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
Vvi1g0711 Acco04g1903 . Accr8g00803 . . . . Aed7g1922 . Aev03g2763 . Ahy13g4070 . Aip03g04517 Alju06g1890 . . Amo13g5138 . . Arst3g05439 . . . Bisa08g2656 . . . Car06g00843 . . Cca01g00160 Dere03g0156 . . Dod04g0515 Enph6g0162 . Glsi02g0152 . . . Gma08g01212 Gma18g00122 . . . . . . . . . . . . . . . . Lapu3g03273 . Lasa7g04283 . Lele21g1351 Lele22g1347 Lele23g0672 Lele24g1306 . . . . . Lja4g0772 . Mal7g4513 Mepo2g04195 . Mesa13g00918 . Mibi09g0791 . . Mtr8g3088 Phac2g03886 . Phco4g02898 . Prci4g2165 . . Psa7g1352 Pste3g01955 . Pte2g02690 . . . Pumo6g00867 . Pvu2g2667 . Rops2g00976 . Seca12g06088 . Spst3g01503 . . Ssu9g1744 . . . Tpr3g1012 Trre7g04909 . . Tsu02g00878 Vian1g03489 . Vifa2g02526 . Vimu11g03962 . Viun3g01069 . Vivi5g05174 . . Vra2g1456
Vvi1g0712 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0713 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01345 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0714 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2819 . . . . . . . Mtr8g2010 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g4743 . . . Tsu04g02871 . . . . . . . . . . . .
Vvi1g0715 Acco04g1905 . Accr8g00801 . Adu10g00808 . . Aed7g1923 . . . . . . Alju06g1891 . . . . . Arst10g01054 . . . Bisa08g2655 . . . Car05g02085 . . Cca01g00162 Dere03g0157 . . . Enph6g0163 . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g02696 . Lele21g1352 . Lele23g0670 . . . . . . . . . Mepo3g06290 . . . Mibi09g0790 . . . . . Phco2g02913 . Prci4g2167 . . . . . . . . . Pumo1g00391 . Pvu1g2637 . Rops11g03796 . Seca6g01843 . Spst1g01953 . . Ssu9g1742 . . . . Trre5g03241 . . . Vian2g03125 . Vifa2g02528 . Vimu6g01583 . Viun1g03380 . Vivi3g03246 . . Vra2g1457
Vvi1g0716 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0717 Acco04g1907 . Accr8g00798 . Adu03g04122 . . Aed5g1947 . Aev03g2765 . Ahy13g4072 . Aip03g04519 Alju06g1892 . . Amo13g5140 . . Arst3g05442 . Bach2g00180 . Bisa08g2653 . . . Car06g00841 . . Cca09g02086 Dere03g0158 . . Dod04g0512 Enph6g0164 . Glsi02g0155 . . . Gma08g01214 . . . . . . . . . . . . . . . . . Lapu3g03275 . Lasa7g04286 . Lele21g1354 Lele22g1348 Lele23g0668 Lele24g1307 . . . . . Lja4g0770 . . . . Mesa13g00913 . Mibi09g0788 . . Mtr8g3092 . . Phco4g02900 . Prci4g2168 . . . Pste3g01951 . . . . . Pumo6g00865 . Pvu2g2669 . Rops2g00975 . Seca12g06090 . Spst3g01501 . . Ssu5g2660 . . . Tpr3g1010 Trre7g04913 . . Tsu02g00876 Vian1g03494 . Vifa6g02976 . Vimu11g03965 . Viun3g01067 . Vivi5g05171 . . Vra7g2063
Vvi1g0718 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0719 . . . . Adu03g04123 . . Aed5g1948 . Aev03g2767 . Ahy13g4073 . Aip03g04520 . . . Amo13g5141 . . Arst3g05445 . . . Bisa08g2651 . . . . . . Cca09g02087 . . . Dod04g2353 . . . . . . Gma08g01215 . . . . . . . . . . . . . . . . . Lapu3g03278 . Lasa7g04287 . . . . . . . . . . . . Mal7g4518 Mepo2g04206 . . . . . . Mtr8g3097 . . Phco4g02901 . . . . . Pste3g01950 . . . . . Pumo6g00863 . Pvu2g2670 . Rops2g00973 . . . Spst3g01500 . . Ssu5g2661 . . . Tpr3g1008 . . . Tsu02g00869 Vian1g03495 . Vifa6g02977 . Vimu11g03967 . Viun3g01066 . . . . .
Vvi1g0720 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0711 Chr1 7142093 7146735 +
Acco Acco04g1903 Chr04 32292102 32298389 +
Accr Accr8g00803 Chr8 14337722 14344020 -
Aed Aed7g1922 Chr7 22284945 22291117 +
Aev Aev03g2763 Chr03 27460444 27464774 +
Ahy Ahy13g4070 Chr13 140163848 140169588 +
Aip Aip03g04517 Chr03 129450246 129456053 +
Alju Alju06g1890 Chr06 42620829 42627073 +
Amo Amo13g5138 Chr13 151125835 151131114 +
Arst Arst3g05439 Chr3 129102522 129108281 +
Bisa Bisa08g2656 Chr08 61609949 61619055 -
Car Car06g00843 Chr06 8281821 8287074 -
Cca Cca01g00160 Chr01 1564985 1571350 +
Dere Dere03g0156 Chr03 5000889 5006677 +
Dod Dod04g0515 Chr04 7364574 7375767 -
Enph Enph6g0162 Chr6 4914707 4921364 +
Glsi Glsi02g0152 Chr02 971146 980808 +
Gma Gma08g01212 Chr08 10296289 10301779 +
Gma Gma18g00122 Chr18 967501 970414 +
Lapu Lapu3g03273 Chr3 55978396 55984363 +
Lasa Lasa7g04283 Chr7 651048054 651051540 +
Lele Lele21g1351 Chr21 21979506 21984004 +
Lele Lele22g1347 Chr22 19253424 19259089 +
Lele Lele23g0672 Chr23 5188681 5191736 -
Lele Lele24g1306 Chr24 19059447 19065058 +
Lja Lja4g0772 Chr4 6429164 6434744 -
Mal Mal7g4513 Chr7 113019768 113030720 +
Mepo Mepo2g04195 Chr2 50749478 50749899 -
Mesa Mesa13g00918 Chr13 10922653 10924338 +
Mibi Mibi09g0791 Chr09 10635917 10641533 -
Mtr Mtr8g3088 Chr8 41447523 41450655 -
Phac Phac2g03886 Chr2 38867067 38872498 +
Phco Phco4g02898 Chr4 50154547 50159821 +
Prci Prci4g2165 Chr4 34121228 34127452 +
Psa Psa7g1352 Chr7 98841033 98845232 +
Pste Pste3g01955 Chr3 13312540 13318837 -
Pte Pte2g02690 Chr2 45783416 45788473 -
Pumo Pumo6g00867 Chr6 10841108 10846900 -
Pvu Pvu2g2667 Chr2 42515594 42521471 +
Rops Rops2g00976 Chr2 13704177 13710147 -
Seca Seca12g06088 Chr12 152735606 152741909 +
Spst Spst3g01503 Chr3 18479005 18484757 -
Ssu Ssu9g1744 Chr9 54719120 54724382 -
Tpr Tpr3g1012 Chr3 9255782 9259448 -
Trre Trre7g04909 Chr7 56227061 56230552 +
Tsu Tsu02g00878 Chr02 7389552 7393129 -
Vian Vian1g03489 Chr1 57427297 57433546 +
Vifa Vifa2g02526 Chr2 666900032 666904096 +
Vimu Vimu11g03962 Chr11 61485459 61492173 +
Viun Viun3g01069 Chr3 6702534 6707469 -
Vivi Vivi5g05174 Chr5 152894703 152898356 -
Vra Vra2g1456 Chr2 22596678 22601788 +
Vvi Vvi1g0712 Chr1 7153810 7167132 +
Vvi Vvi1g0713 Chr1 7173385 7178241 +
Bva Bva08g01345 Chr08 7050339 7055979 +
Vvi Vvi1g0714 Chr1 7179494 7187692 -
Mal Mal5g2819 Chr5 83835924 83838606 -
Mtr Mtr8g2010 Chr8 29907733 29911908 +
Tpr Tpr4g4743 Chr4 55922726 55928758 -
Tsu Tsu04g02871 Chr04 34645364 34649110 +
Vvi Vvi1g0715 Chr1 7199706 7200344 +
Acco Acco04g1905 Chr04 32314140 32314796 +
Accr Accr8g00801 Chr8 14297042 14297689 -
Adu Adu10g00808 Chr10 11040877 11041799 +
Aed Aed7g1923 Chr7 22293246 22293809 +
Alju Alju06g1891 Chr06 42646048 42646710 +
Arst Arst10g01054 Chr10 10687121 10688075 +
Bisa Bisa08g2655 Chr08 61603151 61604956 -
Car Car05g02085 Chr05 66091521 66094602 +
Cca Cca01g00162 Chr01 1580840 1581724 +
Dere Dere03g0157 Chr03 5011322 5012023 +
Enph Enph6g0163 Chr6 4929606 4930549 +
Lasa Lasa5g02696 Chr5 498355182 498355763 +
Lele Lele21g1352 Chr21 21987570 21988271 +
Lele Lele23g0670 Chr23 5173165 5173869 -
Mepo Mepo3g06290 Chr3 77025073 77026204 +
Mibi Mibi09g0790 Chr09 10620844 10621554 -
Phco Phco2g02913 Chr2 58169277 58169840 -
Prci Prci4g2167 Chr4 34139439 34140669 +
Pumo Pumo1g00391 Chr1 5607287 5607986 -
Pvu Pvu1g2637 Chr1 51208279 51208842 -
Rops Rops11g03796 Chr11 71604168 71607429 +
Seca Seca6g01843 Chr6 75147358 75150492 +
Spst Spst1g01953 Chr1 27732432 27732995 +
Ssu Ssu9g1742 Chr9 54700979 54701596 -
Trre Trre5g03241 Chr5 28541696 28542271 +
Vian Vian2g03125 Chr2 51835824 51837290 -
Vifa Vifa2g02528 Chr2 667629692 667630285 +
Vimu Vimu6g01583 Chr6 14686515 14691951 +
Viun Viun1g03380 Chr1 41092596 41093609 -
Vivi Vivi3g03246 Chr3 55114517 55115395 -
Vra Vra2g1457 Chr2 22604918 22606159 +
Vvi Vvi1g0716 Chr1 7200485 7203043 +
Vvi Vvi1g0717 Chr1 7217134 7229510 +
Acco Acco04g1907 Chr04 32342882 32348526 +
Accr Accr8g00798 Chr8 14194039 14200692 -
Adu Adu03g04122 Chr03 130352299 130356049 +
Aed Aed5g1947 Chr5 22444828 22450276 +
Aev Aev03g2765 Chr03 27468007 27472189 +
Ahy Ahy13g4072 Chr13 140184352 140188111 +
Aip Aip03g04519 Chr03 129469270 129472508 +
Alju Alju06g1892 Chr06 42715309 42720905 +
Amo Amo13g5140 Chr13 151146259 151149827 +
Arst Arst3g05442 Chr3 129116335 129120122 +
Bach Bach2g00180 Chr2 2220921 2226018 -
Bisa Bisa08g2653 Chr08 61579508 61585330 -
Car Car06g00841 Chr06 8266277 8271298 -
Cca Cca09g02086 Chr09 45895590 45902137 +
Dere Dere03g0158 Chr03 5018269 5024265 +
Dod Dod04g0512 Chr04 7324639 7337846 -
Enph Enph6g0164 Chr6 4956534 4963505 +
Glsi Glsi02g0155 Chr02 987927 997530 +
Gma Gma08g01214 Chr08 10310097 10315086 +
Lapu Lapu3g03275 Chr3 55997752 56005898 +
Lasa Lasa7g04286 Chr7 651129500 651133947 +
Lele Lele21g1354 Chr21 21999321 22005540 +
Lele Lele22g1348 Chr22 19281581 19286784 +
Lele Lele23g0668 Chr23 5156421 5162154 -
Lele Lele24g1307 Chr24 19079886 19085120 +
Lja Lja4g0770 Chr4 6412596 6418543 -
Mesa Mesa13g00913 Chr13 10855153 10861414 +
Mibi Mibi09g0788 Chr09 10605870 10611517 -
Mtr Mtr8g3092 Chr8 41494052 41501616 -
Phco Phco4g02900 Chr4 50169673 50175800 +
Prci Prci4g2168 Chr4 34161612 34168825 +
Pste Pste3g01951 Chr3 13287750 13293840 -
Pumo Pumo6g00865 Chr6 10828754 10829706 -
Pvu Pvu2g2669 Chr2 42529380 42535962 +
Rops Rops2g00975 Chr2 13680571 13687836 -
Seca Seca12g06090 Chr12 152774953 152781922 +
Spst Spst3g01501 Chr3 18464054 18469993 -
Ssu Ssu5g2660 Chr5 71547005 71554940 +
Tpr Tpr3g1010 Chr3 9236564 9243059 -
Trre Trre7g04913 Chr7 56237282 56241942 +
Tsu Tsu02g00876 Chr02 7375741 7382134 -
Vian Vian1g03494 Chr1 57495580 57501427 +
Vifa Vifa6g02976 Chr6 983963468 983969468 +
Vimu Vimu11g03965 Chr11 61517467 61521744 +
Viun Viun3g01067 Chr3 6681829 6688399 -
Vivi Vivi5g05171 Chr5 152874350 152879937 -
Vra Vra7g2063 Chr7 40139469 40145319 +
Vvi Vvi1g0718 Chr1 7230488 7232678 +
Vvi Vvi1g0719 Chr1 7234050 7236026 +
Adu Adu03g04123 Chr03 130365931 130367635 +
Aed Aed5g1948 Chr5 22451116 22453334 +
Aev Aev03g2767 Chr03 27475466 27477183 +
Ahy Ahy13g4073 Chr13 140191198 140193699 +
Aip Aip03g04520 Chr03 129476817 129478568 +
Amo Amo13g5141 Chr13 151153036 151155409 +
Arst Arst3g05445 Chr3 129129907 129131774 +
Bisa Bisa08g2651 Chr08 61569441 61578329 -
Cca Cca09g02087 Chr09 45903519 45905786 +
Dod Dod04g2353 Chr04 47339674 47342760 +
Gma Gma08g01215 Chr08 10316875 10319147 +
Lapu Lapu3g03278 Chr3 56006938 56009327 +
Lasa Lasa7g04287 Chr7 651149311 651151698 +
Mal Mal7g4518 Chr7 113110172 113112926 +
Mepo Mepo2g04206 Chr2 50821258 50822222 +
Mtr Mtr8g3097 Chr8 41543543 41547314 +
Phco Phco4g02901 Chr4 50178859 50181259 +
Pste Pste3g01950 Chr3 13284296 13285734 -
Pumo Pumo6g00863 Chr6 10818250 10820455 -
Pvu Pvu2g2670 Chr2 42537855 42540229 +
Rops Rops2g00973 Chr2 13669628 13679921 -
Spst Spst3g01500 Chr3 18451909 18454308 -
Ssu Ssu5g2661 Chr5 71558781 71561235 +
Tpr Tpr3g1008 Chr3 9226487 9229719 -
Tsu Tsu02g00869 Chr02 7325915 7329666 -
Vian Vian1g03495 Chr1 57505137 57507514 +
Vifa Vifa6g02977 Chr6 983991587 983993214 +
Vimu Vimu11g03967 Chr11 61523844 61526190 +
Viun Viun3g01066 Chr3 6675152 6677979 -
Vvi Vvi1g0720 Chr1 7237369 7240204 +
Mal Mal7g4513 Chr7 113019768 113030720 +
Mtr Mtr8g3088 Chr8 41447523 41450655 -
Tpr Tpr3g1012 Chr3 9255782 9259448 -
Tsu Tsu02g00878 Chr02 7389552 7393129 -