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
Vvi19g0780 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0781 . . . . . Adu07g00161 Aed3g2594 . Aev07g0134 . Ahy17g0229 . Aip07g00165 . . . . . . . . Arst7g00262 . Bach3g00952 . . Bva12g02615 . Car02g02140 . Cca05g02028 . . . Dod08g0167 . . . . . . . Gma02g02813 Gma14g00123 . . . . . . . . . . . . . . . . . . . Lasa2g02356 . . . . . . . . . . . Mal8g0223 . Mepo7g02942 . Mesa17g04541 . . . Mtr5g3429 . . . Phco3g00149 . . . Psa2g0170 . Pste8g00282 . . . . . Pumo9g01787 . Pvu8g2881 . Rops9g00205 . Seca8g00191 . Spst8g00983 Ssu6g3574 . Sto9g2036 . . Tpr4g0225 . Trre9g05211 . Tsu05g04039 . Vian7g01104 . Vifa1g03527 . Vimu1g00295 . Viun8g02983 . Vivi7g02565 Vra6g0133 .
Vvi19g0782 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0783 . . . . . . . Aed4g2366 Aev07g0133 . Ahy17g0228 . Aip07g00164 . . . . . Apr2g0309 . . . . . . . Bva12g02614 . Car02g02141 Car05g01135 Cca05g02029 Cca09g01232 . . Dod08g0166 . . . . . . . . . . . . . . Lal22g0045 . . . . . . . . . . . . . . . . . . . . . . Lja6g1242 . . Mal8g0221 . . . . . . . Mtr5g3430 . . . . . . . Psa2g0169 . . . . . . . . . . . . . . . . . Ssu9g1090 Sto9g2037 . . Tpr4g0226 . . . Tsu05g04040 . . . . . . . . . . Vra6g0132 Vra6g0132
Vvi19g0784 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0785 . . . . Adu01g00303 . . Aed4g2365 . Aev01g1417 . Ahy11g0531 . Aip01g00524 . . . Amo11g0333 Apr2g0310 . Arst1g00417 . . . . . Bva12g02613 . . Car05g01138 . Cca09g01233 . . . Dod05g0674 . . . . Gma08g03075 Gma18g00702 . . Gso8g2733 Gso8g2733 . . . . . Lal3g0783 . . . . . . . . Lapu6g02482 . Lasa5g01190 . . . . . . . . . Lja6g1241 . . . Mepo3g04824 . Mesa9g02043 . . . . . Phac6g00763 . Phco11g01848 . . . Psa5g3873 . Pste7g01461 . . . . . Pumo1g00771 . Pvu6g0607 . Rops11g02570 . Seca6g02903 . Spst6g01903 . . Ssu9g1091 . Sto5g1830 . . Trre5g01106 . . . Vian6g00496 . Vifa2g01079 . Vimu2g02362 . Viun6g00972 . Vivi3g05236 . . .
Vvi19g0786 . . . . . Adu07g00158 Aed3g2597 . Aev07g0132 . Ahy17g0226 . Aip07g00162 . . . . . . Apr9g1844 . Arst7g00259 . Bach3g00955 . . Bva12g02612 . Car02g02145 Car05g01248 Cca05g02030 . . . Dod08g0163 . . . . . . . Gma02g02815 Gma14g00122 . . . . . . Lal6g0034 . . . . . . . . . . . . Lasa2g02360 . . . . . . . . . . Mal2g3325 Mal8g0215 . Mepo7g02945 . Mesa17g04546 . . Mtr3g1644 Mtr5g3433 . . . Phco3g00146 . . . Psa2g0166 . Pste8g00280 . . . . . . Pvu6g0699 Pvu8g2883 . Rops9g00202 . Seca8g00188 . Spst8g00986 Ssu6g3575 . Sto9g2040 . Tpr3g3759 Tpr4g0228 . Trre9g05214 Tsu03g00912 Tsu05g04042 . Vian7g01102 . Vifa1g03534 . Vimu1g00292 . Viun8g02985 . Vivi7g02561 Vra6g0131 .
Vvi19g0787 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0788 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2135 . . . . . . . . . . . . . . . . . . .
Vvi19g0789 Acco10g1086 . Accr4g01658 . . Adu07g00157 Aed3g2598 Aed4g2363 Aev07g0131 . Ahy17g0225 . Aip07g00161 . Alju08g1693 . . . . . . Arst7g00257 . Bach3g00956 Bisa09g0175 . Bva12g02611 . Car02g02146 Car05g01139 Cca05g02031 Cca09g01234 Dere04g1708 . Dod08g0162 . . . Glsi08g0208 . Gma08g03076 Gma18g00700 Gma02g02816 . Gso8g2734 Gso8g2734 Gso8g2734 . . . . Lal3g0782 . . . . . . . . . . Lasa5g01193 . Lele01g1323 Lele02g1592 Lele03g1333 Lele04g1581 . . . . Lja6g1240 . . . Mepo3g04826 . . . Mibi05g1586 . . . Phac6g00768 . Phco11g01847 Phco3g00145 Prci8g0974 . Psa5g3857 . Pste7g01464 . Pte9g01199 . . . Pumo1g00767 . Pvu6g0608 Pvu8g2884 Rops11g02569 Rops9g00200 Seca6g02902 . Spst6g01902 . . Ssu9g1093 . . . . Trre5g01105 . . . . . . . . . Viun6g00973 . Vivi3g05232 Vivi7g02560 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto9g2135 Chr9 25103556 25109785 +
Car Car05g01248 Chr05 55810635 55812608 +
Mal Mal2g3325 Chr2 49923958 49925136 -
Mtr Mtr3g1644 Chr3 28529348 28531272 +
Tpr Tpr3g3759 Chr3 41949864 41951782 -
Tsu Tsu03g00912 Chr03 8474662 8476541 -
Aev Aev07g0131 Chr07 767495 768380 -
Ahy Ahy17g0225 Chr17 2182045 2183924 -
Aip Aip07g00161 Chr07 1278226 1280096 -
Dod Dod08g0162 Chr08 1766477 1768694 -
Vvi Vvi19g0780 Chr19 8672345 8673689 +
Vvi Vvi19g0781 Chr19 8679825 8684912 -
Adu Adu07g00161 Chr07 1482902 1486115 +
Aed Aed3g2594 Chr3 27965672 27967997 -
Aev Aev07g0134 Chr07 782904 786082 +
Ahy Ahy17g0229 Chr17 2202270 2205491 +
Aip Aip07g00165 Chr07 1301946 1305097 +
Arst Arst7g00262 Chr7 1634557 1638459 +
Bach Bach3g00952 Chr3 20083669 20087424 -
Bva Bva12g02615 Chr12 19334490 19338311 +
Car Car02g02140 Chr02 51662777 51668408 -
Cca Cca05g02028 Chr05 40080219 40084556 -
Dod Dod08g0167 Chr08 1793327 1797805 +
Gma Gma02g02813 Chr02 53679194 53681278 -
Gma Gma14g00123 Chr14 1032153 1036831 +
Lasa Lasa2g02356 Chr2 499822258 499826903 -
Mal Mal8g0223 Chr8 3419609 3420684 +
Mepo Mepo7g02942 Chr7 40394944 40400440 +
Mesa Mesa17g04541 Chr17 76655037 76659400 -
Mtr Mtr5g3429 Chr5 43141787 43151269 -
Phco Phco3g00149 Chr3 981294 985368 +
Psa Psa2g0170 Chr2 6681818 6688017 +
Pste Pste8g00282 Chr8 1553179 1558544 +
Pumo Pumo9g01787 Chr9 47057628 47060625 +
Pvu Pvu8g2881 Chr8 58607094 58611287 -
Rops Rops9g00205 Chr9 2570241 2575128 +
Seca Seca8g00191 Chr8 2431099 2434389 -
Spst Spst8g00983 Chr8 8549656 8554865 -
Ssu Ssu6g3574 Chr6 79360943 79365926 -
Sto Sto9g2036 Chr9 24350521 24353937 -
Tpr Tpr4g0225 Chr4 2324051 2329521 -
Trre Trre9g05211 Chr9 57195862 57199046 -
Tsu Tsu05g04039 Chr05 51193651 51204903 -
Vian Vian7g01104 Chr7 19259097 19262655 +
Vifa Vifa1g03527 Chr1 546762746 546767893 +
Vimu Vimu1g00295 Chr1 1759718 1763311 +
Viun Viun8g02983 Chr8 37227296 37231131 -
Vivi Vivi7g02565 Chr7 89572506 89576754 +
Vra Vra6g0133 Chr6 968333 973305 +
Vvi Vvi19g0782 Chr19 8694040 8703563 +
Vvi Vvi19g0783 Chr19 8704992 8707025 +
Aed Aed4g2366 Chr4 26038336 26040761 -
Aev Aev07g0133 Chr07 777648 782625 -
Ahy Ahy17g0228 Chr17 2199146 2202018 -
Aip Aip07g00164 Chr07 1298722 1301542 -
Apr Apr2g0309 Chr2 3694778 3696691 +
Bva Bva12g02614 Chr12 19331254 19333670 -
Car Car02g02141 Chr02 51672768 51674830 +
Car Car05g01135 Chr05 53740910 53742883 +
Cca Cca05g02029 Chr05 40085006 40087875 +
Cca Cca09g01232 Chr09 34555648 34557906 +
Dod Dod08g0166 Chr08 1788387 1792210 -
Lal Lal22g0045 Chr22 267962 269989 -
Lja Lja6g1242 Chr6 36356634 36358752 -
Mal Mal8g0221 Chr8 3406564 3408594 -
Mtr Mtr5g3430 Chr5 43154677 43157127 +
Psa Psa2g0169 Chr2 6671559 6673946 -
Ssu Ssu9g1090 Chr9 42487450 42489393 +
Sto Sto9g2037 Chr9 24361515 24363563 +
Tpr Tpr4g0226 Chr4 2331707 2334106 +
Tsu Tsu05g04040 Chr05 51205034 51207094 +
Vra Vra6g0132 Chr6 964738 967212 -
Vra Vra6g0132 Chr6 964738 967212 -
Vvi Vvi19g0784 Chr19 8708556 8712554 +
Vvi Vvi19g0785 Chr19 8712948 8718835 -
Adu Adu01g00303 Chr01 3798025 3804016 -
Aed Aed4g2365 Chr4 26032115 26036872 +
Aev Aev01g1417 Chr01 16651150 16658192 +
Ahy Ahy11g0531 Chr11 8092940 8099182 +
Aip Aip01g00524 Chr01 7578984 7584805 +
Amo Amo11g0333 Chr11 5224697 5230506 +
Apr Apr2g0310 Chr2 3700297 3705194 -
Arst Arst1g00417 Chr1 3802210 3808122 -
Bva Bva12g02613 Chr12 19323902 19328252 +
Car Car05g01138 Chr05 53770959 53776246 -
Cca Cca09g01233 Chr09 34561776 34566840 -
Dod Dod05g0674 Chr05 10046605 10056368 +
Gma Gma08g03075 Chr08 47386787 47392659 -
Gma Gma18g00702 Chr18 7246569 7252791 +
Gso Gso8g2733 Chr8 45038020 45044438 -
Gso Gso8g2733 Chr8 45038020 45044438 -
Lal Lal3g0783 Chr3 7064326 7070515 +
Lapu Lapu6g02482 Chr6 24728727 24733277 +
Lasa Lasa5g01190 Chr5 322944065 322949065 -
Lja Lja6g1241 Chr6 36332285 36336959 +
Mepo Mepo3g04824 Chr3 60326612 60333956 -
Mesa Mesa9g02043 Chr9 44712669 44719706 -
Phac Phac6g00763 Chr6 12269519 12273588 -
Phco Phco11g01848 Chr11 14842435 14846031 +
Psa Psa5g3873 Chr5 306394320 306399685 +
Pste Pste7g01461 Chr7 13442514 13446378 -
Pumo Pumo1g00771 Chr1 11460485 11463469 +
Pvu Pvu6g0607 Chr6 17492513 17496494 -
Rops Rops11g02570 Chr11 43829187 43834233 +
Seca Seca6g02903 Chr6 94377764 94382959 +
Spst Spst6g01903 Chr6 18170155 18175335 +
Ssu Ssu9g1091 Chr9 42495825 42500938 -
Sto Sto5g1830 Chr5 13383482 13397099 +
Trre Trre5g01106 Chr5 7770618 7775493 +
Vian Vian6g00496 Chr6 19997137 20001116 -
Vifa Vifa2g01079 Chr2 290916131 290921001 -
Vimu Vimu2g02362 Chr2 19170427 19174385 +
Viun Viun6g00972 Chr6 19277089 19281230 -
Vivi Vivi3g05236 Chr3 105765045 105771116 +
Vvi Vvi19g0786 Chr19 8721937 8728041 -
Adu Adu07g00158 Chr07 1466887 1472132 +
Aed Aed3g2597 Chr3 27972432 27978468 -
Aev Aev07g0132 Chr07 769725 774661 +
Ahy Ahy17g0226 Chr17 2185954 2191950 +
Aip Aip07g00162 Chr07 1284455 1291444 +
Apr Apr9g1844 Chr9 27207946 27214762 -
Arst Arst7g00259 Chr7 1618513 1623988 +
Bach Bach3g00955 Chr3 20100090 20106538 -
Bva Bva12g02612 Chr12 19316610 19323349 +
Car Car02g02145 Chr02 51682281 51688521 -
Car Car05g01248 Chr05 55810635 55812608 +
Cca Cca05g02030 Chr05 40097678 40104562 -
Dod Dod08g0163 Chr08 1771117 1776627 +
Gma Gma02g02815 Chr02 53694479 53701552 -
Gma Gma14g00122 Chr14 1015149 1017911 +
Lal Lal6g0034 Chr6 239547 248706 +
Lasa Lasa2g02360 Chr2 499862610 499867220 -
Mal Mal2g3325 Chr2 49923958 49925136 -
Mal Mal8g0215 Chr8 3374307 3380811 +
Mepo Mepo7g02945 Chr7 40409551 40416730 -
Mesa Mesa17g04546 Chr17 76679644 76686386 -
Mtr Mtr3g1644 Chr3 28529348 28531272 +
Mtr Mtr5g3433 Chr5 43167665 43174836 -
Phco Phco3g00146 Chr3 960034 966327 +
Psa Psa2g0166 Chr2 6558807 6563078 +
Pste Pste8g00280 Chr8 1546435 1547633 +
Pvu Pvu6g0699 Chr6 18542599 18546221 -
Pvu Pvu8g2883 Chr8 58623052 58628857 -
Rops Rops9g00202 Chr9 2556259 2565475 +
Seca Seca8g00188 Chr8 2415655 2418678 +
Spst Spst8g00986 Chr8 8563701 8569949 -
Ssu Ssu6g3575 Chr6 79391814 79396829 -
Sto Sto9g2040 Chr9 24377032 24383297 -
Tpr Tpr3g3759 Chr3 41949864 41951782 -
Tpr Tpr4g0228 Chr4 2336952 2342569 -
Trre Trre9g05214 Chr9 57211838 57216545 -
Tsu Tsu03g00912 Chr03 8474662 8476541 -
Tsu Tsu05g04042 Chr05 51210792 51215711 -
Vian Vian7g01102 Chr7 19236636 19245444 +
Vifa Vifa1g03534 Chr1 548541352 548545836 -
Vimu Vimu1g00292 Chr1 1739611 1747062 +
Viun Viun8g02985 Chr8 37243402 37250533 -
Vivi Vivi7g02561 Chr7 89534821 89538929 +
Vra Vra6g0131 Chr6 946871 955775 +
Vvi Vvi19g0787 Chr19 8728277 8730857 +
Vvi Vvi19g0788 Chr19 8734790 8751996 +
Sto Sto9g2135 Chr9 25103556 25109785 +
Vvi Vvi19g0789 Chr19 8775291 8778344 +
Acco Acco10g1086 Chr10 24824890 24827937 +
Accr Accr4g01658 Chr4 17475223 17477936 -
Adu Adu07g00157 Chr07 1463385 1465251 -
Aed Aed3g2598 Chr3 27978978 27979713 +
Aed Aed4g2363 Chr4 26024519 26028361 -
Aev Aev07g0131 Chr07 767495 768380 -
Ahy Ahy17g0225 Chr17 2182045 2183924 -
Aip Aip07g00161 Chr07 1278226 1280096 -
Alju Alju08g1693 Chr08 13914010 13916925 -
Arst Arst7g00257 Chr7 1615034 1616937 -
Bach Bach3g00956 Chr3 20109229 20112325 +
Bisa Bisa09g0175 Chr09 2260259 2264107 +
Bva Bva12g02611 Chr12 19312369 19315617 -
Car Car02g02146 Chr02 51688989 51691274 +
Car Car05g01139 Chr05 53788889 53793443 +
Cca Cca05g02031 Chr05 40107305 40109029 +
Cca Cca09g01234 Chr09 34569218 34572770 +
Dere Dere04g1708 Chr04 19499678 19502838 +
Dod Dod08g0162 Chr08 1766477 1768694 -
Glsi Glsi08g0208 Chr08 1804184 1808149 +
Gma Gma08g03076 Chr08 47395155 47398629 +
Gma Gma18g00700 Chr18 7235391 7238754 -
Gma Gma02g02816 Chr02 53702631 53703789 +
Gso Gso8g2734 Chr8 45046306 45049328 +
Gso Gso8g2734 Chr8 45046306 45049328 +
Gso Gso8g2734 Chr8 45046306 45049328 +
Lal Lal3g0782 Chr3 7039932 7042817 -
Lasa Lasa5g01193 Chr5 324253395 324255728 +
Lele Lele01g1323 Chr01 8081439 8083947 -
Lele Lele02g1592 Chr02 19805010 19809275 -
Lele Lele03g1333 Chr03 8042179 8044999 -
Lele Lele04g1581 Chr04 20673688 20676829 -
Lja Lja6g1240 Chr6 36311243 36314960 -
Mepo Mepo3g04826 Chr3 60350308 60354255 +
Mibi Mibi05g1586 Chr05 18757100 18760482 -
Phac Phac6g00768 Chr6 12278808 12282238 +
Phco Phco11g01847 Chr11 14833632 14838434 -
Phco Phco3g00145 Chr3 958568 959604 -
Prci Prci8g0974 Chr8 6463394 6466832 -
Psa Psa5g3857 Chr5 304064944 304067094 -
Pste Pste7g01464 Chr7 13455663 13458972 +
Pte Pte9g01199 Chr9 33740264 33742647 +
Pumo Pumo1g00767 Chr1 11450246 11453256 -
Pvu Pvu6g0608 Chr6 17502174 17505359 +
Pvu Pvu8g2884 Chr8 58636727 58638886 +
Rops Rops11g02569 Chr11 43795816 43799233 -
Rops Rops9g00200 Chr9 2547624 2550239 -
Seca Seca6g02902 Chr6 94364697 94369135 -
Spst Spst6g01902 Chr6 18165203 18169553 -
Ssu Ssu9g1093 Chr9 42513576 42516402 +
Trre Trre5g01105 Chr5 7763220 7767345 -
Viun Viun6g00973 Chr6 19287759 19290850 +
Vivi Vivi3g05232 Chr3 105667347 105670992 -
Vivi Vivi7g02560 Chr7 89530339 89532345 -