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
Vvi1g1111 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1112 . . . . . . . . . . . . . . . . . . . . Arst3g05173 . Bach4g01312 . . . Bva08g01531 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco4g01962 . . . . . Pste1g02946 . . . . . . . Pvu2g1745 . Rops1g01121 . Seca2g00556 . Spst3g02376 . . . Sto11g0917 . . . . . . . Vian10g01593 . Vifa1g05392 . Vimu11g02375 . Viun2g00938 . . . . .
Vvi1g1113 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1114 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1115 . . . . . Adu01g03263 . . . . . . . . . . . . . . . Arst1g04218 . . . Bisa08g1802 . . . . . . . Dere03g0942 . . . Enph6g0719 . Glsi02g0865 . . . . . . . . . . . . . . . . . . . . . Lapu3g01016 . Lasa4g03286 . . . . . . . . . . . . . Mepo1g01252 . Mesa29g01283 . . . . . Phac3g02899 . Phco8g01359 . . . . . Pste6g02597 . . . . . Pumo4g01274 . Pvu3g1952 . Rops2g03875 . Seca4g03274 . Spst3g04710 . . . . . . . Trre15g04230 . . . Vian1g00787 . Vifa2g00609 . Vimu7g00807 . Viun3g04592 . Vivi1g01916 . .
Vvi1g1116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1117 . . . . . . Aed11g0515 . . . . . . . . . . . Apr7g1363 . . . . . . . . . . . Cca06g00501 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1118 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma08g02505 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1119 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1120 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pste Pste1g02946 Chr1 12782757 12789494 +
Apr Apr7g1363 Chr7 20709402 20711877 +
Vvi Vvi1g1111 Chr1 14046107 14047375 -
Vvi Vvi1g1112 Chr1 14162496 14167180 +
Arst Arst3g05173 Chr3 127134102 127141435 -
Bach Bach4g01312 Chr4 9225066 9229468 -
Bva Bva08g01531 Chr08 8055226 8059905 -
Phco Phco4g01962 Chr4 38787876 38797034 +
Pste Pste1g02946 Chr1 12782757 12789494 +
Pvu Pvu2g1745 Chr2 31271901 31279943 +
Rops Rops1g01121 Chr1 26372254 26378216 +
Seca Seca2g00556 Chr2 7791946 7797191 +
Spst Spst3g02376 Chr3 67489532 67494249 +
Sto Sto11g0917 Chr11 9676219 9688704 +
Vian Vian10g01593 Chr10 26852784 26857362 -
Vifa Vifa1g05392 Chr1 836056099 836063874 +
Vimu Vimu11g02375 Chr11 41387534 41396908 -
Viun Viun2g00938 Chr2 20070056 20075243 -
Vvi Vvi1g1113 Chr1 14194102 14198011 +
Vvi Vvi1g1114 Chr1 14215872 14219965 +
Vvi Vvi1g1115 Chr1 14246016 14249230 +
Adu Adu01g03263 Chr01 105240892 105243464 +
Arst Arst1g04218 Chr1 104497175 104499668 +
Bisa Bisa08g1802 Chr08 42994453 42997137 +
Dere Dere03g0942 Chr03 14416690 14419700 -
Enph Enph6g0719 Chr6 10230014 10232659 -
Glsi Glsi02g0865 Chr02 5553710 5556754 -
Lapu Lapu3g01016 Chr3 10880966 10882980 +
Lasa Lasa4g03286 Chr4 581960675 581963380 -
Mepo Mepo1g01252 Chr1 12269956 12272115 +
Mesa Mesa29g01283 Chr29 16572560 16574670 +
Phac Phac3g02899 Chr3 30674264 30676553 +
Phco Phco8g01359 Chr8 14150892 14152660 -
Pste Pste6g02597 Chr6 13357103 13359485 -
Pumo Pumo4g01274 Chr4 16226290 16228502 +
Pvu Pvu3g1952 Chr3 40098048 40100271 +
Rops Rops2g03875 Chr2 71072925 71075023 +
Seca Seca4g03274 Chr4 56461302 56462182 -
Spst Spst3g04710 Chr3 98898992 98900760 -
Trre Trre15g04230 Chr15 52992180 52994529 -
Vian Vian1g00787 Chr1 8233386 8235154 -
Vifa Vifa2g00609 Chr2 133606500 133609261 +
Vimu Vimu7g00807 Chr7 8021206 8024239 -
Viun Viun3g04592 Chr3 53546488 53548613 -
Vivi Vivi1g01916 Chr1 40634664 40638008 +
Vvi Vvi1g1116 Chr1 14302888 14303488 -
Vvi Vvi1g1117 Chr1 14354642 14356756 -
Aed Aed11g0515 Chr11 4556541 4558007 +
Apr Apr7g1363 Chr7 20709402 20711877 +
Cca Cca06g00501 Chr06 15190962 15194447 -
Vvi Vvi1g1118 Chr1 14402708 14405348 +
Gma Gma08g02505 Chr08 36627046 36628760 -
Vvi Vvi1g1119 Chr1 14459998 14461572 -
Vvi Vvi1g1120 Chr1 14497779 14497910 -
Adu Adu01g03263 Chr01 105240892 105243464 +
Arst Arst1g04218 Chr1 104497175 104499668 +
Bisa Bisa08g1802 Chr08 42994453 42997137 +
Dere Dere03g0942 Chr03 14416690 14419700 -
Enph Enph6g0719 Chr6 10230014 10232659 -
Glsi Glsi02g0865 Chr02 5553710 5556754 -
Lapu Lapu3g01016 Chr3 10880966 10882980 +
Lasa Lasa4g03286 Chr4 581960675 581963380 -
Mepo Mepo1g01252 Chr1 12269956 12272115 +
Mesa Mesa29g01283 Chr29 16572560 16574670 +
Phac Phac3g02899 Chr3 30674264 30676553 +
Phco Phco8g01359 Chr8 14150892 14152660 -
Pste Pste6g02597 Chr6 13357103 13359485 -
Pumo Pumo4g01274 Chr4 16226290 16228502 +
Pvu Pvu3g1952 Chr3 40098048 40100271 +
Rops Rops2g03875 Chr2 71072925 71075023 +
Seca Seca4g03274 Chr4 56461302 56462182 -
Spst Spst3g04710 Chr3 98898992 98900760 -
Trre Trre15g04230 Chr15 52992180 52994529 -
Vian Vian1g00787 Chr1 8233386 8235154 -
Vifa Vifa2g00609 Chr2 133606500 133609261 +
Vimu Vimu7g00807 Chr7 8021206 8024239 -
Viun Viun3g04592 Chr3 53546488 53548613 -
Vivi Vivi1g01916 Chr1 40634664 40638008 +