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
Vvi3g0203 . . . . Adu09g02850 . Aed1g1778 . Aev09g2699 . Ahy19g3073 . Aip09g03534 . . . Amo19g3937 . Apr8g2643 . Arst9g03804 . . . . . . Bva14g02349 . . Cca02g02737 . . . Dod06g0280 . . . . . . . . . . . . . . . . Lal13g0237 . . . . . . . . Lapu7g02496 . Lasa6g04771 . . . . . . . . . . . . Mal1g0231 Mepo4g04844 . Mesa1g05248 . . . . Mtr1g4303 . . Phco6g03037 . . . . . Pste4g00462 . Pte18g00496 . . . Pumo3g00203 . Pvu7g0192 . Rops6g03400 . Seca8g07994 . Spst10g01545 . Ssu7g0234 . . Sto10g0056 . Tpr1g0208 Trre1g06153 . . Tsu01g04978 Vian3g00187 . . . Vimu3g03661 . Viun7g03956 . . . Vra8g2634 .
Vvi3g0204 . . . . Adu09g02851 . Aed1g1777 . . . . . . . . . . . Apr8g2644 . Arst9g03805 . . . . . . Bva14g02351 . . Cca02g02739 . . . . . . . . . . . . . . . . . . . . Lal13g0238 . . . . . . . . Lapu7g02497 . Lasa6g04774 . . . . . . . . . . . . Mal1g0230 Mepo4g04845 . . . . . . Mtr1g4304 . . Phco6g03038 . . . . . . . . . . . Pumo3g00202 . Pvu7g0191 . Rops6g03401 . Seca8g07996 . Spst10g01546 . Ssu7g0232 . . . . Tpr1g0207 Trre1g06155 . . Tsu01g04979 . . . . . . Viun7g03958 . . . . .
Vvi3g0205 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g1023 . . . . . . . . . . . . . . . . . . .
Vvi3g0206 . . . . Adu09g02852 . . . Aev09g2701 . Ahy19g3071 . Aip09g03532 . . . Amo19g3935 . Apr8g2645 . Arst9g03806 . . . . . . Bva14g02352 . . . . . . Dod06g0282 . . . . . . . . . . . . . . . . Lal13g0239 . . . . . . . . Lapu7g02498 . Lasa6g04775 Lasa7g03849 . . . . . . . . . . . Mal1g0229 Mepo4g04846 . Mesa1g05250 . . . . Mtr1g4306 . Phac2g02855 . Phco4g02130 . . . . Pste4g00457 . Pte18g00497 . . . . . Pvu7g0190 Pvu2g1887 . . . . . . . . Sto2g1028 . . Tpr1g0206 Trre1g06159 . . Tsu01g04980 . . . . Vimu3g03663 Vimu11g01694 . . . Vivi5g04608 . .
Vvi3g0207 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g02353 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0054 . . . . . . . . . . . . . . . . . .
Vvi3g0208 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0209 . . . . Adu09g02853 . Aed1g1775 . . . Ahy19g3070 . Aip09g03531 . . . Amo19g3932 . Apr8g2647 . Arst9g03808 . . . . . . Bva14g02355 . . Cca02g02740 . . . Dod06g0283 . . . . . . . . . . . . . . . . Lal13g0241 . . . . . . . . Lapu7g02499 . . . . . . . . . . . . . . Mal1g0226 Mepo4g04848 . Mesa1g05252 . . . . Mtr1g4310 . . Phco6g03039 . . . . . Pste4g00456 . . . . . Pumo3g00201 . Pvu7g0189 . Rops6g03403 . Seca8g07998 . Spst10g01547 . Ssu7g0231 . Sto2g1392 . . Tpr1g0203 Trre1g06162 . . Tsu01g04982 Vian3g00186 . . . Vimu3g03665 . Viun7g03960 . Vivi1g03446 . Vra8g2636 .
Vvi3g0210 . . . . Adu09g02854 . Aed1g1773 . Aev09g2703 . Ahy19g3069 . Aip09g03530 . . . Amo19g3931 . Apr8g2648 . Arst9g03809 . . . . . . Bva14g02356 . . Cca02g02741 . . . Dod06g0284 . . . . . . . . . . . . . . . . Lal13g0243 . . . . . . . . . . . . . . . . . . . . . . . Mal1g0225 Mepo4g04850 . Mesa1g05257 . . . . Mtr1g4311 Phac7g00296 . Phco6g03041 . . . Psa6g5318 . . . . . . . . . Pvu7g0188 . Rops6g03405 . Seca8g08002 . . . Ssu7g0230 . . . . . Trre1g06163 . . . Vian3g00185 . . . Vimu3g03666 . Viun7g03962 . Vivi1g03445 . Vra8g2637 .
Vvi3g0211 . . . . Adu09g02855 . . . Aev09g2705 . Ahy19g3066 . Aip09g03528 . . . Amo19g3929 . Apr8g2649 . Arst9g03811 . . . . . . . . . . . . . Dod06g0286 . . . . . . . . . . . . . . . . . Lal12g0268 . . . . . . . Lapu7g02501 . . . . . . . . . . . . . . Mal1g0224 Mepo4g04852 . Mesa1g05259 . . . . Mtr1g4312 Phac7g00289 . Phco6g03042 . . . Psa6g5320 . Pste4g00431 . . . . . . . Pvu7g0187 . . . . . Spst10g01548 . . . Sto2g1066 . . Tpr1g0202 Trre1g06166 . . . . . . . Vimu3g03667 . . . . . . .
Vvi3g0212 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0203 Chr3 1771005 1775813 +
Adu Adu09g02850 Chr09 116179123 116183001 +
Aed Aed1g1778 Chr1 15255596 15258915 -
Aev Aev09g2699 Chr09 27874697 27877049 +
Ahy Ahy19g3073 Chr19 153499584 153503772 -
Aip Aip09g03534 Chr09 142024479 142028570 -
Amo Amo19g3937 Chr19 155087873 155091752 -
Apr Apr8g2643 Chr8 36230232 36232865 +
Arst Arst9g03804 Chr9 114076335 114079385 +
Bva Bva14g02349 Chr14 20249842 20252339 +
Cca Cca02g02737 Chr02 48806917 48810540 +
Dod Dod06g0280 Chr06 3790237 3792974 +
Lal Lal13g0237 Chr13 1506269 1509697 +
Lapu Lapu7g02496 Chr7 41361240 41363784 +
Lasa Lasa6g04771 Chr6 668238160 668240736 -
Mal Mal1g0231 Chr1 2589018 2591707 -
Mepo Mepo4g04844 Chr4 57788448 57791242 +
Mesa Mesa1g05248 Chr1 79746058 79748637 +
Mtr Mtr1g4303 Chr1 54718702 54722106 +
Phco Phco6g03037 Chr6 51438053 51440724 +
Pste Pste4g00462 Chr4 3504579 3507331 -
Pte Pte18g00496 Chr18 10713158 10715569 +
Pumo Pumo3g00203 Chr3 2603799 2606941 -
Pvu Pvu7g0192 Chr7 1302339 1304539 -
Rops Rops6g03400 Chr6 58609368 58612609 +
Seca Seca8g07994 Chr8 177537089 177540330 +
Spst Spst10g01545 Chr10 16062117 16065659 +
Ssu Ssu7g0234 Chr7 3805148 3806298 -
Sto Sto10g0056 Chr10 443939 446153 -
Tpr Tpr1g0208 Chr1 1701696 1704957 -
Trre Trre1g06153 Chr1 65422702 65425489 +
Tsu Tsu01g04978 Chr01 56600263 56603000 +
Vian Vian3g00187 Chr3 1586864 1589141 -
Vimu Vimu3g03661 Chr3 49238284 49241414 +
Viun Viun7g03956 Chr7 39299245 39301598 +
Vra Vra8g2634 Chr8 44226951 44229988 +
Vvi Vvi3g0204 Chr3 1776069 1776780 -
Adu Adu09g02851 Chr09 116183362 116184865 -
Aed Aed1g1777 Chr1 15252688 15253341 +
Apr Apr8g2644 Chr8 36235633 36236329 -
Arst Arst9g03805 Chr9 114080222 114081304 -
Bva Bva14g02351 Chr14 20256113 20257496 -
Cca Cca02g02739 Chr02 48834310 48835014 -
Lal Lal13g0238 Chr13 1510043 1510805 -
Lapu Lapu7g02497 Chr7 41364753 41365416 -
Lasa Lasa6g04774 Chr6 668342428 668343232 -
Mal Mal1g0230 Chr1 2582768 2583551 +
Mepo Mepo4g04845 Chr4 57801941 57802893 -
Mtr Mtr1g4304 Chr1 54724886 54725843 -
Phco Phco6g03038 Chr6 51443110 51443805 -
Pumo Pumo3g00202 Chr3 2598155 2598974 +
Pvu Pvu7g0191 Chr7 1300971 1301825 +
Rops Rops6g03401 Chr6 58616724 58625718 -
Seca Seca8g07996 Chr8 177557657 177558661 -
Spst Spst10g01546 Chr10 16066136 16066736 -
Ssu Ssu7g0232 Chr7 3797963 3798544 +
Tpr Tpr1g0207 Chr1 1698487 1699603 +
Trre Trre1g06155 Chr1 65432542 65433363 -
Tsu Tsu01g04979 Chr01 56606753 56607710 -
Viun Viun7g03958 Chr7 39301711 39302524 -
Vvi Vvi3g0205 Chr3 1778145 1778803 +
Sto Sto2g1023 Chr2 9048249 9048659 +
Vvi Vvi3g0206 Chr3 1787940 1793189 -
Adu Adu09g02852 Chr09 116185792 116192337 -
Aev Aev09g2701 Chr09 27880972 27886144 -
Ahy Ahy19g3071 Chr19 153489881 153496302 +
Aip Aip09g03532 Chr09 142014748 142021229 +
Amo Amo19g3935 Chr19 155078019 155084585 +
Apr Apr8g2645 Chr8 36238852 36246946 -
Arst Arst9g03806 Chr9 114082181 114088799 -
Bva Bva14g02352 Chr14 20260599 20269409 -
Dod Dod06g0282 Chr06 3799567 3806229 -
Lal Lal13g0239 Chr13 1511445 1520014 -
Lapu Lapu7g02498 Chr7 41367214 41376064 -
Lasa Lasa6g04775 Chr6 668360899 668366411 -
Lasa Lasa7g03849 Chr7 619514289 619515233 +
Mal Mal1g0229 Chr1 2572756 2578903 +
Mepo Mepo4g04846 Chr4 57805056 57811970 -
Mesa Mesa1g05250 Chr1 79757849 79763676 -
Mtr Mtr1g4306 Chr1 54731567 54738747 -
Phac Phac2g02855 Chr2 30134974 30139699 +
Phco Phco4g02130 Chr4 41807414 41811254 +
Pste Pste4g00457 Chr4 3480058 3490878 +
Pte Pte18g00497 Chr18 10716769 10724010 -
Pvu Pvu7g0190 Chr7 1290400 1297874 +
Pvu Pvu2g1887 Chr2 33668230 33672442 +
Sto Sto2g1028 Chr2 9079956 9086956 -
Tpr Tpr1g0206 Chr1 1689855 1696957 +
Trre Trre1g06159 Chr1 65460331 65464383 -
Tsu Tsu01g04980 Chr01 56609435 56614805 -
Vimu Vimu3g03663 Chr3 49244255 49251433 -
Vimu Vimu11g01694 Chr11 21902973 21907035 -
Vivi Vivi5g04608 Chr5 144611751 144615711 -
Vvi Vvi3g0207 Chr3 1795841 1800941 +
Bva Bva14g02353 Chr14 20270687 20273122 +
Sto Sto10g0054 Chr10 436285 438292 -
Vvi Vvi3g0208 Chr3 1802067 1806216 -
Vvi Vvi3g0209 Chr3 1807914 1808417 -
Adu Adu09g02853 Chr09 116195271 116200189 -
Aed Aed1g1775 Chr1 15239776 15241377 +
Ahy Ahy19g3070 Chr19 153472952 153478532 +
Aip Aip09g03531 Chr09 141999035 142004355 +
Amo Amo19g3932 Chr19 155054401 155066292 +
Apr Apr8g2647 Chr8 36258288 36262381 -
Arst Arst9g03808 Chr9 114103555 114106357 -
Bva Bva14g02355 Chr14 20277276 20285098 -
Cca Cca02g02740 Chr02 48838292 48857698 -
Dod Dod06g0283 Chr06 3812442 3819280 -
Lal Lal13g0241 Chr13 1523524 1530762 -
Lapu Lapu7g02499 Chr7 41376331 41380231 -
Mal Mal1g0226 Chr1 2542123 2545053 +
Mepo Mepo4g04848 Chr4 57817784 57821609 -
Mesa Mesa1g05252 Chr1 79772323 79776594 -
Mtr Mtr1g4310 Chr1 54773222 54778042 -
Phco Phco6g03039 Chr6 51448119 51459956 -
Pste Pste4g00456 Chr4 3458013 3460838 +
Pumo Pumo3g00201 Chr3 2584578 2594456 +
Pvu Pvu7g0189 Chr7 1283862 1286857 +
Rops Rops6g03403 Chr6 58649696 58651986 -
Seca Seca8g07998 Chr8 177572661 177577721 -
Spst Spst10g01547 Chr10 16085115 16108233 -
Ssu Ssu7g0231 Chr7 3785130 3793979 +
Sto Sto2g1392 Chr2 15031851 15039751 -
Tpr Tpr1g0203 Chr1 1671550 1673922 +
Trre Trre1g06162 Chr1 65476749 65478749 -
Tsu Tsu01g04982 Chr01 56627364 56651031 -
Vian Vian3g00186 Chr3 1575463 1583475 +
Vimu Vimu3g03665 Chr3 49253659 49255619 -
Viun Viun7g03960 Chr7 39320513 39323032 -
Vivi Vivi1g03446 Chr1 74013665 74023700 -
Vra Vra8g2636 Chr8 44241530 44244054 -
Vvi Vvi3g0210 Chr3 1816268 1822049 -
Adu Adu09g02854 Chr09 116207084 116216032 -
Aed Aed1g1773 Chr1 15233697 15236120 +
Aev Aev09g2703 Chr09 27890270 27892346 -
Ahy Ahy19g3069 Chr19 153461534 153464573 +
Aip Aip09g03530 Chr09 141982007 141990353 +
Amo Amo19g3931 Chr19 155046184 155049622 +
Apr Apr8g2648 Chr8 36269908 36273843 -
Arst Arst9g03809 Chr9 114109059 114112561 -
Bva Bva14g02356 Chr14 20289241 20293017 -
Cca Cca02g02741 Chr02 48863959 48866555 -
Dod Dod06g0284 Chr06 3830864 3833790 -
Lal Lal13g0243 Chr13 1532437 1532745 -
Mal Mal1g0225 Chr1 2533495 2535810 +
Mepo Mepo4g04850 Chr4 57868581 57871766 -
Mesa Mesa1g05257 Chr1 79842664 79845496 -
Mtr Mtr1g4311 Chr1 54778672 54781013 -
Phac Phac7g00296 Chr7 1396404 1401027 +
Phco Phco6g03041 Chr6 51464703 51467617 -
Psa Psa6g5318 Chr6 466202684 466211074 +
Pvu Pvu7g0188 Chr7 1273717 1276133 +
Rops Rops6g03405 Chr6 58655668 58670029 -
Seca Seca8g08002 Chr8 177612892 177617964 -
Ssu Ssu7g0230 Chr7 3767008 3775326 +
Trre Trre1g06163 Chr1 65485581 65488448 -
Vian Vian3g00185 Chr3 1572620 1574152 +
Vimu Vimu3g03666 Chr3 49284798 49286590 -
Viun Viun7g03962 Chr7 39341874 39343893 -
Vivi Vivi1g03445 Chr1 74013662 74023702 -
Vra Vra8g2637 Chr8 44261362 44263160 -
Vvi Vvi3g0211 Chr3 1825292 1843230 -
Adu Adu09g02855 Chr09 116229125 116236138 -
Aev Aev09g2705 Chr09 27897905 27904278 -
Ahy Ahy19g3066 Chr19 153443536 153450627 +
Aip Aip09g03528 Chr09 141969889 141976398 +
Amo Amo19g3929 Chr19 155034160 155041326 +
Apr Apr8g2649 Chr8 36275329 36284011 -
Arst Arst9g03811 Chr9 114125558 114132539 -
Dod Dod06g0286 Chr06 3842953 3851103 -
Lal Lal12g0268 Chr12 1911775 1919064 -
Lapu Lapu7g02501 Chr7 41388033 41399389 -
Mal Mal1g0224 Chr1 2521896 2531725 +
Mepo Mepo4g04852 Chr4 57875659 57883606 -
Mesa Mesa1g05259 Chr1 79850790 79858601 -
Mtr Mtr1g4312 Chr1 54781178 54790057 -
Phac Phac7g00289 Chr7 1386160 1395513 +
Phco Phco6g03042 Chr6 51467878 51477491 -
Psa Psa6g5320 Chr6 466406870 466418101 -
Pste Pste4g00431 Chr4 3341361 3355530 +
Pvu Pvu7g0187 Chr7 1263215 1272623 +
Spst Spst10g01548 Chr10 16109733 16113110 -
Sto Sto2g1066 Chr2 9321316 9329173 -
Tpr Tpr1g0202 Chr1 1660974 1671296 +
Trre Trre1g06166 Chr1 65492548 65501005 -
Vimu Vimu3g03667 Chr3 49287683 49296520 -
Vvi Vvi3g0212 Chr3 1843279 1845191 -