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
Vvi19g0730 . . . . . . . . . . Ahy17g0288 . Aip07g00209 . . . . . . Apr9g1823 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0731 . . . . . . . Aed4g2407 Aev07g0162 . Ahy17g0271 . Aip07g00202 . . . . . . . . . . Bach3g00927 . . Bva12g02643 . . . . Cca09g01184 . . . . . . . . Gma08g03042 . . . Gso8g2702 . . . . . . . . . . . . . . . . Lapu6g02520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste8g00316 . . . . . . . Pvu8g2854 . . . . . Spst8g00959 . Ssu9g1047 . . . . . . . . . . . . . . . . . . . Vra6g0151
Vvi19g0732 . . . . . . . Aed4g2406 Aev07g0161 . Ahy17g0270 . Aip07g00201 . . . . . . Apr9g1824 . . . . . . . . . . . Cca09g01185 . . . . . . . . . . . . . . . . . . Lal6g0041 Lal3g0809 . . . . . . . . . . . . . . . . . . . . Lja6g1289 . . . . . . . . . . . . . . . . . . Psa2g0212 . . . . . . . . . . . . . . . . . Ssu9g1048 . . . . . . . . . . . . . . . . . . . .
Vvi19g0733 . . . . . . . . . . Ahy17g0269 . Aip07g00200 . . . . . . . . . . . . . . . . . . Cca09g01187 . . . . . . . . . . . . . . . . . Lal22g0057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu9g1050 . . . . . . . . . . . . . . . . . . . .
Vvi19g0734 . . . . . . Aed3g2676 . . . . Ahy11g0573 . Aip01g00559 . . . Amo11g0371 Apr2g0276 Apr9g1825 . . . . . . . . . Car05g01103 Cca05g02125 Cca09g01189 . . . . . . . . Gma08g03045 Gma18g00731 . . Gso8g2706 Gso8g2706 . . . . Lal6g0040 . . . . . . . . . . . . . . . . . . . . . Lja6g1286 . . . . . . . . . . . . . . . . . Psa5g3944 Psa2g0211 . . . . . . . . . . . . . . . . Ssu6g3695 . . . . . . . . . . . . . . . . . . . Vra6g0040 .
Vvi19g0735 . . . . . . Aed3g2578 . . Aev01g0886 Ahy17g0267 Ahy11g0572 Aip07g00198 Aip01g00558 . . . . Apr2g0281 . . . . . . . . . Car02g02118 Car05g01104 Cca05g02006 Cca09g01192 . . . . . . . . Gma08g03046 . . . Gso8g2708 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1281 . . . . . . . . . . . . . . . . . Psa5g3939 . . . . . . . . . . . . . . . . . Ssu6g3553 Ssu9g1053 . . . . . . . . . . . . . . . . . . . .
Vvi19g0736 . . . . . . . Aed4g2399 . . Ahy17g0263 . Aip07g00193 . . . . . Apr2g0283 . . . . . . . . . . Car05g01105 . Cca09g01193 . . . . . . . . . Gma18g00730 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1279 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0737 . . . . . . . Aed4g2398 . . Ahy17g0257 . Aip07g00189 . . . . . Apr2g0284 . . . . . . . . . . Car05g01107 . Cca09g01194 . . Dod08g0193 . . . . . Gma08g03047 . . . Gso8g2709 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1277 . . . . . . . . . . . . . . . . . Psa5g3938 . . . . . . . . . . . . . . . . . . Ssu9g1056 . . . . . . . . . . . . . . . . . . . .
Vvi19g0738 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0739 . Acco05g1006 . . Adu01g00280 Adu07g00178 Aed3g2581 Aed4g2395 . Aev01g0913 Ahy17g0245 Ahy11g0561 Aip07g00183 Aip01g00548 . Alju07g1017 . Amo11g0360 Apr2g0285 Apr9g1831 Arst1g00389 Arst7g00281 Bach12g01381 Bach3g00933 . . Bva12g02638 . Car02g02124 Car05g01111 Cca05g02011 Cca09g01198 . Dere05g1248 Dod08g0186 Dod05g0691 . Enph7g0118 . Glsi10g1926 Gma08g03048 Gma18g00728 . Gma14g00135 Gso8g2710 Gso8g2710 . Gso8g2710 . Lal22g0052 . Lal3g0808 . . . . . . . . Lapu6g02512 Lapu6g02512 Lasa5g01162 Lasa2g02334 . . . . . . Lele27g0598 . Lja6g1270 . . Mal8g0249 Mepo3g04773 Mepo7g02914 . Mesa17g04510 . Mibi08g0873 . Mtr5g3403 . . Phco11g01881 Phco3g01689 . . . Psa2g0194 Pste7g01419 Pste8g00304 Pte9g01177 . . . Pumo1g00816 Pumo9g01803 Pvu6g0578 Pvu8g2867 Rops11g02615 Rops9g00232 Seca6g02945 Seca6g02945 Spst6g01936 Spst8g00967 Ssu6g3558 Ssu9g1057 . Sto5g1864 . Tpr4g0205 Trre5g01146 Trre9g05189 . Tsu05g04013 Vian6g00463 Vian7g01118 Vifa1g03492 Vifa1g03492 Vimu2g02407 Vimu1g00311 Viun6g00921 Viun8g02968 Vivi3g05326 Vivi7g02591 Vra6g0146 Vra6g0146
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst1g00389 Chr1 3541019 3542600 -
Apr Apr9g1823 Chr9 27065039 27069492 -
Vvi Vvi19g0730 Chr19 7963575 7965054 -
Ahy Ahy17g0288 Chr17 2728179 2731379 +
Aip Aip07g00209 Chr07 1800448 1803746 +
Apr Apr9g1823 Chr9 27065039 27069492 -
Vvi Vvi19g0731 Chr19 7968064 7973375 -
Aed Aed4g2407 Chr4 26312220 26318213 -
Aev Aev07g0162 Chr07 914073 919626 -
Ahy Ahy17g0271 Chr17 2580284 2586463 +
Aip Aip07g00202 Chr07 1675000 1681074 +
Bach Bach3g00927 Chr3 19904801 19908946 +
Bva Bva12g02643 Chr12 19492250 19494298 +
Cca Cca09g01184 Chr09 33439768 33446171 +
Gma Gma08g03042 Chr08 47036257 47042567 -
Gso Gso8g2702 Chr8 44693356 44700005 -
Lapu Lapu6g02520 Chr6 25153592 25160291 +
Pste Pste8g00316 Chr8 1693963 1700652 +
Pvu Pvu8g2854 Chr8 58501113 58501901 -
Spst Spst8g00959 Chr8 8435057 8440693 -
Ssu Ssu9g1047 Chr9 41409997 41412381 +
Vra Vra6g0151 Chr6 1078105 1084162 +
Vvi Vvi19g0732 Chr19 7977374 7983555 -
Aed Aed4g2406 Chr4 26301447 26307318 +
Aev Aev07g0161 Chr07 899715 912721 +
Ahy Ahy17g0270 Chr17 2570053 2576059 +
Aip Aip07g00201 Chr07 1659867 1665485 +
Apr Apr9g1824 Chr9 27070248 27076399 -
Cca Cca09g01185 Chr09 33462603 33470401 +
Lal Lal6g0041 Chr6 276924 284621 +
Lal Lal3g0809 Chr3 7375441 7381982 +
Lja Lja6g1289 Chr6 37669272 37675422 +
Psa Psa2g0212 Chr2 7934475 7940189 -
Ssu Ssu9g1048 Chr9 41445091 41447364 +
Vvi Vvi19g0733 Chr19 8023676 8034820 -
Ahy Ahy17g0269 Chr17 2556314 2562062 -
Aip Aip07g00200 Chr07 1646822 1652501 -
Cca Cca09g01187 Chr09 33499626 33507190 -
Lal Lal22g0057 Chr22 341954 348071 +
Ssu Ssu9g1050 Chr9 41486639 41490174 -
Vvi Vvi19g0734 Chr19 8035822 8037119 -
Aed Aed3g2676 Chr3 28446847 28449936 +
Ahy Ahy11g0573 Chr11 8931119 8935178 +
Aip Aip01g00559 Chr01 8373791 8378336 +
Amo Amo11g0371 Chr11 5979649 5982593 -
Apr Apr2g0276 Chr2 3369052 3371113 -
Apr Apr9g1825 Chr9 27080100 27083061 -
Car Car05g01103 Chr05 52832855 52835664 -
Cca Cca05g02125 Chr05 40958598 40961690 +
Cca Cca09g01189 Chr09 33548719 33552465 -
Gma Gma08g03045 Chr08 47079637 47082059 -
Gma Gma18g00731 Chr18 7751865 7754963 +
Gso Gso8g2706 Chr8 44732277 44735114 -
Gso Gso8g2706 Chr8 44732277 44735114 -
Lal Lal6g0040 Chr6 269435 273022 +
Lja Lja6g1286 Chr6 37625913 37628114 +
Psa Psa5g3944 Chr5 310381022 310383030 -
Psa Psa2g0211 Chr2 7932232 7933859 +
Ssu Ssu6g3695 Chr6 81036153 81039644 +
Vra Vra6g0040 Chr6 289721 293121 -
Vvi Vvi19g0735 Chr19 8052648 8054350 -
Aed Aed3g2578 Chr3 27897671 27899831 -
Aev Aev01g0886 Chr01 8615310 8617932 +
Ahy Ahy17g0267 Chr17 2533144 2536532 +
Ahy Ahy11g0572 Chr11 8915722 8918175 -
Aip Aip07g00198 Chr07 1625032 1627927 +
Aip Aip01g00558 Chr01 8350696 8353982 -
Apr Apr2g0281 Chr2 3407333 3410471 -
Car Car02g02118 Chr02 51552373 51555208 +
Car Car05g01104 Chr05 52857773 52861336 -
Cca Cca05g02006 Chr05 39934753 39945626 -
Cca Cca09g01192 Chr09 33602629 33605465 -
Gma Gma08g03046 Chr08 47091763 47093686 -
Gso Gso8g2708 Chr8 44746969 44749327 -
Lja Lja6g1281 Chr6 37350707 37352748 +
Psa Psa5g3939 Chr5 310271116 310272731 -
Ssu Ssu6g3553 Chr6 79132119 79133923 -
Ssu Ssu9g1053 Chr9 41561197 41566119 -
Vvi Vvi19g0736 Chr19 8065226 8067199 -
Aed Aed4g2399 Chr4 26264660 26266600 +
Ahy Ahy17g0263 Chr17 2468566 2470501 +
Aip Aip07g00193 Chr07 1563806 1566182 +
Apr Apr2g0283 Chr2 3422857 3425390 -
Car Car05g01105 Chr05 52869879 52872115 -
Cca Cca09g01193 Chr09 33611905 33614456 -
Gma Gma18g00730 Chr18 7737423 7739942 +
Lja Lja6g1279 Chr6 37199538 37202948 -
Vvi Vvi19g0737 Chr19 8086568 8088361 -
Aed Aed4g2398 Chr4 26262133 26263760 +
Ahy Ahy17g0257 Chr17 2396070 2399284 +
Aip Aip07g00189 Chr07 1485310 1487844 +
Apr Apr2g0284 Chr2 3426974 3428670 -
Car Car05g01107 Chr05 52937748 52940071 -
Cca Cca09g01194 Chr09 33679168 33681677 -
Dod Dod08g0193 Chr08 2008037 2010403 +
Gma Gma08g03047 Chr08 47098092 47105974 -
Gso Gso8g2709 Chr8 44751840 44754162 -
Lja Lja6g1277 Chr6 37132636 37152697 +
Psa Psa5g3938 Chr5 310261761 310264838 +
Ssu Ssu9g1056 Chr9 41778206 41780427 -
Vvi Vvi19g0738 Chr19 8102835 8103137 -
Vvi Vvi19g0739 Chr19 8107916 8109049 -
Acco Acco05g1006 Chr05 20768337 20769539 -
Adu Adu01g00280 Chr01 3537301 3538494 -
Adu Adu07g00178 Chr07 1599295 1600422 +
Aed Aed3g2581 Chr3 27915730 27916776 -
Aed Aed4g2395 Chr4 26251777 26252793 +
Aev Aev01g0913 Chr01 8992960 8993970 +
Ahy Ahy17g0245 Chr17 2316753 2318558 +
Ahy Ahy11g0561 Chr11 8679639 8681286 +
Aip Aip07g00183 Chr07 1417039 1418825 +
Aip Aip01g00548 Chr01 8138810 8139700 +
Alju Alju07g1017 Chr07 31308016 31308987 -
Amo Amo11g0360 Chr11 5737812 5738279 +
Apr Apr2g0285 Chr2 3440071 3441501 -
Apr Apr9g1831 Chr9 27108261 27109739 -
Arst Arst1g00389 Chr1 3541019 3542600 -
Arst Arst7g00281 Chr7 1750796 1752588 +
Bach Bach12g01381 Chr12 9746981 9747757 +
Bach Bach3g00933 Chr3 19967513 19968649 -
Bva Bva12g02638 Chr12 19437948 19439564 +
Car Car02g02124 Chr02 51583505 51584888 -
Car Car05g01111 Chr05 53023537 53025323 -
Cca Cca05g02011 Chr05 39988290 39989855 -
Cca Cca09g01198 Chr09 33785065 33786375 -
Dere Dere05g1248 Chr05 20214050 20215063 +
Dod Dod08g0186 Chr08 1915845 1917486 +
Dod Dod05g0691 Chr05 10389006 10391252 +
Enph Enph7g0118 Chr7 6343388 6346504 +
Glsi Glsi10g1926 Chr10 13453422 13454600 +
Gma Gma08g03048 Chr08 47114099 47115115 -
Gma Gma18g00728 Chr18 7718690 7719718 +
Gma Gma14g00135 Chr14 1100251 1101306 +
Gso Gso8g2710 Chr8 44761912 44763625 -
Gso Gso8g2710 Chr8 44761912 44763625 -
Gso Gso8g2710 Chr8 44761912 44763625 -
Lal Lal22g0052 Chr22 313154 314002 +
Lal Lal3g0808 Chr3 7359160 7360419 +
Lapu Lapu6g02512 Chr6 25054249 25055712 +
Lapu Lapu6g02512 Chr6 25054249 25055712 +
Lasa Lasa5g01162 Chr5 313554329 313555522 -
Lasa Lasa2g02334 Chr2 499478075 499479091 -
Lele Lele27g0598 Chr27 13919066 13920043 -
Lja Lja6g1270 Chr6 36911545 36913068 +
Mal Mal8g0249 Chr8 3678672 3679739 +
Mepo Mepo3g04773 Chr3 59663782 59665668 -
Mepo Mepo7g02914 Chr7 40145650 40147006 -
Mesa Mesa17g04510 Chr17 76282087 76283052 -
Mibi Mibi08g0873 Chr08 20320352 20321320 -
Mtr Mtr5g3403 Chr5 42921219 42922683 -
Phco Phco11g01881 Chr11 15123902 15124930 -
Phco Phco3g01689 Chr3 28661755 28664458 -
Psa Psa2g0194 Chr2 7306425 7307724 +
Pste Pste7g01419 Chr7 13012781 13013935 -
Pste Pste8g00304 Chr8 1659128 1660174 +
Pte Pte9g01177 Chr9 33416885 33418590 -
Pumo Pumo1g00816 Chr1 12388949 12390807 +
Pumo Pumo9g01803 Chr9 47162862 47164637 +
Pvu Pvu6g0578 Chr6 17130900 17133097 -
Pvu Pvu8g2867 Chr8 58552708 58553757 -
Rops Rops11g02615 Chr11 44765117 44766481 +
Rops Rops9g00232 Chr9 2829845 2831287 +
Seca Seca6g02945 Chr6 95137223 95138392 +
Seca Seca6g02945 Chr6 95137223 95138392 +
Spst Spst6g01936 Chr6 18812733 18813908 +
Spst Spst8g00967 Chr8 8498343 8499380 -
Ssu Ssu6g3558 Chr6 79178362 79179429 -
Ssu Ssu9g1057 Chr9 41835276 41836460 -
Sto Sto5g1864 Chr5 13696996 13697937 +
Tpr Tpr4g0205 Chr4 2141279 2142663 -
Trre Trre5g01146 Chr5 8118682 8119860 +
Trre Trre9g05189 Chr9 57069346 57070320 -
Tsu Tsu05g04013 Chr05 51046767 51047018 -
Vian Vian6g00463 Chr6 19249153 19250334 -
Vian Vian7g01118 Chr7 19362601 19363659 +
Vifa Vifa1g03492 Chr1 543413491 543414543 -
Vifa Vifa1g03492 Chr1 543413491 543414543 -
Vimu Vimu2g02407 Chr2 19677157 19679681 +
Vimu Vimu1g00311 Chr1 1860367 1861425 +
Viun Viun6g00921 Chr6 18898866 18900432 -
Viun Viun8g02968 Chr8 37179648 37181098 -
Vivi Vivi3g05326 Chr3 108934342 108936073 +
Vivi Vivi7g02591 Chr7 89765114 89766530 +
Vra Vra6g0146 Chr6 1029076 1030442 +
Vra Vra6g0146 Chr6 1029076 1030442 +