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
Vvi4g0034 . . . . . . . . . . . . . . . . . . . Apr9g0026 . . . . . . Bva10g00156 Bva06g02576 . Car04g03024 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5268 . . . . . . . Mtr1g0028 . . . . . . . Psa6g0831 . . . . . . . . . . . . . . . . . . Sto5g0658 . . Tpr1g3200 . . . Tsu01g00877 . . . . . . . . . . . .
Vvi4g0035 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0036 . Acco05g2463 . Accr3g00540 . . . . . . . . . . . Alju07g2431 . . . Apr9g0025 . . . . . Bisa05g1244 Bva10g00155 . . Car04g03027 . . . Dere05g2207 . . . Enph7g1104 . Glsi10g0902 . . . . . . . . . . . . . . . . . . . . . . . Lasa5g04341 . . . . Lele25g0467 Lele26g0479 Lele27g1615 Lele28g0473 . . . Mal1g5269 . Mepo4g00863 . Mesa1g00902 . Mibi08g2140 . Mtr1g0030 . . . Phco2g00841 . Prci2g0752 . . . . . . . . . . . Pvu1g0769 . . . . . . . . Sto5g0657 . . Tpr1g3202 . Trre1g00923 . . . . . . . Vimu1g02014 . . . . . .
Vvi4g0037 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car04g03039 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0656 . . . . . . . . . . . . . . . . . . .
Vvi4g0038 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00153 Bva06g02577 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0039 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0040 . . . . . . Aed10g0067 . . . . . . . . . . . Apr5g1074 . Arst8g01153 . . . . . Bva10g00152 Bva06g02578 . . Cca03g01378 . . . . . . . . . . . Gma04g00790 Gma06g00786 . . . . . Lal4g0292 . . . . . . . . . . . . Lasa5g04342 . . . . . . . . . Lja1g3672 . Mal2g0640 . Mepo3g07660 . Mesa9g05354 . . . Mtr3g4121 . . . Phco7g00969 . . . . . . . Pte3g01006 . . . . . Pvu9g1155 . . . . . Spst9g00997 . Ssu1g3250 . . Sto9g3152 Tpr7g0377 . Trre5g05490 . Tsu07g00409 . . . . . Vimu10g02691 . . . Vivi3g00285 . Vra5g0999 .
Vvi4g0041 . . . . . . Aed10g0069 . . . . . . . . . . . Apr5g1073 . . . . . . . Bva10g00151 Bva06g02579 Car05g03131 . Cca03g01377 . . . . . . . . . . . Gma04g00792 Gma06g00787 . . . . . Lal4g0293 . . . . . . . . . . . . . . . . . . . . . . Lja1g3671 . Mal2g0639 . . . . . . . Mtr3g4122 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g3249 . Sto5g0655 . Tpr7g0376 . . . Tsu07g00408 . . . . . . . . . . . Vra5g0998 .
Vvi4g0042 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00150 Bva06g02580 . . . . . . . . . . . . . . . . . . . . . Lal4g0294 Lal17g0334 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3151 . . . . . . . . . . . . . . . . . .
Vvi4g0043 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva10g00149 . . . . . . . . . . . . . . . . . . . . . . . Lal17g0335 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3150 . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0034 Chr4 401363 407672 +
Apr Apr9g0026 Chr9 353652 364467 -
Bva Bva10g00156 Chr10 3068058 3073519 -
Bva Bva06g02576 Chr06 16274107 16279376 +
Car Car04g03024 Chr04 58124638 58131395 +
Mal Mal1g5268 Chr1 125857372 125865062 +
Mtr Mtr1g0028 Chr1 309271 315748 +
Psa Psa6g0831 Chr6 29304282 29315715 +
Sto Sto5g0658 Chr5 4437625 4440602 -
Tpr Tpr1g3200 Chr1 36441152 36449478 +
Tsu Tsu01g00877 Chr01 7965592 7969492 -
Vvi Vvi4g0035 Chr4 408368 409018 -
Vvi Vvi4g0036 Chr4 409964 413161 -
Acco Acco05g2463 Chr05 40348789 40351593 -
Accr Accr3g00540 Chr3 6197995 6200091 +
Alju Alju07g2431 Chr07 50014387 50016504 -
Apr Apr9g0025 Chr9 346585 349708 +
Bisa Bisa05g1244 Chr05 21811888 21814494 +
Bva Bva10g00155 Chr10 3063017 3065136 +
Car Car04g03027 Chr04 58147952 58151487 -
Dere Dere05g2207 Chr05 32197481 32200004 -
Enph Enph7g1104 Chr7 16662526 16666467 -
Glsi Glsi10g0902 Chr10 5842647 5845459 -
Lasa Lasa5g04341 Chr5 653238634 653239163 -
Lele Lele25g0467 Chr25 2941089 2943167 +
Lele Lele26g0479 Chr26 3064315 3066266 +
Lele Lele27g1615 Chr27 21777010 21779109 -
Lele Lele28g0473 Chr28 3032274 3034223 +
Mal Mal1g5269 Chr1 125868901 125871959 -
Mepo Mepo4g00863 Chr4 11310418 11313981 +
Mesa Mesa1g00902 Chr1 12113315 12115088 +
Mibi Mibi08g2140 Chr08 38887201 38891373 -
Mtr Mtr1g0030 Chr1 337498 341286 -
Phco Phco2g00841 Chr2 9827277 9829315 -
Prci Prci2g0752 Chr2 5663499 5666194 +
Pvu Pvu1g0769 Chr1 10271622 10274205 -
Sto Sto5g0657 Chr5 4432527 4435049 +
Tpr Tpr1g3202 Chr1 36452372 36455848 -
Trre Trre1g00923 Chr1 7015933 7018975 +
Vimu Vimu1g02014 Chr1 27576723 27578992 +
Vvi Vvi4g0037 Chr4 415712 417970 +
Car Car04g03039 Chr04 58301880 58304742 +
Sto Sto5g0656 Chr5 4430105 4432003 -
Vvi Vvi4g0038 Chr4 419081 421367 -
Bva Bva10g00153 Chr10 3057153 3058992 +
Bva Bva06g02577 Chr06 16282464 16283505 -
Vvi Vvi4g0039 Chr4 451271 455945 -
Vvi Vvi4g0040 Chr4 458634 465940 +
Aed Aed10g0067 Chr10 472347 480129 +
Apr Apr5g1074 Chr5 15410310 15416101 -
Arst Arst8g01153 Chr8 16009593 16014941 -
Bva Bva10g00152 Chr10 3046785 3054008 -
Bva Bva06g02578 Chr06 16285105 16291092 +
Cca Cca03g01378 Chr03 31993704 32000463 -
Gma Gma04g00790 Chr04 7516437 7523819 +
Gma Gma06g00786 Chr06 7122034 7128716 +
Lal Lal4g0292 Chr4 1907237 1914898 +
Lasa Lasa5g04342 Chr5 653437938 653443432 +
Lja Lja1g3672 Chr1 45837339 45843336 -
Mal Mal2g0640 Chr2 7534080 7539703 -
Mepo Mepo3g07660 Chr3 89873222 89879467 +
Mesa Mesa9g05354 Chr9 88436918 88438953 +
Mtr Mtr3g4121 Chr3 54973829 54979503 +
Phco Phco7g00969 Chr7 7864363 7876213 +
Pte Pte3g01006 Chr3 8593303 8597926 -
Pvu Pvu9g1155 Chr9 16845556 16849344 +
Spst Spst9g00997 Chr9 8891612 8897730 +
Ssu Ssu1g3250 Chr1 84636271 84642621 -
Sto Sto9g3152 Chr9 32089075 32094240 -
Tpr Tpr7g0377 Chr7 3131822 3137278 -
Trre Trre5g05490 Chr5 55432912 55438111 +
Tsu Tsu07g00409 Chr07 3144580 3150394 -
Vimu Vimu10g02691 Chr10 38352144 38359588 -
Vivi Vivi3g00285 Chr3 4755424 4764615 +
Vra Vra5g0999 Chr5 16422035 16430326 -
Vvi Vvi4g0041 Chr4 466811 470072 -
Aed Aed10g0069 Chr10 483405 486111 -
Apr Apr5g1073 Chr5 15404445 15407277 +
Bva Bva10g00151 Chr10 3043061 3045828 +
Bva Bva06g02579 Chr06 16291492 16294286 -
Car Car05g03131 Chr05 76123387 76126186 -
Cca Cca03g01377 Chr03 31982993 31990385 +
Gma Gma04g00792 Chr04 7543732 7546383 -
Gma Gma06g00787 Chr06 7134478 7137093 -
Lal Lal4g0293 Chr4 1914465 1917529 -
Lja Lja1g3671 Chr1 45833621 45836709 +
Mal Mal2g0639 Chr2 7529780 7532019 +
Mtr Mtr3g4122 Chr3 54981354 54984217 -
Ssu Ssu1g3249 Chr1 84623670 84630231 +
Sto Sto5g0655 Chr5 4422085 4424747 +
Tpr Tpr7g0376 Chr7 3127746 3131219 +
Tsu Tsu07g00408 Chr07 3141357 3144315 +
Vra Vra5g0998 Chr5 16418820 16421489 +
Vvi Vvi4g0042 Chr4 473714 474154 -
Bva Bva10g00150 Chr10 3041531 3042275 -
Bva Bva06g02580 Chr06 16295062 16296107 +
Lal Lal4g0294 Chr4 1918521 1918979 +
Lal Lal17g0334 Chr17 2126683 2127138 +
Sto Sto9g3151 Chr9 32087315 32087776 -
Vvi Vvi4g0043 Chr4 475335 478420 -
Bva Bva10g00149 Chr10 3038823 3041279 +
Lal Lal17g0335 Chr17 2127090 2129409 -
Sto Sto9g3150 Chr9 32085708 32086811 +
Car Car04g03039 Chr04 58301880 58304742 +