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
Vvi1g1081 . . . . . . . . . Aev03g0402 . Ahy13g3861 . Aip03g04297 . . . Amo13g4873 . . . . . . . . . Bva11g00965 Car06g01876 . . . . . . Dod04g1112 . . . . . . . . . . . . . . . . Lal16g0826 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3000 . . . . . . . . . . . . . . . . . .
Vvi1g1082 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1083 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1084 . . . . . . . . . . . Ahy13g3862 . Aip03g04298 . . . Amo13g4874 Apr7g1515 . . . . . . . Bva08g01524 Bva11g00964 Car06g01874 . Cca06g00617 . . . . Dod04g1113 . . . . Gma02g01008 Gma01g00474 . . Gso2g0926 Gso2g0926 . . . . . Lal23g0807 . Lal15g0794 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1563 . Sto11g0921 . . . . . . . . . . . . . . . . . Vra11g1573 .
Vvi1g1085 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1086 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1087 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1088 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1090 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1081 Chr1 12552323 12562074 -
Aev Aev03g0402 Chr03 2901361 2906910 +
Ahy Ahy13g3861 Chr13 138041823 138049974 -
Aip Aip03g04297 Chr03 127406695 127414724 -
Amo Amo13g4873 Chr13 147580457 147592079 -
Bva Bva11g00965 Chr11 11562888 11570495 +
Car Car06g01876 Chr06 18710232 18714475 +
Dod Dod04g1112 Chr04 31641382 31654871 -
Lal Lal16g0826 Chr16 5328442 5336588 +
Sto Sto6g3000 Chr6 37121550 37129264 +
Vvi Vvi1g1082 Chr1 12601185 12602209 -
Vvi Vvi1g1083 Chr1 12603683 12606601 +
Vvi Vvi1g1084 Chr1 12653000 12655438 +
Ahy Ahy13g3862 Chr13 138086069 138088111 +
Aip Aip03g04298 Chr03 127446460 127448364 +
Amo Amo13g4874 Chr13 147652633 147654424 +
Apr Apr7g1515 Chr7 22345686 22348146 +
Bva Bva08g01524 Chr08 8033778 8035297 +
Bva Bva11g00964 Chr11 11554408 11556949 -
Car Car06g01874 Chr06 18679875 18681537 -
Cca Cca06g00617 Chr06 17600659 17603719 -
Dod Dod04g1113 Chr04 31693535 31695465 +
Gma Gma02g01008 Chr02 10869593 10873704 +
Gma Gma01g00474 Chr01 6357955 6359139 +
Gso Gso2g0926 Chr2 10679499 10683551 +
Gso Gso2g0926 Chr2 10679499 10683551 +
Lal Lal23g0807 Chr23 10596432 10599092 +
Lal Lal15g0794 Chr15 5759373 5762152 -
Ssu Ssu2g1563 Chr2 63089561 63092983 -
Sto Sto11g0921 Chr11 9714552 9715988 -
Vra Vra11g1573 Chr11 19719305 19720430 -
Vvi Vvi1g1085 Chr1 12671746 12673697 -
Vvi Vvi1g1086 Chr1 12820044 12820301 +
Vvi Vvi1g1087 Chr1 13170268 13170462 +
Vvi Vvi1g1088 Chr1 13420664 13420918 +
Vvi Vvi1g1089 Chr1 13619159 13619500 +
Vvi Vvi1g1090 Chr1 13660622 13660717 +