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
Vvi2g0292 . . . . . . . . . . . . . . . . . . . Apr2g1227 . . . . . . . . . . . . . . . . . . . . . . . Gma08g00166 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0293 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3055 . . . . . . . . . . . . . . . . . . .
Vvi2g0294 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0295 . . . . Adu03g02746 . . . . . . . . . . . . . . . Arst3g03646 . Bach4g00106 . . . . Bva11g02267 . . . . . . . . . . . . . . . . . . . . . . . Lal15g1401 . . . . . . . . Lapu3g03611 . Lasa7g04773 . . . . . . . . . . . . . Mepo2g04660 . Mesa13g00465 . . . . . Phac2g04404 . Phco4g03320 Phco1g00737 . . . . . . . . . . Pumo6g00471 . Pvu2g3009 Pvu10g1067 Rops2g00519 . Seca12g06522 . . . . . . . . . . . . . Vian1g03855 . Vifa6g03589 . Vimu11g04443 Vimu9g00258 Viun3g00539 . Vivi5g05954 . . .
Vvi2g0296 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4965 . . . . . . . Mtr8g3495 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g0618 . . . Tsu02g00430 . . . . . . . . . . . .
Vvi2g0297 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma05g02063 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0298 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0299 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0300 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0301 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma01g02211 . . . Gso1g1876 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal15g1401 Chr15 16173409 16176032 -
Gma Gma01g02211 Chr01 57336839 57338351 -
Gso Gso1g1876 Chr1 55499872 55502080 -
Gso Gso1g1876 Chr1 55499872 55502080 -
Gso Gso1g1876 Chr1 55499872 55502080 -
Gso Gso1g1876 Chr1 55499872 55502080 -
Adu Adu03g02746 Chr03 101723706 101726222 -
Apr Apr2g1227 Chr2 18499314 18501682 +
Arst Arst3g03646 Chr3 100472031 100474212 -
Bach Bach4g00106 Chr4 723395 726045 -
Gma Gma05g02063 Chr05 41886176 41888422 +
Gma Gma08g00166 Chr08 1434085 1436104 +
Lapu Lapu3g03611 Chr3 59567774 59570544 +
Lasa Lasa7g04773 Chr7 686727240 686729029 +
Mal Mal7g4965 Chr7 118531265 118533110 +
Mepo Mepo2g04660 Chr2 54952939 54955320 +
Mesa Mesa13g00465 Chr13 5439071 5440968 -
Mtr Mtr8g3495 Chr8 45461738 45464639 +
Phac Phac2g04404 Chr2 42169368 42171218 +
Phco Phco4g03320 Chr4 53738229 53745307 +
Pumo Pumo6g00471 Chr6 5872591 5883620 -
Pvu Pvu2g3009 Chr2 45571487 45574158 +
Rops Rops2g00519 Chr2 7548615 7561127 -
Seca Seca12g06522 Chr12 157265163 157270149 +
Tpr Tpr3g0618 Chr3 6055925 6059378 -
Tsu Tsu02g00430 Chr02 3596630 3598445 -
Vian Vian1g03855 Chr1 61639361 61641172 +
Vifa Vifa6g03589 Chr6 1179364920 1179366756 +
Vimu Vimu11g04443 Chr11 65536274 65538731 +
Viun Viun3g00539 Chr3 3283672 3286143 -
Vivi Vivi5g05954 Chr5 163861196 163863466 +
Vvi Vvi2g0292 Chr2 2372416 2384890 -
Apr Apr2g1227 Chr2 18499314 18501682 +
Gma Gma08g00166 Chr08 1434085 1436104 +
Vvi Vvi2g0293 Chr2 2387266 2397387 +
Sto Sto6g3055 Chr6 37618108 37625033 +
Vvi Vvi2g0294 Chr2 2399307 2409477 +
Bva Bva08g00005 Chr08 33564 41958 +
Vvi Vvi2g0295 Chr2 2411218 2413057 -
Adu Adu03g02746 Chr03 101723706 101726222 -
Arst Arst3g03646 Chr3 100472031 100474212 -
Bach Bach4g00106 Chr4 723395 726045 -
Bva Bva11g02267 Chr11 18229541 18232425 -
Lal Lal15g1401 Chr15 16173409 16176032 -
Lapu Lapu3g03611 Chr3 59567774 59570544 +
Lasa Lasa7g04773 Chr7 686727240 686729029 +
Mepo Mepo2g04660 Chr2 54952939 54955320 +
Mesa Mesa13g00465 Chr13 5439071 5440968 -
Phac Phac2g04404 Chr2 42169368 42171218 +
Phco Phco4g03320 Chr4 53738229 53745307 +
Phco Phco1g00737 Chr1 6752828 6754434 +
Pumo Pumo6g00471 Chr6 5872591 5883620 -
Pvu Pvu2g3009 Chr2 45571487 45574158 +
Pvu Pvu10g1067 Chr10 35938015 35938383 -
Rops Rops2g00519 Chr2 7548615 7561127 -
Seca Seca12g06522 Chr12 157265163 157270149 +
Vian Vian1g03855 Chr1 61639361 61641172 +
Vifa Vifa6g03589 Chr6 1179364920 1179366756 +
Vimu Vimu11g04443 Chr11 65536274 65538731 +
Vimu Vimu9g00258 Chr9 3109242 3109628 +
Viun Viun3g00539 Chr3 3283672 3286143 -
Vivi Vivi5g05954 Chr5 163861196 163863466 +
Vvi Vvi2g0296 Chr2 2414816 2415640 +
Mal Mal7g4965 Chr7 118531265 118533110 +
Mtr Mtr8g3495 Chr8 45461738 45464639 +
Tpr Tpr3g0618 Chr3 6055925 6059378 -
Tsu Tsu02g00430 Chr02 3596630 3598445 -
Vvi Vvi2g0297 Chr2 2418452 2421979 -
Gma Gma05g02063 Chr05 41886176 41888422 +
Vvi Vvi2g0298 Chr2 2426186 2426868 -
Vvi Vvi2g0299 Chr2 2429152 2430621 +
Vvi Vvi2g0300 Chr2 2434116 2434591 +
Vvi Vvi2g0301 Chr2 2435823 2438638 -
Gma Gma01g02211 Chr01 57336839 57338351 -
Gso Gso1g1876 Chr1 55499872 55502080 -