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
Vvi1g1491 . . . . Adu03g02847 . . . . . . . . . . . . . . . Arst3g03767 . . . . . Bva06g01716 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g03550 . Lasa7g04672 . . . . . . . . . . Lja4g0462 . Mal7g4883 Mepo2g04568 . . . . . . Mtr8g3413 Phac2g04304 . Phco4g03246 . . . . Psa7g0836 Pste3g01154 . . . . . Pumo6g00536 . Pvu2g2942 . Rops2g00606 . . . Spst3g01143 . . . . . . Tpr3g0686 Trre7g05383 . . Tsu02g00507 . . Vifa6g03447 . Vimu11g04356 . Viun3g00634 . Vivi5g05782 . . .
Vvi1g1492 . . . . . Adu04g03197 Aed3g0165 . . . . . . . . . . . Apr4g2655 . . Arst4g04185 . . . . Bva06g01715 Bva05g00069 . . Cca07g02387 . . . . . . . . . Gma02g00879 . . . Gso2g0806 . . . Lal6g1661 . . . . . Lan8g0112 . . . . . . Lapu1g01146 . Lasa3g00497 . . . . . . . . . . . . . Mepo3g00513 . Mesa25g04257 . . . . . Phac8g00256 . Phco3g03079 . . . . . Pste5g00378 . . . . . Pumo5g00569 . Pvu8g0175 . Rops8g00268 . Seca2g00274 . Spst1g01573 Ssu3g0214 . . . . . . Trre13g00465 . . . Vian2g00172 . Vifa1g00735 . Vimu6g01188 . Viun5g00261 . . Vra4g1238 .
Vvi1g1493 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1494 . . . . . Adu04g03199 Aed3g0164 . . . . . . . . . . . Apr4g2656 . . Arst4g04188 . . . . Bva06g01714 Bva05g00070 . . Cca07g02388 . . . . . . . . . Gma02g00878 . . . Gso2g0805 . . . Lal6g1662 . . . . . Lan8g0111 . . . . . . Lapu1g01145 Lasa6g05035 Lasa3g00498 . . . . . . . . . . . . . Mepo3g00514 . Mesa25g04256 . . . . . . Phco6g03230 Phco3g03081 . . . . Pste4g00040 Pste5g00377 . . . . Pumo3g00021 Pumo5g00568 Pvu7g0012 Pvu8g0174 Rops6g03633 Rops8g00267 Seca8g08257 Seca2g00272 Spst10g01739 Spst1g01574 Ssu3g0213 . Sto3g2738 . . . . Trre13g00466 . . Vian3g00011 Vian2g00171 . Vifa1g00739 . Vimu6g01189 Viun7g04231 Viun5g00260 . . Vra4g1239 .
Vvi1g1495 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1496 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01713 Bva05g00073 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g2737 . . . . . . . . . . . . . . . . . . .
Vvi1g1497 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1498 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g1499 . . . . . . Aed3g0163 . . . . . . . . . . . Apr4g2657 . . . . . . . . . . . Cca07g02389 . . . . . . . . . . . . . . . . . Lal6g1663 . . . . . Lan8g0110 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g0212 . . . . . . . . . . . . . . . . . . . Vra4g1240 .
Vvi1g1500 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g1491 Chr1 21460284 21461385 -
Adu Adu03g02847 Chr03 107652224 107652912 -
Arst Arst3g03767 Chr3 106378370 106379110 -
Bva Bva06g01716 Chr06 11975639 11976877 +
Lapu Lapu3g03550 Chr3 58953641 58954507 +
Lasa Lasa7g04672 Chr7 678591401 678591956 +
Lja Lja4g0462 Chr4 3741813 3742519 -
Mal Mal7g4883 Chr7 117419161 117419891 +
Mepo Mepo2g04568 Chr2 54136413 54137437 +
Mtr Mtr8g3413 Chr8 44722094 44723467 +
Phac Phac2g04304 Chr2 41500130 41500903 +
Phco Phco4g03246 Chr4 53127301 53128042 +
Psa Psa7g0836 Chr7 60659624 60660196 +
Pste Pste3g01154 Chr3 7353252 7354474 -
Pumo Pumo6g00536 Chr6 6687840 6688979 -
Pvu Pvu2g2942 Chr2 44960603 44961321 +
Rops Rops2g00606 Chr2 8618336 8620074 -
Spst Spst3g01143 Chr3 14806499 14807056 -
Tpr Tpr3g0686 Chr3 6603705 6604766 -
Trre Trre7g05383 Chr7 59911778 59912693 +
Tsu Tsu02g00507 Chr02 4243431 4244323 -
Vifa Vifa6g03447 Chr6 1137149726 1137150320 +
Vimu Vimu11g04356 Chr11 64899331 64899999 +
Viun Viun3g00634 Chr3 3860510 3861525 -
Vivi Vivi5g05782 Chr5 161696221 161697076 +
Vvi Vvi1g1492 Chr1 21479677 21484613 +
Adu Adu04g03197 Chr04 120080117 120084600 +
Aed Aed3g0165 Chr3 1187690 1194763 -
Apr Apr4g2655 Chr4 35291798 35298858 +
Arst Arst4g04185 Chr4 120043206 120048870 +
Bva Bva06g01715 Chr06 11965996 11972601 -
Bva Bva05g00069 Chr05 351770 358255 +
Cca Cca07g02387 Chr07 52552306 52559188 +
Gma Gma02g00879 Chr02 8845558 8851266 -
Gso Gso2g0806 Chr2 8648508 8654606 -
Lal Lal6g1661 Chr6 19390944 19397838 +
Lan Lan8g0112 Chr8 1817035 1823977 -
Lapu Lapu1g01146 Chr1 24430267 24436335 -
Lasa Lasa3g00497 Chr3 34922653 34929625 +
Mepo Mepo3g00513 Chr3 7330761 7340860 +
Mesa Mesa25g04257 Chr25 76555606 76564776 -
Phac Phac8g00256 Chr8 1513105 1519754 -
Phco Phco3g03079 Chr3 56923751 56927231 +
Pste Pste5g00378 Chr5 2522282 2534760 -
Pumo Pumo5g00569 Chr5 11418979 11425224 -
Pvu Pvu8g0175 Chr8 1459744 1466135 -
Rops Rops8g00268 Chr8 5396759 5403413 -
Seca Seca2g00274 Chr2 3865002 3869145 -
Spst Spst1g01573 Chr1 19591073 19597162 +
Ssu Ssu3g0214 Chr3 3805672 3812310 -
Trre Trre13g00465 Chr13 3650521 3660284 +
Vian Vian2g00172 Chr2 1642834 1649161 -
Vifa Vifa1g00735 Chr1 122837834 122844992 +
Vimu Vimu6g01188 Chr6 12129635 12131015 +
Viun Viun5g00261 Chr5 1498019 1504513 -
Vra Vra4g1238 Chr4 19356421 19362948 +
Vvi Vvi1g1493 Chr1 21487801 21488646 +
Vvi Vvi1g1494 Chr1 21491572 21495686 -
Adu Adu04g03199 Chr04 120097195 120100943 +
Aed Aed3g0164 Chr3 1182158 1185429 -
Apr Apr4g2656 Chr4 35302575 35305100 +
Arst Arst4g04188 Chr4 120060189 120064414 +
Bva Bva06g01714 Chr06 11961881 11964540 +
Bva Bva05g00070 Chr05 360289 362709 -
Cca Cca07g02388 Chr07 52566472 52570098 +
Gma Gma02g00878 Chr02 8834928 8837485 -
Gso Gso2g0805 Chr2 8638055 8640889 -
Lal Lal6g1662 Chr6 19403988 19409277 +
Lan Lan8g0111 Chr8 1806136 1811090 -
Lapu Lapu1g01145 Chr1 24421535 24424096 -
Lasa Lasa6g05035 Chr6 682263349 682264206 -
Lasa Lasa3g00498 Chr3 35225995 35228735 +
Mepo Mepo3g00514 Chr3 7357327 7362458 +
Mesa Mesa25g04256 Chr25 76531416 76534180 -
Phco Phco6g03230 Chr6 52760997 52766379 -
Phco Phco3g03081 Chr3 56934190 56937351 +
Pste Pste4g00040 Chr4 441159 450915 +
Pste Pste5g00377 Chr5 2513944 2515292 -
Pumo Pumo3g00021 Chr3 411029 414237 +
Pumo Pumo5g00568 Chr5 11410350 11413036 -
Pvu Pvu7g0012 Chr7 68225 70429 +
Pvu Pvu8g0174 Chr8 1451403 1454135 -
Rops Rops6g03633 Chr6 61398605 61402358 -
Rops Rops8g00267 Chr8 5383600 5386193 -
Seca Seca8g08257 Chr8 180300096 180303188 -
Seca Seca2g00272 Chr2 3847269 3850181 -
Spst Spst10g01739 Chr10 17815946 17817443 -
Spst Spst1g01574 Chr1 19600715 19603986 +
Ssu Ssu3g0213 Chr3 3788791 3790967 -
Sto Sto3g2738 Chr3 32067576 32109641 +
Trre Trre13g00466 Chr13 3665891 3670001 +
Vian Vian3g00011 Chr3 71189 72712 +
Vian Vian2g00171 Chr2 1633150 1635253 -
Vifa Vifa1g00739 Chr1 123715207 123717660 +
Vimu Vimu6g01189 Chr6 12138654 12140691 +
Viun Viun7g04231 Chr7 40726439 40728440 -
Viun Viun5g00260 Chr5 1490419 1493036 -
Vra Vra4g1239 Chr4 19369829 19372321 +
Vvi Vvi1g1495 Chr1 21502270 21502653 +
Vvi Vvi1g1496 Chr1 21505393 21506196 -
Bva Bva06g01713 Chr06 11956234 11957425 +
Bva Bva05g00073 Chr05 369083 370383 -
Sto Sto3g2737 Chr3 32061501 32062220 +
Vvi Vvi1g1497 Chr1 21510427 21511347 -
Vvi Vvi1g1498 Chr1 21536566 21536901 +
Vvi Vvi1g1499 Chr1 21548753 21549088 +
Aed Aed3g0163 Chr3 1177186 1180609 -
Apr Apr4g2657 Chr4 35310406 35316544 +
Cca Cca07g02389 Chr07 52578945 52581876 +
Lal Lal6g1663 Chr6 19412989 19416122 +
Lan Lan8g0110 Chr8 1795070 1798454 -
Ssu Ssu3g0212 Chr3 3770504 3770815 -
Vra Vra4g1240 Chr4 19390672 19393719 +
Vvi Vvi1g1500 Chr1 21560438 21561337 +
Lal Lal6g1663 Chr6 19412989 19416122 +
Lan Lan8g0110 Chr8 1795070 1798454 -