13g0158 . . . . . . . . . . . . Lja1g5829 . . . . . . Phco2g00808 . . . . . . Spst8g01380 . . . . . Vian7g00245 . Vimu1g02301 Viun8g01074 . Vra6g1386
Pvu1g0739 . . . . . . . . . . . Apr9g0807 . . . . . Cca05g00932 . . . . . Gma14g01411 . . . . . . . . . . . . . . . . . . . . . Phco2g00809 . . . Pumo9g01177 . . Spst8g01379 . . . . . Vian7g00244 . Vimu1g02300 Viun8g01077 . Vra6g1383
Pvu1g0740 Acco05g2743 Accr3g00289 . . . . . . Alju07g2700 . . . . . Bisa05g0915 . . Cca05g00933 Dere05g2528 Dod08g1402 Enph7g1311 Glsi10g1206 . Gma14g01410 Gso14g1209 Gso13g0157 . . . . . . . Lasa5g02821 Lele25g0248 Lele26g0256 Lele27g1840 Lele28g0268 . . . . Mibi08g2404 . . Phco2g00810 Prci2g0396 . Pste8g01972 Pumo9g01178 . Seca4g02348 Spst8g01376 . Sto5g0375 . . . Vian7g00242 . Vimu1g02298 Viun8g01085 Vivi3g03081 Vra6g1381
   
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Select Species Gene Chromosome Start End Strand
Cca Cca05g00928 Chr05 24923474 24929076 -
Pumo Pumo9g00314 Chr9 5021376 5024893 -
Seca Seca4g02360 Chr4 40161673 40163354 +
Vian Vian7g00247 Chr7 7486170 7489651 +
Viun Viun8g01071 Chr8 12997602 13001559 -
Vian Vian7g00247 Chr7 7486170 7489651 +
Pvu Pvu1g0731 Chr1 9405726 9407338 -
Apr Apr9g0795 Chr9 15289247 15290476 -
Cca Cca05g00920 Chr05 24784370 24786059 -
Gma Gma14g01424 Chr14 30247892 30249107 +
Gso Gso13g0167 Chr13 10296497 10298230 +
Vra Vra6g1394 Chr6 27371649 27373794 +
Pvu Pvu1g0732 Chr1 9426985 9429335 +
Aev Aev07g1700 Chr07 17872867 17874711 +
Apr Apr9g0796 Chr9 15307983 15310219 +
Cca Cca05g00921 Chr05 24805564 24807411 +
Gso Gso14g1219 Chr14 28790129 28792176 +
Gso Gso13g0165 Chr13 10270152 10272473 -
Lja Lja1g5828 Chr1 104703824 104706013 -
Mepo Mepo4g01027 Chr4 13630097 13630976 +
Mesa Mesa1g01111 Chr1 15204822 15205457 +
Mtr Mtr1g0890 Chr1 10254693 10255604 +
Pumo Pumo9g01161 Chr9 34907862 34909677 +
Ssu Ssu5g0725 Chr5 18424509 18425714 -
Trre Trre1g01078 Chr1 8122076 8123923 -
Tsu Tsu01g01012 Chr01 9232035 9234309 -
Vra Vra6g1393 Chr6 27347887 27350103 -
Pvu Pvu1g0733 Chr1 9453070 9454896 -
Apr Apr9g0797 Chr9 15312141 15313974 -
Cca Cca05g00922 Chr05 24813337 24815336 -
Gso Gso13g0164 Chr13 10266752 10268826 +
Vra Vra6g1392 Chr6 27333197 27335137 +
Pvu Pvu1g0734 Chr1 9469086 9470870 -
Apr Apr9g0798 Chr9 15324385 15328250 -
Cca Cca05g00923 Chr05 24817366 24819165 -
Dod Dod08g1406 Chr08 23677542 23679842 +
Gso Gso13g0162 Chr13 10233505 10235673 +
Pumo Pumo9g01163 Chr9 34953361 34955187 -
Vra Vra6g1390 Chr6 27292027 27293775 +
Pvu Pvu1g0735 Chr1 9478510 9482151 -
Apr Apr9g0799 Chr9 15333972 15335930 -
Cca Cca05g00926 Chr05 24829714 24831554 -
Vra Vra6g1389 Chr6 27287132 27289174 +
Pvu Pvu1g0736 Chr1 9492297 9494543 -
Aev Aev07g1697 Chr07 17823067 17829434 +
Ahy Ahy16g2964 Chr16 144407210 144414806 +
Apr Apr9g0023 Chr9 334631 338345 +
Bach Bach3g01763 Chr3 26143578 26147874 +
Bva Bva10g00137 Chr10 2970090 2975200 +
Car Car04g02918 Chr04 56308029 56313729 +
Cca Cca05g00927 Chr05 24868240 24871532 -
Dod Dod08g1405 Chr08 23614020 23617735 +
Gso Gso14g1212 Chr14 28580652 28585261 -
Gso Gso13g0160 Chr13 10202345 10207211 +
Phac Phac1g01070 Chr1 10152753 10159406 +
Phco Phco2g00806 Chr2 8908429 8910719 -
Psa Psa6g0834 Chr6 29362224 29365410 -
Pste Pste8g01975 Chr8 15466168 15469028 +
Pumo Pumo9g01165 Chr9 35002691 35008125 -
Rops Rops9g02519 Chr9 47377507 47380080 -
Spst Spst8g01793 Chr8 21619332 21622797 +
Sto Sto5g0369 Chr5 2260447 2262369 -
Vian Vian7g00251 Chr7 7543229 7545289 -
Vifa Vifa3g04055 Chr3 1195350486 1195351643 +
Vimu Vimu1g02307 Chr1 33575679 33577688 -
Viun Viun8g01064 Chr8 12783484 12785737 -
Vra Vra6g1388 Chr6 27271346 27275775 +
Pvu Pvu1g0737 Chr1 9530945 9534936 -
Apr Apr9g0803 Chr9 15448095 15451728 -
Cca Cca05g00928 Chr05 24923474 24929076 -
Gma Gma14g01422 Chr14 30219832 30224210 -
Gso Gso13g0159 Chr13 10185625 10190399 +
Lasa Lasa5g02828 Chr5 510590700 510593140 +
Phco Phco2g00807 Chr2 8941563 8945052 -
Pste Pste8g01973 Chr8 15417016 15421298 +
Pumo Pumo9g00314 Chr9 5021376 5024893 -
Seca Seca4g02360 Chr4 40161673 40163354 +
Spst Spst8g01384 Chr8 12931844 12935231 +
Vian Vian7g00247 Chr7 7486170 7489651 +
Vimu Vimu1g02302 Chr1 33509390 33513607 +
Viun Viun8g01071 Chr8 12997602 13001559 -
Vivi Vivi3g03074 Chr3 52093862 52098990 +
Vra Vra6g1387 Chr6 27251044 27255211 +
Pvu Pvu1g0738 Chr1 9546403 9546882 -
Apr Apr9g0806 Chr9 15493718 15494161 -
Cca Cca05g00930 Chr05 24938041 24938519 +
Gso Gso13g0158 Chr13 10158498 10158905 +
Lja Lja1g5829 Chr1 104785594 104785965 -
Phco Phco2g00808 Chr2 8952403 8952873 -
Spst Spst8g01380 Chr8 12915164 12915634 -
Vian Vian7g00245 Chr7 7459415 7459909 +
Vimu Vimu1g02301 Chr1 33503882 33506217 +
Viun Viun8g01074 Chr8 13035039 13035485 -
Vra Vra6g1386 Chr6 27248730 27249167 +
Pvu Pvu1g0739 Chr1 9560059 9560436 -
Apr Apr9g0807 Chr9 15502278 15502739 -
Cca Cca05g00932 Chr05 24989554 24989934 -
Gma Gma14g01411 Chr14 29965717 29966100 +
Phco Phco2g00809 Chr2 8960300 8960677 -
Pumo Pumo9g01177 Chr9 35352266 35352664 -
Spst Spst8g01379 Chr8 12900919 12901389 +
Vian Vian7g00244 Chr7 7450639 7457141 +
Vimu Vimu1g02300 Chr1 33496866 33497252 +
Viun Viun8g01077 Chr8 13084738 13085184 +
Vra Vra6g1383 Chr6 27198046 27198435 +
Pvu Pvu1g0740 Chr1 9564249 9570109 -
Acco Acco05g2743 Chr05 42693581 42699781 +
Accr Accr3g00289 Chr3 3149398 3154898 -
Alju Alju07g2700 Chr07 52528916 52535093 +
Bisa Bisa05g0915 Chr05 15751111 15759840 -
Cca Cca05g00933 Chr05 24996764 25002886 -
Dere Dere05g2528 Chr05 35811502 35817520 +
Dod Dod08g1402 Chr08 23529101 23536099 +
Enph Enph7g1311 Chr7 18590957 18598272 +
Glsi Glsi10g1206 Chr10 8119528 8126641 +
Gma Gma14g01410 Chr14 29946086 29951364 +
Gso Gso14g1209 Chr14 28436376 28442169 +
Gso Gso13g0157 Chr13 10150357 10156249 +
Lasa Lasa5g02821 Chr5 509954286 509960822 +
Lele Lele25g0248 Chr25 1469933 1475357 -
Lele Lele26g0256 Chr26 1517032 1522064 -
Lele Lele27g1840 Chr27 23250713 23257592 +
Lele Lele28g0268 Chr28 1581010 1586077 -
Mibi Mibi08g2404 Chr08 41781940 41787458 +
Phco Phco2g00810 Chr2 8964303 8969472 -
Prci Prci2g0396 Chr2 2792056 2797989 -
Pste Pste8g01972 Chr8 15368476 15374896 +
Pumo Pumo9g01178 Chr9 35355290 35361368 -
Seca Seca4g02348 Chr4 40012723 40021795 +
Spst Spst8g01376 Chr8 12881288 12886752 +
Sto Sto5g0375 Chr5 2326859 2331058 -
Vian Vian7g00242 Chr7 7420485 7426241 +
Vimu Vimu1g02298 Chr1 33488657 33493773 +
Viun Viun8g01085 Chr8 13343792 13349479 -
Vivi Vivi3g03081 Chr3 52187038 52195107 -
Vra Vra6g1381 Chr6 27171681 27177366 +
Aev Aev07g1697 Chr07 17823067 17829434 +
Spst Spst8g01793 Chr8 21619332 21622797 +
Lasa Lasa5g02821 Chr5 509954286 509960822 +
Vivi Vivi3g03081 Chr3 52187038 52195107 -
Lasa Lasa5g02828 Chr5 510590700 510593140 +
Vivi Vivi3g03074 Chr3 52093862 52098990 +