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
Vvi18g0126 . . . . . . . Aed9g0169 . . . . . . . . . . . . . . . . . . Bva06g01847 Bva10g00995 . Car05g03314 . Cca07g00211 . . . . . . . . Gma04g00172 Gma06g00163 . . Gso4g0163 Gso4g0163 . . . . Lal21g0085 . . . . . . . . . . . . . . . . . . . . . Lja1g3445 . . Mal2g0406 . . . . . . . Mtr3g4334 . . . . . . . Psa5g0270 . . . . . . . . Pvu9g0103 . Rops10g02527 . . . Spst9g00224 . . . . . . Tpr7g0173 . . . Tsu07g00199 Vian4g02449 . . . . . Viun9g03743 . . . . Vra5g1706
Vvi18g0127 Acco10g1345 . Accr4g01413 . Adu08g00210 . . Aed9g0170 Aev08g0149 . Ahy17g2194 . Aip07g02340 . Alju08g1466 . Amo17g2054 . . . Arst8g00246 . . . Bisa09g2104 . Bva06g01848 Bva10g00994 . Car05g03313 . Cca07g00212 Dere04g0038 . . . Enph1g1012 . Glsi08g2085 . Gma04g00173 Gma06g00164 . . Gso4g0164 Gso4g0164 . . Lal4g0051 . Lal21g0086 . . . Lan14g0967 . Lan14g0967 . . . . . Lasa5g04595 . . Lele02g1413 . Lele04g1391 . . . . Lja1g3446 . . Mal2g0408 Mepo3g07792 . Mesa9g05564 . Mibi05g1361 . . Mtr3g4333 . . . . Prci8g0686 . . . . . . Pte1g02642 . . . . Pvu9g0225 . . . . . Spst9g00225 . . . . Sto9g3738 . Tpr7g0174 Trre5g05764 . . Tsu07g00200 . . . . Vimu10g03548 . . . Vivi3g00701 . . Vra5g1705
Vvi18g0128 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0129 . . . . Adu08g00208 . . Aed9g0171 Aev08g0151 . Ahy17g2197 . Aip07g02347 . . . . . . . Arst8g00244 . Bach12g00041 . . . Bva06g01850 Bva10g00993 . Car05g03311 . Cca07g00214 . . . . . . . . Gma04g00175 Gma06g00166 . . Gso4g0166 Gso4g0166 . . . . . . . . . . . . . . Lapu9g02344 . Lasa5g04593 . . . . . . . . . Lja1g3448 . . Mal2g0410 Mepo3g07795 . Mesa9g05561 . . . . Mtr3g4331 . . Phco7g00230 . . . . Psa5g0277 . . . . . . . . Pvu9g0224 . Rops10g02524 . . . . . . . Sto5g0057 . . Tpr7g0176 Trre5g05760 . . Tsu07g00204 Vian4g02447 . Vifa2g04564 . Vimu10g03546 . Viun9g03740 . Vivi3g00700 . . Vra5g1704
Vvi18g0130 . . . . Adu08g00207 . Aed11g0010 Aed9g0172 Aev08g0152 Aev07g2387 Ahy17g2199 Ahy16g0013 Aip07g02349 Aip06g00013 . . Amo17g2060 . Apr9g0690 . Arst8g00243 . Bach12g00042 . . . Bva06g01851 . . Car05g03310 Cca05g00427 Cca07g00215 . . Dod08g2327 Dod08g2327 . . . . Gma04g00176 Gma06g00167 . . Gso4g0167 Gso4g0167 . . Lal4g0052 . Lal21g0087 . . . Lan14g0965 . Lan14g0965 . . . Lapu9g02343 . Lasa5g04592 . . . . . . . . . Lja1g3449 . . Mal2g0412 Mepo3g07797 . Mesa9g05559 . . . . Mtr3g4330 . . Phco7g00231 . . . . Psa5g0279 . . . Pte1g02644 . . . . Pvu9g0223 . Rops10g02523 . Seca4g00338 . . . Ssu5g0015 . Sto5g0058 . . Tpr7g0178 Trre5g05759 . . Tsu07g00205 Vian4g02445 . Vifa2g04563 . Vimu10g03545 . Viun9g03739 . Vivi3g00698 . . Vra5g1703
Vvi18g0131 . . . . . . . . Aev08g0153 . Ahy17g2200 . Aip07g02350 . . . . . . . . . . . . . Bva06g01852 Bva10g00990 . . . . . . . . . . . . . . . . . . . . . . Lal21g0088 . . . . . . . . . . . . . . . . . . . . . Lja1g3450 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0059 . . . . . . . . . . . . . . . . . . .
Vvi18g0132 . . . . . . . Aed9g0176 . Aev07g2386 . Ahy16g0017 . Aip06g00014 . . . . . . . . . . . . Bva06g01853 Bva10g00989 . Car05g03309 . Cca07g00218 . . . Dod08g2326 . . . . Gma04g00178 Gma06g00169 . . Gso4g0169 Gso4g0169 . . . Lal17g0045 . . . . . . . . . . . . . . . . . . . . . . Lja1g3451 . . Mal2g0413 . . . . . . . Mtr3g4329 . . . . . . . Psa5g0280 . . . . . . . . . . . . . . . . . . . . . Tpr7g0179 . . . Tsu07g00206 . . . . . . . . . . . Vra5g1701
Vvi18g0133 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00988 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0060 . . . . . . . . . . . . . . . . . . .
Vvi18g0134 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00987 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2311 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0135 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst8g00243 Chr8 3397012 3400282 -
Lja Lja1g3451 Chr1 43029609 43032949 -
Lja Lja1g3450 Chr1 43024623 43029257 +
Vvi Vvi18g0126 Chr18 1159051 1167471 -
Aed Aed9g0169 Chr9 1221175 1226306 -
Bva Bva06g01847 Chr06 12696895 12700216 -
Bva Bva10g00995 Chr10 7314288 7319918 +
Car Car05g03314 Chr05 77849665 77854214 +
Cca Cca07g00211 Chr07 2698928 2704878 -
Gma Gma04g00172 Chr04 1474814 1480456 -
Gma Gma06g00163 Chr06 1445088 1449775 -
Gso Gso4g0163 Chr4 1449890 1455488 -
Gso Gso4g0163 Chr4 1449890 1455488 -
Lal Lal21g0085 Chr21 582204 592188 -
Lja Lja1g3445 Chr1 42966673 42971768 -
Mal Mal2g0406 Chr2 4546855 4551146 -
Mtr Mtr3g4334 Chr3 57269714 57274373 +
Psa Psa5g0270 Chr5 19811636 19816658 -
Pvu Pvu9g0103 Chr9 1694251 1700368 +
Rops Rops10g02527 Chr10 44099403 44108244 +
Spst Spst9g00224 Chr9 1980793 1985713 -
Tpr Tpr7g0173 Chr7 1431421 1435508 -
Tsu Tsu07g00199 Chr07 1490062 1494877 -
Vian Vian4g02449 Chr4 41104601 41109660 +
Viun Viun9g03743 Chr9 42451377 42456953 +
Vra Vra5g1706 Chr5 23342319 23348019 +
Vvi Vvi18g0127 Chr18 1170292 1171960 +
Acco Acco10g1345 Chr10 27267962 27269933 -
Accr Accr4g01413 Chr4 14214578 14216589 +
Adu Adu08g00210 Chr08 3524554 3528734 -
Aed Aed9g0170 Chr9 1233340 1237101 +
Aev Aev08g0149 Chr08 855455 858318 +
Ahy Ahy17g2194 Chr17 104797626 104802709 +
Aip Aip07g02340 Chr07 97379829 97385008 +
Alju Alju08g1466 Chr08 11409845 11411874 +
Amo Amo17g2054 Chr17 104444816 104449948 +
Arst Arst8g00246 Chr8 3536344 3540559 -
Bisa Bisa09g2104 Chr09 33700821 33703045 -
Bva Bva06g01848 Chr06 12700309 12702216 +
Bva Bva10g00994 Chr10 7307444 7309767 -
Car Car05g03313 Chr05 77841861 77846043 -
Cca Cca07g00212 Chr07 2727883 2731422 +
Dere Dere04g0038 Chr04 467260 469345 +
Enph Enph1g1012 Chr1 36404713 36411973 +
Glsi Glsi08g2085 Chr08 14612244 14614306 -
Gma Gma04g00173 Chr04 1491170 1495132 +
Gma Gma06g00164 Chr06 1462647 1465584 +
Gso Gso4g0164 Chr4 1466051 1469598 +
Gso Gso4g0164 Chr4 1466051 1469598 +
Lal Lal4g0051 Chr4 306797 310813 +
Lal Lal21g0086 Chr21 592942 595484 -
Lan Lan14g0967 Chr14 15993537 15996021 -
Lan Lan14g0967 Chr14 15993537 15996021 -
Lasa Lasa5g04595 Chr5 677554060 677557285 -
Lele Lele02g1413 Chr02 18493492 18495426 +
Lele Lele04g1391 Chr04 19376815 19378742 +
Lja Lja1g3446 Chr1 42975413 42977996 +
Mal Mal2g0408 Chr2 4563552 4563845 +
Mepo Mepo3g07792 Chr3 91073843 91074668 +
Mesa Mesa9g05564 Chr9 91160305 91163414 -
Mibi Mibi05g1361 Chr05 16291036 16293045 +
Mtr Mtr3g4333 Chr3 57261190 57265930 -
Prci Prci8g0686 Chr8 4467835 4470432 +
Pte Pte1g02642 Chr1 46664229 46666255 +
Pvu Pvu9g0225 Chr9 4860316 4863593 +
Spst Spst9g00225 Chr9 2029086 2031949 +
Sto Sto9g3738 Chr9 35561659 35563546 -
Tpr Tpr7g0174 Chr7 1438361 1443427 +
Trre Trre5g05764 Chr5 57498476 57499839 -
Tsu Tsu07g00200 Chr07 1497026 1501173 +
Vimu Vimu10g03548 Chr10 45016790 45019486 -
Vivi Vivi3g00701 Chr3 11668914 11672526 +
Vra Vra5g1705 Chr5 23332189 23335203 -
Vvi Vvi18g0128 Chr18 1173612 1173884 -
Vvi Vvi18g0129 Chr18 1181544 1182422 +
Adu Adu08g00208 Chr08 3473250 3475455 -
Aed Aed9g0171 Chr9 1242486 1243457 +
Aev Aev08g0151 Chr08 861827 862795 +
Ahy Ahy17g2197 Chr17 105158775 105159758 +
Aip Aip07g02347 Chr07 97684849 97685997 +
Arst Arst8g00244 Chr8 3486290 3487273 -
Bach Bach12g00041 Chr12 317756 318691 +
Bva Bva06g01850 Chr06 12705515 12706103 +
Bva Bva10g00993 Chr10 7300995 7302391 -
Car Car05g03311 Chr05 77809059 77810567 -
Cca Cca07g00214 Chr07 2751346 2752592 +
Gma Gma04g00175 Chr04 1507148 1508092 +
Gma Gma06g00166 Chr06 1472924 1473877 +
Gso Gso4g0166 Chr4 1481110 1482054 +
Gso Gso4g0166 Chr4 1481110 1482054 +
Lapu Lapu9g02344 Chr9 37995439 37996383 -
Lasa Lasa5g04593 Chr5 677330048 677330995 -
Lja Lja1g3448 Chr1 43008102 43009070 +
Mal Mal2g0410 Chr2 4567647 4568609 +
Mepo Mepo3g07795 Chr3 91083432 91084623 +
Mesa Mesa9g05561 Chr9 91149209 91150174 -
Mtr Mtr3g4331 Chr3 57242448 57243404 -
Phco Phco7g00230 Chr7 1544504 1545445 +
Psa Psa5g0277 Chr5 20475229 20477456 +
Pvu Pvu9g0224 Chr9 4715585 4716526 -
Rops Rops10g02524 Chr10 44044101 44045120 -
Sto Sto5g0057 Chr5 373114 379210 +
Tpr Tpr7g0176 Chr7 1450703 1452043 +
Trre Trre5g05760 Chr5 57475892 57476854 -
Tsu Tsu07g00204 Chr07 1512535 1513488 +
Vian Vian4g02447 Chr4 41085317 41086249 -
Vifa Vifa2g04564 Chr2 1342609805 1342610752 +
Vimu Vimu10g03546 Chr10 45010923 45012500 -
Viun Viun9g03740 Chr9 42430023 42431423 -
Vivi Vivi3g00700 Chr3 11639817 11644125 -
Vra Vra5g1704 Chr5 23325839 23327303 -
Vvi Vvi18g0130 Chr18 1193572 1199075 +
Adu Adu08g00207 Chr08 3385340 3388365 -
Aed Aed11g0010 Chr11 66394 68221 +
Aed Aed9g0172 Chr9 1247678 1251378 +
Aev Aev08g0152 Chr08 867120 868952 +
Aev Aev07g2387 Chr07 24569082 24572161 -
Ahy Ahy17g2199 Chr17 105397808 105400103 +
Ahy Ahy16g0013 Chr16 145720 148941 +
Aip Aip07g02349 Chr07 97906938 97910632 +
Aip Aip06g00013 Chr06 135207 137407 +
Amo Amo17g2060 Chr17 104722515 104725601 -
Apr Apr9g0690 Chr9 11408797 11411150 -
Arst Arst8g00243 Chr8 3397012 3400282 -
Bach Bach12g00042 Chr12 322763 325558 +
Bva Bva06g01851 Chr06 12708731 12711774 +
Car Car05g03310 Chr05 77792211 77797404 -
Cca Cca05g00427 Chr05 9376794 9379193 -
Cca Cca07g00215 Chr07 2774484 2778295 +
Dod Dod08g2327 Chr08 51309245 51312974 -
Dod Dod08g2327 Chr08 51309245 51312974 -
Gma Gma04g00176 Chr04 1516125 1519000 +
Gma Gma06g00167 Chr06 1482856 1486244 +
Gso Gso4g0167 Chr4 1489869 1493097 +
Gso Gso4g0167 Chr4 1489869 1493097 +
Lal Lal4g0052 Chr4 311741 313435 +
Lal Lal21g0087 Chr21 599967 602969 +
Lan Lan14g0965 Chr14 15988002 15991463 -
Lan Lan14g0965 Chr14 15988002 15991463 -
Lapu Lapu9g02343 Chr9 37984344 37987870 -
Lasa Lasa5g04592 Chr5 677239486 677241816 -
Lja Lja1g3449 Chr1 43019806 43023017 +
Mal Mal2g0412 Chr2 4589020 4592825 +
Mepo Mepo3g07797 Chr3 91100768 91104859 +
Mesa Mesa9g05559 Chr9 91109304 91112711 -
Mtr Mtr3g4330 Chr3 57225013 57228628 -
Phco Phco7g00231 Chr7 1553001 1555912 +
Psa Psa5g0279 Chr5 20517359 20520342 +
Pte Pte1g02644 Chr1 46672067 46674730 +
Pvu Pvu9g0223 Chr9 4667256 4670683 -
Rops Rops10g02523 Chr10 44028537 44032386 -
Seca Seca4g00338 Chr4 5459339 5463169 +
Ssu Ssu5g0015 Chr5 220924 223196 +
Sto Sto5g0058 Chr5 380905 384431 +
Tpr Tpr7g0178 Chr7 1467836 1471412 +
Trre Trre5g05759 Chr5 57461950 57465052 -
Tsu Tsu07g00205 Chr07 1519762 1523244 +
Vian Vian4g02445 Chr4 41071092 41073928 -
Vifa Vifa2g04563 Chr2 1342339080 1342341207 -
Vimu Vimu10g03545 Chr10 45001324 45001832 -
Viun Viun9g03739 Chr9 42419033 42422171 -
Vivi Vivi3g00698 Chr3 11615202 11617781 -
Vra Vra5g1703 Chr5 23314778 23318066 -
Vvi Vvi18g0131 Chr18 1204422 1214688 +
Aev Aev08g0153 Chr08 870276 874350 +
Ahy Ahy17g2200 Chr17 105411691 105416197 +
Aip Aip07g02350 Chr07 97920539 97925105 +
Bva Bva06g01852 Chr06 12712249 12716602 +
Bva Bva10g00990 Chr10 7288926 7293469 -
Lal Lal21g0088 Chr21 604151 608234 +
Lja Lja1g3450 Chr1 43024623 43029257 +
Sto Sto5g0059 Chr5 386232 390502 +
Vvi Vvi18g0132 Chr18 1214938 1217804 -
Aed Aed9g0176 Chr9 1259023 1262636 -
Aev Aev07g2386 Chr07 24565798 24568811 +
Ahy Ahy16g0017 Chr16 183785 188879 -
Aip Aip06g00014 Chr06 137693 142853 -
Bva Bva06g01853 Chr06 12716665 12719534 -
Bva Bva10g00989 Chr10 7286253 7289661 +
Car Car05g03309 Chr05 77787522 77791769 +
Cca Cca07g00218 Chr07 2788875 2793288 -
Dod Dod08g2326 Chr08 51305841 51308983 +
Gma Gma04g00178 Chr04 1528153 1531984 -
Gma Gma06g00169 Chr06 1494661 1498747 -
Gso Gso4g0169 Chr4 1502441 1505935 -
Gso Gso4g0169 Chr4 1502441 1505935 -
Lal Lal17g0045 Chr17 264158 269854 -
Lja Lja1g3451 Chr1 43029609 43032949 -
Mal Mal2g0413 Chr2 4594587 4598533 -
Mtr Mtr3g4329 Chr3 57217574 57221855 +
Psa Psa5g0280 Chr5 20541674 20545870 -
Tpr Tpr7g0179 Chr7 1472194 1476675 -
Tsu Tsu07g00206 Chr07 1523882 1528186 -
Vra Vra5g1701 Chr5 23303332 23307124 +
Vvi Vvi18g0133 Chr18 1227403 1228728 -
Bva Bva10g00988 Chr10 7283337 7285014 +
Sto Sto5g0060 Chr5 391153 392590 -
Vvi Vvi18g0134 Chr18 1236395 1237078 +
Bva Bva10g00987 Chr10 7279295 7279855 -
Lja Lja1g2311 Chr1 26784550 26785428 -
Vvi Vvi18g0135 Chr18 1239330 1246210 -