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
Vvi18g0946 . . . . Adu08g00319 . . . Aev08g0318 . Ahy17g2473 . Aip07g02645 . . . Amo17g2356 . . Apr5g1550 Arst8g00382 . . . . . . . . . . Cca07g00411 . . . . . . . . Gma04g00337 Gma06g00323 . . Gso4g0314 Gso4g0314 . . Lal4g0110 Lal17g0092 . . . . Lan14g0908 Lan14g0908 . . . . Lapu9g02185 . . . . . . . . . . . Lja1g4205 . . . . . . . . . . . . . Phco7g00418 . . . . . Pste2g00946 . . . . . . . Pvu9g0639 . Rops10g01060 . Seca4g01559 . Spst9g00424 . . . Sto5g0285 . . . . . . . Vian4g02281 . . . Vimu10g03352 . Viun9g03530 . . . . Vra5g1541
Vvi18g0947 . . . . Adu08g00318 . . . Aev08g0317 . Ahy17g2472 . Aip07g02644 . . . Amo17g2355 . . Apr5g1551 Arst8g00381 . Bach12g00206 . . . Bva06g02046 Bva10g00769 . Car05g02717 . Cca07g00410 . . . . . . . . Gma04g00336 Gma06g00322 . . Gso4g0313 Gso4g0313 . . . Lal17g0091 Lal21g0168 . . . . . . . . . . . Lasa5g03662 . . . . . . . . . Lja1g4206 . . . Mepo3g07091 . Mesa9g04617 . . . . Mtr3g3600 Phac9g01649 . Phco7g00417 . . . . Psa5g1061 Pste2g00944 . Pte3g01334 . . . . . Pvu9g0638 . Rops10g01061 . Seca4g01560 . Spst9g00423 . . . Sto5g0284 . . Tpr3g3422 Trre5g04528 . . Tsu07g01018 Vian4g02282 . Vifa2g03543 . Vimu10g03353 . Viun9g03531 . Vivi3g02005 . . Vra5g1542
Vvi18g0948 Acco10g1671 Acco05g2835 Accr4g01088 Accr3g00205 Adu08g00312 Adu06g03245 Aed11g0168 . Aev08g0316 Aev07g0805 Ahy17g2468 Ahy16g3594 Aip07g02640 Aip06g03861 Alju08g1125 Alju07g2791 Amo17g2353 Amo16g3910 Apr9g0463 Apr5g1552 Arst8g00377 Arst6g04190 Bach12g00205 Bach3g02286 Bisa09g1915 Bisa05g0784 Bva06g02045 Bva10g00770 Car04g03472 . Cca05g00224 Cca07g00409 Dere04g0218 . Dod08g2129 Dod08g2129 Enph1g1130 Enph7g1371 . Glsi10g0282 Gma04g00335 Gma06g00321 Gma14g00683 Gma17g02357 Gso4g0312 Gso4g0312 Gso4g0312 Gso4g0312 . . Lal21g0167 Lal8g0611 . Lal25g0567 . . . . . . Lapu9g02186 Lapu8g00915 . Lasa6g00155 . Lele02g0874 Lele03g0891 Lele04g0888 Lele25g0178 Lele26g0189 Lele27g1903 Lele28g0192 Lja1g4207 Lja5g3191 Mal1g5846 . . Mepo4g00201 . . Mibi05g1047 Mibi08g2491 Mtr1g0561 . . . Phco7g00415 Phco2g00214 Prci8g0310 Prci2g0292 . . Pste2g00939 Pste8g01120 Pte3g01335 . Pte3g01335 Pte2g01188 . Pumo9g00195 Pvu9g0637 Pvu1g0188 . Rops9g02259 Seca4g01563 Seca4g01563 Spst9g00422 Spst8g02107 Ssu5g0195 . Sto5g0283 Sto9g3597 Tpr1g3724 . . Trre1g00264 Tsu01g00351 . Vian4g02283 Vian7g00776 . Vifa3g04981 Vimu10g03354 Vimu1g03049 Viun9g03532 Viun8g00264 Vivi4g05685 Vivi4g05698 Vra6g1903 Vra5g1543
Vvi18g0949 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0950 . . . . . . . . . . . . . . . . . . . Apr5g1553 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0951 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0952 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0953 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0954 . . . . . . . . . . Ahy17g2458 . Aip07g02624 . . . Amo17g2328 . . Apr5g1554 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0281 . . . . . . . . . . . . . . . . . . .
Vvi18g0955 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Ahy Ahy17g2458 Chr17 117102681 117104736 -
Aip Aip07g02624 Chr07 108684458 108686470 -
Amo Amo17g2328 Chr17 117861749 117863760 -
Mtr Mtr3g3600 Chr3 49900234 49903611 +
Tpr Tpr3g3422 Chr3 37727519 37731079 +
Tsu Tsu07g01018 Chr07 8481460 8486072 -
Vvi Vvi18g0946 Chr18 9680176 9680544 +
Adu Adu08g00319 Chr08 5652229 5653048 -
Aev Aev08g0318 Chr08 1720462 1720845 -
Ahy Ahy17g2473 Chr17 118191557 118192320 -
Aip Aip07g02645 Chr07 109712414 109713233 -
Amo Amo17g2356 Chr17 118937552 118938284 -
Apr Apr5g1550 Chr5 19348276 19348996 +
Arst Arst8g00382 Chr8 5624930 5625571 -
Cca Cca07g00411 Chr07 5423359 5424174 -
Gma Gma04g00337 Chr04 2881534 2882497 -
Gma Gma06g00323 Chr06 2803645 2804522 -
Gso Gso4g0314 Chr4 2828580 2829404 -
Gso Gso4g0314 Chr4 2828580 2829404 -
Lal Lal4g0110 Chr4 683736 684620 -
Lal Lal17g0092 Chr17 580291 580671 -
Lan Lan14g0908 Chr14 15626945 15627558 +
Lan Lan14g0908 Chr14 15626945 15627558 +
Lapu Lapu9g02185 Chr9 36555485 36555874 +
Lja Lja1g4205 Chr1 53719590 53720262 +
Phco Phco7g00418 Chr7 2955814 2956203 -
Pste Pste2g00946 Chr2 10090377 10090754 -
Pvu Pvu9g0639 Chr9 10890727 10891505 -
Rops Rops10g01060 Chr10 22318686 22319307 +
Seca Seca4g01559 Chr4 25280460 25280837 +
Spst Spst9g00424 Chr9 3776603 3776992 -
Sto Sto5g0285 Chr5 1694838 1695185 -
Vian Vian4g02281 Chr4 39639905 39640294 +
Vimu Vimu10g03352 Chr10 43601262 43601651 +
Viun Viun9g03530 Chr9 41118814 41119515 +
Vra Vra5g1541 Chr5 22028246 22028933 +
Vvi Vvi18g0947 Chr18 9681434 9686016 -
Adu Adu08g00318 Chr08 5648862 5651554 +
Aev Aev08g0317 Chr08 1716557 1719181 +
Ahy Ahy17g2472 Chr17 118187713 118191024 +
Aip Aip07g02644 Chr07 109708678 109711951 +
Amo Amo17g2355 Chr17 118933714 118937056 +
Apr Apr5g1551 Chr5 19349770 19353837 -
Arst Arst8g00381 Chr8 5621192 5624419 +
Bach Bach12g00206 Chr12 1406655 1408799 +
Bva Bva06g02046 Chr06 13660796 13663972 +
Bva Bva10g00769 Chr10 6192592 6195570 -
Car Car05g02717 Chr05 72275984 72279990 +
Cca Cca07g00410 Chr07 5417394 5421270 +
Gma Gma04g00336 Chr04 2876580 2880845 +
Gma Gma06g00322 Chr06 2798492 2802597 +
Gso Gso4g0313 Chr4 2823527 2827776 +
Gso Gso4g0313 Chr4 2823527 2827776 +
Lal Lal17g0091 Chr17 575865 580792 +
Lal Lal21g0168 Chr21 1125671 1129044 +
Lasa Lasa5g03662 Chr5 583689029 583692251 +
Lja Lja1g4206 Chr1 53721429 53725286 -
Mepo Mepo3g07091 Chr3 84614177 84617736 +
Mesa Mesa9g04617 Chr9 80149524 80153175 +
Mtr Mtr3g3600 Chr3 49900234 49903611 +
Phac Phac9g01649 Chr9 13546436 13550585 -
Phco Phco7g00417 Chr7 2950403 2953810 +
Psa Psa5g1061 Chr5 82356510 82360817 -
Pste Pste2g00944 Chr2 10085162 10089614 +
Pte Pte3g01334 Chr3 11446425 11449412 -
Pvu Pvu9g0638 Chr9 10885994 10890022 +
Rops Rops10g01061 Chr10 22321010 22325731 -
Seca Seca4g01560 Chr4 25282950 25288819 -
Spst Spst9g00423 Chr9 3771839 3775462 +
Sto Sto5g0284 Chr5 1691531 1694043 +
Tpr Tpr3g3422 Chr3 37727519 37731079 +
Trre Trre5g04528 Chr5 47219122 47222051 -
Tsu Tsu07g01018 Chr07 8481460 8486072 -
Vian Vian4g02282 Chr4 39641595 39644957 -
Vifa Vifa2g03543 Chr2 1030190016 1030192857 +
Vimu Vimu10g03353 Chr10 43602965 43606241 -
Viun Viun9g03531 Chr9 41120173 41124019 -
Vivi Vivi3g02005 Chr3 33303369 33306467 -
Vra Vra5g1542 Chr5 22029766 22033512 -
Vvi Vvi18g0948 Chr18 9692544 9695195 +
Acco Acco10g1671 Chr10 30143060 30146020 -
Acco Acco05g2835 Chr05 43402698 43404982 +
Accr Accr4g01088 Chr4 10333057 10336205 +
Accr Accr3g00205 Chr3 2206361 2208650 -
Adu Adu08g00312 Chr08 5585589 5588532 -
Adu Adu06g03245 Chr06 110818442 110824296 +
Aed Aed11g0168 Chr11 1344023 1349295 -
Aev Aev08g0316 Chr08 1704752 1708290 -
Aev Aev07g0805 Chr07 5415412 5420115 -
Ahy Ahy17g2468 Chr17 118095914 118099920 -
Ahy Ahy16g3594 Chr16 153547246 153553785 +
Aip Aip07g02640 Chr07 109603456 109606224 -
Aip Aip06g03861 Chr06 136277983 136283606 +
Alju Alju08g1125 Chr08 8429774 8433449 +
Alju Alju07g2791 Chr07 53277373 53279668 +
Amo Amo17g2353 Chr17 118848997 118851923 -
Amo Amo16g3910 Chr16 150884425 150890328 +
Apr Apr9g0463 Chr9 6434437 6438635 +
Apr Apr5g1552 Chr5 19361628 19364947 +
Arst Arst8g00377 Chr8 5557976 5561469 -
Arst Arst6g04190 Chr6 109926369 109932640 +
Bach Bach12g00205 Chr12 1397855 1400040 -
Bach Bach3g02286 Chr3 29593611 29596233 +
Bisa Bisa09g1915 Chr09 30050170 30053025 +
Bisa Bisa05g0784 Chr05 13225570 13228308 -
Bva Bva06g02045 Chr06 13651478 13654859 -
Bva Bva10g00770 Chr10 6203251 6206806 +
Car Car04g03472 Chr04 63769250 63773748 +
Cca Cca05g00224 Chr05 4766908 4772265 +
Cca Cca07g00409 Chr07 5373826 5378995 -
Dere Dere04g0218 Chr04 2277903 2280473 -
Dod Dod08g2129 Chr08 48994421 48998540 +
Dod Dod08g2129 Chr08 48994421 48998540 +
Enph Enph1g1130 Chr1 37455792 37458056 -
Enph Enph7g1371 Chr7 19119068 19122686 +
Glsi Glsi10g0282 Chr10 1872990 1875480 -
Gma Gma04g00335 Chr04 2862401 2868610 -
Gma Gma06g00321 Chr06 2789121 2791664 -
Gma Gma14g00683 Chr14 6732921 6737644 -
Gma Gma17g02357 Chr17 41583495 41588197 +
Gso Gso4g0312 Chr4 2812832 2816421 -
Gso Gso4g0312 Chr4 2812832 2816421 -
Gso Gso4g0312 Chr4 2812832 2816421 -
Gso Gso4g0312 Chr4 2812832 2816421 -
Lal Lal21g0167 Chr21 1121791 1123450 -
Lal Lal8g0611 Chr8 4248791 4253307 -
Lal Lal25g0567 Chr25 4198004 4203025 -
Lapu Lapu9g02186 Chr9 36581372 36585305 +
Lapu Lapu8g00915 Chr8 27319670 27324483 +
Lasa Lasa6g00155 Chr6 5450131 5452695 +
Lele Lele02g0874 Chr02 5309448 5311604 +
Lele Lele03g0891 Chr03 5172576 5174746 +
Lele Lele04g0888 Chr04 5469363 5471543 +
Lele Lele25g0178 Chr25 1074446 1076865 -
Lele Lele26g0189 Chr26 1104981 1106861 -
Lele Lele27g1903 Chr27 23653294 23656083 +
Lele Lele28g0192 Chr28 1118079 1120382 -
Lja Lja1g4207 Chr1 53731805 53733803 +
Lja Lja5g3191 Chr5 61925430 61929325 +
Mal Mal1g5846 Chr1 136036017 136039375 +
Mepo Mepo4g00201 Chr4 3388348 3390539 -
Mibi Mibi05g1047 Chr05 12835311 12838001 +
Mibi Mibi08g2491 Chr08 42670086 42672184 +
Mtr Mtr1g0561 Chr1 6511145 6514854 +
Phco Phco7g00415 Chr7 2936112 2940934 -
Phco Phco2g00214 Chr2 1665378 1668607 -
Prci Prci8g0310 Chr8 1967849 1971352 +
Prci Prci2g0292 Chr2 2040991 2044333 -
Pste Pste2g00939 Chr2 10054295 10060502 -
Pste Pste8g01120 Chr8 5834729 5839525 +
Pte Pte3g01335 Chr3 11486330 11489482 +
Pte Pte3g01335 Chr3 11486330 11489482 +
Pte Pte2g01188 Chr2 13081447 13084532 +
Pumo Pumo9g00195 Chr9 2785950 2790575 -
Pvu Pvu9g0637 Chr9 10871451 10875543 -
Pvu Pvu1g0188 Chr1 1561647 1565391 -
Rops Rops9g02259 Chr9 41770623 41774214 +
Seca Seca4g01563 Chr4 25323677 25328352 +
Seca Seca4g01563 Chr4 25323677 25328352 +
Spst Spst9g00422 Chr9 3763704 3766869 -
Spst Spst8g02107 Chr8 29421085 29424004 +
Ssu Ssu5g0195 Chr5 4158734 4162232 -
Sto Sto5g0283 Chr5 1679391 1682019 -
Sto Sto9g3597 Chr9 34708157 34710505 +
Tpr Tpr1g3724 Chr1 41362984 41372430 +
Trre Trre1g00264 Chr1 1918082 1922150 -
Tsu Tsu01g00351 Chr01 2932844 2936868 -
Vian Vian4g02283 Chr4 39654911 39659056 +
Vian Vian7g00776 Chr7 16026977 16030154 +
Vifa Vifa3g04981 Chr3 1447985298 1447988091 +
Vimu Vimu10g03354 Chr10 43614726 43619438 +
Vimu Vimu1g03049 Chr1 42911397 42914896 +
Viun Viun9g03532 Chr9 41130924 41135566 +
Viun Viun8g00264 Chr8 1699452 1703753 -
Vivi Vivi4g05685 Chr4 193136615 193140321 -
Vivi Vivi4g05698 Chr4 193328552 193332270 +
Vra Vra6g1903 Chr6 35638416 35643218 +
Vra Vra5g1543 Chr5 22039346 22044303 +
Vvi Vvi18g0949 Chr18 9699704 9701502 +
Vvi Vvi18g0950 Chr18 9706791 9708470 +
Apr Apr5g1553 Chr5 19367960 19370031 +
Vvi Vvi18g0951 Chr18 9714736 9725445 -
Vvi Vvi18g0952 Chr18 9728470 9730964 +
Vvi Vvi18g0953 Chr18 9734478 9737305 +
Vvi Vvi18g0954 Chr18 9738553 9741982 +
Ahy Ahy17g2458 Chr17 117102681 117104736 -
Aip Aip07g02624 Chr07 108684458 108686470 -
Amo Amo17g2328 Chr17 117861749 117863760 -
Apr Apr5g1554 Chr5 19373152 19375223 +
Sto Sto5g0281 Chr5 1670477 1671967 -
Vvi Vvi18g0955 Chr18 9748670 9752111 -