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
Vvi4g1454 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1455 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1456 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1457 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1458 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1459 . . . . Adu10g01748 . . . . Aev08g0604 . Ahy20g1979 . Aip10g02323 . . . . Apr1g0476 . Arst10g02240 . . . . . . . . . . . . . . Dod09g1789 . . . . . . . . . . . . . . Lal17g0726 . . . . . . . . . Lapu9g01153 . Lasa5g03318 . . . . . . . . . . . Mal2g1535 . Mepo3g06800 . Mesa9g04324 . . . Mtr3g3325 . Phac9g02459 . Phco7g01692 . . . Psa5g1474 . Pste2g03699 . . . . . . . Pvu9g1528 . . . . . Spst9g01749 . . . Sto3g3167 . Tpr3g3120 . Trre5g04270 . Tsu07g01346 . . . . . . . . . Vivi3g02495 . . .
Vvi4g1460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1461 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1463 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1454 Chr4 21691572 21691906 +
Vvi Vvi4g1455 Chr4 21752767 21752934 +
Vvi Vvi4g1456 Chr4 21784571 21809070 +
Vvi Vvi4g1457 Chr4 21843592 21845970 +
Vvi Vvi4g1458 Chr4 21847464 21849002 +
Vvi Vvi4g1459 Chr4 21857541 21862901 +
Adu Adu10g01748 Chr10 80600625 80601504 +
Aev Aev08g0604 Chr08 3469078 3469957 -
Ahy Ahy20g1979 Chr20 111716885 111717792 +
Aip Aip10g02323 Chr10 104712727 104713621 +
Apr Apr1g0476 Chr1 5869554 5870396 -
Arst Arst10g02240 Chr10 79519777 79520636 +
Dod Dod09g1789 Chr09 39506757 39507779 +
Lal Lal17g0726 Chr17 5127040 5129322 +
Lapu Lapu9g01153 Chr9 25070177 25076178 -
Lasa Lasa5g03318 Chr5 553936140 553937040 +
Mal Mal2g1535 Chr2 18414248 18421477 -
Mepo Mepo3g06800 Chr3 81755398 81756942 +
Mesa Mesa9g04324 Chr9 76267306 76268423 +
Mtr Mtr3g3325 Chr3 47164758 47166294 +
Phac Phac9g02459 Chr9 23297692 23299280 +
Phco Phco7g01692 Chr7 16782546 16783320 +
Psa Psa5g1474 Chr5 113586684 113587565 -
Pste Pste2g03699 Chr2 40531756 40532324 +
Pvu Pvu9g1528 Chr9 21643659 21644902 +
Spst Spst9g01749 Chr9 19353222 19353985 +
Sto Sto3g3167 Chr3 36520235 36522717 +
Tpr Tpr3g3120 Chr3 34311484 34312678 +
Trre Trre5g04270 Chr5 44656619 44657840 +
Tsu Tsu07g01346 Chr07 11854327 11856351 -
Vivi Vivi3g02495 Chr3 41742441 41743816 -
Vvi Vvi4g1460 Chr4 21863920 21865218 -
Vvi Vvi4g1461 Chr4 21878379 21878750 -
Vvi Vvi4g1462 Chr4 21881937 21882484 +
Vvi Vvi4g1463 Chr4 21883381 21884517 +