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
Pvu1g1291 Acco02g1048 Accr2g02678 . . . . . . Alju01g1038 . . . . Bach8g01202 Bisa03g2463 Bva04g02126 . . Dere01g2357 . Enph2g0803 Glsi02g2249 . . . . Lal8g0880 . . Lan10g0866 . . . . Lele05g0810 Lele06g0658 Lele07g0849 . . . . . Mibi02g0942 . Phac1g01709 . Prci1g3385 Psa3g1819 . . . . . . Sto8g1398 . . . . . . . . .
Pvu1g1292 . . Adu06g00812 Aed4g0514 Aev06g1391 Ahy16g0497 Ahy6g0836 Aip06g00480 . Amo16g0328 . Apr4g1284 Arst6g01080 . . Bva04g02127 Car03g02041 Cca03g01888 . Dod01g2177 . . Gma19g01255 Gma03g01200 Gso19g1100 Gso3g1105 Lal8g0879 . . Lan10g0867 . . Lapu1g00246 Lasa3g02646 . . . . Lja1g1370 Mal3g3412 Mepo3g02774 Mesa25g01431 . Mtr7g2561 . Phco2g01447 . . Pste5g01968 Pumo5g02533 Rops8g02724 Seca2g03874 Spst1g03473 Ssu4g1563 . Tpr6g1404 Trre13g03213 Tsu07g03262 Vian2g01851 Vifa5g02252 Vimu6g03166 Viun1g01624 Vivi6g03654 .
Pvu1g1293 . . . . . . . . . . . . . Bach8g01201 . Bva04g02128 . . . . . . . . . . . . . . . Lan3g0586 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1294 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1295 . . . . . . . . . . . . . . . Bva04g02129 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1296 . . . . . . . . . . . . . . . . . . . Dod01g2178 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu4g1560 . . . . . . Vimu6g03164 . . .
Pvu1g1297 . . . . . . . . . Amo16g0326 . . . . . . . . . Dod01g2179 . . . . . . . . . . . . . Lasa3g02649 . . . . . . . . . . Phac1g01712 Phco2g01449 . Psa3g1818 Pste5g01970 . . . . Ssu4g1559 . . . . . . . . Vivi6g03656 .
Pvu1g1298 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1299 . . Adu06g00814 Aed4g0512 Aev06g1389 Ahy16g0495 Ahy6g0838 Aip06g00478 . . . Apr4g1282 Arst6g01083 . . . Car03g02043 Cca03g01891 . Dod01g2180 . . . Gma03g01202 . Gso3g1107 . . . . . . Lapu1g00244 . . . . . Lja1g1367 Mal3g3414 Mepo3g02776 Mesa25g01420 . Mtr7g2564 . Phco2g01450 . . Pste5g01972 Pumo5g02536 Rops8g02726 Seca2g03879 . . . Tpr6g1406 Trre13g03218 Tsu07g03264 Vian2g01853 Vifa5g02254 . Viun1g01626 Vivi6g03657 .
Pvu1g1300 . . Adu06g00815 Aed4g0511 Aev06g1388 Ahy16g0494 Ahy6g0839 Aip06g00477 . Amo16g0325 . Apr4g1281 Arst6g01084 . . . Car03g02044 Cca03g01892 . Dod01g2181 . . Gma19g01257 Gma03g01203 Gso19g1103 Gso3g1108 . . . . . . Lapu1g00242 Lasa3g02651 . . . . Lja1g1365 Mal3g3415 Mepo3g02777 Mesa25g01418 . Mtr7g2565 Phac1g01714 Phco2g01451 . Psa3g1815 Pste5g01974 Pumo5g02537 Rops8g02727 Seca2g03880 Spst1g03471 Ssu4g1558 . Tpr6g1407 Trre13g03220 Tsu07g03265 . Vifa5g02262 Vimu6g03162 Viun1g01629 Vivi6g03658 .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu1g1291 Chr1 35081076 35084725 +
Acco Acco02g1048 Chr02 7455992 7459361 -
Accr Accr2g02678 Chr2 62588207 62591547 +
Alju Alju01g1038 Chr01 7785316 7789057 -
Bach Bach8g01202 Chr8 8084920 8087263 -
Bisa Bisa03g2463 Chr03 36884523 36888270 +
Bva Bva04g02126 Chr04 20688873 20692046 +
Dere Dere01g2357 Chr01 37876692 37880141 -
Enph Enph2g0803 Chr2 6325426 6329554 -
Glsi Glsi02g2249 Chr02 72952133 72956518 -
Lal Lal8g0880 Chr8 6438828 6443821 -
Lan Lan10g0866 Chr10 12763177 12768920 +
Lele Lele05g0810 Chr05 4852599 4855155 -
Lele Lele06g0658 Chr06 3945387 3950145 -
Lele Lele07g0849 Chr07 4913703 4916262 -
Mibi Mibi02g0942 Chr02 9270534 9273791 -
Phac Phac1g01709 Chr1 26196932 26200873 -
Prci Prci1g3385 Chr1 51256262 51259522 +
Psa Psa3g1819 Chr3 161799881 161804683 +
Sto Sto8g1398 Chr8 8920944 8924333 +
Pvu Pvu1g1292 Chr1 35085934 35087457 -
Adu Adu06g00812 Chr06 9786990 9788719 +
Aed Aed4g0514 Chr4 3948424 3949950 -
Aev Aev06g1391 Chr06 9598997 9600517 -
Ahy Ahy16g0497 Chr16 9129888 9131940 -
Ahy Ahy6g0836 Chr6 10533052 10535008 +
Aip Aip06g00480 Chr06 5787387 5789369 -
Amo Amo16g0328 Chr16 5096552 5098587 -
Apr Apr4g1284 Chr4 11832110 11834249 -
Arst Arst6g01080 Chr6 9817212 9819143 +
Bva Bva04g02127 Chr04 20692643 20694854 -
Car Car03g02041 Chr03 66640129 66642175 +
Cca Cca03g01888 Chr03 38416297 38418611 +
Dod Dod01g2177 Chr01 58825602 58827566 +
Gma Gma19g01255 Chr19 41572154 41573677 +
Gma Gma03g01200 Chr03 37793258 37795228 +
Gso Gso19g1100 Chr19 39107795 39109827 +
Gso Gso3g1105 Chr3 36293188 36295172 +
Lal Lal8g0879 Chr8 6436036 6437565 +
Lan Lan10g0867 Chr10 12769587 12771638 -
Lapu Lapu1g00246 Chr1 9815581 9818291 -
Lasa Lasa3g02646 Chr3 578586377 578587870 +
Lja Lja1g1370 Chr1 14529799 14536856 -
Mal Mal3g3412 Chr3 110986893 110988392 +
Mepo Mepo3g02774 Chr3 37662917 37665257 +
Mesa Mesa25g01431 Chr25 17200006 17201502 -
Mtr Mtr7g2561 Chr7 42272019 42273990 +
Phco Phco2g01447 Chr2 43973470 43974993 +
Pste Pste5g01968 Chr5 12489510 12491299 +
Pumo Pumo5g02533 Chr5 69880466 69882665 +
Rops Rops8g02724 Chr8 61565694 61567577 +
Seca Seca2g03874 Chr2 119518505 119520917 +
Spst Spst1g03473 Chr1 43599155 43600678 -
Ssu Ssu4g1563 Chr4 26646617 26648140 -
Tpr Tpr6g1404 Chr6 15156771 15158744 +
Trre Trre13g03213 Chr13 38990531 38992292 +
Tsu Tsu07g03262 Chr07 38968677 38970563 +
Vian Vian2g01851 Chr2 37281171 37282685 +
Vifa Vifa5g02252 Chr5 746316959 746318466 +
Vimu Vimu6g03166 Chr6 28074552 28075532 -
Viun Viun1g01624 Chr1 28032597 28034586 +
Vivi Vivi6g03654 Chr6 130796456 130798388 +
Pvu Pvu1g1293 Chr1 35089046 35090825 +
Bach Bach8g01201 Chr8 8081060 8082937 -
Bva Bva04g02128 Chr04 20695335 20697052 +
Lan Lan3g0586 Chr3 6748716 6751705 -
Pvu Pvu1g1294 Chr1 35091103 35091112 +
Pvu Pvu1g1295 Chr1 35092147 35093148 -
Bva Bva04g02129 Chr04 20697479 20697906 -
Pvu Pvu1g1296 Chr1 35156104 35157085 +
Dod Dod01g2178 Chr01 58839344 58840657 +
Ssu Ssu4g1560 Chr4 26632869 26633865 -
Vimu Vimu6g03164 Chr6 28058153 28059045 -
Pvu Pvu1g1297 Chr1 35169903 35171234 +
Amo Amo16g0326 Chr16 5089932 5091813 -
Dod Dod01g2179 Chr01 58840741 58841139 +
Lasa Lasa3g02649 Chr3 578912922 578913882 +
Phac Phac1g01712 Chr1 26254776 26256111 +
Phco Phco2g01449 Chr2 44014425 44015517 +
Psa Psa3g1818 Chr3 161780070 161781737 -
Pste Pste5g01970 Chr5 12503532 12504783 +
Ssu Ssu4g1559 Chr4 26621948 26622951 -
Vivi Vivi6g03656 Chr6 130811852 130813604 +
Pvu Pvu1g1298 Chr1 35179906 35184151 +
Pvu Pvu1g1299 Chr1 35192646 35193895 +
Adu Adu06g00814 Chr06 9793678 9795193 +
Aed Aed4g0512 Chr4 3939518 3940845 -
Aev Aev06g1389 Chr06 9590177 9591803 -
Ahy Ahy16g0495 Chr16 9123725 9125150 -
Ahy Ahy6g0838 Chr6 10539716 10541536 +
Aip Aip06g00478 Chr06 5781576 5782610 -
Apr Apr4g1282 Chr4 11814673 11816236 -
Arst Arst6g01083 Chr6 9824004 9825416 +
Car Car03g02043 Chr03 66652182 66654866 +
Cca Cca03g01891 Chr03 38435636 38439079 +
Dod Dod01g2180 Chr01 58853433 58855745 +
Gma Gma03g01202 Chr03 37807255 37809163 +
Gso Gso3g1107 Chr3 36307323 36309085 +
Lapu Lapu1g00244 Chr1 9782007 9783122 -
Lja Lja1g1367 Chr1 14505087 14507055 -
Mal Mal3g3414 Chr3 110999411 111001085 +
Mepo Mepo3g02776 Chr3 37674737 37677837 +
Mesa Mesa25g01420 Chr25 17149790 17152561 -
Mtr Mtr7g2564 Chr7 42285399 42287197 +
Phco Phco2g01450 Chr2 44020549 44021593 +
Pste Pste5g01972 Chr5 12515894 12516397 +
Pumo Pumo5g02536 Chr5 69901654 69903305 +
Rops Rops8g02726 Chr8 61597300 61599183 +
Seca Seca2g03879 Chr2 119615118 119621441 +
Tpr Tpr6g1406 Chr6 15167824 15170212 +
Trre Trre13g03218 Chr13 39030423 39031906 +
Tsu Tsu07g03264 Chr07 38981349 38984075 +
Vian Vian2g01853 Chr2 37301907 37302797 +
Vifa Vifa5g02254 Chr5 746350272 746351219 +
Viun Viun1g01626 Chr1 28051129 28052365 +
Vivi Vivi6g03657 Chr6 130825000 130826286 +
Pvu Pvu1g1300 Chr1 35220129 35223507 +
Adu Adu06g00815 Chr06 9795540 9797739 +
Aed Aed4g0511 Chr4 3933314 3937201 -
Aev Aev06g1388 Chr06 9586928 9589414 -
Ahy Ahy16g0494 Chr16 9121049 9123487 -
Ahy Ahy6g0839 Chr6 10541721 10543999 +
Aip Aip06g00477 Chr06 5779077 5781193 -
Amo Amo16g0325 Chr16 5087613 5089908 -
Apr Apr4g1281 Chr4 11806158 11809023 -
Arst Arst6g01084 Chr6 9825912 9828072 +
Car Car03g02044 Chr03 66658529 66660676 +
Cca Cca03g01892 Chr03 38441160 38444367 +
Dod Dod01g2181 Chr01 58870692 58873714 +
Gma Gma19g01257 Chr19 41591764 41595583 +
Gma Gma03g01203 Chr03 37811678 37815091 +
Gso Gso19g1103 Chr19 39128514 39132305 +
Gso Gso3g1108 Chr3 36311610 36314983 +
Lapu Lapu1g00242 Chr1 9771983 9775479 -
Lasa Lasa3g02651 Chr3 578970764 578982560 +
Lja Lja1g1365 Chr1 14482538 14485291 -
Mal Mal3g3415 Chr3 111002831 111005678 +
Mepo Mepo3g02777 Chr3 37678807 37682122 +
Mesa Mesa25g01418 Chr25 17141769 17144629 -
Mtr Mtr7g2565 Chr7 42294483 42297878 +
Phac Phac1g01714 Chr1 26272971 26276685 +
Phco Phco2g01451 Chr2 44028078 44031025 +
Psa Psa3g1815 Chr3 161545715 161554220 -
Pste Pste5g01974 Chr5 12518245 12521972 +
Pumo Pumo5g02537 Chr5 69904115 69907468 +
Rops Rops8g02727 Chr8 61607717 61612409 +
Seca Seca2g03880 Chr2 119624933 119628961 +
Spst Spst1g03471 Chr1 43566364 43569194 -
Ssu Ssu4g1558 Chr4 26616136 26618376 -
Tpr Tpr6g1407 Chr6 15224659 15229700 +
Trre Trre13g03220 Chr13 39037147 39041581 +
Tsu Tsu07g03265 Chr07 38987687 38991738 +
Vifa Vifa5g02262 Chr5 746952043 746958414 +
Vimu Vimu6g03162 Chr6 28024918 28029834 -
Viun Viun1g01629 Chr1 28061074 28067185 +
Vivi Vivi6g03658 Chr6 130844574 130850867 +
Lal Lal8g0879 Chr8 6436036 6437565 +