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
Vvi2g0592 . . . . Adu05g01005 Adu01g01450 Aed11g1634 Aed6g0536 . Aev01g0325 . Ahy11g1355 . Aip01g01447 . . . Amo11g1336 Apr7g0678 Apr10g1588 Arst5g01254 Arst1g01929 Bach4g00263 . . . Bva08g00307 . Car08g00294 Car07g01232 Cca06g01706 Cca11g01618 . . . Dod05g1386 . . . . Gma01g02117 Gma11g00291 Gma05g00549 Gma17g01296 Gso1g1790 Gso1g1790 Gso1g1790 Gso1g1790 . . . . Lal16g1306 . . . . . . . Lapu2g00343 Lapu3g01315 . Lasa4g02846 . . . . . . . . Lja2g0092 Lja4g2539 Mal6g1587 Mal5g3880 Mepo5g00469 Mepo1g01611 Mesa17g00483 . . . Mtr5g0405 Mtr4g3601 . . . Phco8g00762 . . . Psa4g1641 . Pste6g01507 . . . . Pumo8g02213 Pumo4g01654 Pvu2g0641 Pvu3g2260 Rops1g02061 Rops2g04257 Seca12g01944 Seca12g01944 . Spst3g04316 Ssu2g2759 Ssu6g1606 Sto6g3374 . Tpr2g3782 Tpr5g2659 Trre9g00499 Trre15g03262 Tsu05g00371 Tsu04g02394 Vian10g00361 Vian1g01399 Vifa1g07738 Vifa4g02944 Vimu7g02549 Vimu7g02549 Viun2g02442 Viun3g04179 Vivi2g03709 Vivi1g02472 Vra11g0358 Vra7g1390
Vvi2g0593 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0594 . . . . . Adu01g01447 . Aed6g0538 . Aev01g0326 . Ahy11g1353 . Aip01g01445 . . . Amo11g1333 . Apr10g1589 . Arst1g01925 . Bach10g00232 . . Bva08g00308 Bva11g01994 . Car07g01233 . Cca11g01617 . . . Dod05g1385 . . . . . . Gma05g00550 . . . . . . . . . Lal16g1308 . . . . . . . . Lapu3g01317 . Lasa4g02845 . . . . . . . . . Lja4g2540 . Mal5g3879 . Mepo1g01612 . . . . . Mtr4g3600 . Phac3g03402 . Phco8g00763 . . . Psa4g1642 . Pste6g01234 . . . . . Pumo4g01655 . Pvu3g2261 . Rops2g04258 . Seca12g01945 . Spst3g04315 . Ssu6g1607 Sto6g3375 . . Tpr5g2658 . Trre15g03265 . Tsu04g02387 . Vian1g01400 . Vifa4g02942 . Vimu11g00135 . Viun3g04178 . Vivi1g02473 . Vra7g1389
Vvi2g0595 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0596 . . . . . Adu01g01446 . . . Aev01g0327 . Ahy11g1352 . Aip01g01444 . . . . Apr7g0679 Apr10g1590 Arst5g01259 Arst1g01924 Bach4g00264 . . . Bva08g00310 Bva11g01992 Car08g00296 Car07g01234 . . . . . Dod05g1384 . . . . . Gma11g00293 Gma05g00551 Gma17g01297 . . . . . . . . Lal16g1309 . . . . . . . . Lapu3g01318 . Lasa4g02844 . . . . . . . . . Lja4g2541 . Mal5g3878 . Mepo1g01613 . . . . . Mtr4g3599 . Phac3g03404 . Phco8g00764 . . . Psa4g1643 . Pste6g01229 . Pte12g00174 . . Pumo8g02211 Pumo4g01662 Pvu2g0643 Pvu3g2262 Rops1g02059 Rops2g04259 Seca12g01946 Seca12g01946 . Spst3g04314 . . . Sto11g1912 . Tpr5g2657 . Trre15g03267 . Tsu04g02386 Vian10g00366 Vian1g01402 Vifa1g07735 Vifa4g02941 Vimu7g02553 Vimu7g02553 Viun2g02434 Viun3g04174 . Vivi1g02475 . .
Vvi2g0597 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma01g01393 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0598 . . . . . Adu01g01443 . . . . . Ahy11g1351 . Aip01g01443 . . . Amo11g1328 . Apr10g1591 . Arst1g01923 . . . . Bva08g00311 . . Car07g01235 . . . . . Dod05g1383 . . . . . . . . . . . . . . . . Lal16g1310 . . . . . . . . Lapu3g01319 . Lasa4g02843 . . . . . . . . . Lja4g2542 . Mal5g3877 . Mepo1g01614 . . . . . Mtr4g3598 . Phac3g03407 . Phco8g00765 . . . Psa4g1645 . Pste6g01219 . . . . . . . Pvu3g2263 . . . . . Spst3g04313 . . Sto6g3377 . . Tpr5g2656 . Trre15g03268 . Tsu04g02385 . . . . . Vimu11g00137 . . . Vivi1g02478 . .
Vvi2g0599 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0600 . . . . . . . Aed6g0540 . Aev01g0328 . Ahy11g1348 . Aip01g01440 . . . . . . . . . . . . . . . . . Cca11g01615 . . . . . . . . . . Gma05g00552 Gma17g01298 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g3876 . . . . . . . Mtr4g3597 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1609 . . . Tpr5g2655 . . . Tsu04g02384 . . . . . . . . . . . Vra7g1388
Vvi2g0601 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0592 Chr2 5164655 5166317 -
Adu Adu05g01005 Chr05 13347938 13348996 -
Adu Adu01g01450 Chr01 37582152 37584371 +
Aed Aed11g1634 Chr11 20270900 20272015 +
Aed Aed6g0536 Chr6 4570013 4571882 -
Aev Aev01g0325 Chr01 2736001 2738539 -
Ahy Ahy11g1355 Chr11 48550595 48552974 +
Aip Aip01g01447 Chr01 46027903 46030012 +
Amo Amo11g1336 Chr11 46342918 46345301 -
Apr Apr7g0678 Chr7 13603951 13605864 -
Apr Apr10g1588 Chr10 28433576 28435402 -
Arst Arst5g01254 Chr5 13391593 13392665 -
Arst Arst1g01929 Chr1 38043917 38046022 +
Bach Bach4g00263 Chr4 1715653 1717270 -
Bva Bva08g00307 Chr08 1506360 1508137 -
Car Car08g00294 Chr08 2322850 2324291 -
Car Car07g01232 Chr07 11178073 11182702 -
Cca Cca06g01706 Chr06 32340067 32341521 +
Cca Cca11g01618 Chr11 39920884 39922594 +
Dod Dod05g1386 Chr05 37966541 37969375 +
Gma Gma01g02117 Chr01 56507161 56508958 +
Gma Gma11g00291 Chr11 2347984 2348606 -
Gma Gma05g00549 Chr05 5414456 5417051 -
Gma Gma17g01296 Chr17 11636088 11638316 -
Gso Gso1g1790 Chr1 54693674 54695414 +
Gso Gso1g1790 Chr1 54693674 54695414 +
Gso Gso1g1790 Chr1 54693674 54695414 +
Gso Gso1g1790 Chr1 54693674 54695414 +
Lal Lal16g1306 Chr16 9247396 9249589 -
Lapu Lapu2g00343 Chr2 2853290 2854660 -
Lapu Lapu3g01315 Chr3 14425022 14427449 -
Lasa Lasa4g02846 Chr4 533170205 533172502 +
Lja Lja2g0092 Chr2 726939 727991 -
Lja Lja4g2539 Chr4 32175640 32177766 -
Mal Mal6g1587 Chr6 29234991 29236128 +
Mal Mal5g3880 Chr5 107753496 107755584 +
Mepo Mepo5g00469 Chr5 4086437 4087879 -
Mepo Mepo1g01611 Chr1 15874496 15876855 -
Mesa Mesa17g00483 Chr17 5625617 5626922 -
Mtr Mtr5g0405 Chr5 3722064 3723783 -
Mtr Mtr4g3601 Chr4 49708396 49710722 +
Phco Phco8g00762 Chr8 7665109 7666633 -
Psa Psa4g1641 Chr4 114517932 114519143 -
Pste Pste6g01507 Chr6 6584862 6586656 -
Pumo Pumo8g02213 Chr8 59177062 59178386 +
Pumo Pumo4g01654 Chr4 21037098 21038564 -
Pvu Pvu2g0641 Chr2 6861569 6862902 -
Pvu Pvu3g2260 Chr3 43655325 43657193 -
Rops Rops1g02061 Chr1 41476985 41478398 +
Rops Rops2g04257 Chr2 77592680 77594502 -
Seca Seca12g01944 Chr12 23348066 23350821 -
Seca Seca12g01944 Chr12 23348066 23350821 -
Spst Spst3g04316 Chr3 94750159 94751852 +
Ssu Ssu2g2759 Chr2 88201248 88202741 +
Ssu Ssu6g1606 Chr6 26738529 26740271 -
Sto Sto6g3374 Chr6 39765863 39767705 -
Tpr Tpr2g3782 Chr2 40744996 40746439 +
Tpr Tpr5g2659 Chr5 48749792 48752559 +
Trre Trre9g00499 Chr9 3638522 3639936 -
Trre Trre15g03262 Chr15 31501437 31504230 -
Tsu Tsu05g00371 Chr05 2777080 2778717 -
Tsu Tsu04g02394 Chr04 26860134 26863243 +
Vian Vian10g00361 Chr10 3253144 3254278 -
Vian Vian1g01399 Chr1 15350928 15355008 -
Vifa Vifa1g07738 Chr1 1204952082 1204953353 +
Vifa Vifa4g02944 Chr4 943155576 943156771 +
Vimu Vimu7g02549 Chr7 21666129 21667264 -
Vimu Vimu7g02549 Chr7 21666129 21667264 -
Viun Viun2g02442 Chr2 31110614 31111916 +
Viun Viun3g04179 Chr3 49399438 49401639 +
Vivi Vivi2g03709 Chr2 147364205 147365673 +
Vivi Vivi1g02472 Chr1 52154066 52155952 -
Vra Vra11g0358 Chr11 2595724 2596995 -
Vra Vra7g1390 Chr7 31041796 31043903 +
Vvi Vvi2g0593 Chr2 5166429 5166605 +
Vvi Vvi2g0594 Chr2 5167477 5172108 +
Adu Adu01g01447 Chr01 37532009 37534467 -
Aed Aed6g0538 Chr6 4578501 4580954 +
Aev Aev01g0326 Chr01 2740413 2742237 +
Ahy Ahy11g1353 Chr11 48341589 48344687 -
Aip Aip01g01445 Chr01 45838972 45842136 -
Amo Amo11g1333 Chr11 46237634 46239497 -
Apr Apr10g1589 Chr10 28439697 28444938 +
Arst Arst1g01925 Chr1 37993836 37996247 -
Bach Bach10g00232 Chr10 1636314 1638878 +
Bva Bva08g00308 Chr08 1509245 1511848 +
Bva Bva11g01994 Chr11 16924119 16927531 -
Car Car07g01233 Chr07 11191402 11195268 +
Cca Cca11g01617 Chr11 39916421 39920005 -
Dod Dod05g1385 Chr05 37957492 37963857 -
Gma Gma05g00550 Chr05 5425897 5430392 +
Lal Lal16g1308 Chr16 9255528 9261358 -
Lapu Lapu3g01317 Chr3 14467391 14472523 +
Lasa Lasa4g02845 Chr4 533146848 533149588 -
Lja Lja4g2540 Chr4 32196303 32199997 +
Mal Mal5g3879 Chr5 107746946 107752078 -
Mepo Mepo1g01612 Chr1 15879997 15884284 +
Mtr Mtr4g3600 Chr4 49699449 49702928 -
Phac Phac3g03402 Chr3 34560077 34564230 +
Phco Phco8g00763 Chr8 7668960 7672790 +
Psa Psa4g1642 Chr4 114617186 114622098 +
Pste Pste6g01234 Chr6 5281228 5284195 -
Pumo Pumo4g01655 Chr4 21049642 21053869 +
Pvu Pvu3g2261 Chr3 43657921 43662068 +
Rops Rops2g04258 Chr2 77606460 77609490 +
Seca Seca12g01945 Chr12 23355837 23358545 +
Spst Spst3g04315 Chr3 94735976 94739943 -
Ssu Ssu6g1607 Chr6 26754349 26756504 +
Sto Sto6g3375 Chr6 39772802 39775932 +
Tpr Tpr5g2658 Chr5 48730948 48735301 -
Trre Trre15g03265 Chr15 31519902 31520484 +
Tsu Tsu04g02387 Chr04 26731607 26736210 -
Vian Vian1g01400 Chr1 15358865 15363174 +
Vifa Vifa4g02942 Chr4 943088017 943091705 -
Vimu Vimu11g00135 Chr11 1228292 1232259 +
Viun Viun3g04178 Chr3 49392421 49396666 -
Vivi Vivi1g02473 Chr1 52196718 52200582 +
Vra Vra7g1389 Chr7 31007975 31012413 -
Vvi Vvi2g0595 Chr2 5174331 5175725 -
Vvi Vvi2g0596 Chr2 5185326 5188563 -
Adu Adu01g01446 Chr01 37525180 37529632 +
Aev Aev01g0327 Chr01 2743925 2746719 -
Ahy Ahy11g1352 Chr11 48330133 48333245 +
Aip Aip01g01444 Chr01 45827514 45830697 +
Apr Apr7g0679 Chr7 13613641 13617351 -
Apr Apr10g1590 Chr10 28445649 28448785 -
Arst Arst5g01259 Chr5 13439425 13441736 -
Arst Arst1g01924 Chr1 37988601 37991619 +
Bach Bach4g00264 Chr4 1722421 1723970 -
Bva Bva08g00310 Chr08 1515365 1517564 -
Bva Bva11g01992 Chr11 16918222 16921693 +
Car Car08g00296 Chr08 2332882 2336109 -
Car Car07g01234 Chr07 11196093 11198924 -
Dod Dod05g1384 Chr05 37948376 37951903 +
Gma Gma11g00293 Chr11 2358925 2362415 -
Gma Gma05g00551 Chr05 5440411 5447126 -
Gma Gma17g01297 Chr17 11645859 11649642 -
Lal Lal16g1309 Chr16 9263688 9267091 -
Lapu Lapu3g01318 Chr3 14478256 14482175 -
Lasa Lasa4g02844 Chr4 533106832 533108824 +
Lja Lja4g2541 Chr4 32201469 32205589 -
Mal Mal5g3878 Chr5 107742845 107744699 +
Mepo Mepo1g01613 Chr1 15886035 15888966 -
Mtr Mtr4g3599 Chr4 49695804 49698381 +
Phac Phac3g03404 Chr3 34565686 34569332 -
Phco Phco8g00764 Chr8 7675033 7679383 -
Psa Psa4g1643 Chr4 114623138 114626401 -
Pste Pste6g01229 Chr6 5250340 5257006 +
Pte Pte12g00174 Chr12 1470485 1473120 +
Pumo Pumo8g02211 Chr8 59161718 59165103 +
Pumo Pumo4g01662 Chr4 21090228 21091913 -
Pvu Pvu2g0643 Chr2 6879123 6882733 -
Pvu Pvu3g2262 Chr3 43663785 43667196 -
Rops Rops1g02059 Chr1 41431910 41443120 +
Rops Rops2g04259 Chr2 77621149 77623657 -
Seca Seca12g01946 Chr12 23377117 23379335 -
Seca Seca12g01946 Chr12 23377117 23379335 -
Spst Spst3g04314 Chr3 94731297 94733709 +
Sto Sto11g1912 Chr11 17860461 17864438 +
Tpr Tpr5g2657 Chr5 48727263 48730110 +
Trre Trre15g03267 Chr15 31525404 31527305 -
Tsu Tsu04g02386 Chr04 26727789 26730945 +
Vian Vian10g00366 Chr10 3282305 3286784 -
Vian Vian1g01402 Chr1 15376183 15378480 -
Vifa Vifa1g07735 Chr1 1203877883 1203880871 +
Vifa Vifa4g02941 Chr4 943084056 943086061 +
Vimu Vimu7g02553 Chr7 21680444 21682854 -
Vimu Vimu7g02553 Chr7 21680444 21682854 -
Viun Viun2g02434 Chr2 31088787 31093712 +
Viun Viun3g04174 Chr3 49387751 49391100 +
Vivi Vivi1g02475 Chr1 52201369 52203392 -
Vvi Vvi2g0597 Chr2 5202074 5204512 +
Gma Gma01g01393 Chr01 48148336 48149500 -
Vvi Vvi2g0598 Chr2 5221960 5224224 -
Adu Adu01g01443 Chr01 37454658 37457921 +
Ahy Ahy11g1351 Chr11 48303188 48307093 +
Aip Aip01g01443 Chr01 45799696 45803438 +
Amo Amo11g1328 Chr11 46023222 46026842 +
Apr Apr10g1591 Chr10 28455263 28457908 -
Arst Arst1g01923 Chr1 37981827 37985625 +
Bva Bva08g00311 Chr08 1519929 1522529 -
Car Car07g01235 Chr07 11207100 11209370 -
Dod Dod05g1383 Chr05 37939923 37942507 +
Lal Lal16g1310 Chr16 9271265 9273538 -
Lapu Lapu3g01319 Chr3 14485703 14488461 -
Lasa Lasa4g02843 Chr4 533066596 533068863 +
Lja Lja4g2542 Chr4 32223698 32226319 -
Mal Mal5g3877 Chr5 107731258 107733534 +
Mepo Mepo1g01614 Chr1 15892658 15894934 -
Mtr Mtr4g3598 Chr4 49688719 49691219 +
Phac Phac3g03407 Chr3 34578867 34581826 -
Phco Phco8g00765 Chr8 7686188 7688467 -
Psa Psa4g1645 Chr4 114704258 114707093 -
Pste Pste6g01219 Chr6 5187469 5201338 +
Pvu Pvu3g2263 Chr3 43675343 43677945 -
Spst Spst3g04313 Chr3 94726435 94728711 +
Sto Sto6g3377 Chr6 39786706 39788976 +
Tpr Tpr5g2656 Chr5 48721413 48725126 +
Trre Trre15g03268 Chr15 31535692 31537974 -
Tsu Tsu04g02385 Chr04 26720117 26722412 +
Vimu Vimu11g00137 Chr11 1244856 1247150 -
Vivi Vivi1g02478 Chr1 52241171 52243856 -
Vvi Vvi2g0599 Chr2 5227153 5227356 -
Vvi Vvi2g0600 Chr2 5227378 5227689 -
Aed Aed6g0540 Chr6 4586379 4588667 -
Aev Aev01g0328 Chr01 2749807 2752104 -
Ahy Ahy11g1348 Chr11 48136038 48139504 +
Aip Aip01g01440 Chr01 45643684 45647035 +
Cca Cca11g01615 Chr11 39895231 39906090 +
Gma Gma05g00552 Chr05 5447563 5449842 -
Gma Gma17g01298 Chr17 11654448 11656930 -
Mal Mal5g3876 Chr5 107725196 107727454 -
Mtr Mtr4g3597 Chr4 49681296 49684173 -
Ssu Ssu6g1609 Chr6 26787886 26790159 -
Tpr Tpr5g2655 Chr5 48711122 48713660 -
Tsu Tsu04g02384 Chr04 26680681 26682238 +
Vra Vra7g1388 Chr7 31002936 31006357 +
Vvi Vvi2g0601 Chr2 5227787 5228725 -