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
Vvi16g0639 . . . . . . . Aed11g1649 . Aev05g0902 . Ahy15g0964 . Aip05g00994 . . . . . Apr6g0837 . . . . . . . Bva07g00826 . . . Cca06g01721 . . . Dod02g1006 . . . . Gma16g01697 . . . Gso16g1665 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g2776 . . . . . . . . . . . . . . . . . . . Vra11g0350
Vvi16g0640 . . . . . . . . Aev04g3745 . Ahy13g1261 . Aip03g01380 . . . Amo13g1628 . Apr5g0670 . . . . . . . . Bva07g00277 . Car06g03123 Cca04g00050 . . . Dod03g2494 . . . . . Gma20g02023 . . . Gso20g1758 . . . Lal1g0015 . . . . . Lan13g0022 . . . . . . . . . . . . . . . . . Lja3g0044 . Mal7g1146 . . . . . . . Mtr4g1041 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g3304 . . Sto4g2511 Tpr4g1171 . . . Tsu06g00911 . . . . . . . . . . . Vra2g0049 .
Vvi16g0641 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0642 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00266 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g2444 . . . . . . . . . . . . . . . . . . .
Vvi16g0643 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0644 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0645 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0646 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0647 . . . . . Adu09g01776 . . . Aev09g1602 . Ahy19g1910 . Aip09g02225 . . . Amo19g2345 . . . Arst9g02351 . . . . Bva03g01551 . . . . . . . . Dod06g1497 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu7g01524 . Lasa6g02750 . . . . . . . . . . . . . Mepo4g03136 . Mesa1g03389 . . . . . . . Phco6g01992 . . . . . Pste4g00480 . . . Pte9g00249 . . . Pvu7g1165 . . . . . Spst10g00299 . . Sto10g2634 . . . . Trre1g03492 . . . . . . . Vimu3g02359 . . . Vivi1g06073 . .
Vvi16g0648 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g0639 Chr16 13107237 13108680 +
Aed Aed11g1649 Chr11 20360927 20363446 +
Aev Aev05g0902 Chr05 6368379 6376877 +
Ahy Ahy15g0964 Chr15 14595273 14596755 -
Aip Aip05g00994 Chr05 14108000 14109591 -
Apr Apr6g0837 Chr6 12821701 12824251 -
Bva Bva07g00826 Chr07 10301320 10303159 -
Cca Cca06g01721 Chr06 32532553 32534233 +
Dod Dod02g1006 Chr02 12740596 12742630 +
Gma Gma16g01697 Chr16 37922292 37924086 -
Gso Gso16g1665 Chr16 37275995 37277772 -
Ssu Ssu2g2776 Chr2 88533977 88535746 +
Vra Vra11g0350 Chr11 2514383 2517233 -
Vvi Vvi16g0640 Chr16 13169033 13189943 -
Aev Aev04g3745 Chr04 34738783 34747027 -
Ahy Ahy13g1261 Chr13 14725658 14733538 -
Aip Aip03g01380 Chr03 14214045 14221342 -
Amo Amo13g1628 Chr13 22170609 22177425 -
Apr Apr5g0670 Chr5 9196861 9204721 -
Bva Bva07g00277 Chr07 3975021 3990144 +
Car Car06g03123 Chr06 56663154 56669733 -
Cca Cca04g00050 Chr04 462455 473584 +
Dod Dod03g2494 Chr03 56471965 56482109 +
Gma Gma20g02023 Chr20 47471822 47473539 -
Gso Gso20g1758 Chr20 48248497 48250627 -
Lal Lal1g0015 Chr1 173395 180641 +
Lan Lan13g0022 Chr13 113308 120743 +
Lja Lja3g0044 Chr3 508954 517373 +
Mal Mal7g1146 Chr7 36118419 36129497 +
Mtr Mtr4g1041 Chr4 13420333 13429681 -
Ssu Ssu3g3304 Chr3 89669075 89680070 -
Sto Sto4g2511 Chr4 26470347 26486279 -
Tpr Tpr4g1171 Chr4 11205827 11215228 +
Tsu Tsu06g00911 Chr06 8184534 8193625 +
Vra Vra2g0049 Chr2 439328 448252 +
Vvi Vvi16g0641 Chr16 13202594 13212529 +
Vvi Vvi16g0642 Chr16 13216257 13234198 +
Bva Bva07g00266 Chr07 3878134 3887037 -
Sto Sto7g2444 Chr7 29935091 29951725 -
Vvi Vvi16g0643 Chr16 13239867 13244209 +
Vvi Vvi16g0644 Chr16 13248951 13249373 +
Vvi Vvi16g0645 Chr16 13259949 13281129 +
Vvi Vvi16g0646 Chr16 13303364 13305889 +
Vvi Vvi16g0647 Chr16 13310807 13327556 -
Adu Adu09g01776 Chr09 86473640 86476272 -
Aev Aev09g1602 Chr09 19994710 19998012 +
Ahy Ahy19g1910 Chr19 110132265 110135043 +
Aip Aip09g02225 Chr09 101905454 101908198 +
Amo Amo19g2345 Chr19 107067277 107070294 +
Arst Arst9g02351 Chr9 84342698 84345552 -
Bva Bva03g01551 Chr03 14494716 14497430 -
Dod Dod06g1497 Chr06 20059350 20062262 -
Lapu Lapu7g01524 Chr7 30696446 30699224 +
Lasa Lasa6g02750 Chr6 516391276 516393191 -
Mepo Mepo4g03136 Chr4 40674837 40677595 -
Mesa Mesa1g03389 Chr1 57675251 57677393 -
Phco Phco6g01992 Chr6 39562866 39565370 +
Pste Pste4g00480 Chr4 3638622 3641216 -
Pte Pte9g00249 Chr9 2829132 2831906 +
Pvu Pvu7g1165 Chr7 15078791 15081638 -
Spst Spst10g00299 Chr10 3026319 3028767 +
Sto Sto10g2634 Chr10 36626644 36629701 -
Trre Trre1g03492 Chr1 31353822 31357012 -
Vimu Vimu3g02359 Chr3 38062844 38065626 +
Vivi Vivi1g06073 Chr1 135229454 135231860 +
Vvi Vvi16g0648 Chr16 13342550 13344400 -
Adu Adu09g01776 Chr09 86473640 86476272 -
Aev Aev09g1602 Chr09 19994710 19998012 +
Ahy Ahy19g1910 Chr19 110132265 110135043 +
Aip Aip09g02225 Chr09 101905454 101908198 +
Amo Amo19g2345 Chr19 107067277 107070294 +
Arst Arst9g02351 Chr9 84342698 84345552 -
Dod Dod06g1497 Chr06 20059350 20062262 -
Lapu Lapu7g01524 Chr7 30696446 30699224 +
Lasa Lasa6g02750 Chr6 516391276 516393191 -
Mepo Mepo4g03136 Chr4 40674837 40677595 -
Mesa Mesa1g03389 Chr1 57675251 57677393 -
Phco Phco6g01992 Chr6 39562866 39565370 +
Pste Pste4g00480 Chr4 3638622 3641216 -
Pte Pte9g00249 Chr9 2829132 2831906 +
Pvu Pvu7g1165 Chr7 15078791 15081638 -
Spst Spst10g00299 Chr10 3026319 3028767 +
Sto Sto10g2634 Chr10 36626644 36629701 -
Trre Trre1g03492 Chr1 31353822 31357012 -
Vimu Vimu3g02359 Chr3 38062844 38065626 +
Vivi Vivi1g06073 Chr1 135229454 135231860 +