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
Vvi1g0411 . . . . . . . Aed1g1901 . Aev09g2568 . Ahy19g3232 . Aip09g03695 . . . Amo19g4564 . . Arst9g03608 . Bach10g01261 . Bisa11g0629 . Bva01g01659 Bva11g00715 Car04g01516 . . Cca02g02607 Dere09g2096 . . Dod06g0131 . . Glsi05g0345 . . . . . . . . . . . . . . . . . . . . . Lapu7g02374 . Lasa6g04569 . . . . . . . . . . Lja5g0324 Mal1g0421 . Mepo4g04670 . Mesa1g05101 . . . Mtr1g4153 . . . . . . . . . Pste4g00861 . . . . . Pumo3g00562 . Pvu7g0338 . Rops6g03228 . Seca8g07828 . Spst10g01386 . . Ssu7g0385 . Sto6g2710 Tpr1g0352 . Trre1g05932 . . . Vian3g00309 . Vifa3g03481 . Vimu3g03499 . Viun7g03756 . Vivi1g03680 . . Vra8g2507
Vvi1g0412 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0413 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0414 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0415 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0416 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0417 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g00065 . . . . . . . . . . . . . . . . . . . . . . Lal23g0879 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0419 Acco02g2310 . Accr2g01465 . . . . Aed1g1905 . Aev09g2562 . Ahy19g3234 . Aip09g03697 Alju01g2331 . . Amo19g4122 . . . . . . Bisa03g0154 . Bva01g01656 . Car04g01514 . . Cca02g02603 Dere01g1373 . . Dod06g0127 . . Glsi12g1517 . . . . . . . . . . . . . . . . . . . . . Lapu7g02371 . Lasa6g04564 . . Lele06g1674 Lele07g1873 Lele08g1672 . . . . . Lja5g0328 Mal1g0423 . . . . . Mibi02g2140 . Mtr1g4151 . . . Phco6g02886 . Prci1g1829 . Psa6g5113 . Pste4g00887 . . . . . Pumo3g00567 . Pvu7g0344 . . . . . Spst10g01379 . . Ssu7g0390 Sto11g0647 . Tpr1g0354 . . . Tsu01g04829 . Vian3g00311 . . . Vimu3g03494 . Viun7g03753 . Vivi1g03688 . . Vra8g2505
Vvi1g0420 . . . . Adu09g02691 . . Aed1g1907 . Aev09g2561 . Ahy19g3235 . Aip09g03698 . . . Amo19g4123 . . Arst9g03602 . Bach10g01266 . . . Bva01g01654 Bva11g00706 Car04g01513 . . Cca02g02601 . . . Dod06g0126 . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02369 . . . . . . . . . . . . Lja5g0329 Mal1g0424 . Mepo4g04666 . Mesa1g05097 . . . Mtr1g4150 . . . Phco6g02884 . . . . . Pste4g00892 . . . . . Pumo3g00568 . Pvu7g0345 . Rops6g03223 . Seca8g07821 . Spst10g01377 . . Ssu7g0395 Sto11g0646 . Tpr1g0355 . Trre1g05929 . Tsu01g04828 . Vian3g00313 . Vifa3g03469 . Vimu3g03493 . Viun7g03752 . Vivi1g03689 . . Vra8g2503
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0411 Chr1 3858749 3861770 +
Aed Aed1g1901 Chr1 16289566 16291723 +
Aev Aev09g2568 Chr09 27080282 27083398 -
Ahy Ahy19g3232 Chr19 155448796 155451807 +
Aip Aip09g03695 Chr09 143831748 143844072 +
Amo Amo19g4564 Chr19 163158517 163162739 -
Arst Arst9g03608 Chr9 112385175 112388262 -
Bach Bach10g01261 Chr10 9912863 9915134 +
Bisa Bisa11g0629 Chr11 17468089 17470290 -
Bva Bva01g01659 Chr01 17782339 17785539 -
Bva Bva11g00715 Chr11 10153157 10153492 -
Car Car04g01516 Chr04 15400083 15404384 -
Cca Cca02g02607 Chr02 47248707 47251094 -
Dere Dere09g2096 Chr09 29559569 29561284 +
Dod Dod06g0131 Chr06 1800530 1805797 -
Glsi Glsi05g0345 Chr05 51737516 51739614 -
Lapu Lapu7g02374 Chr7 39972716 39975823 -
Lasa Lasa6g04569 Chr6 652519597 652521446 -
Lja Lja5g0324 Chr5 2852078 2854388 +
Mal Mal1g0421 Chr1 4833807 4836777 +
Mepo Mepo4g04670 Chr4 56188640 56192685 -
Mesa Mesa1g05101 Chr1 77959242 77962146 -
Mtr Mtr1g4153 Chr1 53122488 53126408 -
Pste Pste4g00861 Chr4 6701514 6703576 +
Pumo Pumo3g00562 Chr3 8586562 8596960 +
Pvu Pvu7g0338 Chr7 2618882 2622003 +
Rops Rops6g03228 Chr6 56137640 56140489 -
Seca Seca8g07828 Chr8 175702087 175705044 -
Spst Spst10g01386 Chr10 14346782 14349067 -
Ssu Ssu7g0385 Chr7 6815276 6817563 +
Sto Sto6g2710 Chr6 34284339 34286517 -
Tpr Tpr1g0352 Chr1 3078888 3082424 +
Trre Trre1g05932 Chr1 63751818 63754156 -
Vian Vian3g00309 Chr3 2947957 2950883 +
Vifa Vifa3g03481 Chr3 1003093851 1003095581 -
Vimu Vimu3g03499 Chr3 47871024 47873404 -
Viun Viun7g03756 Chr7 38019471 38022809 -
Vivi Vivi1g03680 Chr1 78744496 78746994 +
Vra Vra8g2507 Chr8 43029081 43032452 -
Vvi Vvi1g0412 Chr1 3875426 3879342 -
Vvi Vvi1g0413 Chr1 3880964 3882374 -
Vvi Vvi1g0414 Chr1 3887436 3888440 -
Vvi Vvi1g0415 Chr1 3888478 3889047 -
Vvi Vvi1g0416 Chr1 3891284 3895375 -
Vvi Vvi1g0417 Chr1 3898832 3907393 -
Car Car06g00065 Chr06 833364 836555 +
Lal Lal23g0879 Chr23 11101451 11103390 -
Vvi Vvi1g0418 Chr1 3907810 3908058 -
Vvi Vvi1g0419 Chr1 3909357 3915641 -
Acco Acco02g2310 Chr02 20267113 20276232 -
Accr Accr2g01465 Chr2 45646899 45655733 +
Aed Aed1g1905 Chr1 16337371 16340692 -
Aev Aev09g2562 Chr09 27032329 27035753 +
Ahy Ahy19g3234 Chr19 155507103 155511239 -
Aip Aip09g03697 Chr09 143906162 143910099 -
Alju Alju01g2331 Chr01 20889690 20897004 -
Amo Amo19g4122 Chr19 157760963 157765123 -
Bisa Bisa03g0154 Chr03 1914257 1921151 +
Bva Bva01g01656 Chr01 17741700 17746151 +
Car Car04g01514 Chr04 15334538 15339352 +
Cca Cca02g02603 Chr02 47180812 47182759 +
Dere Dere01g1373 Chr01 26675877 26683788 +
Dod Dod06g0127 Chr06 1708581 1715537 +
Glsi Glsi12g1517 Chr12 32163928 32171053 +
Lapu Lapu7g02371 Chr7 39915658 39920905 +
Lasa Lasa6g04564 Chr6 651685221 651689176 -
Lele Lele06g1674 Chr06 11297813 11304739 -
Lele Lele07g1873 Chr07 12027995 12033692 -
Lele Lele08g1672 Chr08 11277102 11282653 -
Lja Lja5g0328 Chr5 2945164 2950759 -
Mal Mal1g0423 Chr1 4935138 4939756 -
Mibi Mibi02g2140 Chr02 23882361 23889548 -
Mtr Mtr1g4151 Chr1 53062714 53068074 +
Phco Phco6g02886 Chr6 49967438 49972829 +
Prci Prci1g1829 Chr1 38643598 38651413 +
Psa Psa6g5113 Chr6 441046299 441051201 +
Pste Pste4g00887 Chr4 6918837 6922774 -
Pumo Pumo3g00567 Chr3 8689450 8694090 -
Pvu Pvu7g0344 Chr7 2684538 2689304 -
Spst Spst10g01379 Chr10 14225647 14234304 +
Ssu Ssu7g0390 Chr7 6950023 6954214 -
Sto Sto11g0647 Chr11 7553501 7557508 +
Tpr Tpr1g0354 Chr1 3115491 3122200 -
Tsu Tsu01g04829 Chr01 55289135 55295478 +
Vian Vian3g00311 Chr3 2994193 3009076 -
Vimu Vimu3g03494 Chr3 47821888 47826197 +
Viun Viun7g03753 Chr7 37959635 37963937 +
Vivi Vivi1g03688 Chr1 79061920 79066173 -
Vra Vra8g2505 Chr8 42986828 42992557 +
Vvi Vvi1g0420 Chr1 3939423 3943590 +
Adu Adu09g02691 Chr09 114389885 114392606 +
Aed Aed1g1907 Chr1 16350946 16353523 +
Aev Aev09g2561 Chr09 27027240 27029727 -
Ahy Ahy19g3235 Chr19 155512977 155515817 -
Aip Aip09g03698 Chr09 143912397 143915366 -
Amo Amo19g4123 Chr19 157770437 157773521 -
Arst Arst9g03602 Chr9 112286317 112288935 +
Bach Bach10g01266 Chr10 9983679 9986951 +
Bva Bva01g01654 Chr01 17726706 17730048 -
Bva Bva11g00706 Chr11 10099834 10102897 -
Car Car04g01513 Chr04 15320926 15325098 -
Cca Cca02g02601 Chr02 47166206 47168864 -
Dod Dod06g0126 Chr06 1691269 1694780 -
Lapu Lapu7g02369 Chr7 39898173 39901474 -
Lja Lja5g0329 Chr5 2961891 2965030 +
Mal Mal1g0424 Chr1 4956160 4958736 +
Mepo Mepo4g04666 Chr4 56104554 56107674 -
Mesa Mesa1g05097 Chr1 77892434 77895369 -
Mtr Mtr1g4150 Chr1 53053649 53056973 -
Phco Phco6g02884 Chr6 49956478 49958900 -
Pste Pste4g00892 Chr4 6933940 6936871 +
Pumo Pumo3g00568 Chr3 8714916 8717669 +
Pvu Pvu7g0345 Chr7 2694746 2697611 +
Rops Rops6g03223 Chr6 56027321 56030347 -
Seca Seca8g07821 Chr8 175587038 175590323 -
Spst Spst10g01377 Chr10 14215969 14218284 -
Ssu Ssu7g0395 Chr7 7000720 7002737 +
Sto Sto11g0646 Chr11 7543411 7544061 -
Tpr Tpr1g0355 Chr1 3123895 3127127 +
Trre Trre1g05929 Chr1 63684634 63687418 -
Tsu Tsu01g04828 Chr01 55284137 55287049 -
Vian Vian3g00313 Chr3 3016315 3018884 +
Vifa Vifa3g03469 Chr3 994483090 994484936 -
Vimu Vimu3g03493 Chr3 47813469 47817463 -
Viun Viun7g03752 Chr7 37951363 37954285 -
Vivi Vivi1g03689 Chr1 79103231 79105621 +
Vra Vra8g2503 Chr8 42972833 42976510 -
Pste Pste4g00892 Chr4 6933940 6936871 +
Arst Arst9g03608 Chr9 112385175 112388262 -
Bach Bach10g01261 Chr10 9912863 9915134 +
Bisa Bisa11g0629 Chr11 17468089 17470290 -
Dere Dere09g2096 Chr09 29559569 29561284 +
Glsi Glsi05g0345 Chr05 51737516 51739614 -
Lapu Lapu7g02374 Chr7 39972716 39975823 -
Lasa Lasa6g04569 Chr6 652519597 652521446 -
Mepo Mepo4g04670 Chr4 56188640 56192685 -
Mesa Mesa1g05101 Chr1 77959242 77962146 -
Pste Pste4g00861 Chr4 6701514 6703576 +
Pumo Pumo3g00562 Chr3 8586562 8596960 +
Pvu Pvu7g0338 Chr7 2618882 2622003 +
Rops Rops6g03228 Chr6 56137640 56140489 -
Seca Seca8g07828 Chr8 175702087 175705044 -
Spst Spst10g01386 Chr10 14346782 14349067 -
Trre Trre1g05932 Chr1 63751818 63754156 -
Vian Vian3g00309 Chr3 2947957 2950883 +
Vifa Vifa3g03481 Chr3 1003093851 1003095581 -
Vimu Vimu3g03499 Chr3 47871024 47873404 -
Viun Viun7g03756 Chr7 38019471 38022809 -
Vivi Vivi1g03680 Chr1 78744496 78746994 +