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
Vvi2g0832 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0833 . . . . . . Aed6g0148 . . . . . . . . . . . . . . . Bach4g00966 . . . Bva08g01121 Bva11g01314 . . Cca06g00999 . . . . . . . . . Gma01g00124 Gma09g01933 . . . . . . Lal15g0383 Lal16g0438 . . . . Lan18g0786 Lan18g0786 . . . . Lapu2g00864 . Lasa2g03736 . . . . . . . . . Lja2g0805 . Mal6g0660 . Mepo5g01347 . Mesa17g01467 . . . Mtr5g1206 . . . Phco4g00544 . . . . . Pste1g00760 . . . . . Pumo8g01417 . Pvu2g1408 . Rops1g01273 . . . Spst2g01204 . Ssu2g1978 . . Sto11g1292 Tpr2g1450 . Trre9g01810 . Tsu05g01221 . Vian10g01070 . Vifa1g05912 . Vimu7g03461 . Viun2g01466 . Vivi2g02450 . Vra11g1039 .
Vvi2g0834 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0835 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0836 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0837 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0838 . . . . Adu05g00141 . Aed6g0147 . Aev05g0171 . Ahy15g0127 . Aip05g00127 . . . . . Apr7g1781 . Arst5g00174 . Bach4g00965 . . . Bva08g01120 Bva11g01315 . . Cca06g01000 . . . Dod02g0181 . . . . . Gma01g00123 Gma09g01934 . . Gso1g0126 Gso1g0126 . . Lal15g0382 . . . . Lal23g1131 Lan18g0787 . . . . Lan18g0787 . . Lasa2g03735 . . . . . . . . . . . Mal6g0659 . Mepo5g01346 . Mesa17g01466 . . . Mtr5g1205 . Phac2g02167 . Phco4g00545 . . . Psa2g3148 . Pste1g00749 . . . . . Pumo8g01418 . Pvu2g1407 . Rops1g01274 . Seca10g01283 . Spst2g01203 . Ssu2g1979 . Sto6g4155 . Tpr2g1449 . Trre9g01809 . Tsu05g01219 . Vian10g01069 . Vifa1g05913 . Vimu7g03460 . Viun2g01468 . Vivi2g02451 . Vra11g1038 .
Vvi2g0839 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0840 Acco11g1298 . . . Adu05g00142 . Aed6g0146 . Aev05g0173 . Ahy15g0128 . Aip05g00129 . . . . . Apr7g1782 . Arst5g00176 . . . Bisa11g2071 . Bva08g01119 Bva11g01316 . . Cca06g01001 . Dere09g1350 . Dod02g0182 . Enph13g1636 . Glsi05g1062 . Gma01g00121 Gma09g01935 . . Gso1g0125 Gso1g0125 . . Lal15g0381 Lal16g0437 . . . Lal23g1132 Lan18g0788 Lan18g0788 . . . Lan18g0788 Lapu2g00866 . . . Lele49g0891 Lele50g0933 Lele51g0907 . . . . . Lja2g0804 . Mal6g0658 . Mepo5g01345 . Mesa17g01465 . Mibi12g1094 . Mtr5g1204 . . . Phco4g00547 . Prci10g1446 . . . Pste1g00729 . . . . . Pumo8g01419 . Pvu2g1405 . Rops1g01275 . Seca10g02519 . Spst2g01202 . Ssu2g1980 . Sto6g4153 Sto11g1291 Tpr2g1448 . Trre9g01808 . Tsu05g01218 . Vian10g01067 . Vifa1g05920 . Vimu7g03459 . Viun2g01470 . Vivi2g02452 . Vra11g1036 .
Vvi2g0841 . . . . Adu05g00143 . Aed6g0145 . Aev05g0174 . Ahy15g0130 . Aip05g00131 . . . . . Apr7g1783 . Arst5g00178 . Bach4g00963 . . . Bva08g01118 Bva11g01317 . . Cca06g01002 . . . Dod02g0183 . . . . . Gma01g00120 Gma09g01936 . . Gso1g0124 Gso1g0124 . . Lal15g0380 Lal16g0436 . . . . Lan18g0789 Lan18g0789 . . . . Lapu2g00867 . . . . . . . . . . . Lja2g0803 . Mal6g0657 . Mepo5g01344 . Mesa17g01464 . . . Mtr5g1203 . Phac2g02161 . Phco4g00549 . . . Psa2g3150 . Pste1g00712 . Pte14g00715 . . . Pumo8g01421 . Pvu2g1404 . Rops1g01276 . . . Spst2g01200 . Ssu2g1981 . . Sto11g1288 Tpr2g1447 . . . Tsu05g01214 . Vian10g01066 . Vifa1g05922 . Vimu7g03456 . . . . . Vra11g1033 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0832 Chr2 8824033 8841682 -
Vvi Vvi2g0833 Chr2 8849489 8856107 +
Aed Aed6g0148 Chr6 1330466 1332732 -
Bach Bach4g00966 Chr4 6492240 6494716 -
Bva Bva08g01121 Chr08 5737904 5740452 -
Bva Bva11g01314 Chr11 13459683 13462122 +
Cca Cca06g00999 Chr06 23765845 23768076 +
Gma Gma01g00124 Chr01 1410992 1411656 -
Gma Gma09g01933 Chr09 44938589 44940142 +
Lal Lal15g0383 Chr15 2583636 2585291 -
Lal Lal16g0438 Chr16 2672430 2674430 -
Lan Lan18g0786 Chr18 13314383 13316112 +
Lan Lan18g0786 Chr18 13314383 13316112 +
Lapu Lapu2g00864 Chr2 7935230 7938120 +
Lasa Lasa2g03736 Chr2 551744447 551746149 -
Lja Lja2g0805 Chr2 7398003 7400705 -
Mal Mal6g0660 Chr6 9119735 9124471 -
Mepo Mepo5g01347 Chr5 13845357 13849602 -
Mesa Mesa17g01467 Chr17 19824780 19825373 -
Mtr Mtr5g1206 Chr5 12282047 12284216 -
Phco Phco4g00544 Chr4 3974334 3976756 +
Pste Pste1g00760 Chr1 2379835 2381610 -
Pumo Pumo8g01417 Chr8 46836759 46839830 +
Pvu Pvu2g1408 Chr2 26916135 26919381 -
Rops Rops1g01273 Chr1 29100482 29102742 +
Spst Spst2g01204 Chr2 10653093 10655104 -
Ssu Ssu2g1978 Chr2 72531883 72533555 +
Sto Sto11g1292 Chr11 12604757 12606734 -
Tpr Tpr2g1450 Chr2 17095734 17099007 -
Trre Trre9g01810 Chr9 17048482 17052771 -
Tsu Tsu05g01221 Chr05 10873526 10874656 -
Vian Vian10g01070 Chr10 12198491 12200578 -
Vifa Vifa1g05912 Chr1 926486434 926488843 +
Vimu Vimu7g03461 Chr7 29272440 29276567 -
Viun Viun2g01466 Chr2 25035285 25037697 +
Vivi Vivi2g02450 Chr2 112885419 112889270 +
Vra Vra11g1039 Chr11 9465573 9468191 -
Vvi Vvi2g0834 Chr2 8889551 8889892 +
Vvi Vvi2g0835 Chr2 8897780 8898433 +
Vvi Vvi2g0836 Chr2 8908626 8912204 -
Vvi Vvi2g0837 Chr2 8916390 8916758 -
Vvi Vvi2g0838 Chr2 8959224 8975937 +
Adu Adu05g00141 Chr05 1540477 1546511 +
Aed Aed6g0147 Chr6 1317774 1329013 -
Aev Aev05g0171 Chr05 1328066 1332866 +
Ahy Ahy15g0127 Chr15 1531467 1537966 +
Aip Aip05g00127 Chr05 1460990 1467299 +
Apr Apr7g1781 Chr7 25151515 25160549 +
Arst Arst5g00174 Chr5 1560022 1566338 +
Bach Bach4g00965 Chr4 6480905 6488994 -
Bva Bva08g01120 Chr08 5726422 5734544 -
Bva Bva11g01315 Chr11 13462478 13470897 +
Cca Cca06g01000 Chr06 23775530 23782068 +
Dod Dod02g0181 Chr02 2565429 2570986 +
Gma Gma01g00123 Chr01 1397739 1406485 -
Gma Gma09g01934 Chr09 44943791 44954483 +
Gso Gso1g0126 Chr1 1410860 1421451 -
Gso Gso1g0126 Chr1 1410860 1421451 -
Lal Lal15g0382 Chr15 2573249 2582120 -
Lal Lal23g1131 Chr23 12831300 12843260 +
Lan Lan18g0787 Chr18 13319357 13329375 +
Lan Lan18g0787 Chr18 13319357 13329375 +
Lasa Lasa2g03735 Chr2 551733169 551742241 -
Mal Mal6g0659 Chr6 9107381 9114541 -
Mepo Mepo5g01346 Chr5 13832980 13841598 -
Mesa Mesa17g01466 Chr17 19814024 19821854 -
Mtr Mtr5g1205 Chr5 12271993 12280139 -
Phac Phac2g02167 Chr2 23413043 23422873 -
Phco Phco4g00545 Chr4 3984335 3993996 +
Psa Psa2g3148 Chr2 362628989 362641342 -
Pste Pste1g00749 Chr1 2341623 2360347 -
Pumo Pumo8g01418 Chr8 46844730 46855955 +
Pvu Pvu2g1407 Chr2 26892022 26901573 -
Rops Rops1g01274 Chr1 29104010 29113892 +
Seca Seca10g01283 Chr10 12795860 12806446 -
Spst Spst2g01203 Chr2 10633955 10641650 -
Ssu Ssu2g1979 Chr2 72552517 72560469 +
Sto Sto6g4155 Chr6 44877789 44891409 -
Tpr Tpr2g1449 Chr2 17084292 17092948 -
Trre Trre9g01809 Chr9 17038045 17045180 -
Tsu Tsu05g01219 Chr05 10844832 10853336 -
Vian Vian10g01069 Chr10 12179123 12190670 -
Vifa Vifa1g05913 Chr1 926491452 926497993 +
Vimu Vimu7g03460 Chr7 29254643 29264521 -
Viun Viun2g01468 Chr2 25040068 25048711 +
Vivi Vivi2g02451 Chr2 112902867 112910079 +
Vra Vra11g1038 Chr11 9452183 9461151 -
Vvi Vvi2g0839 Chr2 8986720 8987668 -
Vvi Vvi2g0840 Chr2 8991157 9003253 +
Acco Acco11g1298 Chr11 27191616 27196389 +
Adu Adu05g00142 Chr05 1580023 1584772 +
Aed Aed6g0146 Chr6 1302926 1307650 -
Aev Aev05g0173 Chr05 1344244 1347700 +
Ahy Ahy15g0128 Chr15 1562009 1566807 +
Aip Aip05g00129 Chr05 1501434 1506331 +
Apr Apr7g1782 Chr7 25172465 25175356 +
Arst Arst5g00176 Chr5 1599702 1604449 +
Bisa Bisa11g2071 Chr11 43704743 43709793 -
Bva Bva08g01119 Chr08 5715675 5719694 -
Bva Bva11g01316 Chr11 13474895 13478280 +
Cca Cca06g01001 Chr06 23806520 23812196 +
Dere Dere09g1350 Chr09 17525652 17529001 -
Dod Dod02g0182 Chr02 2585115 2590391 +
Enph Enph13g1636 Chr13 22092939 22098019 -
Glsi Glsi05g1062 Chr05 60468744 60472700 +
Gma Gma01g00121 Chr01 1376244 1381493 -
Gma Gma09g01935 Chr09 44967415 44972892 +
Gso Gso1g0125 Chr1 1387985 1393388 -
Gso Gso1g0125 Chr1 1387985 1393388 -
Lal Lal15g0381 Chr15 2564572 2568543 -
Lal Lal16g0437 Chr16 2661272 2667199 -
Lal Lal23g1132 Chr23 12844796 12852388 +
Lan Lan18g0788 Chr18 13340141 13345422 +
Lan Lan18g0788 Chr18 13340141 13345422 +
Lan Lan18g0788 Chr18 13340141 13345422 +
Lapu Lapu2g00866 Chr2 7966541 7971994 +
Lele Lele49g0891 Chr49 5515681 5519559 -
Lele Lele50g0933 Chr50 5886613 5891074 -
Lele Lele51g0907 Chr51 5588297 5592237 -
Lja Lja2g0804 Chr2 7384577 7390457 -
Mal Mal6g0658 Chr6 9089591 9095729 -
Mepo Mepo5g01345 Chr5 13811864 13816950 -
Mesa Mesa17g01465 Chr17 19781690 19786306 -
Mibi Mibi12g1094 Chr12 26182986 26186680 +
Mtr Mtr5g1204 Chr5 12253030 12258493 -
Phco Phco4g00547 Chr4 4008223 4012751 +
Prci Prci10g1446 Chr10 9700366 9704781 -
Pste Pste1g00729 Chr1 2284680 2289811 -
Pumo Pumo8g01419 Chr8 46877599 46882154 +
Pvu Pvu2g1405 Chr2 26861922 26867117 -
Rops Rops1g01275 Chr1 29128521 29133734 +
Seca Seca10g02519 Chr10 31303119 31306312 -
Spst Spst2g01202 Chr2 10618872 10623491 -
Ssu Ssu2g1980 Chr2 72590922 72597933 +
Sto Sto6g4153 Chr6 44868081 44871143 -
Sto Sto11g1291 Chr11 12591700 12595245 -
Tpr Tpr2g1448 Chr2 17066726 17071557 -
Trre Trre9g01808 Chr9 16967621 16971250 -
Tsu Tsu05g01218 Chr05 10826515 10830806 -
Vian Vian10g01067 Chr10 12150394 12154735 -
Vifa Vifa1g05920 Chr1 928426798 928430165 +
Vimu Vimu7g03459 Chr7 29226700 29232103 -
Viun Viun2g01470 Chr2 25063244 25067352 +
Vivi Vivi2g02452 Chr2 113033137 113037269 +
Vra Vra11g1036 Chr11 9421570 9426375 -
Vvi Vvi2g0841 Chr2 9012738 9017048 +
Adu Adu05g00143 Chr05 1593479 1602899 +
Aed Aed6g0145 Chr6 1290874 1295766 -
Aev Aev05g0174 Chr05 1355726 1359943 +
Ahy Ahy15g0130 Chr15 1579341 1583998 +
Aip Aip05g00131 Chr05 1526498 1529013 +
Apr Apr7g1783 Chr7 25183883 25188357 +
Arst Arst5g00178 Chr5 1618661 1622714 +
Bach Bach4g00963 Chr4 6463476 6468169 -
Bva Bva08g01118 Chr08 5706442 5713904 -
Bva Bva11g01317 Chr11 13480917 13484334 +
Cca Cca06g01002 Chr06 23825644 23830695 +
Dod Dod02g0183 Chr02 2611663 2617036 +
Gma Gma01g00120 Chr01 1362204 1366856 -
Gma Gma09g01936 Chr09 44982571 44986673 +
Gso Gso1g0124 Chr1 1373706 1378699 -
Gso Gso1g0124 Chr1 1373706 1378699 -
Lal Lal15g0380 Chr15 2554668 2560187 -
Lal Lal16g0436 Chr16 2649860 2658068 -
Lan Lan18g0789 Chr18 13354306 13359405 +
Lan Lan18g0789 Chr18 13354306 13359405 +
Lapu Lapu2g00867 Chr2 7978763 7983712 +
Lja Lja2g0803 Chr2 7376416 7380903 -
Mal Mal6g0657 Chr6 9025963 9031235 -
Mepo Mepo5g01344 Chr5 13797921 13803249 -
Mesa Mesa17g01464 Chr17 19766186 19770391 -
Mtr Mtr5g1203 Chr5 12239354 12244849 -
Phac Phac2g02161 Chr2 23362317 23367464 -
Phco Phco4g00549 Chr4 4022236 4026486 +
Psa Psa2g3150 Chr2 362740420 362744961 +
Pste Pste1g00712 Chr1 2239049 2243153 -
Pte Pte14g00715 Chr14 28198056 28203001 +
Pumo Pumo8g01421 Chr8 46901236 46906517 +
Pvu Pvu2g1404 Chr2 26843699 26848700 -
Rops Rops1g01276 Chr1 29145796 29150476 +
Spst Spst2g01200 Chr2 10607061 10611159 -
Ssu Ssu2g1981 Chr2 72620439 72624516 +
Sto Sto11g1288 Chr11 12567011 12570835 -
Tpr Tpr2g1447 Chr2 17039966 17045276 -
Tsu Tsu05g01214 Chr05 10792652 10795693 -
Vian Vian10g01066 Chr10 12106172 12110135 -
Vifa Vifa1g05922 Chr1 928993166 928996742 +
Vimu Vimu7g03456 Chr7 29193364 29197362 -
Vra Vra11g1033 Chr11 9395858 9400735 -
Seca Seca10g02519 Chr10 31303119 31306312 -