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
Vvi17g0133 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0134 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0135 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0136 Acco04g2419 . Accr8g00338 . Adu01g01684 . . Aed6g1348 Aev01g1904 . Ahy11g1572 . Aip01g01708 . Alju06g2379 . Amo11g1678 . . . Arst1g02204 . . . Bisa08g2136 . Bva06g01490 Bva03g00768 Car07g01146 . . Cca11g01728 Dere03g0614 . Dod05g1503 . Enph6g0497 . Glsi02g0562 . . . . Gma17g01198 . . . . . . . . . . . . . . . . Lapu3g01223 . Lasa4g02987 . Lele21g1686 . Lele23g0325 . . . . . . Lja4g2394 Mal5g3987 . Mepo1g01493 . . . Mibi09g0397 . Mtr4g3703 . . . Phco8g00642 . Prci4g2703 . . . Pste6g01825 . . . . . Pumo4g01537 . Pvu3g2167 . Rops2g04127 . Seca12g01735 . Spst3g04440 . . Ssu6g1489 . . Tpr5g2755 . Trre15g03044 . Tsu04g02501 . Vian1g01293 . Vifa4g03106 . Vimu7g00534 . Viun3g04298 . Vivi1g02282 . . Vra7g1493
Vvi17g0137 . . . . . . Aed10g0816 Aed6g1349 Aev01g1905 . Ahy11g1566 . Aip01g01704 . . . Amo11g1672 . Apr1g0283 . . . . . . . Bva06g01489 Bva05g00261 Car07g01145 Car05g01632 Cca03g00340 Cca11g01729 . . Dod05g1504 . . . . . Gma06g01523 Gma04g01888 Gma05g00442 Gma17g01197 Gso6g1445 Gso6g1445 Gso6g1445 Gso6g1445 Lal19g1029 . . Lal17g0856 Lal4g0730 . Lan1g1467 . . Lan1g1467 Lan1g1467 . . . . . . . . . . . . . Lja1g5236 Lja4g2393 Mal5g3988 Mal2g2499 . . . . . . Mtr4g3705 Mtr3g2359 . . . . . . Psa4g1526 . . . . . . . . . . . . . . . . . Ssu1g2359 Ssu6g1488 Sto4g0109 Sto8g4530 Tpr5g2756 Tpr7g1182 . . Tsu04g02502 Tsu03g02163 . . . . . . . . . . . Vra7g1494
Vvi17g0138 . . . . . Adu08g02823 . . Aev01g1908 . Ahy11g1559 . Aip01g01694 . . . Amo11g1664 . . . . Arst8g03884 . Bach2g02245 . . Bva06g01487 Bva05g00263 . Car05g01634 Cca03g00342 . . . Dod05g1508 . . . . . Gma06g01526 Gma04g01886 . Gma17g01193 Gso6g1447 Gso6g1447 . Gso6g1447 . . . . Lal4g0731 Lal21g0773 . . . . . . . Lapu9g00997 . Lasa5g01680 . . . . . . . . Lja1g5238 . . Mal2g2497 . Mepo3g05745 . Mesa9g03126 . . . Mtr3g2361 . . . Phco7g01981 . . . . . Pste2g00403 . . Pte3g00171 . . Pumo10g01894 . Pvu9g1728 . Rops10g00788 . Seca4g02865 . Spst9g02102 Ssu1g2357 . Sto4g0107 . . Tpr7g1184 . Trre5g02367 . Tsu03g02165 . . . Vifa2g01901 . . . Viun9g01458 . Vivi3g04562 . .
Vvi17g0139 . . . . . Adu08g02824 Aed10g0818 . Aev08g2384 . Ahy18g2972 . Aip08g03375 . . . . . Apr1g0281 . . Arst8g03885 . Bach2g02244 . . Bva06g01486 Bva05g00264 . Car05g01635 Cca03g00343 . . . Dod09g0159 . . . . . Gma06g01527 Gma04g01884 . . Gso6g1448 Gso6g1448 . . . . . . Lal4g0732 . . . . . . . . Lapu9g00995 . . . . . . . . . . Lja1g5240 . . Mal2g2496 . Mepo3g05746 . Mesa9g03127 . . . Mtr3g2362 . . . Phco7g01982 . . . . . Pste2g00404 . . . . . Pumo10g01895 . Pvu9g1729 . Rops10g00787 . Seca4g02866 . Spst9g02100 Ssu1g2355 . Sto4g0105 . . Tpr7g1185 . Trre5g02368 . Tsu03g02166 . . . . . . . Viun9g01453 . . . .
Vvi17g0140 . . . . . . . Aed6g1355 . . . . . . . . . . . . . . . . . . . . Car07g01141 . . Cca11g01734 . . . . . . . . . . . . . . . . . . Lal14g1467 . . . . . . . . . . . . . . . . . . . . . . . Mal5g3994 . Mepo1g01484 . . . . . Mtr4g3711 . . . Phco8g00637 . . . . . Pste6g01838 . . . . . Pumo4g01529 . Pvu3g2163 . Rops2g04116 . Seca12g01728 . Spst3g04446 . . Ssu6g1485 . . . . . . . . . . Vifa4g03115 . Vimu7g00539 . Viun3g04301 . Vivi1g02272 . . Vra7g1497
Vvi17g0141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0133 Chr17 1129228 1136881 +
Vvi Vvi17g0134 Chr17 1137078 1137499 +
Vvi Vvi17g0135 Chr17 1138002 1138926 -
Vvi Vvi17g0136 Chr17 1190919 1197818 -
Acco Acco04g2419 Chr04 40903293 40907982 -
Accr Accr8g00338 Chr8 4835001 4840350 +
Adu Adu01g01684 Chr01 56678094 56681286 +
Aed Aed6g1348 Chr6 18169960 18176144 -
Aev Aev01g1904 Chr01 24040230 24044982 -
Ahy Ahy11g1572 Chr11 74929226 74932651 +
Aip Aip01g01708 Chr01 69744940 69748123 +
Alju Alju06g2379 Chr06 50540582 50547349 -
Amo Amo11g1678 Chr11 74109049 74112162 +
Arst Arst1g02204 Chr1 57358528 57361844 +
Bisa Bisa08g2136 Chr08 50775894 50781254 +
Bva Bva06g01490 Chr06 10794418 10799869 +
Bva Bva03g00768 Chr03 4589813 4597753 +
Car Car07g01146 Chr07 10231706 10237022 +
Cca Cca11g01728 Chr11 41833805 41838772 -
Dere Dere03g0614 Chr03 10271917 10278199 -
Dod Dod05g1503 Chr05 39950279 39960141 -
Enph Enph6g0497 Chr6 8360981 8371195 -
Glsi Glsi02g0562 Chr02 3636712 3642322 -
Gma Gma17g01198 Chr17 10532468 10538395 +
Lapu Lapu3g01223 Chr3 13150126 13156252 +
Lasa Lasa4g02987 Chr4 553999069 554003488 -
Lele Lele21g1686 Chr21 24818406 24825517 -
Lele Lele23g0325 Chr23 2259989 2264978 +
Lja Lja4g2394 Chr4 26814464 26819953 +
Mal Mal5g3987 Chr5 109572654 109577667 -
Mepo Mepo1g01493 Chr1 14689547 14695760 +
Mibi Mibi09g0397 Chr09 5065243 5072550 +
Mtr Mtr4g3703 Chr4 50787104 50792627 -
Phco Phco8g00642 Chr8 6399803 6404426 +
Prci Prci4g2703 Chr4 39242032 39248542 -
Pste Pste6g01825 Chr6 8370097 8380010 -
Pumo Pumo4g01537 Chr4 19267493 19272649 +
Pvu Pvu3g2167 Chr3 42494590 42500121 +
Rops Rops2g04127 Chr2 74965668 74971424 +
Seca Seca12g01735 Chr12 19109340 19115496 +
Spst Spst3g04440 Chr3 95944890 95950084 -
Ssu Ssu6g1489 Chr6 24447221 24452702 +
Tpr Tpr5g2755 Chr5 49671542 49677319 -
Trre Trre15g03044 Chr15 27468227 27473619 +
Tsu Tsu04g02501 Chr04 28262536 28268228 -
Vian Vian1g01293 Chr1 13957771 13962792 +
Vifa Vifa4g03106 Chr4 990516055 990520554 -
Vimu Vimu7g00534 Chr7 5512327 5513414 -
Viun Viun3g04298 Chr3 50702309 50707757 -
Vivi Vivi1g02282 Chr1 48192452 48197157 +
Vra Vra7g1493 Chr7 32247263 32252523 -
Vvi Vvi17g0137 Chr17 1200420 1200851 -
Aed Aed10g0816 Chr10 6773796 6774218 -
Aed Aed6g1349 Chr6 18177667 18178089 -
Aev Aev01g1905 Chr01 24048646 24049080 -
Ahy Ahy11g1566 Chr11 74184658 74185419 +
Aip Aip01g01704 Chr01 69103229 69104399 +
Amo Amo11g1672 Chr11 73120813 73121694 +
Apr Apr1g0283 Chr1 3307968 3308536 +
Bva Bva06g01489 Chr06 10792199 10792939 +
Bva Bva05g00261 Chr05 1280217 1280915 -
Car Car07g01145 Chr07 10226440 10227302 +
Car Car05g01632 Chr05 61095042 61095945 -
Cca Cca03g00340 Chr03 5295104 5296168 -
Cca Cca11g01729 Chr11 41854012 41854527 -
Dod Dod05g1504 Chr05 39962477 39963663 -
Gma Gma06g01523 Chr06 14683929 14685424 -
Gma Gma04g01888 Chr04 49126683 49127105 +
Gma Gma05g00442 Chr05 4207243 4207665 +
Gma Gma17g01197 Chr17 10528791 10529761 +
Gso Gso6g1445 Chr6 14396753 14397970 -
Gso Gso6g1445 Chr6 14396753 14397970 -
Gso Gso6g1445 Chr6 14396753 14397970 -
Gso Gso6g1445 Chr6 14396753 14397970 -
Lal Lal19g1029 Chr19 14126774 14127196 -
Lal Lal17g0856 Chr17 6484952 6485374 -
Lal Lal4g0730 Chr4 6075367 6075801 -
Lan Lan1g1467 Chr1 24680249 24681160 +
Lan Lan1g1467 Chr1 24680249 24681160 +
Lan Lan1g1467 Chr1 24680249 24681160 +
Lja Lja1g5236 Chr1 78446295 78447247 -
Lja Lja4g2393 Chr4 26812451 26813471 +
Mal Mal5g3988 Chr5 109581450 109581872 -
Mal Mal2g2499 Chr2 31673747 31674172 +
Mtr Mtr4g3705 Chr4 50800809 50801758 -
Mtr Mtr3g2359 Chr3 37425809 37426615 -
Psa Psa4g1526 Chr4 106312976 106313532 -
Ssu Ssu1g2359 Chr1 65994857 65995279 +
Ssu Ssu6g1488 Chr6 24440113 24440535 +
Sto Sto4g0109 Chr4 882046 885012 +
Sto Sto8g4530 Chr8 47990560 48013779 +
Tpr Tpr5g2756 Chr5 49680524 49681688 -
Tpr Tpr7g1182 Chr7 11835895 11836760 -
Tsu Tsu04g02502 Chr04 28270715 28271220 -
Tsu Tsu03g02163 Chr03 23137538 23147082 -
Vra Vra7g1494 Chr7 32254204 32254959 -
Vvi Vvi17g0138 Chr17 1201986 1215948 -
Adu Adu08g02823 Chr08 44796519 44803446 -
Aev Aev01g1908 Chr01 24062707 24069376 +
Ahy Ahy11g1559 Chr11 72984593 72993252 -
Aip Aip01g01694 Chr01 67986442 67994962 -
Amo Amo11g1664 Chr11 72458451 72461392 -
Arst Arst8g03884 Chr8 49199752 49207331 -
Bach Bach2g02245 Chr2 29162417 29171989 +
Bva Bva06g01487 Chr06 10777934 10786820 +
Bva Bva05g00263 Chr05 1284885 1294260 -
Car Car05g01634 Chr05 61104107 61110569 -
Cca Cca03g00342 Chr03 5307550 5316141 -
Dod Dod05g1508 Chr05 39998521 40006528 +
Gma Gma06g01526 Chr06 14698396 14707701 -
Gma Gma04g01886 Chr04 49103583 49118856 +
Gma Gma17g01193 Chr17 10470702 10479464 -
Gso Gso6g1447 Chr6 14410588 14419861 -
Gso Gso6g1447 Chr6 14410588 14419861 -
Gso Gso6g1447 Chr6 14410588 14419861 -
Lal Lal4g0731 Chr4 6081215 6093820 -
Lal Lal21g0773 Chr21 6511679 6528974 +
Lapu Lapu9g00997 Chr9 15918358 15930202 +
Lasa Lasa5g01680 Chr5 395115838 395126134 +
Lja Lja1g5238 Chr1 78521186 78532010 -
Mal Mal2g2497 Chr2 31651339 31660016 +
Mepo Mepo3g05745 Chr3 71585878 71595494 -
Mesa Mesa9g03126 Chr9 61393051 61401199 -
Mtr Mtr3g2361 Chr3 37445120 37454451 -
Phco Phco7g01981 Chr7 33641417 33650968 -
Pste Pste2g00403 Chr2 3496303 3504776 -
Pte Pte3g00171 Chr3 1608732 1616379 -
Pumo Pumo10g01894 Chr10 25001970 25010274 -
Pvu Pvu9g1728 Chr9 24402762 24413034 -
Rops Rops10g00788 Chr10 18411161 18422784 +
Seca Seca4g02865 Chr4 49440341 49460684 -
Spst Spst9g02102 Chr9 43110925 43113374 +
Ssu Ssu1g2357 Chr1 65974222 65977074 +
Sto Sto4g0107 Chr4 869402 877987 +
Tpr Tpr7g1184 Chr7 11891524 11910257 -
Trre Trre5g02367 Chr5 18109701 18118494 -
Tsu Tsu03g02165 Chr03 23179470 23191095 -
Vifa Vifa2g01901 Chr2 494657341 494660815 -
Viun Viun9g01458 Chr9 17402514 17417008 +
Vivi Vivi3g04562 Chr3 82715791 82725823 -
Vvi Vvi17g0139 Chr17 1232061 1237614 -
Adu Adu08g02824 Chr08 44804297 44807595 -
Aed Aed10g0818 Chr10 6783988 6800302 -
Aev Aev08g2384 Chr08 22897244 22905752 +
Ahy Ahy18g2972 Chr18 134807641 134810975 -
Aip Aip08g03375 Chr08 125002486 125005440 -
Apr Apr1g0281 Chr1 3287447 3292188 +
Arst Arst8g03885 Chr8 49208029 49211323 -
Bach Bach2g02244 Chr2 29157426 29161140 +
Bva Bva06g01486 Chr06 10770717 10776913 +
Bva Bva05g00264 Chr05 1294586 1299108 -
Car Car05g01635 Chr05 61115835 61119400 -
Cca Cca03g00343 Chr03 5317933 5326234 -
Dod Dod09g0159 Chr09 2220960 2224892 -
Gma Gma06g01527 Chr06 14709823 14714788 -
Gma Gma04g01884 Chr04 49079727 49085111 +
Gso Gso6g1448 Chr6 14421955 14426905 -
Gso Gso6g1448 Chr6 14421955 14426905 -
Lal Lal4g0732 Chr4 6096653 6104846 -
Lapu Lapu9g00995 Chr9 15867907 15878941 +
Lja Lja1g5240 Chr1 78590235 78595343 -
Mal Mal2g2496 Chr2 31638223 31642515 +
Mepo Mepo3g05746 Chr3 71599453 71604214 -
Mesa Mesa9g03127 Chr9 61405502 61409956 -
Mtr Mtr3g2362 Chr3 37456517 37461119 -
Phco Phco7g01982 Chr7 33652553 33667462 -
Pste Pste2g00404 Chr2 3509111 3512971 -
Pumo Pumo10g01895 Chr10 25012237 25017896 -
Pvu Pvu9g1729 Chr9 24416936 24425061 -
Rops Rops10g00787 Chr10 18402488 18407397 +
Seca Seca4g02866 Chr4 49468398 49470560 -
Spst Spst9g02100 Chr9 43057948 43067897 +
Ssu Ssu1g2355 Chr1 65959453 65966769 +
Sto Sto4g0105 Chr4 862815 866114 +
Tpr Tpr7g1185 Chr7 11912972 11916641 -
Trre Trre5g02368 Chr5 18122887 18126422 -
Tsu Tsu03g02166 Chr03 23195532 23197370 -
Viun Viun9g01453 Chr9 17277748 17284787 +
Vvi Vvi17g0140 Chr17 1238487 1241306 +
Aed Aed6g1355 Chr6 18219620 18225899 -
Car Car07g01141 Chr07 10188320 10192817 +
Cca Cca11g01734 Chr11 41897570 41909677 -
Lal Lal14g1467 Chr14 15733523 15742750 -
Mal Mal5g3994 Chr5 109611304 109614275 +
Mepo Mepo1g01484 Chr1 14634383 14642847 +
Mtr Mtr4g3711 Chr4 50863359 50868229 -
Phco Phco8g00637 Chr8 6369486 6375105 +
Pste Pste6g01838 Chr6 8426511 8428707 -
Pumo Pumo4g01529 Chr4 19206051 19211729 +
Pvu Pvu3g2163 Chr3 42461359 42464704 +
Rops Rops2g04116 Chr2 74843289 74843588 +
Seca Seca12g01728 Chr12 19032421 19037740 +
Spst Spst3g04446 Chr3 95989820 95998761 -
Ssu Ssu6g1485 Chr6 24392394 24401247 +
Vifa Vifa4g03115 Chr4 991133830 991137408 -
Vimu Vimu7g00539 Chr7 5533700 5539232 -
Viun Viun3g04301 Chr3 50731117 50739645 -
Vivi Vivi1g02272 Chr1 48007484 48011840 +
Vra Vra7g1497 Chr7 32270858 32273511 -
Vvi Vvi17g0141 Chr17 1241824 1242459 +
Vvi Vvi17g0142 Chr17 1242984 1245678 -