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
Vvi16g1119 . . . . . . . . Aev08g0825 . . . Aip07g02854 . . . Amo17g2539 . Apr1g0698 . . . . . . . Bva12g01976 . . . . . . . . . . . . . . . . . . . . . . Lal4g0477 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g1853 . . . . . . . . . Pvu9g0561 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1120 . Acco05g2064 . Accr3g00927 . Adu06g03021 . . . . . Ahy16g2772 . Aip06g03124 . Alju07g2029 . Amo16g3541 . . . Arst6g03919 . Bach3g02119 . Bisa05g0084 . . . . . . . Dere05g1772 . Dod08g1463 . Enph7g0819 . Glsi10g0497 . . . . . . . . . . . . . . . . . . . . . Lapu8g00773 . Lasa6g00418 . . . . Lele25g0773 . Lele27g1302 . . . . . . Mepo4g00411 . Mesa1g00448 . Mibi08g1787 . . . . . Phco2g00403 . Prci2g1237 . . . Pste8g00584 . . . . . Pumo9g00416 . Pvu1g0349 . Rops9g02071 . . . Spst8g02327 . . . . . . . Trre1g00497 . . . Vian7g00603 . Vifa3g04113 . Vimu1g02844 . Viun8g00489 . Vivi4g05404 . .
Vvi16g1121 . . . . . Adu06g03004 . . . . . Ahy16g2773 . Aip06g03125 . . . Amo16g3542 . . . . . . . . . . . . . . . . . Dod08g1465 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu9g0560 Pvu1g0370 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1122 . . . . Adu08g00458 . Aed1g2365 . . Aev09g2120 Ahy15g3684 Ahy19g2791 Aip05g03999 Aip09g03257 Alju08g0268 . . Amo19g3562 . . . . . . . . . . . . Cca02g02150 . . . . Dod06g0904 Enph1g1802 . . . Gma10g02136 . . . Gso10g1999 . . . . . . Lal24g0079 Lal12g0095 Lal13g0074 . . . . . . . . . . . . . . . . . . Lja2g2781 Lja5g0735 Mal1g2174 . . . . . . . Mtr1g3637 . . . . . Prci15g0327 . Psa6g4385 Psa6g0890 . . . . . . . . Pvu9g0559 . . . . . . . Ssu7g0920 . . . Tpr1g0863 . . . Tsu01g04290 . . . . . . . . . Vivi4g04698 . Vra8g2118 .
Vvi16g1123 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1124 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g01970 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1125 . . . . . Adu06g02981 . . Aev08g0820 . Ahy17g2634 . Aip07g02849 . . . . . Apr1g0692 . . Arst6g03866 . . . . Bva12g01969 . . . . . . . . . . . . . . . . . . . . . . Lal4g0480 . . . . . . . . . . . Lapu8g00728 . Lasa6g00472 . . . . . . . . Lja1g4867 . . . . Mepo4g00478 . Mesa1g00514 . . . . . . . Phco2g00456 . . Psa5g1816 . . . . . Pte3g01248 . . Pumo9g00467 . Pvu1g0397 . Rops9g02025 . Seca8g03361 . . . . . Sto5g1245 . . . Trre1g00548 . . . Vian7g00556 . Vifa3g04115 . Vimu1g02784 . Viun8g00579 . Vivi4g05335 . .
Vvi16g1126 . . . . . . . Aed11g1779 . . . . . . . . . . . . . Arst10g02422 . . . . Bva12g01968 . . . . Cca06g01852 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00505 . . . . . Pste8g00294 . . . . . Pumo9g00532 . Pvu1g0442 . Rops9g02013 . . . Spst8g01850 . Ssu2g2940 . . . . . . . . . Vian7g00506 . Vifa3g04663 . Vimu1g02717 . . . . . Vra11g0228
Vvi16g1127 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1128 . . . . . . . . . . . . . Aip06g03838 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aed Aed11g1779 Chr11 21178563 21179676 -
Cca Cca06g01852 Chr06 33935943 33937574 -
Ssu Ssu2g2940 Chr2 90836129 90837899 -
Vra Vra11g0228 Chr11 1518850 1524160 +
Acco Acco05g2064 Chr05 36958664 36959227 -
Accr Accr3g00927 Chr3 10349352 10349915 +
Adu Adu06g03021 Chr06 108268267 108269028 +
Alju Alju07g2029 Chr07 46550341 46550907 -
Arst Arst6g03919 Chr6 107466971 107467770 +
Bach Bach3g02119 Chr3 28510134 28510721 +
Bisa Bisa05g0084 Chr05 1254335 1254937 +
Dere Dere05g1772 Chr05 27514994 27518342 -
Enph Enph7g0819 Chr7 14050789 14051349 -
Glsi Glsi10g0497 Chr10 3180044 3180610 -
Lapu Lapu8g00773 Chr8 25790681 25791244 +
Lasa Lasa6g00418 Chr6 13089143 13089730 -
Lele Lele25g0773 Chr25 4928598 4929164 +
Lele Lele27g1302 Chr27 19756286 19756960 -
Mepo Mepo4g00411 Chr4 6058634 6059280 -
Mesa Mesa1g00448 Chr1 5724377 5724946 -
Mibi Mibi08g1787 Chr08 34668435 34669118 -
Phco Phco2g00403 Chr2 3465544 3467862 -
Prci Prci2g1237 Chr2 9192973 9194086 +
Pste Pste8g00584 Chr8 3013863 3014435 +
Pumo Pumo9g00416 Chr9 6562236 6562812 -
Pvu Pvu1g0349 Chr1 3323917 3324480 -
Rops Rops9g02071 Chr9 38066479 38067368 +
Spst Spst8g02327 Chr8 34300106 34300669 -
Trre Trre1g00497 Chr1 3713418 3713996 -
Vian Vian7g00603 Chr7 13934117 13934686 +
Vifa Vifa3g04113 Chr3 1213356394 1213357471 -
Vimu Vimu1g02844 Chr1 40740864 40741902 +
Viun Viun8g00489 Chr8 3538746 3539927 -
Vivi Vivi4g05404 Chr4 187734595 187735493 +
Vivi Vivi4g05404 Chr4 187734595 187735493 +
Arst Arst10g02422 Chr10 85356343 85359843 +
Phco Phco2g00505 Chr2 4641865 4646308 +
Pste Pste8g00294 Chr8 1609277 1614387 -
Pumo Pumo9g00532 Chr9 8499219 8508035 +
Pvu Pvu1g0442 Chr1 4495045 4500430 +
Rops Rops9g02013 Chr9 37158277 37163325 -
Spst Spst8g01850 Chr8 22545973 22550396 -
Vian Vian7g00506 Chr7 12436677 12440727 -
Vifa Vifa3g04663 Chr3 1338720751 1338722939 -
Vimu Vimu1g02717 Chr1 39200352 39203567 -
Adu Adu06g02981 Chr06 107721240 107725824 -
Arst Arst6g03866 Chr6 106919564 106924599 -
Lapu Lapu8g00728 Chr8 25257975 25264291 -
Lasa Lasa6g00472 Chr6 14477732 14480858 +
Mepo Mepo4g00478 Chr4 6763979 6769329 +
Mesa Mesa1g00514 Chr1 6547532 6559368 +
Phco Phco2g00456 Chr2 4102191 4105905 +
Pte Pte3g01248 Chr3 10644535 10647488 -
Pumo Pumo9g00467 Chr9 7325134 7330303 +
Pvu Pvu1g0397 Chr1 3969668 3974389 +
Rops Rops9g02025 Chr9 37328723 37332930 -
Seca Seca8g03361 Chr8 96539485 96544357 -
Trre Trre1g00548 Chr1 4143522 4147505 +
Vian Vian7g00556 Chr7 13204608 13207863 -
Vifa Vifa3g04115 Chr3 1213951133 1213952915 -
Vimu Vimu1g02784 Chr1 40110298 40114698 -
Viun Viun8g00579 Chr8 4212937 4216820 +
Vivi Vivi4g05335 Chr4 186359779 186363976 -
Arst Arst10g02422 Chr10 85356343 85359843 +
Vvi Vvi16g1119 Chr16 19589104 19599879 -
Aev Aev08g0825 Chr08 4805745 4809813 -
Aip Aip07g02854 Chr07 114295847 114302904 -
Amo Amo17g2539 Chr17 123850913 123854957 -
Apr Apr1g0698 Chr1 8323549 8328282 -
Bva Bva12g01976 Chr12 15650328 15659915 -
Lal Lal4g0477 Chr4 3383537 3388765 +
Psa Psa5g1853 Chr5 142044878 142051371 -
Pvu Pvu9g0561 Chr9 10114541 10120532 +
Vvi Vvi16g1120 Chr16 19637193 19640461 +
Acco Acco05g2064 Chr05 36958664 36959227 -
Accr Accr3g00927 Chr3 10349352 10349915 +
Adu Adu06g03021 Chr06 108268267 108269028 +
Ahy Ahy16g2772 Chr16 140804971 140808321 -
Aip Aip06g03124 Chr06 126685822 126689137 -
Alju Alju07g2029 Chr07 46550341 46550907 -
Amo Amo16g3541 Chr16 145403979 145407433 -
Arst Arst6g03919 Chr6 107466971 107467770 +
Bach Bach3g02119 Chr3 28510134 28510721 +
Bisa Bisa05g0084 Chr05 1254335 1254937 +
Dere Dere05g1772 Chr05 27514994 27518342 -
Dod Dod08g1463 Chr08 29631995 29635887 +
Enph Enph7g0819 Chr7 14050789 14051349 -
Glsi Glsi10g0497 Chr10 3180044 3180610 -
Lapu Lapu8g00773 Chr8 25790681 25791244 +
Lasa Lasa6g00418 Chr6 13089143 13089730 -
Lele Lele25g0773 Chr25 4928598 4929164 +
Lele Lele27g1302 Chr27 19756286 19756960 -
Mepo Mepo4g00411 Chr4 6058634 6059280 -
Mesa Mesa1g00448 Chr1 5724377 5724946 -
Mibi Mibi08g1787 Chr08 34668435 34669118 -
Phco Phco2g00403 Chr2 3465544 3467862 -
Prci Prci2g1237 Chr2 9192973 9194086 +
Pste Pste8g00584 Chr8 3013863 3014435 +
Pumo Pumo9g00416 Chr9 6562236 6562812 -
Pvu Pvu1g0349 Chr1 3323917 3324480 -
Rops Rops9g02071 Chr9 38066479 38067368 +
Spst Spst8g02327 Chr8 34300106 34300669 -
Trre Trre1g00497 Chr1 3713418 3713996 -
Vian Vian7g00603 Chr7 13934117 13934686 +
Vifa Vifa3g04113 Chr3 1213356394 1213357471 -
Vimu Vimu1g02844 Chr1 40740864 40741902 +
Viun Viun8g00489 Chr8 3538746 3539927 -
Vivi Vivi4g05404 Chr4 187734595 187735493 +
Vvi Vvi16g1121 Chr16 19642987 19655468 -
Adu Adu06g03004 Chr06 108072993 108077882 +
Ahy Ahy16g2773 Chr16 140809886 140820046 -
Aip Aip06g03125 Chr06 126690584 126700709 -
Amo Amo16g3542 Chr16 145408911 145419097 -
Dod Dod08g1465 Chr08 29735693 29772591 -
Pvu Pvu9g0560 Chr9 10098591 10105392 +
Pvu Pvu1g0370 Chr1 3489572 3501729 -
Vvi Vvi16g1122 Chr16 19657283 19662377 -
Adu Adu08g00458 Chr08 8223235 8277635 +
Aed Aed1g2365 Chr1 19708126 19715796 +
Aev Aev09g2120 Chr09 24244783 24248944 -
Ahy Ahy15g3684 Chr15 159653829 159658259 -
Ahy Ahy19g2791 Chr19 149800068 149805545 -
Aip Aip05g03999 Chr05 148263921 148268416 -
Aip Aip09g03257 Chr09 138543227 138548885 -
Alju Alju08g0268 Chr08 1941307 1949559 -
Amo Amo19g3562 Chr19 149912984 149918094 -
Cca Cca02g02150 Chr02 41746248 41754144 -
Dod Dod06g0904 Chr06 11496645 11497800 +
Enph Enph1g1802 Chr1 43006080 43015461 +
Gma Gma10g02136 Chr10 48849575 48856597 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Lal Lal24g0079 Chr24 508069 514324 +
Lal Lal12g0095 Chr12 643263 649568 +
Lal Lal13g0074 Chr13 493045 499466 +
Lja Lja2g2781 Chr2 42444102 42486057 +
Lja Lja5g0735 Chr5 6755453 6762294 +
Mal Mal1g2174 Chr1 28677925 28683208 +
Mtr Mtr1g3637 Chr1 48002007 48008637 -
Prci Prci15g0327 Chr15 2111171 2121712 -
Psa Psa6g4385 Chr6 384552071 384556737 -
Psa Psa6g0890 Chr6 32968490 32973860 -
Pvu Pvu9g0559 Chr9 10084848 10094101 +
Ssu Ssu7g0920 Chr7 19990584 19997317 +
Tpr Tpr1g0863 Chr1 7343896 7349334 +
Tsu Tsu01g04290 Chr01 50676396 50682038 -
Vivi Vivi4g04698 Chr4 175817653 175825204 +
Vra Vra8g2118 Chr8 38975440 38984521 -
Vvi Vvi16g1123 Chr16 19666130 19669286 -
Vvi Vvi16g1124 Chr16 19670139 19675602 -
Bva Bva12g01970 Chr12 15612036 15615743 +
Vvi Vvi16g1125 Chr16 19678373 19684245 -
Adu Adu06g02981 Chr06 107721240 107725824 -
Aev Aev08g0820 Chr08 4769238 4771828 +
Ahy Ahy17g2634 Chr17 123012002 123016162 +
Aip Aip07g02849 Chr07 114260819 114264875 +
Apr Apr1g0692 Chr1 8230465 8235687 +
Arst Arst6g03866 Chr6 106919564 106924599 -
Bva Bva12g01969 Chr12 15606563 15612461 +
Lal Lal4g0480 Chr4 3413293 3418732 -
Lapu Lapu8g00728 Chr8 25257975 25264291 -
Lasa Lasa6g00472 Chr6 14477732 14480858 +
Lja Lja1g4867 Chr1 66482794 66488621 +
Mepo Mepo4g00478 Chr4 6763979 6769329 +
Mesa Mesa1g00514 Chr1 6547532 6559368 +
Phco Phco2g00456 Chr2 4102191 4105905 +
Psa Psa5g1816 Chr5 139756027 139760954 -
Pte Pte3g01248 Chr3 10644535 10647488 -
Pumo Pumo9g00467 Chr9 7325134 7330303 +
Pvu Pvu1g0397 Chr1 3969668 3974389 +
Rops Rops9g02025 Chr9 37328723 37332930 -
Seca Seca8g03361 Chr8 96539485 96544357 -
Sto Sto5g1245 Chr5 8432770 8436346 -
Trre Trre1g00548 Chr1 4143522 4147505 +
Vian Vian7g00556 Chr7 13204608 13207863 -
Vifa Vifa3g04115 Chr3 1213951133 1213952915 -
Vimu Vimu1g02784 Chr1 40110298 40114698 -
Viun Viun8g00579 Chr8 4212937 4216820 +
Vivi Vivi4g05335 Chr4 186359779 186363976 -
Vvi Vvi16g1126 Chr16 19697636 19699939 -
Aed Aed11g1779 Chr11 21178563 21179676 -
Arst Arst10g02422 Chr10 85356343 85359843 +
Bva Bva12g01968 Chr12 15601729 15604169 +
Cca Cca06g01852 Chr06 33935943 33937574 -
Phco Phco2g00505 Chr2 4641865 4646308 +
Pste Pste8g00294 Chr8 1609277 1614387 -
Pumo Pumo9g00532 Chr9 8499219 8508035 +
Pvu Pvu1g0442 Chr1 4495045 4500430 +
Rops Rops9g02013 Chr9 37158277 37163325 -
Spst Spst8g01850 Chr8 22545973 22550396 -
Ssu Ssu2g2940 Chr2 90836129 90837899 -
Vian Vian7g00506 Chr7 12436677 12440727 -
Vifa Vifa3g04663 Chr3 1338720751 1338722939 -
Vimu Vimu1g02717 Chr1 39200352 39203567 -
Vra Vra11g0228 Chr11 1518850 1524160 +
Vvi Vvi16g1127 Chr16 19705689 19707428 -
Vvi Vvi16g1128 Chr16 19741661 19742629 -
Aip Aip06g03838 Chr06 136091882 136092880 -
Pste Pste8g00294 Chr8 1609277 1614387 -
Aev Aev09g2120 Chr09 24244783 24248944 -
Ahy Ahy19g2791 Chr19 149800068 149805545 -
Aip Aip09g03257 Chr09 138543227 138548885 -
Amo Amo19g3562 Chr19 149912984 149918094 -
Dod Dod06g0904 Chr06 11496645 11497800 +
Gma Gma10g02136 Chr10 48849575 48856597 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Lal Lal13g0074 Chr13 493045 499466 +
Lal Lal24g0079 Chr24 508069 514324 +
Lja Lja2g2781 Chr2 42444102 42486057 +
Mal Mal1g2174 Chr1 28677925 28683208 +
Mtr Mtr1g3637 Chr1 48002007 48008637 -
Psa Psa6g4385 Chr6 384552071 384556737 -
Tpr Tpr1g0863 Chr1 7343896 7349334 +
Tsu Tsu01g04290 Chr01 50676396 50682038 -