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
Pvu1g1041 . . . . . . . . . Amo16g2787 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3157 . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1042 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1043 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Spst1g00468 . . . . . . . Vimu6g03469 . . .
Pvu1g1044 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3158 . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1045 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1046 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3159 . . . . . Phco2g01118 . . . . . . . . . . . . . . Vimu6g03467 . . .
Pvu1g1047 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g01347 . . . . . . . . . . . . . . . . . .
Pvu1g1048 . . . . . . . . . . . . . . . . Car03g01961 Cca07g00541 . . . . Gma19g01181 . Gso19g1035 . . . . Lan10g0801 . . Lapu1g00326 Lasa3g02525 . . . . Lja1g1477 Mal3g3291 Mepo3g02653 Mesa25g01483 . Mtr7g2461 Phac1g01391 Phco2g01346 . Psa3g1939 Pste5g01447 Pumo5g02437 Rops8g02616 Seca2g03718 Spst1g03571 Ssu4g1658 . Tpr6g1289 Trre13g03010 Tsu07g03137 Vian2g01772 . Vimu6g03283 . Vivi6g03614 .
Pvu1g1049 . . . . . . . . . . . . . . . . Car03g01960 Cca07g00542 . . . . Gma19g01180 . Gso19g1034 . . . . Lan10g0800 . . Lapu1g00327 Lasa3g02524 . . . . Lja1g1478 Mal3g3286 Mepo3g02650 Mesa25g01486 . Mtr7g2460 Phac1g01393 Phco2g01331 . Psa3g1942 Pste5g01442 Pumo5g02436 Rops8g02615 Seca2g03717 Spst1g03572 Ssu4g1659 . Tpr6g1288 Trre13g03008 Tsu07g03136 Vian2g01770 Vifa2g00166 Vimu6g03284 . Vivi4g04281 .
Pvu1g1050 . . . . . . . . . . . . . . . . Car03g01959 . . . . . Gma19g01179 . Gso19g1033 . . . . Lan10g0799 . . Lapu1g00329 Lasa3g02523 . . . . Lja1g1479 Mal3g3285 Mepo3g02649 Mesa25g01487 . Mtr7g2459 Phac1g01395 Phco2g01330 . Psa3g1944 Pste5g01441 . . . Spst1g03573 Ssu4g1660 . Tpr6g1287 Trre13g03007 Tsu07g03135 . . Vimu6g03285 . Vivi6g03617 .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g1041 Chr1 23040328 23042480 +
Amo Amo16g2787 Chr16 123975043 123976389 -
Mal Mal3g3157 Chr3 107111933 107113438 +
Pvu Pvu1g1042 Chr1 23058641 23059723 -
Pvu Pvu1g1043 Chr1 23102229 23105114 +
Spst Spst1g00468 Chr1 6115636 6117984 -
Vimu Vimu6g03469 Chr6 31543844 31545948 -
Pvu Pvu1g1044 Chr1 23149740 23152402 +
Mal Mal3g3158 Chr3 107144987 107146626 +
Pvu Pvu1g1045 Chr1 23166411 23168910 +
Pvu Pvu1g1046 Chr1 23234534 23241379 +
Mal Mal3g3159 Chr3 107157138 107164150 +
Phco Phco2g01118 Chr2 29166290 29172553 +
Vimu Vimu6g03467 Chr6 31486584 31492959 -
Pvu Pvu1g1047 Chr1 23256743 23256961 -
Phco Phco2g01347 Chr2 42308252 42313645 +
Pvu Pvu1g1048 Chr1 23283884 23290673 +
Car Car03g01961 Chr03 65688018 65694303 -
Cca Cca07g00541 Chr07 7711735 7718025 +
Gma Gma19g01181 Chr19 40475232 40478831 -
Gso Gso19g1035 Chr19 38013501 38019728 -
Lan Lan10g0801 Chr10 11022914 11026776 -
Lapu Lapu1g00326 Chr1 12423347 12431558 +
Lasa Lasa3g02525 Chr3 563810935 563812422 -
Lja Lja1g1477 Chr1 15907329 15913911 +
Mal Mal3g3291 Chr3 109064900 109066375 -
Mepo Mepo3g02653 Chr3 36435011 36441241 -
Mesa Mesa25g01483 Chr25 18027294 18028766 +
Mtr Mtr7g2461 Chr7 41085428 41091936 -
Phac Phac1g01391 Chr1 16283568 16293276 +
Phco Phco2g01346 Chr2 42300742 42302003 -
Psa Psa3g1939 Chr3 174235293 174242474 +
Pste Pste5g01447 Chr5 9247725 9253218 -
Pumo Pumo5g02437 Chr5 67411083 67416426 -
Rops Rops8g02616 Chr8 59641266 59644791 -
Seca Seca2g03718 Chr2 115012268 115013668 -
Spst Spst1g03571 Chr1 44956930 44958339 +
Ssu Ssu4g1658 Chr4 28957019 28958460 +
Tpr Tpr6g1289 Chr6 13409119 13412658 -
Trre Trre13g03010 Chr13 30906016 30911006 -
Tsu Tsu07g03137 Chr07 37363837 37368510 -
Vian Vian2g01772 Chr2 35879308 35880702 -
Vimu Vimu6g03283 Chr6 29390409 29399027 +
Vivi Vivi6g03614 Chr6 129899096 129902301 +
Pvu Pvu1g1049 Chr1 23320019 23324179 +
Car Car03g01960 Chr03 65674694 65678473 -
Cca Cca07g00542 Chr07 7728773 7733100 +
Gma Gma19g01180 Chr19 40460909 40464980 -
Gso Gso19g1034 Chr19 38001614 38006498 -
Lan Lan10g0800 Chr10 11004311 11008142 -
Lapu Lapu1g00327 Chr1 12453060 12457838 +
Lasa Lasa3g02524 Chr3 563621522 563623554 -
Lja Lja1g1478 Chr1 15935942 15940200 +
Mal Mal3g3286 Chr3 108971929 108974313 -
Mepo Mepo3g02650 Chr3 36412974 36416574 -
Mesa Mesa25g01486 Chr25 18045545 18048231 +
Mtr Mtr7g2460 Chr7 41064654 41068442 -
Phac Phac1g01393 Chr1 16334935 16339780 +
Phco Phco2g01331 Chr2 41733345 41736643 -
Psa Psa3g1942 Chr3 174424444 174427826 +
Pste Pste5g01442 Chr5 9222564 9227419 -
Pumo Pumo5g02436 Chr5 67397692 67402866 -
Rops Rops8g02615 Chr8 59616665 59622021 -
Seca Seca2g03717 Chr2 114993898 114998961 -
Spst Spst1g03572 Chr1 44990488 44993903 +
Ssu Ssu4g1659 Chr4 28984148 28987668 +
Tpr Tpr6g1288 Chr6 13386350 13390196 -
Trre Trre13g03008 Chr13 30888029 30891039 -
Tsu Tsu07g03136 Chr07 37337909 37341554 -
Vian Vian2g01770 Chr2 35846721 35849998 -
Vifa Vifa2g00166 Chr2 20384558 20385730 +
Vimu Vimu6g03284 Chr6 29413684 29416881 +
Vivi Vivi4g04281 Chr4 168978033 168981210 +
Pvu Pvu1g1050 Chr1 23326015 23330110 -
Car Car03g01959 Chr03 65667885 65673065 +
Gma Gma19g01179 Chr19 40454397 40458445 +
Gso Gso19g1033 Chr19 37995340 37999424 +
Lan Lan10g0799 Chr10 10999775 11003526 +
Lapu Lapu1g00329 Chr1 12482351 12486558 -
Lasa Lasa3g02523 Chr3 563524478 563529313 +
Lja Lja1g1479 Chr1 15942677 15946839 -
Mal Mal3g3285 Chr3 108964367 108969077 +
Mepo Mepo3g02649 Chr3 36402890 36407924 +
Mesa Mesa25g01487 Chr25 18052243 18056559 -
Mtr Mtr7g2459 Chr7 41055411 41060727 +
Phac Phac1g01395 Chr1 16341416 16345624 -
Phco Phco2g01330 Chr2 41725908 41730698 +
Psa Psa3g1944 Chr3 174434004 174439906 -
Pste Pste5g01441 Chr5 9216715 9220065 +
Spst Spst1g03573 Chr1 44997751 45000567 -
Ssu Ssu4g1660 Chr4 28997960 29000916 -
Tpr Tpr6g1287 Chr6 13377607 13382963 +
Trre Trre13g03007 Chr13 30881350 30885724 +
Tsu Tsu07g03135 Chr07 37321290 37334850 +
Vimu Vimu6g03285 Chr6 29419562 29422256 -
Vivi Vivi6g03617 Chr6 129942841 129948171 -
Vimu Vimu6g03467 Chr6 31486584 31492959 -
Gso Gso19g1034 Chr19 38001614 38006498 -
Gso Gso19g1034 Chr19 38001614 38006498 -