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
Pvu1g1081 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1082 . . Adu06g02014 Aed4g0582 Aev06g1544 Ahy16g2152 Ahy6g1852 Aip06g02570 . Amo16g2997 Amo06g2118 Apr4g1496 Arst6g02811 . . . . Cca07g00608 Dere01g2108 . Enph2g0654 Glsi12g2146 . Gma16g00335 . Gso16g0301 . . . . . . Lapu1g00466 . . Lele06g0489 Lele07g0699 . Lja1g1631 . . . Mibi02g0761 . . Phco2g01261 Prci1g3629 Psa3g2122 . Pumo5g02362 Rops8g02538 Seca2g03608 Spst1g03636 Ssu4g1804 Sto8g1591 . . . Vian2g01703 Vifa1g07940 . . . .
Pvu1g1083 . . . . . . . . . . . . . . . . . Cca07g00609 . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g01260 . . . Pumo5g02361 Rops8g02537 . Spst1g03637 . . . . . Vian2g01702 . . . Vivi6g03499 .
Pvu1g1084 . . . Aed4g0581 . . . . . . . Apr4g1427 . . . . . Cca07g00610 . Dod01g2009 . . . Gma16g00330 . Gso16g0299 Lal8g0994 . . . . . Lapu1g00391 . . . . . Lja1g1540 . . . . . . Phco2g01259 . . . Pumo5g01942 . Seca2g03606 Spst1g03638 . . . . . Vian2g01701 Vifa5g02056 Vimu6g03467 . Vivi6g03500 .
Pvu1g1085 . . . Aed9g1038 . . . . . . . . . . . . Car03g01900 . . . . . Gma19g01126 . . . . . . . . . . Lasa3g02437 . . . . . Mal3g3220 Mepo3g02581 Mesa25g01563 . Mtr7g2396 . Phco2g01258 . . Pste5g01736 . . . . . . Tpr6g1205 Trre13g02855 Tsu07g03056 . . . . Vivi6g03501 .
Pvu1g1086 . Accr2g02814 Adu10g02761 Aed4g0580 Aev06g1542 Ahy16g2147 Ahy6g1845 Aip06g02353 . . . Apr4g1426 Arst10g03565 . Bisa03g2610 . Car03g01901 Cca07g00607 Dere01g2179 Dod01g2011 Enph2g0704 Glsi12g2217 Gma19g01127 Gma16g00329 . Gso16g0298 . . Lal10g0482 . Lan5g0250 . Lapu1g00387 Lasa3g02438 Lele05g0711 Lele06g0547 Lele07g0753 Lele08g0550 Lja1g1538 Mal3g3221 Mepo3g02582 . . Mtr7g2397 . . Prci1g3559 Psa3g2011 Pste5g00966 Pumo5g02363 Rops8g02539 Seca10g02203 Spst1g03634 Ssu4g1724 Sto8g1528 Tpr6g1210 Trre13g02856 Tsu07g03058 Vian2g01705 Vifa5g02059 . . Vivi4g00540 .
Pvu1g1087 Acco02g0910 Accr2g02813 . Aed4g0579 . Ahy16g2145 Ahy6g1844 Aip06g02352 Alju01g0906 . . Apr4g1425 Arst6g02623 . Bisa03g2605 . Car03g01902 . Dere01g2180 Dod01g2013 Enph2g0705 Glsi12g2218 Gma19g01128 . . . . . Lal10g0486 . . . Lapu1g00389 Lasa3g02439 Lele05g0713 Lele06g0548 Lele07g0754 Lele08g0551 Lja1g1539 Mal3g3222 Mepo3g02585 . Mibi02g0820 Mtr7g2401 . . Prci1g3557 Psa3g2013 Pste5g01732 . . . . Ssu4g1725 Sto8g1527 Tpr6g1211 Trre13g02858 Tsu07g03057 . . . . Vivi4g00539 .
Pvu1g1088 . . . Aed4g0578 . . . . . . . Apr4g1424 . . . . . Cca07g00606 . . . . . . . Gso16g0297 . . . . . . . . . . . . . . . . . . . . . . Pste5g01731 Pumo5g02364 . . Spst1g03632 Ssu4g1723 . . . . Vian2g01706 . . . . .
Pvu1g1089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g1090 . . . . . . . . . . . . Arst6g02900 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Aip Aip06g02570 Chr06 113589642 113592701 +
Apr Apr4g1496 Chr4 15626098 15629123 +
Lapu Lapu1g00466 Chr1 15526670 15530790 +
Lja Lja1g1631 Chr1 17756917 17760234 +
Ssu Ssu4g1804 Chr4 32651293 32651862 +
Vimu Vimu6g03467 Chr6 31486584 31492959 -
Pvu Pvu1g1081 Chr1 26034997 26035543 +
Pvu Pvu1g1082 Chr1 26282533 26284030 +
Adu Adu06g02014 Chr06 85477685 85480545 -
Aed Aed4g0582 Chr4 4905693 4907743 -
Aev Aev06g1544 Chr06 11210652 11213613 -
Ahy Ahy16g2152 Chr16 120012760 120016583 -
Ahy Ahy6g1852 Chr6 90953820 90957425 -
Aip Aip06g02570 Chr06 113589642 113592701 +
Amo Amo16g2997 Chr16 130523346 130527577 +
Amo Amo06g2118 Chr06 76720478 76724114 -
Apr Apr4g1496 Chr4 15626098 15629123 +
Arst Arst6g02811 Chr6 89600085 89603278 +
Cca Cca07g00608 Chr07 8746390 8760090 -
Dere Dere01g2108 Chr01 35022124 35023071 -
Enph Enph2g0654 Chr2 5033643 5035589 -
Glsi Glsi12g2146 Chr12 36344361 36345299 -
Gma Gma16g00335 Chr16 3517508 3527698 +
Gso Gso16g0301 Chr16 3433883 3436519 +
Lapu Lapu1g00466 Chr1 15526670 15530790 +
Lele Lele06g0489 Chr06 2969669 2972957 -
Lele Lele07g0699 Chr07 3957840 3958662 -
Lja Lja1g1631 Chr1 17756917 17760234 +
Mibi Mibi02g0761 Chr02 7362299 7362914 -
Phco Phco2g01261 Chr2 39920204 39923940 +
Prci Prci1g3629 Chr1 53010862 53012310 +
Psa Psa3g2122 Chr3 187299349 187301941 +
Pumo Pumo5g02362 Chr5 65903734 65911977 +
Rops Rops8g02538 Chr8 58101936 58115280 +
Seca Seca2g03608 Chr2 111638928 111640896 +
Spst Spst1g03636 Chr1 45926462 45930304 -
Ssu Ssu4g1804 Chr4 32651293 32651862 +
Sto Sto8g1591 Chr8 10229653 10230600 +
Vian Vian2g01703 Chr2 34859287 34863151 +
Vifa Vifa1g07940 Chr1 1239402797 1239406137 +
Pvu Pvu1g1083 Chr1 26322259 26323629 +
Cca Cca07g00609 Chr07 8770042 8772347 -
Phco Phco2g01260 Chr2 39887136 39888744 -
Pumo Pumo5g02361 Chr5 65892219 65897024 +
Rops Rops8g02537 Chr8 58057759 58066010 +
Spst Spst1g03637 Chr1 45949031 45950659 +
Vian Vian2g01702 Chr2 34845213 34846653 -
Vivi Vivi6g03499 Chr6 127696283 127702286 +
Pvu Pvu1g1084 Chr1 26384464 26387168 +
Aed Aed4g0581 Chr4 4897007 4901883 -
Apr Apr4g1427 Chr4 14461289 14466265 -
Cca Cca07g00610 Chr07 8783864 8786147 -
Dod Dod01g2009 Chr01 55845119 55854539 +
Gma Gma16g00330 Chr16 3489387 3493933 -
Gso Gso16g0299 Chr16 3406821 3411247 -
Lal Lal8g0994 Chr8 7724622 7730253 -
Lapu Lapu1g00391 Chr1 14075059 14075952 +
Lja Lja1g1540 Chr1 16689353 16696145 -
Phco Phco2g01259 Chr2 39859829 39861294 -
Pumo Pumo5g01942 Chr5 54355536 54417452 -
Seca Seca2g03606 Chr2 111590770 111600548 +
Spst Spst1g03638 Chr1 45956522 45958037 +
Vian Vian2g01701 Chr2 34829674 34832175 -
Vifa Vifa5g02056 Chr5 680683090 680689611 +
Vimu Vimu6g03467 Chr6 31486584 31492959 -
Vivi Vivi6g03500 Chr6 127696283 127699093 +
Pvu Pvu1g1085 Chr1 26394399 26399289 +
Aed Aed9g1038 Chr9 7509894 7516013 -
Car Car03g01900 Chr03 65079667 65087109 +
Gma Gma19g01126 Chr19 39552163 39556315 +
Lasa Lasa3g02437 Chr3 555862704 555870587 +
Mal Mal3g3220 Chr3 108037692 108045848 +
Mepo Mepo3g02581 Chr3 35807484 35815195 +
Mesa Mesa25g01563 Chr25 18922035 18924148 -
Mtr Mtr7g2396 Chr7 40342677 40350464 +
Phco Phco2g01258 Chr2 39825808 39828680 -
Pste Pste5g01736 Chr5 11045885 11049330 -
Tpr Tpr6g1205 Chr6 12196325 12201826 +
Trre Trre13g02855 Chr13 27888763 27894109 +
Tsu Tsu07g03056 Chr07 36407290 36412396 +
Vivi Vivi6g03501 Chr6 127696287 127702881 +
Pvu Pvu1g1086 Chr1 26447699 26459755 +
Accr Accr2g02814 Chr2 64050415 64057183 -
Adu Adu10g02761 Chr10 104148832 104157666 +
Aed Aed4g0580 Chr4 4888414 4895678 -
Aev Aev06g1542 Chr06 11193798 11200512 -
Ahy Ahy16g2147 Chr16 119881756 119892221 -
Ahy Ahy6g1845 Chr6 90836552 90842879 -
Aip Aip06g02353 Chr06 107045768 107051651 -
Apr Apr4g1426 Chr4 14444912 14451770 -
Arst Arst10g03565 Chr10 103528487 103529368 +
Bisa Bisa03g2610 Chr03 39993262 40015206 -
Car Car03g01901 Chr03 65094640 65101325 +
Cca Cca07g00607 Chr07 8730216 8744307 -
Dere Dere01g2179 Chr01 35753490 35761918 +
Dod Dod01g2011 Chr01 55875488 55882196 +
Enph Enph2g0704 Chr2 5431536 5441905 +
Glsi Glsi12g2217 Chr12 36790109 36796395 +
Gma Gma19g01127 Chr19 39562587 39569687 +
Gma Gma16g00329 Chr16 3475877 3483476 -
Gso Gso16g0298 Chr16 3392928 3401063 -
Lal Lal10g0482 Chr10 11330487 11338173 +
Lan Lan5g0250 Chr5 3212039 3214230 -
Lapu Lapu1g00387 Chr1 13976409 13982952 -
Lasa Lasa3g02438 Chr3 555889989 555894553 +
Lele Lele05g0711 Chr05 4186785 4194880 +
Lele Lele06g0547 Chr06 3275263 3279260 +
Lele Lele07g0753 Chr07 4268030 4268388 +
Lele Lele08g0550 Chr08 3329892 3335183 +
Lja Lja1g1538 Chr1 16669966 16676929 -
Mal Mal3g3221 Chr3 108049533 108054868 +
Mepo Mepo3g02582 Chr3 35819227 35825256 +
Mtr Mtr7g2397 Chr7 40354905 40360965 +
Prci Prci1g3559 Chr1 52491837 52497396 -
Psa Psa3g2011 Chr3 179077358 179081683 -
Pste Pste5g00966 Chr5 6345274 6350718 -
Pumo Pumo5g02363 Chr5 65918834 65926162 +
Rops Rops8g02539 Chr8 58131004 58138891 +
Seca Seca10g02203 Chr10 25289483 25298095 +
Spst Spst1g03634 Chr1 45899241 45906377 -
Ssu Ssu4g1724 Chr4 30576528 30584475 -
Sto Sto8g1528 Chr8 9739099 9745427 -
Tpr Tpr6g1210 Chr6 12340985 12346511 +
Trre Trre13g02856 Chr13 27897150 27902182 +
Tsu Tsu07g03058 Chr07 36426383 36432044 +
Vian Vian2g01705 Chr2 34879064 34891187 +
Vifa Vifa5g02059 Chr5 681705097 681708508 +
Vivi Vivi4g00540 Chr4 12038909 12044151 +
Pvu Pvu1g1087 Chr1 26469663 26476257 +
Acco Acco02g0910 Chr02 6374824 6380829 +
Accr Accr2g02813 Chr2 64049919 64057183 -
Aed Aed4g0579 Chr4 4869307 4876559 -
Ahy Ahy16g2145 Chr16 119855015 119863294 -
Ahy Ahy6g1844 Chr6 90750111 90762075 -
Aip Aip06g02352 Chr06 107024559 107030243 -
Alju Alju01g0906 Chr01 6723066 6728720 +
Apr Apr4g1425 Chr4 14407478 14418857 -
Arst Arst6g02623 Chr6 84365308 84377495 -
Bisa Bisa03g2605 Chr03 39884345 39889833 -
Car Car03g01902 Chr03 65104080 65110440 +
Dere Dere01g2180 Chr01 35770546 35776265 +
Dod Dod01g2013 Chr01 55921543 55930026 +
Enph Enph2g0705 Chr2 5449177 5455956 +
Glsi Glsi12g2218 Chr12 36800736 36807124 +
Gma Gma19g01128 Chr19 39577713 39584802 +
Lal Lal10g0486 Chr10 11381660 11389591 +
Lapu Lapu1g00389 Chr1 14003340 14011197 -
Lasa Lasa3g02439 Chr3 556113430 556117072 +
Lele Lele05g0713 Chr05 4205417 4211064 +
Lele Lele06g0548 Chr06 3284341 3285513 +
Lele Lele07g0754 Chr07 4276712 4282398 +
Lele Lele08g0551 Chr08 3338175 3343750 +
Lja Lja1g1539 Chr1 16679156 16686428 -
Mal Mal3g3222 Chr3 108085744 108097500 +
Mepo Mepo3g02585 Chr3 35838753 35845754 +
Mibi Mibi02g0820 Chr02 7956011 7960752 +
Mtr Mtr7g2401 Chr7 40404847 40411321 +
Prci Prci1g3557 Chr1 52491576 52497390 -
Psa Psa3g2013 Chr3 179244643 179250283 -
Pste Pste5g01732 Chr5 11014078 11035365 -
Ssu Ssu4g1725 Chr4 30600567 30607661 -
Sto Sto8g1527 Chr8 9731671 9735468 -
Tpr Tpr6g1211 Chr6 12347935 12353932 +
Trre Trre13g02858 Chr13 27931444 27936357 +
Tsu Tsu07g03057 Chr07 36418867 36424362 +
Vivi Vivi4g00539 Chr4 12027087 12031856 +
Pvu Pvu1g1088 Chr1 26480468 26482910 -
Aed Aed4g0578 Chr4 4866187 4869006 +
Apr Apr4g1424 Chr4 14404027 14405956 +
Cca Cca07g00606 Chr07 8725798 8728083 +
Gso Gso16g0297 Chr16 3388081 3390319 +
Pste Pste5g01731 Chr5 11010104 11012748 +
Pumo Pumo5g02364 Chr5 65927185 65929540 -
Spst Spst1g03632 Chr1 45877893 45883838 +
Ssu Ssu4g1723 Chr4 30572417 30574498 +
Vian Vian2g01706 Chr2 34907307 34909727 -
Pvu Pvu1g1089 Chr1 26497214 26497931 -
Pvu Pvu1g1090 Chr1 26499392 26504480 -
Arst Arst6g02900 Chr6 92630740 92635068 +
Arst Arst10g03565 Chr10 103528487 103529368 +
Pste Pste5g00966 Chr5 6345274 6350718 -