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
Vvi18g0066 . . . . . . . Aed9g0139 Aev08g0114 . Ahy17g2137 . Aip07g02273 . . . . . . . . . . . . . Bva06g01824 . . Car05g03352 . Cca07g00177 . . . . . . . . . Gma06g00132 . . . . . . Lal4g0023 . . . . . Lan14g0991 . . . . . . . Lasa5g04641 . . . . . . . . . . . . Mal2g0352 Mepo3g07746 . Mesa9g05610 . . . . Mtr3g4370 . . . . . . . Psa5g0204 . . . . . . . . Pvu9g0075 . . . . . Spst9g00183 . . . Sto5g0023 . . Tpr7g0139 Trre5g05821 . . Tsu07g00155 . . . . . . . . Vivi3g00804 . . Vra5g1741
Vvi18g0067 . . . . . . . . Aev08g0115 . Ahy17g2138 . Aip07g02274 . . . . . . . . . . . Bisa09g2164 . Bva06g01825 Bva10g01023 . Car05g03351 . Cca07g00178 . . . . . . . . Gma04g00139 Gma06g00133 . . Gso4g0134 Gso4g0134 . . Lal4g0024 Lal17g0032 . . . . . . . . . . Lapu9g02374 . Lasa5g04640 . . . . . . . . . Lja1g2279 . . Mal2g0353 Mepo3g07747 . Mesa9g05609 . . . . Mtr3g4369 . . . . . . . Psa5g0205 . . . . . . . . Pvu9g0074 . . . . . Spst9g00184 . . . . . . Tpr7g0140 Trre5g05820 . . Tsu07g00156 . . . . . . . . Vivi3g00803 . . Vra5g1740
Vvi18g0068 . . . . . . . Aed9g0140 . . . . . . . . . . . . . . . . . . . Bva10g01022 . Car05g03350 . Cca07g00179 . . . . . . . . Gma04g00140 . . . Gso4g0135 . . . . . . . . . . . . . . . . . Lasa5g04639 . . . . . . . . . Lja1g2280 . . Mal2g0355 Mepo3g07748 . Mesa9g05607 . . . . Mtr3g4368 . . . . . . . Psa5g0206 . . . . . . . . Pvu9g0073 . . . . . Spst9g00185 . . . Sto5g0024 . . Tpr7g0141 Trre5g05819 . . Tsu07g00157 . . . . . . . . Vivi3g00802 . . Vra5g1739
Vvi18g0069 . . . . Adu08g00250 . . Aed9g0141 Aev08g0117 . Ahy17g2140 . Aip07g02277 . . . . . . . . . . . . . . Bva10g01021 . Car05g03349 . Cca07g00180 . . . . . . . . Gma04g00141 Gma06g00134 . . Gso4g0136 Gso4g0136 . . Lal4g0026 . Lal21g0066 . . . Lan14g0989 . Lan14g0989 . . . . . Lasa5g04638 . . . . . . . . . Lja1g2281 . . Mal2g0356 Mepo3g07749 . . . . . . Mtr3g4367 . . . . . . . . . . . . . . . . Pvu9g0072 . . . . . Spst9g00186 . . . Sto5g0025 . . Tpr7g0142 Trre5g05818 . . Tsu07g00158 . . . . . . . . Vivi3g00801 . . Vra5g1738
Vvi18g0070 . . . . Adu08g00251 . . Aed9g0142 Aev08g0118 . Ahy17g2141 . Aip07g02278 . . . . . . . . . . . . . . Bva10g01020 . Car05g03347 . Cca07g00181 . . . . . . . . Gma04g00142 Gma06g00135 . . Gso4g0137 Gso4g0137 . . . . Lal21g0067 . . . . . . . . . Lapu9g02373 . Lasa5g04637 . . . . . . . . . Lja1g2282 . . Mal2g0357 Mepo3g07750 . . . . . . Mtr3g4366 . . . . . . . . . . . . . . . . Pvu9g0071 . . . . . Spst9g00187 . . . Sto5g0026 . . Tpr7g0143 Trre5g05816 . . Tsu07g00160 . . . . . . . . Vivi3g00796 . . Vra5g1737
Vvi18g0071 . . . . Adu08g00252 . . . Aev08g0119 . Ahy17g2143 . Aip07g02280 . . . . . . . Arst8g00354 . . . Bisa09g2165 . Bva06g01826 Bva10g01019 . Car05g03345 . Cca07g00182 . . . . . . . . Gma04g00143 Gma06g00136 . . Gso4g0138 Gso4g0138 . . . . . . . . . . . . . . . . Lasa5g04636 . . . . . . . . . Lja1g2283 . . Mal2g0358 Mepo3g07752 . . . . . . Mtr3g4365 . . . . . . . . . . . . . . . . Pvu9g0070 . . . . . Spst9g00188 . . . Sto5g0029 . . Tpr7g0144 Trre5g05815 . . Tsu07g00161 . . . . . . . . Vivi3g00792 . . Vra5g1736
Vvi18g0072 . . . . . . . Aed9g0143 Aev08g0120 . Ahy17g2144 . Aip07g02281 . . . Amo17g1985 . . . . . . . . . . . . Car05g03344 . Cca07g00183 . . . . . . . . Gma04g00144 . . . Gso4g0139 . . . . . . . . . . . . . . . Lapu9g02372 . Lasa5g04635 . . . . . . . . . Lja1g2284 . . Mal2g0359 Mepo3g07753 . Mesa9g05601 . . . . Mtr3g4364 . . . . . . . . . . . . . . . . Pvu9g0069 . . . . . Spst9g00189 . . . Sto5g0030 . . Tpr7g0145 Trre5g05814 . . Tsu07g00162 . . . . . . . . Vivi3g00789 . . Vra5g1735
Vvi18g0073 . . . . . . . Aed9g0144 Aev08g0121 . Ahy17g2145 . Aip07g02282 . . . Amo17g1986 . . . . . . . . . . . . Car05g03343 . Cca07g00184 . . Dod08g2333 . . . . . Gma04g00145 Gma06g00137 . . Gso4g0140 Gso4g0140 . . . . Lal21g0068 . . . . . . . . . Lapu9g02371 . Lasa5g04634 . . . . . . . . . Lja1g2285 . . Mal2g0360 Mepo3g07754 . Mesa9g05600 . . . . Mtr3g4363 . . . . . . . . . . . Pte1g01134 . . . . Pvu9g0068 . . . . . Spst9g00190 . . . Sto5g0031 . . Tpr7g0146 Trre5g05812 . . Tsu07g00163 . . . . . . . . Vivi3g00788 . . Vra5g1734
Vvi18g0074 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0075 . . . . . . . . Aev08g0122 . Ahy17g2146 . Aip07g02284 . . . . . . . . . . . . . . Bva10g01018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0066 Chr18 631280 634380 -
Aed Aed9g0139 Chr9 966763 974416 -
Aev Aev08g0114 Chr08 647604 649259 -
Ahy Ahy17g2137 Chr17 102693086 102694578 -
Aip Aip07g02273 Chr07 95361032 95362295 -
Bva Bva06g01824 Chr06 12567583 12569605 -
Car Car05g03352 Chr05 78182363 78185109 +
Cca Cca07g00177 Chr07 2250717 2253145 -
Gma Gma06g00132 Chr06 1157688 1160174 -
Lal Lal4g0023 Chr4 153873 154932 -
Lan Lan14g0991 Chr14 16137890 16139528 +
Lasa Lasa5g04641 Chr5 682218146 682220336 +
Mal Mal2g0352 Chr2 3885493 3887880 -
Mepo Mepo3g07746 Chr3 90678729 90680840 -
Mesa Mesa9g05610 Chr9 91661772 91663873 +
Mtr Mtr3g4370 Chr3 57632837 57635511 +
Psa Psa5g0204 Chr5 14921053 14923777 -
Pvu Pvu9g0075 Chr9 1171108 1173054 +
Spst Spst9g00183 Chr9 1634147 1636674 -
Sto Sto5g0023 Chr5 169420 171926 -
Tpr Tpr7g0139 Chr7 1145725 1148541 -
Trre Trre5g05821 Chr5 57926556 57928742 +
Tsu Tsu07g00155 Chr07 1181545 1184154 -
Vivi Vivi3g00804 Chr3 13061327 13063592 +
Vra Vra5g1741 Chr5 23588409 23590795 +
Vvi Vvi18g0067 Chr18 635624 640934 -
Aev Aev08g0115 Chr08 650155 654118 -
Ahy Ahy17g2138 Chr17 102694916 102699953 -
Aip Aip07g02274 Chr07 95362824 95367912 -
Bisa Bisa09g2164 Chr09 34765307 34769541 -
Bva Bva06g01825 Chr06 12570245 12574456 -
Bva Bva10g01023 Chr10 7468085 7472431 +
Car Car05g03351 Chr05 78176117 78181086 +
Cca Cca07g00178 Chr07 2254431 2259002 -
Gma Gma04g00139 Chr04 1192847 1197485 -
Gma Gma06g00133 Chr06 1161541 1165974 -
Gso Gso4g0134 Chr4 1173048 1177647 -
Gso Gso4g0134 Chr4 1173048 1177647 -
Lal Lal4g0024 Chr4 155533 158970 -
Lal Lal17g0032 Chr17 181000 184830 -
Lapu Lapu9g02374 Chr9 38299971 38304803 +
Lasa Lasa5g04640 Chr5 682206063 682209795 +
Lja Lja1g2279 Chr1 26537080 26540737 -
Mal Mal2g0353 Chr2 3890449 3894679 -
Mepo Mepo3g07747 Chr3 90681989 90689597 -
Mesa Mesa9g05609 Chr9 91654311 91659959 +
Mtr Mtr3g4369 Chr3 57625298 57631640 +
Psa Psa5g0205 Chr5 14927617 14932243 -
Pvu Pvu9g0074 Chr9 1165576 1169964 +
Spst Spst9g00184 Chr9 1637882 1641812 -
Tpr Tpr7g0140 Chr7 1149317 1153902 -
Trre Trre5g05820 Chr5 57921158 57925204 +
Tsu Tsu07g00156 Chr07 1184935 1189369 -
Vivi Vivi3g00803 Chr3 13049352 13053550 +
Vra Vra5g1740 Chr5 23583134 23587380 +
Vvi Vvi18g0068 Chr18 642852 645549 -
Aed Aed9g0140 Chr9 975039 976265 -
Bva Bva10g01022 Chr10 7466070 7467671 +
Car Car05g03350 Chr05 78173018 78175169 +
Cca Cca07g00179 Chr07 2263433 2266115 -
Gma Gma04g00140 Chr04 1199810 1201854 -
Gso Gso4g0135 Chr4 1179753 1181768 -
Lasa Lasa5g04639 Chr5 682198250 682200808 +
Lja Lja1g2280 Chr1 26542091 26544472 -
Mal Mal2g0355 Chr2 3900465 3902985 -
Mepo Mepo3g07748 Chr3 90701178 90703299 -
Mesa Mesa9g05607 Chr9 91637942 91644285 +
Mtr Mtr3g4368 Chr3 57622124 57624236 +
Psa Psa5g0206 Chr5 14942970 14946384 -
Pvu Pvu9g0073 Chr9 1162430 1164375 +
Spst Spst9g00185 Chr9 1644361 1646068 -
Sto Sto5g0024 Chr5 173316 174471 -
Tpr Tpr7g0141 Chr7 1155213 1157247 -
Trre Trre5g05819 Chr5 57917494 57919091 +
Tsu Tsu07g00157 Chr07 1191013 1193022 -
Vivi Vivi3g00802 Chr3 13041296 13043503 +
Vra Vra5g1739 Chr5 23580008 23581606 +
Vvi Vvi18g0069 Chr18 646526 652067 -
Adu Adu08g00250 Chr08 4191264 4195215 +
Aed Aed9g0141 Chr9 977238 981153 -
Aev Aev08g0117 Chr08 656454 659942 -
Ahy Ahy17g2140 Chr17 102932859 102936377 -
Aip Aip07g02277 Chr07 95567623 95571126 -
Bva Bva10g01021 Chr10 7462835 7466045 +
Car Car05g03349 Chr05 78168382 78172339 +
Cca Cca07g00180 Chr07 2267255 2271416 -
Gma Gma04g00141 Chr04 1202291 1206594 -
Gma Gma06g00134 Chr06 1168439 1171924 -
Gso Gso4g0136 Chr4 1181984 1186521 -
Gso Gso4g0136 Chr4 1181984 1186521 -
Lal Lal4g0026 Chr4 161575 167546 -
Lal Lal21g0066 Chr21 470608 474734 -
Lan Lan14g0989 Chr14 16130987 16135265 +
Lan Lan14g0989 Chr14 16130987 16135265 +
Lasa Lasa5g04638 Chr5 682193479 682196975 +
Lja Lja1g2281 Chr1 26545258 26549394 -
Mal Mal2g0356 Chr2 3904046 3907850 -
Mepo Mepo3g07749 Chr3 90705774 90710119 -
Mtr Mtr3g4367 Chr3 57616808 57620817 +
Pvu Pvu9g0072 Chr9 1157883 1162215 +
Spst Spst9g00186 Chr9 1646696 1650856 -
Sto Sto5g0025 Chr5 174935 178108 -
Tpr Tpr7g0142 Chr7 1158218 1161450 -
Trre Trre5g05818 Chr5 57912901 57915994 +
Tsu Tsu07g00158 Chr07 1193545 1196846 -
Vivi Vivi3g00801 Chr3 13034224 13037832 +
Vra Vra5g1738 Chr5 23575946 23579821 +
Vvi Vvi18g0070 Chr18 653885 659188 -
Adu Adu08g00251 Chr08 4215570 4220061 +
Aed Aed9g0142 Chr9 981722 987874 -
Aev Aev08g0118 Chr08 661030 665165 -
Ahy Ahy17g2141 Chr17 102939844 102944278 -
Aip Aip07g02278 Chr07 95573467 95577943 -
Bva Bva10g01020 Chr10 7457796 7462361 +
Car Car05g03347 Chr05 78159391 78164974 +
Cca Cca07g00181 Chr07 2272989 2278526 -
Gma Gma04g00142 Chr04 1208532 1214473 -
Gma Gma06g00135 Chr06 1173601 1179730 -
Gso Gso4g0137 Chr4 1187702 1194009 -
Gso Gso4g0137 Chr4 1187702 1194009 -
Lal Lal21g0067 Chr21 475269 480137 -
Lapu Lapu9g02373 Chr9 38278163 38297599 +
Lasa Lasa5g04637 Chr5 682182788 682188346 +
Lja Lja1g2282 Chr1 26574217 26579611 -
Mal Mal2g0357 Chr2 3909274 3915377 -
Mepo Mepo3g07750 Chr3 90711327 90716837 -
Mtr Mtr3g4366 Chr3 57609879 57615502 +
Pvu Pvu9g0071 Chr9 1150886 1157239 +
Spst Spst9g00187 Chr9 1651997 1657508 -
Sto Sto5g0026 Chr5 179125 185106 -
Tpr Tpr7g0143 Chr7 1165392 1171169 -
Trre Trre5g05816 Chr5 57904189 57909325 +
Tsu Tsu07g00160 Chr07 1206041 1211840 -
Vivi Vivi3g00796 Chr3 13011823 13017883 +
Vra Vra5g1737 Chr5 23569709 23575497 +
Vvi Vvi18g0071 Chr18 664680 671731 -
Adu Adu08g00252 Chr08 4230098 4233602 +
Aev Aev08g0119 Chr08 667819 670930 -
Ahy Ahy17g2143 Chr17 102993694 102998593 -
Aip Aip07g02280 Chr07 95629611 95634559 -
Arst Arst8g00354 Chr8 5068839 5074477 +
Bisa Bisa09g2165 Chr09 34781924 34785940 -
Bva Bva06g01826 Chr06 12574996 12578006 -
Bva Bva10g01019 Chr10 7453870 7456604 +
Car Car05g03345 Chr05 78146884 78150105 +
Cca Cca07g00182 Chr07 2283040 2288667 -
Gma Gma04g00143 Chr04 1219035 1222563 -
Gma Gma06g00136 Chr06 1184106 1188147 -
Gso Gso4g0138 Chr4 1198138 1201885 -
Gso Gso4g0138 Chr4 1198138 1201885 -
Lasa Lasa5g04636 Chr5 681987939 681990754 +
Lja Lja1g2283 Chr1 26581518 26585807 -
Mal Mal2g0358 Chr2 3919773 3923679 -
Mepo Mepo3g07752 Chr3 90729794 90733846 -
Mtr Mtr3g4365 Chr3 57601032 57605235 +
Pvu Pvu9g0070 Chr9 1144937 1147965 +
Spst Spst9g00188 Chr9 1660334 1663516 -
Sto Sto5g0029 Chr5 195410 198124 -
Tpr Tpr7g0144 Chr7 1172735 1174624 -
Trre Trre5g05815 Chr5 57898263 57901828 +
Tsu Tsu07g00161 Chr07 1218680 1222529 -
Vivi Vivi3g00792 Chr3 12967712 12971378 +
Vra Vra5g1736 Chr5 23564612 23567720 +
Vvi Vvi18g0072 Chr18 673537 679430 +
Aed Aed9g0143 Chr9 1003097 1006019 +
Aev Aev08g0120 Chr08 672357 674454 +
Ahy Ahy17g2144 Chr17 103000765 103003510 +
Aip Aip07g02281 Chr07 95636729 95639818 +
Amo Amo17g1985 Chr17 102361697 102364114 +
Car Car05g03344 Chr05 78136415 78139196 -
Cca Cca07g00183 Chr07 2305115 2308688 +
Gma Gma04g00144 Chr04 1226588 1229363 +
Gso Gso4g0139 Chr4 1205981 1208770 +
Lapu Lapu9g02372 Chr9 38273216 38277163 -
Lasa Lasa5g04635 Chr5 681861912 681863470 -
Lja Lja1g2284 Chr1 26588469 26591397 +
Mal Mal2g0359 Chr2 3928272 3930687 +
Mepo Mepo3g07753 Chr3 90736849 90739568 +
Mesa Mesa9g05601 Chr9 91570273 91572156 -
Mtr Mtr3g4364 Chr3 57589927 57597492 -
Pvu Pvu9g0069 Chr9 1140418 1143549 -
Spst Spst9g00189 Chr9 1664746 1667247 +
Sto Sto5g0030 Chr5 199063 201657 +
Tpr Tpr7g0145 Chr7 1179164 1182162 +
Trre Trre5g05814 Chr5 57893232 57895617 -
Tsu Tsu07g00162 Chr07 1226376 1229496 +
Vivi Vivi3g00789 Chr3 12952444 12955144 -
Vra Vra5g1735 Chr5 23558013 23561023 -
Vvi Vvi18g0073 Chr18 681331 684269 +
Aed Aed9g0144 Chr9 1014419 1017193 +
Aev Aev08g0121 Chr08 675622 678192 +
Ahy Ahy17g2145 Chr17 103005046 103007681 +
Aip Aip07g02282 Chr07 95641249 95644008 +
Amo Amo17g1986 Chr17 102366046 102368761 +
Car Car05g03343 Chr05 78130075 78134017 -
Cca Cca07g00184 Chr07 2310119 2313721 +
Dod Dod08g2333 Chr08 51416627 51431040 -
Gma Gma04g00145 Chr04 1231637 1234687 +
Gma Gma06g00137 Chr06 1202558 1205810 +
Gso Gso4g0140 Chr4 1211013 1214272 +
Gso Gso4g0140 Chr4 1211013 1214272 +
Lal Lal21g0068 Chr21 483756 490902 +
Lapu Lapu9g02371 Chr9 38268305 38272253 -
Lasa Lasa5g04634 Chr5 681857995 681860494 -
Lja Lja1g2285 Chr1 26593216 26597055 +
Mal Mal2g0360 Chr2 3933690 3936930 +
Mepo Mepo3g07754 Chr3 90741642 90745556 +
Mesa Mesa9g05600 Chr9 91564313 91567524 -
Mtr Mtr3g4363 Chr3 57582679 57586630 -
Pte Pte1g01134 Chr1 30939270 30943254 -
Pvu Pvu9g0068 Chr9 1136229 1139788 -
Spst Spst9g00190 Chr9 1669170 1672162 +
Sto Sto5g0031 Chr5 203298 205050 +
Tpr Tpr7g0146 Chr7 1183092 1186496 +
Trre Trre5g05812 Chr5 57888439 57891402 -
Tsu Tsu07g00163 Chr07 1230540 1234161 +
Vivi Vivi3g00788 Chr3 12948343 12951216 -
Vra Vra5g1734 Chr5 23553601 23556490 -
Vvi Vvi18g0074 Chr18 686243 690429 +
Vvi Vvi18g0075 Chr18 694337 696034 +
Aev Aev08g0122 Chr08 678994 680590 +
Ahy Ahy17g2146 Chr17 103013820 103015637 +
Aip Aip07g02284 Chr07 95649701 95651660 +
Bva Bva10g01018 Chr10 7451016 7453029 -