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
Vvi1g1591 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1592 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2532 . . . . . . . . . . . . . . . . . . .
Vvi1g1593 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal18g0547 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1594 . . . . Adu03g02936 . . . . . . . . . . . . . . . . . . . . . . Bva05g00109 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03501 . Lasa7g04622 . . . . . . . . . . Lja4g0508 . Mal7g4834 . . Mesa13g00605 . . . . Mtr8g3371 Phac2g04228 . . . . . . Psa7g0910 . . . . . . Pumo6g00584 . Pvu2g2886 . Rops2g00683 . Seca12g06376 . Spst3g01215 . . . . . . Tpr3g0736 . . . Tsu02g00560 Vian1g03744 . Vifa2g03353 . Vimu11g04289 . Viun3g00711 . Vivi5g05720 . . .
Vvi1g1595 . . . . . . . . . . . . . . . . . . . . . Arst8g03708 . Bach2g02348 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g3370 . . . . . . . . . . . . . . . . . Pvu9g1639 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1596 . . . . . . . . . . . . . . . . . . Apr4g2772 . . . . . . . . Bva05g00110 . . . . . . . . . . . . . . Gma08g03330 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1597 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1598 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1599 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal3g3097 . . . . . . . Mtr7g2292 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr6g1076 . . . Tsu07g02909 . . . . . . . . . . . . .
Vvi1g1600 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1591 Chr1 22670468 22670936 +
Vvi Vvi1g1592 Chr1 22671239 22673752 +
Sto Sto3g2532 Chr3 29441999 29446687 +
Vvi Vvi1g1593 Chr1 22675938 22680959 -
Lal Lal18g0547 Chr18 4622538 4627103 -
Vvi Vvi1g1594 Chr1 22685772 22687622 -
Adu Adu03g02936 Chr03 110991347 110992118 -
Bva Bva05g00109 Chr05 548000 551616 -
Lapu Lapu3g03501 Chr3 58360809 58362794 +
Lasa Lasa7g04622 Chr7 673215726 673216519 +
Lja Lja4g0508 Chr4 4135913 4137568 -
Mal Mal7g4834 Chr7 116801674 116802817 +
Mesa Mesa13g00605 Chr13 7216503 7218485 -
Mtr Mtr8g3371 Chr8 44210657 44212794 +
Phac Phac2g04228 Chr2 40927358 40929394 +
Psa Psa7g0910 Chr7 68888763 68890231 -
Pumo Pumo6g00584 Chr6 7415740 7416838 -
Pvu Pvu2g2886 Chr2 44450457 44452172 +
Rops Rops2g00683 Chr2 9704315 9705248 -
Seca Seca12g06376 Chr12 155743208 155744219 +
Spst Spst3g01215 Chr3 15687718 15688963 -
Tpr Tpr3g0736 Chr3 7072359 7074384 -
Tsu Tsu02g00560 Chr02 4738454 4740055 -
Vian Vian1g03744 Chr1 60314498 60315716 +
Vifa Vifa2g03353 Chr2 963675667 963677246 +
Vimu Vimu11g04289 Chr11 64269456 64270650 +
Viun Viun3g00711 Chr3 4386936 4388222 -
Vivi Vivi5g05720 Chr5 160681468 160682703 +
Vvi Vvi1g1595 Chr1 22688502 22689341 -
Arst Arst8g03708 Chr8 47437324 47439918 +
Bach Bach2g02348 Chr2 29887166 29887687 -
Mtr Mtr8g3370 Chr8 44204480 44209103 +
Pvu Pvu9g1639 Chr9 23033277 23035217 -
Vvi Vvi1g1596 Chr1 22694369 22702939 -
Apr Apr4g2772 Chr4 36214010 36220002 +
Bva Bva05g00110 Chr05 552190 556689 -
Gma Gma08g03330 Chr08 50099270 50106518 -
Vvi Vvi1g1597 Chr1 22706570 22709028 -
Vvi Vvi1g1598 Chr1 22715235 22717054 +
Vvi Vvi1g1599 Chr1 22725177 22728397 +
Mal Mal3g3097 Chr3 106101309 106105055 -
Mtr Mtr7g2292 Chr7 39330189 39334747 -
Tpr Tpr6g1076 Chr6 10175718 10180376 -
Tsu Tsu07g02909 Chr07 34410084 34414692 -
Vvi Vvi1g1600 Chr1 22733454 22736694 +
Lal Lal18g0547 Chr18 4622538 4627103 -