Hierarchical alignments with the V. vinifera 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 Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi18g1336 . . . . . . . . . . . Ahy16g2735 . Aip06g03081 . . . Amo16g3461 Apr9g0734 . . . . . . . Bva06g02922 . Car04g02944 . Cca05g00051 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5107 . . . . . . . Mtr1g0875 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3089 . . . Tsu01g00995 . . . . . . . . . . . Vra6g1442 .
Vvi18g1337 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1338 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1339 Acco10g2481 . Accr4g00293 . Adu08g00498 . . . Aev08g0861 . Ahy17g2698 . Aip07g02945 . Alju08g0296 . Amo17g2610 . . . Arst8g00638 . Bach12g00924 . Bisa09g0985 . Bva06g02923 . . . . . Dere04g1154 . . . Enph1g1776 . Glsi08g1023 . Gma10g02168 Gma06g01092 . . Gso10g2033 Gso10g2033 . . Lal4g0453 Lal17g0523 Lal21g0542 . . . Lan14g0569 Lan14g0569 Lan14g0569 . . . Lapu9g01410 . Lasa5g02928 . Lele01g0239 Lele02g0233 Lele03g0245 Lele04g0239 . . . . Lja1g4934 . . Mal2g1864 Mepo3g06478 . Mesa9g03992 . Mibi05g0250 . . Mtr3g3044 . . Phco7g01354 . Prci15g0365 . . . Pste2g03320 . Pte3g01935 . . . . . Pvu9g1392 . . . . . . . . . . Sto9g2811 . Tpr2g5402 Trre5g03716 . . . . . . . Vimu10g02386 . . . Vivi3g02940 . . .
Vvi18g1340 Acco10g2485 . Accr4g00291 . Adu08g00495 . . . . . . . . . Alju08g0294 . . . . . Arst10g02261 . Bach12g00926 . Bisa09g0983 . . . . . . . Dere04g1157 . . . Enph1g1778 . Glsi08g1021 . . Gma06g01093 . . . . . . . . . . . . . . . . . . Lapu9g01409 . Lasa5g02930 . . . . . . . . . . . . Mal2g1863 Mepo3g06480 . Mesa9g03996 . Mibi05g0247 . . Mtr3g3046 . . Phco7g01708 Phco2g00739 Prci15g0363 . . Psa5g1902 Pste2g03715 . Pte3g01934 . Pte3g01934 . Pumo10g01655 . Pvu9g1393 Pvu1g0659 Rops10g01014 . . . . . . . . . . Tpr2g5065 Trre5g03722 . . . Vian4g01081 . . . Vimu10g02394 Vimu1g02412 Viun9g01805 . Vivi3g02932 Vivi3g02938 . .
Vvi18g1341 . . . . . . . . . . . . . . . . . . Apr9g0732 . . . . . . . Bva06g02924 . Car04g01173 . Cca05g00049 . . . . . . . . . . . Gma14g01541 Gma13g00247 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5112 . . . . Mesa1g01082 . . Mtr1g0874 . . . . Phco2g00737 . . . . . . . . . . . Pumo9g01078 . Pvu1g0658 . Rops9g02439 . Seca8g02569 . . . . Sto5g0323 Sto9g2810 Tpr1g3090 . . Trre1g01057 Tsu01g00993 . . . . Vifa3g04088 . . . . . Vivi4g04539 . .
Vvi18g1342 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1343 . . . . . . . Aed10g0393 . . Ahy17g2696 . Aip07g02941 . . . Amo17g2607 . Apr9g0730 . . . . . . . Bva06g02925 . . . Cca05g00048 Cca03g01040 . . . . . . . . Gma04g02303 . Gma14g01544 . Gso4g2018 . Gso4g2018 . . . Lal21g0543 . . . . . . . . . . . . . . . . . . . . . Lja1g4933 . . . . . . . . . . Mtr3g3049 . . . . . . . Psa5g1901 . . . . . . . . . . . . . . . . . Ssu1g2891 Sto10g2265 Sto9g2809 . . . . . . . . . . . . . . . . . Vra10g0168
Vvi18g1344 . . . . . . . . Aev08g0858 . Ahy17g2694 Ahy16g2728 Aip07g02940 Aip06g03073 . . . Amo16g3456 Apr9g0729 . . . . . . . . . Car04g02948 . Cca05g00047 . . Dere05g2584 . . . . . Glsi10g1265 . . Gma14g01545 Gma13g00249 . . . . Lal4g0454 . . . . . Lan14g0568 . . . . . . . . Lasa5g02887 . . . . Lele25g0211 . . . . . Mal1g5113 Mal2g1860 . . . . . . Mtr1g0873 Mtr3g3051 . . . Phco2g00732 . . . . . Pste8g02048 . . Pte3g01933 . . Pumo9g01076 . Pvu1g0653 . Rops9g02437 . Seca8g02571 . Spst8g01456 . . Sto5g0319 . Tpr1g3091 Tpr2g5398 . . Tsu01g00992 . . . . . . Vimu1g02421 . Viun8g00972 . Vivi4g04651 Vra6g1445 .
Vvi18g1345 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst10g02261 Chr10 80541111 80544087 -
Phco Phco7g01708 Chr7 17098848 17101921 -
Pste Pste2g03715 Chr2 40976614 40980240 -
Pumo Pumo10g01655 Chr10 21747140 21750903 -
Rops Rops10g01014 Chr10 21702351 21705292 +
Vian Vian4g01081 Chr4 17404128 17411610 +
Viun Viun9g01805 Chr9 27568229 27571234 +
Tpr Tpr2g5065 Chr2 56567388 56572563 -
Ahy Ahy17g2696 Chr17 124530916 124533603 -
Aip Aip07g02941 Chr07 115668241 115672118 -
Amo Amo17g2607 Chr17 125370209 125373964 -
Sto Sto10g2265 Chr10 32746699 32748723 +
Vvi Vvi18g1336 Chr18 13499571 13504533 -
Ahy Ahy16g2735 Chr16 140009568 140017466 +
Aip Aip06g03081 Chr06 125908204 125915971 +
Amo Amo16g3461 Chr16 143598365 143607556 +
Apr Apr9g0734 Chr9 12989820 12993838 +
Bva Bva06g02922 Chr06 18228857 18232820 -
Car Car04g02944 Chr04 56649892 56657127 -
Cca Cca05g00051 Chr05 1197012 1200887 +
Mal Mal1g5107 Chr1 122777492 122785404 -
Mtr Mtr1g0875 Chr1 10109213 10115650 +
Tpr Tpr1g3089 Chr1 35412118 35419846 -
Tsu Tsu01g00995 Chr01 9109127 9114574 +
Vra Vra6g1442 Chr6 28327402 28332301 +
Vvi Vvi18g1337 Chr18 13511698 13519667 +
Vvi Vvi18g1338 Chr18 13521207 13522494 -
Vvi Vvi18g1339 Chr18 13526224 13535341 +
Acco Acco10g2481 Chr10 36164078 36170302 +
Accr Accr4g00293 Chr4 2845947 2852808 -
Adu Adu08g00498 Chr08 8948068 8952906 -
Aev Aev08g0861 Chr08 5050488 5057048 -
Ahy Ahy17g2698 Chr17 124555281 124563092 -
Aip Aip07g02945 Chr07 115692779 115700572 -
Alju Alju08g0296 Chr08 2164504 2171293 -
Amo Amo17g2610 Chr17 125395521 125402748 -
Arst Arst8g00638 Chr8 8917284 8924797 -
Bach Bach12g00924 Chr12 6552241 6565415 +
Bisa Bisa09g0985 Chr09 14396769 14399644 -
Bva Bva06g02923 Chr06 18233697 18240708 +
Dere Dere04g1154 Chr04 12873971 12883515 +
Enph Enph1g1776 Chr1 42799123 42806208 +
Glsi Glsi08g1023 Chr08 7537337 7544046 -
Gma Gma10g02168 Chr10 49232145 49236969 +
Gma Gma06g01092 Chr06 10272453 10281104 +
Gso Gso10g2033 Chr10 47347498 47358279 +
Gso Gso10g2033 Chr10 47347498 47358279 +
Lal Lal4g0453 Chr4 3179499 3187112 +
Lal Lal17g0523 Chr17 3636675 3643800 +
Lal Lal21g0542 Chr21 3952012 3961790 +
Lan Lan14g0569 Chr14 11913205 11920692 -
Lan Lan14g0569 Chr14 11913205 11920692 -
Lan Lan14g0569 Chr14 11913205 11920692 -
Lapu Lapu9g01410 Chr9 28319948 28329268 -
Lasa Lasa5g02928 Chr5 518323477 518330445 -
Lele Lele01g0239 Chr01 1363073 1369688 -
Lele Lele02g0233 Chr02 1306929 1313357 -
Lele Lele03g0245 Chr03 1342580 1349010 -
Lele Lele04g0239 Chr04 1415001 1421414 -
Lja Lja1g4934 Chr1 67986159 67993556 -
Mal Mal2g1864 Chr2 22532932 22540018 -
Mepo Mepo3g06478 Chr3 78743109 78750553 +
Mesa Mesa9g03992 Chr9 72360719 72367623 +
Mibi Mibi05g0250 Chr05 2522189 2529434 -
Mtr Mtr3g3044 Chr3 44314949 44322372 +
Phco Phco7g01354 Chr7 12259354 12269301 +
Prci Prci15g0365 Chr15 2429784 2437548 -
Pste Pste2g03320 Chr2 33244874 33254089 +
Pte Pte3g01935 Chr3 31051658 31057407 -
Pvu Pvu9g1392 Chr9 19826003 19835913 +
Sto Sto9g2811 Chr9 29706107 29706967 -
Tpr Tpr2g5402 Chr2 60844175 60851575 -
Trre Trre5g03716 Chr5 37034536 37040976 +
Vimu Vimu10g02386 Chr10 34773950 34778021 +
Vivi Vivi3g02940 Chr3 49028237 49035786 +
Vvi Vvi18g1340 Chr18 13539311 13541605 -
Acco Acco10g2485 Chr10 36186407 36194341 +
Accr Accr4g00291 Chr4 2831906 2834191 -
Adu Adu08g00495 Chr08 8924987 8928830 -
Alju Alju08g0294 Chr08 2151380 2153567 -
Arst Arst10g02261 Chr10 80541111 80544087 -
Bach Bach12g00926 Chr12 6582496 6585107 +
Bisa Bisa09g0983 Chr09 14343762 14346101 -
Dere Dere04g1157 Chr04 12918582 12920971 +
Enph Enph1g1778 Chr1 42818453 42821719 +
Glsi Glsi08g1021 Chr08 7525409 7527453 -
Gma Gma06g01093 Chr06 10283141 10286471 +
Lapu Lapu9g01409 Chr9 28310550 28313551 -
Lasa Lasa5g02930 Chr5 518655516 518659596 +
Mal Mal2g1863 Chr2 22418337 22527375 -
Mepo Mepo3g06480 Chr3 78767089 78777198 +
Mesa Mesa9g03996 Chr9 72397498 72407315 +
Mibi Mibi05g0247 Chr05 2497260 2502379 -
Mtr Mtr3g3046 Chr3 44330801 44334401 +
Phco Phco7g01708 Chr7 17098848 17101921 -
Phco Phco2g00739 Chr2 7842778 7845949 +
Prci Prci15g0363 Chr15 2402219 2404946 -
Psa Psa5g1902 Chr5 146603749 146606721 -
Pste Pste2g03715 Chr2 40976614 40980240 -
Pte Pte3g01934 Chr3 31028518 31029898 -
Pte Pte3g01934 Chr3 31028518 31029898 -
Pumo Pumo10g01655 Chr10 21747140 21750903 -
Pvu Pvu9g1393 Chr9 19841975 19845107 +
Pvu Pvu1g0659 Chr1 7989513 7992498 +
Rops Rops10g01014 Chr10 21702351 21705292 +
Tpr Tpr2g5065 Chr2 56567388 56572563 -
Trre Trre5g03722 Chr5 37226382 37229195 +
Vian Vian4g01081 Chr4 17404128 17411610 +
Vimu Vimu10g02394 Chr10 34894137 34897239 +
Vimu Vimu1g02412 Chr1 34942706 34945622 -
Viun Viun9g01805 Chr9 27568229 27571234 +
Vivi Vivi3g02932 Chr3 48902402 48905228 -
Vivi Vivi3g02938 Chr3 49005289 49007551 -
Vvi Vvi18g1341 Chr18 13551373 13554243 +
Apr Apr9g0732 Chr9 12966303 12973588 -
Bva Bva06g02924 Chr06 18243025 18247652 +
Car Car04g01173 Chr04 12013135 12015502 -
Cca Cca05g00049 Chr05 1161915 1170633 -
Gma Gma14g01541 Chr14 37193789 37207606 +
Gma Gma13g00247 Chr13 12488795 12498311 +
Mal Mal1g5112 Chr1 123014792 123025723 +
Mesa Mesa1g01082 Chr1 14682038 14689124 -
Mtr Mtr1g0874 Chr1 10028130 10037856 -
Phco Phco2g00737 Chr2 7828000 7834523 +
Pumo Pumo9g01078 Chr9 29555499 29564323 -
Pvu Pvu1g0658 Chr1 7976534 7980025 +
Rops Rops9g02439 Chr9 45276733 45288974 -
Seca Seca8g02569 Chr8 58489462 58496703 +
Sto Sto5g0323 Chr5 1925150 1928685 -
Sto Sto9g2810 Chr9 29695210 29702299 -
Tpr Tpr1g3090 Chr1 35433911 35442430 +
Trre Trre1g01057 Chr1 7983930 7991276 -
Tsu Tsu01g00993 Chr01 9089627 9098346 -
Vifa Vifa3g04088 Chr3 1204394400 1204402653 -
Vivi Vivi4g04539 Chr4 172790012 172793798 +
Vvi Vvi18g1342 Chr18 13563113 13563559 -
Vvi Vvi18g1343 Chr18 13582120 13584804 +
Aed Aed10g0393 Chr10 3200650 3203710 +
Ahy Ahy17g2696 Chr17 124530916 124533603 -
Aip Aip07g02941 Chr07 115668241 115672118 -
Amo Amo17g2607 Chr17 125370209 125373964 -
Apr Apr9g0730 Chr9 12886388 12889161 -
Bva Bva06g02925 Chr06 18249842 18252745 +
Cca Cca05g00048 Chr05 1141266 1146879 -
Cca Cca03g01040 Chr03 25353206 25356075 -
Gma Gma04g02303 Chr04 53460829 53463468 -
Gma Gma14g01544 Chr14 37253676 37257278 +
Gso Gso4g2018 Chr4 50524830 50527806 -
Gso Gso4g2018 Chr4 50524830 50527806 -
Lal Lal21g0543 Chr21 3967986 3971435 +
Lja Lja1g4933 Chr1 67975490 67984226 -
Mtr Mtr3g3049 Chr3 44355190 44357785 +
Psa Psa5g1901 Chr5 146551485 146555130 -
Ssu Ssu1g2891 Chr1 76134648 76138090 -
Sto Sto10g2265 Chr10 32746699 32748723 +
Sto Sto9g2809 Chr9 29690632 29692536 -
Vra Vra10g0168 Chr10 4588630 4595261 -
Vvi Vvi18g1344 Chr18 13616658 13618126 +
Aev Aev08g0858 Chr08 5041597 5043344 +
Ahy Ahy17g2694 Chr17 124518052 124519533 +
Ahy Ahy16g2728 Chr16 139879398 139881703 -
Aip Aip07g02940 Chr07 115657110 115659450 +
Aip Aip06g03073 Chr06 125793056 125795426 -
Amo Amo16g3456 Chr16 143484733 143487019 -
Apr Apr9g0729 Chr9 12880373 12882114 +
Car Car04g02948 Chr04 56700128 56702002 -
Cca Cca05g00047 Chr05 1134279 1137396 +
Dere Dere05g2584 Chr05 36392747 36395035 -
Glsi Glsi10g1265 Chr10 8530979 8534687 -
Gma Gma14g01545 Chr14 37293607 37295984 -
Gma Gma13g00249 Chr13 12580648 12582939 -
Lal Lal4g0454 Chr4 3190403 3193486 -
Lan Lan14g0568 Chr14 11908164 11910751 +
Lasa Lasa5g02887 Chr5 515177887 515179103 -
Lele Lele25g0211 Chr25 1256372 1257877 +
Mal Mal1g5113 Chr1 123039664 123041704 -
Mal Mal2g1860 Chr2 22390229 22392752 +
Mtr Mtr1g0873 Chr1 10017433 10019870 +
Mtr Mtr3g3051 Chr3 44372069 44374049 -
Phco Phco2g00732 Chr2 7761524 7763184 +
Pste Pste8g02048 Chr8 16725476 16727828 -
Pte Pte3g01933 Chr3 31019738 31021377 +
Pumo Pumo9g01076 Chr9 29532046 29534916 +
Pvu Pvu1g0653 Chr1 7906622 7907474 +
Rops Rops9g02437 Chr9 45249255 45251478 +
Seca Seca8g02571 Chr8 58562028 58564710 -
Spst Spst8g01456 Chr8 13706929 13708604 -
Sto Sto5g0319 Chr5 1901243 1902700 +
Tpr Tpr1g3091 Chr1 35443642 35447159 -
Tpr Tpr2g5398 Chr2 60815498 60816761 +
Tsu Tsu01g00992 Chr01 9080539 9082796 +
Vimu Vimu1g02421 Chr1 35061656 35062967 -
Viun Viun8g00972 Chr8 10639068 10640826 -
Vivi Vivi4g04651 Chr4 174695591 174697278 +
Vra Vra6g1445 Chr6 28405119 28406780 -
Vvi Vvi18g1345 Chr18 13621107 13622663 -