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
Vvi3g0763 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00453 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0764 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0765 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0766 . . . . Adu09g02607 . . . Aev09g2476 . Ahy19g3323 . Aip09g03786 . . . . . Apr8g2428 . Arst9g03463 . Bach11g00325 . . . Bva13g00367 . . . . . . . Dod06g0479 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g02286 . Lasa6g04450 . . . . . . . . . Lja5g0429 . . . . . . . . . . . . . Phco6g02776 . . . . . Pste4g01168 . . . . . . . Pvu7g0440 . . . . . Spst10g01274 . . . . . . . . . . . . . . . Vimu3g03370 . . . Vivi1g03915 . . .
Vvi3g0767 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0768 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00454 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0516 . . . . . . . . . . . . . . . . . . .
Vvi3g0769 . . . . . . Aed1g2000 . . Aev05g1270 . Ahy15g1332 . Aip05g01401 . . . . Apr8g2426 . . . . . . . Bva13g00370 Bva14g00458 Car04g01429 . Cca02g02508 . . . . Dod02g1418 . . . . . . . . . . . . . . . Lal13g0382 . . . . . . . . Lapu7g02284 . Lasa6g04447 . . . . . . . . . Lja5g0431 . . Mal1g0556 Mepo4g04540 . Mesa1g04969 . . . . Mtr1g4041 . . Phco6g02770 . . . . . Pste4g01173 . . . . . Pumo3g00662 . Pvu7g0442 . Rops6g03085 . Seca8g07711 . Spst10g01273 . Ssu7g0501 . . Sto10g0350 . Tpr1g0470 Trre1g05786 . . Tsu01g04714 Vian3g00403 . Vifa3g03319 . Vimu3g03368 . Viun7g03606 . Vivi1g03918 . Vra8g2410 .
Vvi3g0770 . . . . Adu09g02605 . Aed1g2001 . . . Ahy19g3325 . Aip09g03788 . . . Amo19g4271 . Apr8g2425 Apr7g0011 Arst9g03459 . Bach11g00327 . . . Bva13g00372 Bva14g00459 Car04g01428 Car08g00025 Cca02g02505 Cca06g02047 . . Dod06g0480 . . . . . . . . . . . . . . . . Lal13g0381 . . . . . . . . Lapu7g02281 . Lasa6g04445 . . . . . . . . . Lja5g0433 . . Mal1g0560 Mepo4g04539 Mepo5g00028 Mesa1g04968 . . . . Mtr1g4040 Phac7g00670 . Phco6g02768 Phco4g00028 . . Psa6g4930 . Pste4g01178 . . . . . Pumo3g00663 . Pvu7g0444 Pvu2g0541 Rops6g03084 . . . Spst10g01271 Spst2g00028 Ssu7g0504 Ssu2g3168 . . . Tpr1g0472 Trre1g05784 Trre9g00025 . Tsu01g04712 Vian3g00405 . Vifa3g03318 . Vimu3g03366 . Viun7g03604 . Vivi1g03926 Vivi2g04279 Vra8g2408 .
Vvi3g0771 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0772 . . . . Adu09g02604 . Aed1g2002 . Aev09g2474 . Ahy19g3326 . Aip09g03789 . . . Amo19g4270 . Apr8g2424 . Arst9g03458 . Bach11g00328 . . . Bva13g00373 Bva14g00460 Car04g01427 . Cca02g02504 . . . Dod06g0481 . . . . . . . . . . . . . . . . . Lal12g0390 Lal24g0299 . . . . . . Lapu7g02280 . Lasa6g04444 . . . . . . . . . Lja5g0435 . . Mal1g0562 Mepo4g04538 . Mesa1g04967 . . . . Mtr1g4039 Phac7g00671 . Phco6g02767 . . . Psa6g4929 . Pste4g01181 . . . . . Pumo3g00664 . Pvu7g0445 . Rops6g03083 . Seca8g07708 . Spst10g01269 . Ssu7g0505 . Sto2g0514 . . Tpr1g0474 Trre1g05783 . . Tsu01g04711 Vian3g00406 . Vifa3g03317 . Vimu3g03364 . Viun7g03603 . Vivi1g03927 . Vra8g2407 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0763 Chr3 6859945 6860370 -
Bva Bva14g00453 Chr14 2200997 2201867 -
Vvi Vvi3g0764 Chr3 6871918 6872341 -
Vvi Vvi3g0765 Chr3 6895172 6895595 -
Vvi Vvi3g0766 Chr3 6905947 6914289 +
Adu Adu09g02607 Chr09 113539127 113542078 -
Aev Aev09g2476 Chr09 26590456 26592621 -
Ahy Ahy19g3323 Chr19 156261370 156265151 +
Aip Aip09g03786 Chr09 144622244 144625564 +
Apr Apr8g2428 Chr8 34423022 34426713 -
Arst Arst9g03463 Chr9 111435448 111438609 -
Bach Bach11g00325 Chr11 2203810 2207315 +
Bva Bva13g00367 Chr13 1710737 1713998 +
Dod Dod06g0479 Chr06 5882533 5886027 +
Lapu Lapu7g02286 Chr7 39161327 39164247 -
Lasa Lasa6g04450 Chr6 643081711 643083482 -
Lja Lja5g0429 Chr5 3763225 3765952 +
Phco Phco6g02776 Chr6 49100120 49100476 -
Pste Pste4g01168 Chr4 8704708 8706232 +
Pvu Pvu7g0440 Chr7 3451954 3454979 +
Spst Spst10g01274 Chr10 13442470 13444881 -
Vimu Vimu3g03370 Chr3 47008434 47011129 -
Vivi Vivi1g03915 Chr1 82670790 82672984 +
Vvi Vvi3g0767 Chr3 6917951 6921320 -
Vvi Vvi3g0768 Chr3 6976055 6984113 +
Bva Bva14g00454 Chr14 2202603 2206040 +
Sto Sto2g0516 Chr2 4423794 4439419 -
Vvi Vvi3g0769 Chr3 6988030 6990413 +
Aed Aed1g2000 Chr1 16907645 16910835 +
Aev Aev05g1270 Chr05 8918443 8921237 -
Ahy Ahy15g1332 Chr15 21974398 21977583 -
Aip Aip05g01401 Chr05 21148190 21151255 -
Apr Apr8g2426 Chr8 34412287 34415408 -
Bva Bva13g00370 Chr13 1722076 1722606 +
Bva Bva14g00458 Chr14 2210370 2213828 +
Car Car04g01429 Chr04 14558065 14561349 -
Cca Cca02g02508 Chr02 46270746 46274468 -
Dod Dod02g1418 Chr02 16993131 16995632 -
Lal Lal13g0382 Chr13 2400964 2405171 -
Lapu Lapu7g02284 Chr7 39149891 39152381 -
Lasa Lasa6g04447 Chr6 643042648 643046055 -
Lja Lja5g0431 Chr5 3773089 3776400 +
Mal Mal1g0556 Chr1 6366872 6369805 +
Mepo Mepo4g04540 Chr4 55115262 55118170 -
Mesa Mesa1g04969 Chr1 76583607 76586372 -
Mtr Mtr1g4041 Chr1 52009697 52013289 -
Phco Phco6g02770 Chr6 49061384 49065090 -
Pste Pste4g01173 Chr4 8721527 8725141 +
Pumo Pumo3g00662 Chr3 9925036 9934727 +
Pvu Pvu7g0442 Chr7 3462705 3466722 +
Rops Rops6g03085 Chr6 53993698 53997350 -
Seca Seca8g07711 Chr8 174390400 174394272 -
Spst Spst10g01273 Chr10 13431352 13434515 -
Ssu Ssu7g0501 Chr7 9325714 9329527 +
Sto Sto10g0350 Chr10 2780831 2784174 +
Tpr Tpr1g0470 Chr1 3972046 3976831 +
Trre Trre1g05786 Chr1 62701758 62704582 -
Tsu Tsu01g04714 Chr01 54427127 54430465 -
Vian Vian3g00403 Chr3 3816111 3819679 +
Vifa Vifa3g03319 Chr3 952740143 952743363 -
Vimu Vimu3g03368 Chr3 46993905 46997282 -
Viun Viun7g03606 Chr7 37234613 37238566 -
Vivi Vivi1g03918 Chr1 82717051 82720460 +
Vra Vra8g2410 Chr8 42240598 42244437 -
Vvi Vvi3g0770 Chr3 6995198 6998300 +
Adu Adu09g02605 Chr09 113524543 113526859 -
Aed Aed1g2001 Chr1 16912296 16915203 +
Ahy Ahy19g3325 Chr19 156286193 156288408 +
Aip Aip09g03788 Chr09 144646557 144648912 +
Amo Amo19g4271 Chr19 159399105 159401745 -
Apr Apr8g2425 Chr8 34408534 34410861 -
Apr Apr7g0011 Chr7 805292 807294 -
Arst Arst9g03459 Chr9 111421057 111423215 -
Bach Bach11g00327 Chr11 2220463 2222393 +
Bva Bva13g00372 Chr13 1726654 1728685 +
Bva Bva14g00459 Chr14 2216336 2218768 +
Car Car04g01428 Chr04 14551649 14555334 -
Car Car08g00025 Chr08 253405 255638 +
Cca Cca02g02505 Chr02 46259644 46261890 -
Cca Cca06g02047 Chr06 35690220 35691856 -
Dod Dod06g0480 Chr06 5897658 5904119 +
Lal Lal13g0381 Chr13 2397396 2400871 -
Lapu Lapu7g02281 Chr7 39139727 39142580 -
Lasa Lasa6g04445 Chr6 643017425 643018694 -
Lja Lja5g0433 Chr5 3780429 3782582 +
Mal Mal1g0560 Chr1 6394081 6395976 +
Mepo Mepo4g04539 Chr4 55111929 55114325 -
Mepo Mepo5g00028 Chr5 325164 327642 +
Mesa Mesa1g04968 Chr1 76575140 76577038 -
Mtr Mtr1g4040 Chr1 52004485 52007039 -
Phac Phac7g00670 Chr7 3711435 3714508 +
Phco Phco6g02768 Chr6 49053139 49056025 -
Phco Phco4g00028 Chr4 208043 210566 +
Psa Psa6g4930 Chr6 430049701 430051583 -
Pste Pste4g01178 Chr4 8737372 8740095 +
Pumo Pumo3g00663 Chr3 9938923 9942112 +
Pvu Pvu7g0444 Chr7 3471747 3474565 +
Pvu Pvu2g0541 Chr2 4808059 4809863 -
Rops Rops6g03084 Chr6 53969082 53971545 -
Spst Spst10g01271 Chr10 13418613 13420833 -
Spst Spst2g00028 Chr2 320010 321623 +
Ssu Ssu7g0504 Chr7 9387889 9389001 +
Ssu Ssu2g3168 Chr2 93942655 93944901 -
Tpr Tpr1g0472 Chr1 3983808 3986279 +
Trre Trre1g05784 Chr1 62690435 62692732 -
Trre Trre9g00025 Chr9 373575 374956 +
Tsu Tsu01g04712 Chr01 54415401 54418148 -
Vian Vian3g00405 Chr3 3825180 3827444 +
Vifa Vifa3g03318 Chr3 952200361 952201938 -
Vimu Vimu3g03366 Chr3 46987425 46988714 -
Viun Viun7g03604 Chr7 37227189 37229780 -
Vivi Vivi1g03926 Chr1 82821491 82823292 +
Vivi Vivi2g04279 Chr2 156519253 156520947 -
Vra Vra8g2408 Chr8 42232996 42235671 -
Vvi Vvi3g0771 Chr3 6998808 6999512 -
Vvi Vvi3g0772 Chr3 7035492 7038641 +
Adu Adu09g02604 Chr09 113520620 113523142 -
Aed Aed1g2002 Chr1 16915912 16919375 +
Aev Aev09g2474 Chr09 26575815 26578846 -
Ahy Ahy19g3326 Chr19 156290070 156292676 +
Aip Aip09g03789 Chr09 144650007 144652549 +
Amo Amo19g4270 Chr19 159394934 159397618 -
Apr Apr8g2424 Chr8 34401826 34405954 -
Arst Arst9g03458 Chr9 111416963 111419552 -
Bach Bach11g00328 Chr11 2224059 2226270 +
Bva Bva13g00373 Chr13 1729864 1732455 +
Bva Bva14g00460 Chr14 2219399 2222866 +
Car Car04g01427 Chr04 14544293 14549115 -
Cca Cca02g02504 Chr02 46252761 46257361 -
Dod Dod06g0481 Chr06 5911182 5915595 +
Lal Lal12g0390 Chr12 2761691 2770392 -
Lal Lal24g0299 Chr24 2143752 2147454 -
Lapu Lapu7g02280 Chr7 39134288 39138118 -
Lasa Lasa6g04444 Chr6 642842090 642846529 -
Lja Lja5g0435 Chr5 3798904 3802362 +
Mal Mal1g0562 Chr1 6415160 6419799 +
Mepo Mepo4g04538 Chr4 55101181 55105972 -
Mesa Mesa1g04967 Chr1 76566236 76567075 -
Mtr Mtr1g4039 Chr1 51994819 51999648 -
Phac Phac7g00671 Chr7 3717177 3720831 +
Phco Phco6g02767 Chr6 49046916 49050051 -
Psa Psa6g4929 Chr6 430021030 430027260 -
Pste Pste4g01181 Chr4 8741151 8745575 +
Pumo Pumo3g00664 Chr3 9944049 9947669 +
Pvu Pvu7g0445 Chr7 3476421 3480138 +
Rops Rops6g03083 Chr6 53961366 53965757 -
Seca Seca8g07708 Chr8 174372442 174378266 -
Spst Spst10g01269 Chr10 13410718 13413726 -
Ssu Ssu7g0505 Chr7 9394985 9399277 +
Sto Sto2g0514 Chr2 4416663 4418010 -
Tpr Tpr1g0474 Chr1 3996747 4000054 +
Trre Trre1g05783 Chr1 62684689 62687937 -
Tsu Tsu01g04711 Chr01 54409657 54413734 -
Vian Vian3g00406 Chr3 3829879 3833195 +
Vifa Vifa3g03317 Chr3 951542876 951546927 -
Vimu Vimu3g03364 Chr3 46983174 46983551 -
Viun Viun7g03603 Chr7 37221236 37224968 -
Vivi Vivi1g03927 Chr1 82827368 82830923 +
Vra Vra8g2407 Chr8 42227271 42231175 -
Aev Aev09g2474 Chr09 26575815 26578846 -
Ahy Ahy19g3326 Chr19 156290070 156292676 +
Aip Aip09g03789 Chr09 144650007 144652549 +
Amo Amo19g4270 Chr19 159394934 159397618 -
Dod Dod06g0481 Chr06 5911182 5915595 +
Psa Psa6g4929 Chr6 430021030 430027260 -