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
Vvi17g0543 . . . . . . Aed10g1015 Aed6g1538 . . . . Aip01g02045 . . . . . Apr1g0885 Apr9g3035 . . . . . . Bva06g01265 Bva05g00440 Car07g00978 . Cca03g00541 Cca11g01917 . . Dod05g1702 . . . . . Gma06g01696 Gma04g01691 Gma05g00293 Gma17g00908 Gso6g1598 Gso6g1598 Gso6g1598 Gso6g1598 Lal19g1489 Lal7g1408 . . . . Lan1g1021 Lan1g1021 . . . . . . . . . . . . . . . . Lja1g5482 Lja4g2180 Mal5g4197 . . . . . . . Mtr4g3880 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2153 Ssu6g1297 Sto3g1503 Sto12g0868 Tpr5g2998 . . . Tsu04g03652 . . . . . . . . . . . . Vra7g1699
Vvi17g0544 . . . . . . . . . . . . . . . . . . . . . Arst4g00884 . . . . . . . . . . . . . . . . . . . Gma04g01690 . . . . . . . . . . . . . . . . . . . Lapu9g00656 . . . . . . . . . . . . . . . . . . . . . . . . . Phco7g02286 . . . . . . . . . . . . . Pvu9g1965 . . . . . Spst9g02314 . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0545 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0546 . . . . . . Aed10g1016 . . . . . . . . . . . Apr1g0886 . . . . . . . . Bva05g00441 . . Cca03g00542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5483 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2152 . . . . . . . . . . . . . . . . . . . . .
Vvi17g0547 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0548 Acco04g2678 . . . . . . Aed6g1539 Aev01g2087 . Ahy11g1847 . Aip01g02046 . Alju06g2650 . Amo11g2162 . . Apr9g3034 Arst1g04289 . . . . . Bva06g01264 . Car07g00977 . . Cca11g01918 Dere03g0882 . . . Enph6g0670 . Glsi02g0795 . . . . Gma17g00909 . . . . . . . . . . . . . . . . . . Lasa4g03231 . Lele21g1853 Lele22g1828 Lele23g0157 Lele24g1783 . . . . . Lja4g2179 Mal5g4198 . Mepo1g01303 . . . . . Mtr4g3881 . . . Phco8g01306 . Prci4g2973 . . . Pste6g02479 . . . . . Pumo4g01324 . Pvu3g1994 . Rops2g03924 . Seca12g01433 . Spst3g04658 . . Ssu6g1296 Sto3g1505 . Tpr5g2999 . Trre15g04140 . Tsu04g03653 . Vian1g00743 . . . Vimu7g00756 . Viun3g04533 . Vivi1g02024 . . Vra7g1700
Vvi17g0549 Acco04g2679 . Accr8g00076 . Adu01g03321 . . Aed6g1540 Aev01g2089 . Ahy11g1850 . Aip01g02047 . Alju06g2651 . . . . Apr9g3033 . Arst3g05103 Bach10g01005 Bach2g02052 Bisa08g1879 . Bva06g01263 Bva05g00442 Car07g00976 . . Cca11g01920 Dere03g0883 Dere14g0486 Dod05g1704 . Enph6g0671 Enph5g0554 Glsi02g0797 . Gma06g01697 Gma04g01689 Gma05g00292 Gma17g00910 Gso6g1600 Gso6g1600 Gso6g1600 Gso6g1600 . Lal7g1407 . . . Lal21g0810 . . . . . . Lapu3g01056 . Lasa4g03232 . Lele21g1854 Lele22g1829 Lele23g0156 Lele24g1784 . . . . . Lja4g2178 Mal5g4199 . Mepo1g01302 . . . Mibi09g0176 . Mtr4g3882 . . . Phco8g01309 Phco7g02284 Prci4g2974 . . . Pste6g02483 . Pte3g00287 Pte2g02332 . . Pumo4g01323 . Pvu3g1993 Pvu9g1964 Rops2g03923 . Seca12g01432 . Spst3g04659 Spst9g02316 . Ssu6g1295 Sto3g1506 Sto12g0870 Tpr5g3000 . Trre15g04153 . Tsu04g03654 . Vian1g00744 . Vifa4g03311 . Vimu7g03865 . Viun3g04534 . Vivi1g02023 . . Vra7g1701
Vvi17g0550 . . . . . . . Aed6g1541 Aev01g2090 . Ahy11g1855 . Aip01g02053 . . . . . . Apr9g3032 . . . . . . Bva06g01262 Bva05g00444 Car07g00975 . . Cca11g01921 . . Dod05g1705 . . . . . . . Gma05g00291 Gma17g00911 . . . . . Lal7g1406 . . . . . . . . . . . . . . . . . . . . . . . Lja4g2177 Mal5g4201 . . . . . . . Mtr4g3883 . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1294 . Sto12g0872 Tpr5g3001 . . . Tsu04g03656 . . . . . . . . . . . . Vra7g1702
Vvi17g0551 . . . . . . Aed10g1018 . . . . . . . . . . . Apr1g0887 . . . . Bach2g02049 . . Bva06g01260 Bva05g00445 . . Cca03g00543 . . . . . . . . . Gma06g01698 Gma04g01688 . . Gso6g1601 Gso6g1601 . . . . . Lal17g0998 . . . . . . . . . Lapu9g00658 . . . . . . . . . . Lja1g5486 . . . . . . . . . . . . . . Phco7g02283 . . . . . . . . . . . . . Pvu9g1963 . . . . . Spst9g02318 Ssu1g2150 . Sto3g1507 . . . . . . . . . . . . . . . . . . .
Vvi17g0552 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0543 Chr17 6076149 6081310 +
Aed Aed10g1015 Chr10 8918270 8921153 +
Aed Aed6g1538 Chr6 19566370 19570214 +
Aip Aip01g02045 Chr01 110104785 110106271 +
Apr Apr1g0885 Chr1 11913291 11918542 +
Apr Apr9g3035 Chr9 37145786 37149945 -
Bva Bva06g01265 Chr06 9663562 9667939 -
Bva Bva05g00440 Chr05 2181265 2184989 +
Car Car07g00978 Chr07 8600928 8606109 -
Cca Cca03g00541 Chr03 9134039 9139141 +
Cca Cca11g01917 Chr11 44508917 44513608 +
Dod Dod05g1702 Chr05 42402440 42406677 +
Gma Gma06g01696 Chr06 17073200 17077551 +
Gma Gma04g01691 Chr04 45939669 45944145 -
Gma Gma05g00293 Chr05 2638434 2646149 -
Gma Gma17g00908 Chr17 7757779 7762350 +
Gso Gso6g1598 Chr6 16717441 16722285 +
Gso Gso6g1598 Chr6 16717441 16722285 +
Gso Gso6g1598 Chr6 16717441 16722285 +
Gso Gso6g1598 Chr6 16717441 16722285 +
Lal Lal19g1489 Chr19 17322425 17326125 -
Lal Lal7g1408 Chr7 19042215 19050850 -
Lan Lan1g1021 Chr1 20568464 20572994 +
Lan Lan1g1021 Chr1 20568464 20572994 +
Lja Lja1g5482 Chr1 93798696 93803929 +
Lja Lja4g2180 Chr4 23461548 23466618 -
Mal Mal5g4197 Chr5 112552983 112556704 +
Mtr Mtr4g3880 Chr4 52567417 52571503 +
Ssu Ssu1g2153 Chr1 61328274 61332845 -
Ssu Ssu6g1297 Chr6 21040148 21044348 -
Sto Sto3g1503 Chr3 11093258 11102857 +
Sto Sto12g0868 Chr12 5447345 5450638 +
Tpr Tpr5g2998 Chr5 52971645 52976376 +
Tsu Tsu04g03652 Chr04 45603730 45608023 +
Vra Vra7g1699 Chr7 35593305 35597442 +
Vvi Vvi17g0544 Chr17 6081906 6089504 +
Arst Arst4g00884 Chr4 7137699 7140684 -
Gma Gma04g01690 Chr04 45926916 45930421 -
Lapu Lapu9g00656 Chr9 7815388 7816387 +
Phco Phco7g02286 Chr7 40230011 40231016 -
Pvu Pvu9g1965 Chr9 28196415 28197712 -
Spst Spst9g02314 Chr9 54357901 54362400 +
Vvi Vvi17g0545 Chr17 6117344 6117909 +
Vvi Vvi17g0546 Chr17 6124187 6124975 +
Aed Aed10g1016 Chr10 8937662 8938863 +
Apr Apr1g0886 Chr1 11920296 11921846 +
Bva Bva05g00441 Chr05 2185407 2186537 +
Cca Cca03g00542 Chr03 9154644 9163609 +
Lja Lja1g5483 Chr1 93804741 93805744 +
Ssu Ssu1g2152 Chr1 61290013 61294301 -
Vvi Vvi17g0547 Chr17 6126437 6126616 +
Vvi Vvi17g0548 Chr17 6128303 6130431 +
Acco Acco04g2678 Chr04 43577158 43579817 +
Aed Aed6g1539 Chr6 19570839 19572741 +
Aev Aev01g2087 Chr01 25416039 25419841 +
Ahy Ahy11g1847 Chr11 120395881 120400205 +
Aip Aip01g02046 Chr01 110106894 110111209 +
Alju Alju06g2650 Chr06 53482466 53485108 +
Amo Amo11g2162 Chr11 118938607 118942472 +
Apr Apr9g3034 Chr9 37142314 37144187 -
Arst Arst1g04289 Chr1 105430910 105432366 -
Bva Bva06g01264 Chr06 9661245 9662969 -
Car Car07g00977 Chr07 8598219 8600496 -
Cca Cca11g01918 Chr11 44514834 44517131 +
Dere Dere03g0882 Chr03 13528060 13532270 +
Enph Enph6g0670 Chr6 9857987 9860242 +
Glsi Glsi02g0795 Chr02 5154287 5155920 +
Gma Gma17g00909 Chr17 7763213 7766981 +
Lasa Lasa4g03231 Chr4 576671662 576673110 +
Lele Lele21g1853 Chr21 26003738 26007496 +
Lele Lele22g1828 Chr22 23318906 23321558 +
Lele Lele23g0157 Chr23 999679 1003302 -
Lele Lele24g1783 Chr24 22966637 22968759 +
Lja Lja4g2179 Chr4 23452868 23455324 -
Mal Mal5g4198 Chr5 112558181 112559936 +
Mepo Mepo1g01303 Chr1 12840754 12843280 -
Mtr Mtr4g3881 Chr4 52571915 52574515 +
Phco Phco8g01306 Chr8 13632742 13634205 +
Prci Prci4g2973 Chr4 41470966 41473871 +
Pste Pste6g02479 Chr6 12227857 12231209 +
Pumo Pumo4g01324 Chr4 16840661 16843160 -
Pvu Pvu3g1994 Chr3 40541308 40543509 -
Rops Rops2g03924 Chr2 71827984 71830380 -
Seca Seca12g01433 Chr12 14397550 14400497 -
Spst Spst3g04658 Chr3 98423852 98425339 +
Ssu Ssu6g1296 Chr6 21036791 21038392 -
Sto Sto3g1505 Chr3 11108896 11110644 +
Tpr Tpr5g2999 Chr5 52976674 52980265 +
Trre Trre15g04140 Chr15 51948646 51950390 +
Tsu Tsu04g03653 Chr04 45610060 45612810 +
Vian Vian1g00743 Chr1 7716444 7717852 +
Vimu Vimu7g00756 Chr7 7544605 7546013 +
Viun Viun3g04533 Chr3 53055152 53057375 +
Vivi Vivi1g02024 Chr1 42583545 42587070 -
Vra Vra7g1700 Chr7 35598133 35600121 +
Vvi Vvi17g0549 Chr17 6134415 6136100 -
Acco Acco04g2679 Chr04 43598593 43600193 -
Accr Accr8g00076 Chr8 1151110 1152680 +
Adu Adu01g03321 Chr01 106148463 106150027 +
Aed Aed6g1540 Chr6 19577485 19579267 -
Aev Aev01g2089 Chr01 25432556 25434302 -
Ahy Ahy11g1850 Chr11 120579977 120581790 -
Aip Aip01g02047 Chr01 110273847 110276054 -
Alju Alju06g2651 Chr06 53500587 53502182 -
Apr Apr9g3033 Chr9 37132657 37135165 +
Arst Arst3g05103 Chr3 126328961 126330605 -
Bach Bach10g01005 Chr10 7252013 7253475 -
Bach Bach2g02052 Chr2 27919102 27920645 +
Bisa Bisa08g1879 Chr08 45216869 45218496 +
Bva Bva06g01263 Chr06 9655852 9658041 +
Bva Bva05g00442 Chr05 2192563 2194400 -
Car Car07g00976 Chr07 8590644 8592530 +
Cca Cca11g01920 Chr11 44527960 44529960 -
Dere Dere03g0883 Chr03 13538032 13539676 -
Dere Dere14g0486 Chr14 5002331 5005696 +
Dod Dod05g1704 Chr05 42416859 42419937 -
Enph Enph6g0671 Chr6 9866979 9869874 -
Enph Enph5g0554 Chr5 4484164 4486601 -
Glsi Glsi02g0797 Chr02 5161588 5163107 -
Gma Gma06g01697 Chr06 17092308 17094654 -
Gma Gma04g01689 Chr04 45901385 45903324 +
Gma Gma05g00292 Chr05 2627247 2629959 +
Gma Gma17g00910 Chr17 7771695 7774321 -
Gso Gso6g1600 Chr6 16736608 16739166 -
Gso Gso6g1600 Chr6 16736608 16739166 -
Gso Gso6g1600 Chr6 16736608 16739166 -
Gso Gso6g1600 Chr6 16736608 16739166 -
Lal Lal7g1407 Chr7 19036808 19038862 +
Lal Lal21g0810 Chr21 7176989 7181314 +
Lapu Lapu3g01056 Chr3 11308416 11310914 +
Lasa Lasa4g03232 Chr4 576705359 576706520 -
Lele Lele21g1854 Chr21 26014847 26016447 -
Lele Lele22g1829 Chr22 23327173 23328763 -
Lele Lele23g0156 Chr23 988049 989611 +
Lele Lele24g1784 Chr24 22974362 22975960 -
Lja Lja4g2178 Chr4 23441998 23443930 +
Mal Mal5g4199 Chr5 112621085 112622587 -
Mepo Mepo1g01302 Chr1 12827153 12829257 +
Mibi Mibi09g0176 Chr09 2292180 2293671 +
Mtr Mtr4g3882 Chr4 52580493 52583042 -
Phco Phco8g01309 Chr8 13642022 13643277 -
Phco Phco7g02284 Chr7 40205808 40207489 +
Prci Prci4g2974 Chr4 41483980 41486216 -
Pste Pste6g02483 Chr6 12241139 12242592 -
Pte Pte3g00287 Chr3 2408283 2410222 -
Pte Pte2g02332 Chr2 42953549 42955904 +
Pumo Pumo4g01323 Chr4 16828855 16830862 +
Pvu Pvu3g1993 Chr3 40530932 40532793 +
Pvu Pvu9g1964 Chr9 28186663 28188944 +
Rops Rops2g03923 Chr2 71814711 71816693 +
Seca Seca12g01432 Chr12 14376039 14381907 +
Spst Spst3g04659 Chr3 98429966 98431260 -
Spst Spst9g02316 Chr9 54385065 54386807 -
Ssu Ssu6g1295 Chr6 21021865 21023062 +
Sto Sto3g1506 Chr3 11122580 11123541 -
Sto Sto12g0870 Chr12 5458342 5459274 -
Tpr Tpr5g3000 Chr5 52983937 52986437 -
Trre Trre15g04153 Chr15 52161165 52162889 -
Tsu Tsu04g03654 Chr04 45618097 45619930 -
Vian Vian1g00744 Chr1 7725518 7726819 -
Vifa Vifa4g03311 Chr4 1038427725 1038428912 +
Vimu Vimu7g03865 Chr7 35552285 35555767 +
Viun Viun3g04534 Chr3 53072302 53074152 -
Vivi Vivi1g02023 Chr1 42552093 42554028 +
Vra Vra7g1701 Chr7 35605804 35607656 -
Vvi Vvi17g0550 Chr17 6144991 6147880 +
Aed Aed6g1541 Chr6 19587302 19590841 +
Aev Aev01g2090 Chr01 25449540 25453224 +
Ahy Ahy11g1855 Chr11 120921478 120927675 +
Aip Aip01g02053 Chr01 110601645 110606525 +
Apr Apr9g3032 Chr9 37121150 37124030 -
Bva Bva06g01262 Chr06 9648731 9651668 -
Bva Bva05g00444 Chr05 2202264 2203529 +
Car Car07g00975 Chr07 8579522 8583386 -
Cca Cca11g01921 Chr11 44557516 44562392 +
Dod Dod05g1705 Chr05 42439087 42442876 +
Gma Gma05g00291 Chr05 2611228 2615093 -
Gma Gma17g00911 Chr17 7786277 7789676 +
Lal Lal7g1406 Chr7 19028547 19032891 -
Lja Lja4g2177 Chr4 23427237 23432408 -
Mal Mal5g4201 Chr5 112658777 112663194 +
Mtr Mtr4g3883 Chr4 52597765 52601787 +
Ssu Ssu6g1294 Chr6 20995364 20998684 -
Sto Sto12g0872 Chr12 5465569 5469007 +
Tpr Tpr5g3001 Chr5 52999542 53003988 +
Tsu Tsu04g03656 Chr04 45630660 45634711 +
Vra Vra7g1702 Chr7 35622956 35626334 +
Vvi Vvi17g0551 Chr17 6148283 6149105 -
Aed Aed10g1018 Chr10 8942359 8943470 -
Apr Apr1g0887 Chr1 11932208 11933218 -
Bach Bach2g02049 Chr2 27907559 27908374 +
Bva Bva06g01260 Chr06 9645031 9646059 +
Bva Bva05g00445 Chr05 2204521 2205329 -
Cca Cca03g00543 Chr03 9181070 9183106 -
Gma Gma06g01698 Chr06 17097411 17098860 -
Gma Gma04g01688 Chr04 45897255 45899744 +
Gso Gso6g1601 Chr6 16741905 16743361 -
Gso Gso6g1601 Chr6 16741905 16743361 -
Lal Lal17g0998 Chr17 8093424 8095515 -
Lapu Lapu9g00658 Chr9 7832538 7833217 -
Lja Lja1g5486 Chr1 93929202 93930496 -
Phco Phco7g02283 Chr7 40197340 40198016 +
Pvu Pvu9g1963 Chr9 28180739 28181741 +
Spst Spst9g02318 Chr9 54392013 54392695 -
Ssu Ssu1g2150 Chr1 61215337 61216061 +
Sto Sto3g1507 Chr3 11133117 11133959 -
Vvi Vvi17g0552 Chr17 6151295 6153981 +