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
Vvi2g0962 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0963 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0964 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0759 . Mal6g0593 . . . . . . . Mtr5g1137 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g4127 . Tpr2g1389 . . . Tsu05g01139 . . . . . . . . . . . . .
Vvi2g0965 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0966 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g3197 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0967 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0968 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0969 . . . . Adu05g00179 . . . . . . . . . . . . . . . Arst5g00220 . . . . . . . . . . . . . . . . . . . Gma01g01522 . . . Gso1g1260 . . . . . . . . . . . . . . . Lapu2g00906 . . . . . . . . . . . . . . . Mepo5g01269 . Mesa17g01368 . . . . . . . Phco4g00608 . . . Psa2g3198 . Pste1g00340 . . . . . Pumo8g01505 . Pvu2g1362 . Rops1g01307 . Seca10g01237 . Spst2g01161 . . . . Sto11g1259 . . Trre9g01695 . . . Vian10g01021 . Vifa1g05992 . Vimu7g03397 . Viun2g01527 . Vivi2g02498 . . .
Vvi2g0970 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0971 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0962 Chr2 13681703 13682046 -
Vvi Vvi2g0963 Chr2 13720797 13721456 +
Vvi Vvi2g0964 Chr2 13744082 13747505 +
Lja Lja2g0759 Chr2 6933467 6946157 +
Mal Mal6g0593 Chr6 7874601 7887099 +
Mtr Mtr5g1137 Chr5 11311139 11324397 +
Sto Sto6g4127 Chr6 44707382 44716125 +
Tpr Tpr2g1389 Chr2 16216224 16228531 +
Tsu Tsu05g01139 Chr05 9983558 9995538 +
Vvi Vvi2g0965 Chr2 13761206 13761908 -
Vvi Vvi2g0966 Chr2 13768305 13769834 +
Psa Psa2g3197 Chr2 366124455 366125951 -
Vvi Vvi2g0967 Chr2 13772327 13803988 -
Vvi Vvi2g0968 Chr2 13836464 13836982 +
Vvi Vvi2g0969 Chr2 13886740 13894679 +
Adu Adu05g00179 Chr05 2001507 2008542 +
Arst Arst5g00220 Chr5 2021128 2023853 +
Gma Gma01g01522 Chr01 50717544 50721226 +
Gso Gso1g1260 Chr1 49002236 49005965 +
Lapu Lapu2g00906 Chr2 8367494 8370125 +
Mepo Mepo5g01269 Chr5 12910476 12914244 -
Mesa Mesa17g01368 Chr17 17727081 17731331 -
Phco Phco4g00608 Chr4 4601596 4604149 +
Psa Psa2g3198 Chr2 366139246 366165428 -
Pste Pste1g00340 Chr1 1218673 1222045 -
Pumo Pumo8g01505 Chr8 49654115 49657844 +
Pvu Pvu2g1362 Chr2 26314671 26317801 -
Rops Rops1g01307 Chr1 29459713 29462840 +
Seca Seca10g01237 Chr10 12265439 12268791 -
Spst Spst2g01161 Chr2 10243521 10246140 -
Sto Sto11g1259 Chr11 12368722 12369613 -
Trre Trre9g01695 Chr9 15023682 15028984 -
Vian Vian10g01021 Chr10 11218068 11219668 -
Vifa Vifa1g05992 Chr1 938231460 938233630 +
Vimu Vimu7g03397 Chr7 28637109 28639652 -
Viun Viun2g01527 Chr2 25437942 25441315 +
Vivi Vivi2g02498 Chr2 114686440 114689158 +
Vvi Vvi2g0970 Chr2 13919731 13921116 +
Vvi Vvi2g0971 Chr2 13939743 13940883 -