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
Vvi1g1471 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1472 . . . . Adu03g04545 . . . . Aev03g2511 . Ahy13g4485 . Aip03g04973 . . . Amo13g5521 . . Arst3g06004 . . . . . Bva06g01728 Bva05g00058 . . . . . . . . . . . . . . Gma08g00975 . . . . . . . . . . . . . . . . . . . Lasa7g03958 . . . . . . . . . . Lja4g1040 . Mal7g4206 Mepo2g03875 . . . . . . Mtr8g2810 . . Phco4g02012 . . . . . Pste3g02771 . . . . . Pumo6g01215 . Pvu2g1781 . Rops2g01343 . Seca12g05721 . Spst3g01849 . . . . . . Tpr3g1301 Trre7g04537 . . Tsu02g01194 Vian1g02660 . . . . . Viun3g02242 . Vivi5g05561 . . .
Vvi1g1473 . . . . . Adu08g02803 . . . . . . . . . . . . . . . Arst8g03859 . Bach2g02266 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01031 . Lasa5g03549 . . . . . . . . . . . . . Mepo3g06992 . Mesa9g04536 . . . . . Phac9g02756 . Phco7g01957 . . . . . Pste2g00288 . . . . . Pumo10g01871 . Pvu9g1713 . Rops10g00809 . . . Spst9g02132 . . Sto3g1925 Sto4g0126 . . . Trre5g04665 . . . Vian4g00961 . Vifa2g03433 . Vimu10g01431 . . . Vivi3g04025 . .
Vvi1g1474 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1475 . . . . Adu03g04547 . . . . Aev03g2035 . Ahy13g4487 . Aip03g04974 . . . Amo13g5519 . . Arst3g06005 . . . . . Bva06g01727 Bva05g00059 . . . . . . . Dod04g0633 . . . . . . Gma08g00976 . . . . . . . Lal18g0583 . . . . . . . . . Lapu3g02566 . Lasa7g03959 . . . . . . . . . . Lja4g1038 Mal2g1984 Mal7g4207 Mepo2g03876 . Mesa13g01266 . . . Mtr3g2789 Mtr8g2811 . . Phco4g02011 . . . Psa5g2277 Psa7g1784 Pste3g02777 . . . . . Pumo6g01214 . Pvu2g1780 . Rops2g01340 . Seca12g05722 . Spst3g01853 . . . Sto3g2843 . Tpr2g4653 . . . Tsu07g02684 . Vian1g02659 . Vifa6g01225 . Vimu11g01884 . Viun3g02241 . Vivi5g05559 . . .
Vvi1g1476 . . . . Adu03g04548 . . . . . . Ahy13g4488 . Aip03g04975 . . . Amo13g5518 . . Arst3g06007 . . . . . Bva06g01726 Bva05g00060 . . . . . . . Dod04g0634 . . . . . . Gma08g00977 Gma18g00051 . . . . . . . . . . . . . . . . Lapu3g02565 . Lasa7g03960 . . . . . . . . . . Lja4g1037 Mal2g1985 Mal7g4208 Mepo2g03877 . Mesa13g01265 . . . Mtr3g2788 Mtr8g2812 . . Phco4g02009 . . . . Psa7g1785 Pste3g02781 . . . . . Pumo6g01213 . Pvu2g1779 . Rops2g01339 . Seca12g05723 . Spst3g01854 . . . Sto3g2813 . Tpr2g4652 Tpr3g1300 Trre7g04538 . Tsu07g02683 Tsu02g01193 Vian1g02657 . Vifa2g02432 . Vimu11g01886 . Viun3g02240 . Vivi5g05558 . . .
Vvi1g1477 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva05g00061 . . . . . . . . . . . . . . . Gma18g00050 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g1986 . . . . . . . Mtr3g2787 . . . . . . . Psa5g2280 . . . . . . . . . . . . . . . . . . . Sto3g2811 . Tpr2g4651 . . . Tsu07g02682 . . . . . . . . . . . . .
Vvi1g1478 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1479 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1480 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1471 Chr1 21096278 21105659 -
Vvi Vvi1g1472 Chr1 21108654 21110562 -
Adu Adu03g04545 Chr03 134815426 134817048 -
Aev Aev03g2511 Chr03 26034429 26035862 -
Ahy Ahy13g4485 Chr13 145076303 145077845 -
Aip Aip03g04973 Chr03 134402181 134403862 -
Amo Amo13g5521 Chr13 156601017 156604986 +
Arst Arst3g06004 Chr3 133578843 133580336 -
Bva Bva06g01728 Chr06 12048720 12050080 +
Bva Bva05g00058 Chr05 299409 301341 -
Gma Gma08g00975 Chr08 8226236 8228626 -
Lasa Lasa7g03958 Chr7 628289582 628291094 -
Lja Lja4g1040 Chr4 8870604 8872267 +
Mal Mal7g4206 Chr7 109033160 109034790 -
Mepo Mepo2g03875 Chr2 47987062 47988966 -
Mtr Mtr8g2810 Chr8 38795824 38798485 -
Phco Phco4g02012 Chr4 39987317 39994079 +
Pste Pste3g02771 Chr3 20511817 20514665 -
Pumo Pumo6g01215 Chr6 16107421 16109910 +
Pvu Pvu2g1781 Chr2 32176985 32179003 +
Rops Rops2g01343 Chr2 19150980 19152334 +
Seca Seca12g05721 Chr12 148887875 148889944 -
Spst Spst3g01849 Chr3 33397252 33398833 -
Tpr Tpr3g1301 Chr3 11487448 11489383 +
Trre Trre7g04537 Chr7 53402281 53403831 -
Tsu Tsu02g01194 Chr02 9993800 10000251 +
Vian Vian1g02660 Chr1 39642582 39644382 +
Viun Viun3g02242 Chr3 19298771 19300862 +
Vivi Vivi5g05561 Chr5 158720754 158722574 +
Vvi Vvi1g1473 Chr1 21118398 21121745 -
Adu Adu08g02803 Chr08 44612054 44612809 +
Arst Arst8g03859 Chr8 49014009 49018287 +
Bach Bach2g02266 Chr2 29304976 29307471 -
Lapu Lapu9g01031 Chr9 17772617 17774938 +
Lasa Lasa5g03549 Chr5 574537981 574540476 +
Mepo Mepo3g06992 Chr3 83540550 83543196 +
Mesa Mesa9g04536 Chr9 79048757 79051252 +
Phac Phac9g02756 Chr9 26472022 26476092 +
Phco Phco7g01957 Chr7 32925788 32928112 +
Pste Pste2g00288 Chr2 2103211 2105652 -
Pumo Pumo10g01871 Chr10 24728683 24732821 +
Pvu Pvu9g1713 Chr9 24214286 24218497 +
Rops Rops10g00809 Chr10 18692667 18694865 -
Spst Spst9g02132 Chr9 45593817 45596132 -
Sto Sto3g1925 Chr3 15566550 15569226 +
Sto Sto4g0126 Chr4 1009991 1012294 -
Trre Trre5g04665 Chr5 48670145 48672742 -
Vian Vian4g00961 Chr4 14162835 14165809 -
Vifa Vifa2g03433 Chr2 990784775 990785077 +
Vimu Vimu10g01431 Chr10 15241304 15250521 -
Vivi Vivi3g04025 Chr3 69902441 69903718 +
Vvi Vvi1g1474 Chr1 21126851 21128487 -
Vvi Vvi1g1475 Chr1 21156048 21161323 +
Adu Adu03g04547 Chr03 134829172 134832770 +
Aev Aev03g2035 Chr03 23148124 23153273 +
Ahy Ahy13g4487 Chr13 145103505 145105631 +
Aip Aip03g04974 Chr03 134423206 134429921 +
Amo Amo13g5519 Chr13 156579120 156583753 -
Arst Arst3g06005 Chr3 133580143 133593369 +
Bva Bva06g01727 Chr06 12035646 12041969 -
Bva Bva05g00059 Chr05 304989 310907 +
Dod Dod04g0633 Chr04 9316406 9322132 +
Gma Gma08g00976 Chr08 8238642 8246458 +
Lal Lal18g0583 Chr18 4962928 4963338 +
Lapu Lapu3g02566 Chr3 47901921 47910307 -
Lasa Lasa7g03959 Chr7 628333884 628337829 +
Lja Lja4g1038 Chr4 8846559 8854720 -
Mal Mal2g1984 Chr2 24151967 24157022 +
Mal Mal7g4207 Chr7 109040482 109046046 +
Mepo Mepo2g03876 Chr2 47995020 48001131 +
Mesa Mesa13g01266 Chr13 14994991 15000321 -
Mtr Mtr3g2789 Chr3 41905444 41911897 -
Mtr Mtr8g2811 Chr8 38808085 38814378 +
Phco Phco4g02011 Chr4 39943699 39951379 -
Psa Psa5g2277 Chr5 177451679 177458015 +
Psa Psa7g1784 Chr7 128967524 128972676 +
Pste Pste3g02777 Chr3 20554939 20563164 +
Pumo Pumo6g01214 Chr6 16083044 16091514 -
Pvu Pvu2g1780 Chr2 32130970 32138797 -
Rops Rops2g01340 Chr2 19117256 19124280 -
Seca Seca12g05722 Chr12 148915047 148920742 +
Spst Spst3g01853 Chr3 33500881 33507119 +
Sto Sto3g2843 Chr3 33041403 33046731 -
Tpr Tpr2g4653 Chr2 51798475 51804765 -
Tsu Tsu07g02684 Chr07 31356300 31362419 -
Vian Vian1g02659 Chr1 39555450 39561883 -
Vifa Vifa6g01225 Chr6 393291274 393295180 -
Vimu Vimu11g01884 Chr11 27309164 27315611 +
Viun Viun3g02241 Chr3 19235365 19243322 -
Vivi Vivi5g05559 Chr5 158669136 158674155 -
Vvi Vvi1g1476 Chr1 21171294 21173361 +
Adu Adu03g04548 Chr03 134834813 134836886 +
Ahy Ahy13g4488 Chr13 145106631 145108778 +
Aip Aip03g04975 Chr03 134430803 134432894 +
Amo Amo13g5518 Chr13 156577122 156578739 -
Arst Arst3g06007 Chr3 133598087 133600006 +
Bva Bva06g01726 Chr06 12032688 12034861 -
Bva Bva05g00060 Chr05 311803 313947 +
Dod Dod04g0634 Chr04 9363321 9367135 +
Gma Gma08g00977 Chr08 8250726 8252404 +
Gma Gma18g00051 Chr18 423054 424392 -
Lapu Lapu3g02565 Chr3 47887619 47890125 -
Lasa Lasa7g03960 Chr7 628348002 628349154 +
Lja Lja4g1037 Chr4 8843203 8845600 -
Mal Mal2g1985 Chr2 24163903 24165738 +
Mal Mal7g4208 Chr7 109047880 109049824 +
Mepo Mepo2g03877 Chr2 48002476 48003302 +
Mesa Mesa13g01265 Chr13 14988860 14991190 -
Mtr Mtr3g2788 Chr3 41885385 41887514 -
Mtr Mtr8g2812 Chr8 38818433 38821159 +
Phco Phco4g02009 Chr4 39880677 39882411 -
Psa Psa7g1785 Chr7 128996570 128998206 +
Pste Pste3g02781 Chr3 20591286 20593960 +
Pumo Pumo6g01213 Chr6 16071618 16074659 -
Pvu Pvu2g1779 Chr2 32105143 32107373 -
Rops Rops2g01339 Chr2 19114061 19115898 -
Seca Seca12g05723 Chr12 148922505 148924758 +
Spst Spst3g01854 Chr3 33515789 33518170 +
Sto Sto3g2813 Chr3 32811883 32814570 -
Tpr Tpr2g4652 Chr2 51790562 51793091 -
Tpr Tpr3g1300 Chr3 11483037 11485107 -
Trre Trre7g04538 Chr7 53411524 53413072 +
Tsu Tsu07g02683 Chr07 31349482 31351939 -
Tsu Tsu02g01193 Chr02 9991070 9993257 -
Vian Vian1g02657 Chr1 39502039 39504294 -
Vifa Vifa2g02432 Chr2 629686513 629688617 -
Vimu Vimu11g01886 Chr11 27410433 27410801 +
Viun Viun3g02240 Chr3 19196593 19199086 -
Vivi Vivi5g05558 Chr5 158664758 158666324 -
Vvi Vvi1g1477 Chr1 21177926 21180031 -
Bva Bva05g00061 Chr05 314760 316099 -
Gma Gma18g00050 Chr18 420594 422117 +
Mal Mal2g1986 Chr2 24166917 24167591 -
Mtr Mtr3g2787 Chr3 41882623 41883692 +
Psa Psa5g2280 Chr5 177475354 177476466 -
Sto Sto3g2811 Chr3 32803941 32805978 +
Tpr Tpr2g4651 Chr2 51788765 51790063 +
Tsu Tsu07g02682 Chr07 31346525 31347788 +
Vvi Vvi1g1478 Chr1 21184287 21185707 +
Vvi Vvi1g1479 Chr1 21186696 21192801 -
Vvi Vvi1g1480 Chr1 21198398 21198795 +