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
Vvi18g1396 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1397 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1398 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1399 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car04g01133 . . . . . . . . . . . Gma10g02159 . . . Gso10g2023 . . . . . . . . Lal9g0859 . . . . . . . . . . . . . . . . . . . . Mal1g2144 . . . . . . . Mtr1g3668 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g2233 . Tpr1g0838 . . . Tsu01g04315 . . . . . . . . . . . . .
Vvi18g1400 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1401 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1402 . . . . Adu10g01674 . . . . . . . . . . . . . . . Arst10g02165 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g01182 . Lasa5g03254 . . . . . . . . . . . . . Mepo3g06762 . Mesa9g04282 . . . . . Phac9g01112 . Phco7g01650 . . . . . Pste2g03659 . . . . . Pumo10g01601 . Pvu9g1439 . Rops10g02302 . Seca4g02059 . Spst9g01671 . . . . . . . Trre5g04206 . . . . . Vifa2g03103 . Vimu10g01926 . Viun9g01875 . . . . .
Vvi18g1403 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1404 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1405 . . . . . . . . . . . . Aip09g00053 . . . . . . . . . Bach1g00143 . . . . . Car04g01030 . . . . . . . . . . . . Gma20g01655 Gma16g01428 . . . . . . . . . Lal2g1030 . . . . . . . . . . . . . . . . . . . Lja5g0835 . Mal1g2889 . . . . . . . Mtr1g3537 . . . Phco5g01110 . . . Psa6g4254 . Pste9g00897 . Pte16g00432 . . . . . Pvu4g0905 . Rops5g01212 . . . . . . . . . Tpr1g0964 . . . Tsu01g04188 . Vian8g00822 . . . Vimu8g00113 . Viun4g01646 . . . . .
   
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Select Species Gene Chromosome Start End Strand
Adu Adu10g01674 Chr10 76519318 76523545 +
Arst Arst10g02165 Chr10 75440913 75445119 +
Lapu Lapu9g01182 Chr9 25495452 25501388 -
Lasa Lasa5g03254 Chr5 547176379 547182610 +
Mepo Mepo3g06762 Chr3 81372854 81378547 +
Mesa Mesa9g04282 Chr9 75758914 75764427 +
Phac Phac9g01112 Chr9 8688695 8694454 -
Phco Phco7g01650 Chr7 15955387 15960447 +
Pste Pste2g03659 Chr2 39590439 39596391 +
Pumo Pumo10g01601 Chr10 21044992 21049070 +
Pvu Pvu9g1439 Chr9 20470796 20476350 -
Rops Rops10g02302 Chr10 40788595 40793191 +
Seca Seca4g02059 Chr4 35061878 35066916 -
Spst Spst9g01671 Chr9 16962764 16967894 +
Trre Trre5g04206 Chr5 43732891 43740167 +
Vifa Vifa2g03103 Chr2 888060412 888065968 +
Vimu Vimu10g01926 Chr10 27755042 27760055 +
Viun Viun9g01875 Chr9 28557339 28562769 -
Vvi Vvi18g1396 Chr18 14233967 14234545 +
Vvi Vvi18g1397 Chr18 14276150 14276380 +
Vvi Vvi18g1398 Chr18 14293747 14294436 +
Vvi Vvi18g1399 Chr18 14296362 14329504 -
Car Car04g01133 Chr04 11533564 11548924 +
Gma Gma10g02159 Chr10 49100117 49110331 +
Gso Gso10g2023 Chr10 47220533 47230777 +
Lal Lal9g0859 Chr9 6337832 6355573 -
Mal Mal1g2144 Chr1 28187058 28198198 -
Mtr Mtr1g3668 Chr1 48337076 48350335 +
Sto Sto10g2233 Chr10 32336942 32353375 +
Tpr Tpr1g0838 Chr1 7070394 7082393 -
Tsu Tsu01g04315 Chr01 51009092 51021006 +
Vvi Vvi18g1400 Chr18 14366158 14376540 -
Vvi Vvi18g1401 Chr18 14379717 14382149 +
Vvi Vvi18g1402 Chr18 14382428 14384014 +
Adu Adu10g01674 Chr10 76519318 76523545 +
Arst Arst10g02165 Chr10 75440913 75445119 +
Lapu Lapu9g01182 Chr9 25495452 25501388 -
Lasa Lasa5g03254 Chr5 547176379 547182610 +
Mepo Mepo3g06762 Chr3 81372854 81378547 +
Mesa Mesa9g04282 Chr9 75758914 75764427 +
Phac Phac9g01112 Chr9 8688695 8694454 -
Phco Phco7g01650 Chr7 15955387 15960447 +
Pste Pste2g03659 Chr2 39590439 39596391 +
Pumo Pumo10g01601 Chr10 21044992 21049070 +
Pvu Pvu9g1439 Chr9 20470796 20476350 -
Rops Rops10g02302 Chr10 40788595 40793191 +
Seca Seca4g02059 Chr4 35061878 35066916 -
Spst Spst9g01671 Chr9 16962764 16967894 +
Trre Trre5g04206 Chr5 43732891 43740167 +
Vifa Vifa2g03103 Chr2 888060412 888065968 +
Vimu Vimu10g01926 Chr10 27755042 27760055 +
Viun Viun9g01875 Chr9 28557339 28562769 -
Vvi Vvi18g1403 Chr18 15160583 15161347 +
Vvi Vvi18g1404 Chr18 15773213 15774934 -
Vvi Vvi18g1405 Chr18 15784878 15786089 -
Aip Aip09g00053 Chr09 476420 477955 +
Bach Bach1g00143 Chr1 1749311 1750696 -
Car Car04g01030 Chr04 10473819 10475198 +
Gma Gma20g01655 Chr20 43647188 43648576 -
Gma Gma16g01428 Chr16 33304923 33306594 -
Lal Lal2g1030 Chr2 7077294 7078691 +
Lja Lja5g0835 Chr5 7935155 7937243 -
Mal Mal1g2889 Chr1 41321418 41322782 +
Mtr Mtr1g3537 Chr1 46945113 46946965 +
Phco Phco5g01110 Chr5 42520820 42522211 +
Psa Psa6g4254 Chr6 375502537 375504385 +
Pste Pste9g00897 Chr9 5016505 5017908 -
Pte Pte16g00432 Chr16 6237941 6239326 +
Pvu Pvu4g0905 Chr4 15408089 15409480 -
Rops Rops5g01212 Chr5 25943870 25945243 -
Tpr Tpr1g0964 Chr1 8335473 8337295 -
Tsu Tsu01g04188 Chr01 49772803 49774032 +
Vian Vian8g00822 Chr8 18362872 18364263 +
Vimu Vimu8g00113 Chr8 4314493 4315884 -
Viun Viun4g01646 Chr4 29839007 29840912 -
Gma Gma20g01655 Chr20 43647188 43648576 -
Lja Lja5g0835 Chr5 7935155 7937243 -