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
Vvi19g0770 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0771 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0772 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0773 . . . . . Adu07g00165 Aed3g2591 . Aev07g0137 . Ahy17g0232 . Aip07g00168 . . . . . . Apr9g1840 . Arst7g00266 . Bach3g00951 . . Bva12g02619 . Car02g02137 . Cca05g02025 . . . Dod08g0170 . . . . . . . Gma02g02811 Gma14g00126 . . . . . . Lal6g0035 . . . . . . . . . . . . Lasa2g02354 . . . . . . . . . . . Mal8g0228 . Mepo7g02930 . Mesa17g04528 . . . Mtr5g3420 . . . Phco3g00151 . . . Psa2g0174 . Pste8g00285 . . . . . Pumo9g01791 . Pvu8g2879 . Rops9g00208 . Seca8g00195 . Spst8g00981 Ssu6g3570 . Sto9g2027 . . Tpr4g0220 . Trre9g05209 . Tsu05g04032 . Vian7g01106 . Vifa1g03523 . Vimu1g00297 . Viun8g02981 . Vivi7g02567 . .
Vvi19g0774 . . . . Adu01g00294 Adu07g00036 Aed3g2673 Aed4g2369 . . . Ahy11g0543 . Aip01g00533 . . . Amo11g0345 Apr2g0302 Apr9g1930 Arst1g00406 Arst7g00099 Bach12g01812 . . . Bva12g02618 . Car02g02225 Car05g01131 Cca05g02122 Cca09g01225 . . . Dod05g0678 . . . . Gma08g03071 Gma18g00707 . Gma14g00043 Gso8g2730 Gso8g2730 . Gso8g2730 . . . Lal3g0788 . Lal11g1012 . . . . . . Lapu6g02489 . Lasa5g01183 . . . . . . . . . Lja6g1247 . . Mal8g0033 Mepo3g04818 Mepo7g03094 Mesa9g02037 Mesa17g04704 . . . Mtr5g3548 . . Phco11g01855 Phco3g00047 . . . Psa2g0067 . Pste8g00097 Pte9g00795 . . . Pumo1g00776 Pumo9g01683 Pvu6g0601 Pvu8g2978 Rops11g02580 Rops9g00059 Seca6g02910 Seca8g00061 Spst6g01908 Spst8g01083 Ssu6g3692 Ssu9g1085 . Sto5g1838 . Tpr4g0398 Trre5g01111 Trre9g05341 . Tsu05g04192 Vian6g00490 Vian7g01012 Vifa2g01070 Vifa1g03775 Vimu2g02368 Vimu1g00187 Viun6g00964 Viun8g03109 Vivi3g05249 Vivi7g02434 Vra6g0043 .
Vvi19g0775 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0776 . . Accr5g00288 . Adu04g00524 Adu07g00037 Aed3g2672 Aed4g2368 . . . Ahy11g0542 . Aip01g00531 . . . Amo11g0344 Apr2g0304 Apr9g1929 Arst4g00802 Arst7g00101 Bach7g01129 . Bisa07g0315 . . . Car02g02224 Car05g01132 Cca05g02121 Cca09g01226 Dere02g3318 . . Dod05g0676 Enph4g0223 . Glsi11g3091 . Gma08g03073 Gma18g00706 Gma02g02812 Gma14g00044 Gso8g2731 Gso8g2731 Gso8g2731 Gso8g2731 . . . . . . . . . . . . . . Lasa1g01159 . . . . . . . . . Lja6g1245 . . . Mepo6g01048 . Mesa5g03611 . . . . . Phac6g00757 . Phco11g00920 . Prci3g0356 . Psa5g3879 . Pste2g02694 Pste8g00098 Pte19g00547 . . . . Pumo9g01684 Pvu6g1452 Pvu8g2977 . Rops9g00060 . Seca8g00062 Spst6g01296 Spst8g01082 Ssu6g3691 Ssu9g1087 . Sto5g1836 . . Trre3g01152 . . . . Vian7g01013 . . Vimu2g01213 Vimu1g00188 . Viun8g03108 Vivi1g00109 . Vra6g0044 .
Vvi19g0777 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0778 . . . . Adu01g00299 . . Aed4g2367 . Aev01g1418 . Ahy11g0536 . Aip01g00528 . . . . Apr2g0306 . Arst1g00410 . . . . . Bva12g02616 . . Car05g01133 . Cca09g01227 . . . Dod05g0675 . . . . Gma08g03074 Gma18g00704 . . Gso8g2732 Gso8g2732 . . . . . Lal3g0786 . . . . . . . . Lapu6g02485 . Lasa5g01185 . . . . . . . . . Lja6g1244 . . . Mepo3g04821 . Mesa9g02041 . . . . . . . Phco11g01851 . . . . . Pste7g01459 . Pte9g01198 . . . Pumo1g00773 . Pvu6g0604 . Rops11g02577 . Seca6g02906 . Spst6g01905 . . Ssu9g1088 . Sto5g1832 . . . . . . Vian6g00492 . Vifa2g01073 . Vimu2g02365 . Viun6g00967 . Vivi3g05245 . . .
Vvi19g0779 . . . . . . . . . . . . . . . . . . . Apr9g1841 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal22g0046 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2035 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Apr Apr9g1930 Chr9 27785132 27786612 -
Accr Accr5g00288 Chr5 14708214 14730333 -
Adu Adu04g00524 Chr04 6417772 6421274 -
Arst Arst4g00802 Chr4 6396626 6400091 -
Bach Bach7g01129 Chr7 22088172 22091691 +
Bisa Bisa07g0315 Chr07 8275917 8289069 +
Dere Dere02g3318 Chr02 41671256 41677612 +
Enph Enph4g0223 Chr4 6116347 6124779 +
Glsi Glsi11g3091 Chr11 28150031 28155409 +
Lasa Lasa1g01159 Chr1 94373500 94376012 +
Mepo Mepo6g01048 Chr6 11016692 11019267 -
Mesa Mesa5g03611 Chr5 63575903 63578857 +
Phac Phac6g00757 Chr6 12206903 12210795 -
Phco Phco11g00920 Chr11 6795758 6799926 -
Prci Prci3g0356 Chr3 4554511 4564943 +
Pste Pste2g02694 Chr2 27107998 27113011 -
Pte Pte19g00547 Chr19 4323231 4324149 -
Pvu Pvu6g1452 Chr6 25447399 25452012 +
Spst Spst6g01296 Chr6 11912178 11922786 -
Trre Trre3g01152 Chr3 8352373 8355850 -
Vimu Vimu2g01213 Chr2 8114031 8119183 -
Vivi Vivi1g00109 Chr1 1965422 1968867 +
Apr Apr9g1929 Chr9 27777986 27780754 +
Vvi Vvi19g0770 Chr19 8566394 8567062 -
Vvi Vvi19g0771 Chr19 8567840 8585181 +
Vvi Vvi19g0772 Chr19 8585483 8587296 -
Vvi Vvi19g0773 Chr19 8590904 8591530 +
Adu Adu07g00165 Chr07 1529080 1530054 -
Aed Aed3g2591 Chr3 27956210 27956860 +
Aev Aev07g0137 Chr07 797767 798417 -
Ahy Ahy17g0232 Chr17 2241046 2242061 -
Aip Aip07g00168 Chr07 1340400 1341376 -
Apr Apr9g1840 Chr9 27181639 27192746 +
Arst Arst7g00266 Chr7 1680792 1681735 -
Bach Bach3g00951 Chr3 20062713 20063360 +
Bva Bva12g02619 Chr12 19358186 19359211 -
Car Car02g02137 Chr02 51650760 51651857 +
Cca Cca05g02025 Chr05 40068332 40070283 +
Dod Dod08g0170 Chr08 1810612 1811158 -
Gma Gma02g02811 Chr02 53666734 53667944 +
Gma Gma14g00126 Chr14 1048963 1050034 -
Lal Lal6g0035 Chr6 245544 248706 -
Lasa Lasa2g02354 Chr2 499761024 499761662 +
Mal Mal8g0228 Chr8 3513761 3514393 -
Mepo Mepo7g02930 Chr7 40298583 40299531 +
Mesa Mesa17g04528 Chr17 76491841 76492062 +
Mtr Mtr5g3420 Chr5 43074774 43075802 +
Phco Phco3g00151 Chr3 990758 991977 -
Psa Psa2g0174 Chr2 6737867 6739012 -
Pste Pste8g00285 Chr8 1570188 1570832 -
Pumo Pumo9g01791 Chr9 47073380 47074316 -
Pvu Pvu8g2879 Chr8 58601452 58602404 +
Rops Rops9g00208 Chr9 2628598 2629516 -
Seca Seca8g00195 Chr8 2470270 2470929 -
Spst Spst8g00981 Chr8 8546233 8546877 +
Ssu Ssu6g3570 Chr6 79323090 79323734 +
Sto Sto9g2027 Chr9 24209245 24209901 +
Tpr Tpr4g0220 Chr4 2301078 2302017 +
Trre Trre9g05209 Chr9 57175157 57175813 +
Tsu Tsu05g04032 Chr05 51155869 51156822 +
Vian Vian7g01106 Chr7 19267173 19267817 -
Vifa Vifa1g03523 Chr1 546112564 546113202 +
Vimu Vimu1g00297 Chr1 1767586 1768230 -
Viun Viun8g02981 Chr8 37222901 37223927 +
Vivi Vivi7g02567 Chr7 89584828 89585854 -
Vvi Vvi19g0774 Chr19 8597520 8599178 +
Adu Adu01g00294 Chr01 3661580 3663480 +
Adu Adu07g00036 Chr07 405559 407318 +
Aed Aed3g2673 Chr3 28437943 28439160 -
Aed Aed4g2369 Chr4 26067024 26068277 -
Ahy Ahy11g0543 Chr11 8346968 8348804 -
Aip Aip01g00533 Chr01 7821504 7822913 -
Amo Amo11g0345 Chr11 5442462 5443916 -
Apr Apr2g0302 Chr2 3628809 3630146 +
Apr Apr9g1930 Chr9 27785132 27786612 -
Arst Arst1g00406 Chr1 3665651 3667470 +
Arst Arst7g00099 Chr7 569428 571115 +
Bach Bach12g01812 Chr12 14508091 14509314 +
Bva Bva12g02618 Chr12 19353762 19354814 -
Car Car02g02225 Chr02 52342440 52344313 -
Car Car05g01131 Chr05 53663815 53665631 +
Cca Cca05g02122 Chr05 40941471 40943479 -
Cca Cca09g01225 Chr09 34383706 34385443 +
Dod Dod05g0678 Chr05 10139771 10141724 -
Gma Gma08g03071 Chr08 47333418 47334744 +
Gma Gma18g00707 Chr18 7332995 7334242 -
Gma Gma14g00043 Chr14 374993 376624 +
Gso Gso8g2730 Chr8 44985179 44986762 +
Gso Gso8g2730 Chr8 44985179 44986762 +
Gso Gso8g2730 Chr8 44985179 44986762 +
Lal Lal3g0788 Chr3 7127038 7128327 -
Lal Lal11g1012 Chr11 13656682 13659234 +
Lapu Lapu6g02489 Chr6 24794296 24795860 -
Lasa Lasa5g01183 Chr5 320753784 320755037 +
Lja Lja6g1247 Chr6 36490481 36491740 -
Mal Mal8g0033 Chr8 645541 646803 +
Mepo Mepo3g04818 Chr3 60252161 60253771 +
Mepo Mepo7g03094 Chr7 41794798 41796529 -
Mesa Mesa9g02037 Chr9 44628966 44630231 +
Mesa Mesa17g04704 Chr17 79076221 79077483 -
Mtr Mtr5g3548 Chr5 44283534 44285273 -
Phco Phco11g01855 Chr11 14902461 14903723 -
Phco Phco3g00047 Chr3 359118 362096 +
Psa Psa2g0067 Chr2 2061090 2063546 -
Pste Pste8g00097 Chr8 566874 568118 +
Pte Pte9g00795 Chr9 25731831 25733152 +
Pumo Pumo1g00776 Chr1 11516500 11517912 -
Pumo Pumo9g01683 Chr9 45942429 45944333 +
Pvu Pvu6g0601 Chr6 17424637 17426188 +
Pvu Pvu8g2978 Chr8 59259350 59261107 -
Rops Rops11g02580 Chr11 44104717 44105985 -
Rops Rops9g00059 Chr9 797010 798462 +
Seca Seca6g02910 Chr6 94559766 94561016 -
Seca Seca8g00061 Chr8 793882 795096 +
Spst Spst6g01908 Chr6 18221272 18222534 -
Spst Spst8g01083 Chr8 9385118 9386332 -
Ssu Ssu6g3692 Chr6 81008912 81010108 -
Ssu Ssu9g1085 Chr9 42357263 42358396 +
Sto Sto5g1838 Chr5 13451540 13452790 -
Tpr Tpr4g0398 Chr4 3837584 3839794 -
Trre Trre5g01111 Chr5 7829315 7830580 -
Trre Trre9g05341 Chr9 58236633 58237892 -
Tsu Tsu05g04192 Chr05 52530541 52532619 -
Vian Vian6g00490 Chr6 19854000 19855256 +
Vian Vian7g01012 Chr7 18447776 18448996 +
Vifa Vifa2g01070 Chr2 288134663 288135913 +
Vifa Vifa1g03775 Chr1 583223659 583224912 +
Vimu Vimu2g02368 Chr2 19254571 19255803 -
Vimu Vimu1g00187 Chr1 1030603 1031826 +
Viun Viun6g00964 Chr6 19228350 19229996 +
Viun Viun8g03109 Chr8 37916836 37918519 -
Vivi Vivi3g05249 Chr3 106309531 106311086 +
Vivi Vivi7g02434 Chr7 88247747 88249499 +
Vra Vra6g0043 Chr6 304800 306429 +
Vvi Vvi19g0775 Chr19 8600431 8600952 -
Vvi Vvi19g0776 Chr19 8601741 8608554 -
Accr Accr5g00288 Chr5 14708214 14730333 -
Adu Adu04g00524 Chr04 6417772 6421274 -
Adu Adu07g00037 Chr07 408855 411425 -
Aed Aed3g2672 Chr3 28435172 28439154 +
Aed Aed4g2368 Chr4 26059507 26065227 +
Ahy Ahy11g0542 Chr11 8323728 8329364 +
Aip Aip01g00531 Chr01 7805586 7811243 +
Amo Amo11g0344 Chr11 5419124 5424401 +
Apr Apr2g0304 Chr2 3633737 3638678 -
Apr Apr9g1929 Chr9 27777986 27780754 +
Arst Arst4g00802 Chr4 6396626 6400091 -
Arst Arst7g00101 Chr7 572796 575251 -
Bach Bach7g01129 Chr7 22088172 22091691 +
Bisa Bisa07g0315 Chr07 8275917 8289069 +
Car Car02g02224 Chr02 52335673 52340561 +
Car Car05g01132 Chr05 53669116 53673704 -
Cca Cca05g02121 Chr05 40936944 40941227 +
Cca Cca09g01226 Chr09 34393332 34406108 -
Dere Dere02g3318 Chr02 41671256 41677612 +
Dod Dod05g0676 Chr05 10128461 10135473 +
Enph Enph4g0223 Chr4 6116347 6124779 +
Glsi Glsi11g3091 Chr11 28150031 28155409 +
Gma Gma08g03073 Chr08 47344574 47348964 -
Gma Gma18g00706 Chr18 7318397 7323198 +
Gma Gma02g02812 Chr02 53669582 53674673 -
Gma Gma14g00044 Chr14 378678 387121 -
Gso Gso8g2731 Chr8 44996014 45000391 -
Gso Gso8g2731 Chr8 44996014 45000391 -
Gso Gso8g2731 Chr8 44996014 45000391 -
Gso Gso8g2731 Chr8 44996014 45000391 -
Lasa Lasa1g01159 Chr1 94373500 94376012 +
Lja Lja6g1245 Chr6 36476935 36480571 +
Mepo Mepo6g01048 Chr6 11016692 11019267 -
Mesa Mesa5g03611 Chr5 63575903 63578857 +
Phac Phac6g00757 Chr6 12206903 12210795 -
Phco Phco11g00920 Chr11 6795758 6799926 -
Prci Prci3g0356 Chr3 4554511 4564943 +
Psa Psa5g3879 Chr5 306619565 306622313 -
Pste Pste2g02694 Chr2 27107998 27113011 -
Pste Pste8g00098 Chr8 571784 575389 -
Pte Pte19g00547 Chr19 4323231 4324149 -
Pumo Pumo9g01684 Chr9 45947763 45951201 -
Pvu Pvu6g1452 Chr6 25447399 25452012 +
Pvu Pvu8g2977 Chr8 59254567 59257661 +
Rops Rops9g00060 Chr9 820807 824228 -
Seca Seca8g00062 Chr8 801926 806567 -
Spst Spst6g01296 Chr6 11912178 11922786 -
Spst Spst8g01082 Chr8 9379071 9382311 +
Ssu Ssu6g3691 Chr6 81002142 81006146 +
Ssu Ssu9g1087 Chr9 42379122 42382588 -
Sto Sto5g1836 Chr5 13437797 13443013 +
Trre Trre3g01152 Chr3 8352373 8355850 -
Vian Vian7g01013 Chr7 18452021 18455374 -
Vimu Vimu2g01213 Chr2 8114031 8119183 -
Vimu Vimu1g00188 Chr1 1033849 1037146 -
Viun Viun8g03108 Chr8 37912730 37915078 +
Vivi Vivi1g00109 Chr1 1965422 1968867 +
Vra Vra6g0044 Chr6 307547 311709 -
Vvi Vvi19g0777 Chr19 8623967 8624827 +
Vvi Vvi19g0778 Chr19 8643904 8659887 +
Adu Adu01g00299 Chr01 3706124 3716170 +
Aed Aed4g2367 Chr4 26042741 26052544 -
Aev Aev01g1418 Chr01 16664521 16690722 -
Ahy Ahy11g0536 Chr11 8225873 8236323 -
Aip Aip01g00528 Chr01 7700122 7710043 -
Apr Apr2g0306 Chr2 3676061 3687817 +
Arst Arst1g00410 Chr1 3710183 3720278 +
Bva Bva12g02616 Chr12 19338450 19346873 -
Car Car05g01133 Chr05 53688789 53699344 +
Cca Cca09g01227 Chr09 34452371 34463954 +
Dod Dod05g0675 Chr05 10085146 10099730 -
Gma Gma08g03074 Chr08 47367206 47377972 +
Gma Gma18g00704 Chr18 7270438 7288138 -
Gso Gso8g2732 Chr8 45018265 45029611 +
Gso Gso8g2732 Chr8 45018265 45029611 +
Lal Lal3g0786 Chr3 7087390 7096297 -
Lapu Lapu6g02485 Chr6 24749456 24760688 -
Lasa Lasa5g01185 Chr5 321165646 321170990 -
Lja Lja6g1244 Chr6 36457940 36471432 -
Mepo Mepo3g04821 Chr3 60274617 60284032 -
Mesa Mesa9g02041 Chr9 44664849 44673144 -
Phco Phco11g01851 Chr11 14861666 14873416 -
Pste Pste7g01459 Chr7 13411244 13423623 +
Pte Pte9g01198 Chr9 33699022 33711073 +
Pumo Pumo1g00773 Chr1 11472718 11488635 -
Pvu Pvu6g0604 Chr6 17461309 17472998 +
Rops Rops11g02577 Chr11 44058411 44070282 -
Seca Seca6g02906 Chr6 94461200 94475960 -
Spst Spst6g01905 Chr6 18186061 18200709 -
Ssu Ssu9g1088 Chr9 42435183 42448038 +
Sto Sto5g1832 Chr5 13406226 13420238 -
Vian Vian6g00492 Chr6 19909176 19931830 +
Vifa Vifa2g01073 Chr2 288811738 288817070 -
Vimu Vimu2g02365 Chr2 19208193 19222209 -
Viun Viun6g00967 Chr6 19248056 19260149 +
Vivi Vivi3g05245 Chr3 106160002 106168047 +
Vvi Vvi19g0779 Chr19 8666997 8668364 +
Apr Apr9g1841 Chr9 27185842 27187050 +
Lal Lal22g0046 Chr22 279744 280298 -
Sto Sto9g2035 Chr9 24334576 24347235 +