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
Vvi19g0490 Acco01g3376 . Accr1g03057 . . Adu03g01601 Aed1g0713 Aed5g1029 . . . Ahy13g1732 . Aip03g01937 Alju02g0645 . . . . . . Arst3g02128 Bach13g00874 . Bisa12g0694 . Bva09g00758 Bva07g01868 Car01g02133 . Cca10g00989 Cca04g01274 Dere08g0567 . . Dod03g1949 Enph3g1056 . Glsi14g1176 . Gma06g02458 Gma12g01230 Gma12g02024 Gma13g02533 Gso6g2214 Gso6g2214 Gso6g2214 Gso6g2214 Lal9g0470 . . . Lal1g0537 . Lan8g1432 . . . Lan8g1432 . . . Lasa1g05128 Lasa7g02750 Lele09g0768 Lele10g0697 Lele11g0770 Lele12g0568 . . . . Lja3g3824 . Mal4g0963 . Mepo6g03247 Mepo2g02879 Mesa5g01292 Mesa13g02175 Mibi01g0557 . Mtr2g2750 . Phac5g01328 . Phco10g01029 Phco9g01611 Prci7g2002 . Psa5g5742 . Pste3g02583 Pste1g03740 . Pte15g01933 . . Pumo4g03235 Pumo11g00891 Pvu5g0942 Pvu11g1466 Rops7g01161 Rops3g01656 Seca4g04685 Seca4g04685 Spst5g00993 Spst11g00778 Ssu8g1029 Ssu3g1983 Sto7g0401 . Tpr7g3651 . Trre11g03569 Trre7g02187 Tsu02g04547 . Vian11g00914 Vian5g00593 Vifa1g02646 Vifa6g01764 Vimu4g01242 Vimu5g01102 . Viun11g01038 . Vivi5g03528 . .
Vvi19g0491 . . . . Adu08g01851 . Aed1g0715 . Aev10g2317 . Ahy18g1068 . Aip08g01119 . . . . . . . Arst8g02548 . . . . . . Bva07g01869 . . Cca10g00988 . . . Dod10g1118 . . . . . . . Gma12g02023 . . . . . . . . . . . . . . . . . Lapu5g00847 . Lasa1g05129 . . . . . . . . . . . Mal4g0962 . Mepo6g03249 . Mesa5g01291 . . . Mtr2g2751 . . . Phco10g01030 . . . . . Pste3g02585 . . . . . Pumo4g03234 . Pvu5g0943 . Rops7g01159 . Seca4g05889 . Spst5g00992 . Ssu8g1028 . . . Tpr7g3652 . Trre11g03570 . Tsu02g04548 . Vian11g00913 . Vifa1g02645 . Vimu4g01241 . Viun5g02769 . . . . .
Vvi19g0492 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g6098 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0493 Acco01g3377 Acco08g0870 Accr1g03058 Accr13g00859 Adu08g01850 . . Aed5g1028 Aev10g2316 . Ahy18g1067 . Aip08g01118 . Alju02g0643 Alju10g0883 . . . Apr5g0003 Arst8g02547 . Bach13g00875 Bach9g00629 Bisa12g0695 Bisa02g3120 Bva09g00756 Bva07g01870 Car01g02134 . Cca10g00987 Cca04g01273 Dere08g0568 Dere07g0175 Dod10g1119 . Enph3g1057 Enph8g0491 Glsi14g1177 Glsi04g0934 Gma06g02459 Gma12g01228 Gma12g02022 Gma13g02534 Gso6g2215 Gso6g2215 Gso6g2215 Gso6g2215 . . . . Lal1g0536 . . . . . . . Lapu5g00846 Lapu5g00846 Lasa1g05130 Lasa7g02749 . . . . . . . . Lja3g3825 . Mal4g0961 . . . . . Mibi01g0556 Mibi07g0861 Mtr2g2752 . . . Phco10g01031 Phco9g01609 Prci7g2003 Prci6g1036 Psa5g5743 . Pste3g02586 Pste1g03739 . Pte15g01932 . . Pumo4g03233 Pumo11g00893 Pvu5g0944 Pvu11g1465 Rops7g01157 Rops3g01655 Seca4g04687 Seca4g04687 Spst5g00991 . Ssu8g1027 Ssu3g1985 Sto7g0402 . Tpr7g3653 . Trre11g03571 . Tsu02g04549 . Vian11g00912 Vian5g00594 Vifa1g02644 Vifa6g01765 Vimu4g01240 Vimu5g01104 Viun5g02771 Viun11g01039 . Vivi5g03527 . .
Vvi19g0494 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0495 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0496 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0497 . . . . . . . . . . Ahy17g0472 . Aip07g00411 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0498 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma14g00227 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0499 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal1g0536 Chr1 3448585 3452187 +
Psa Psa5g6098 Chr5 522397014 522401790 +
Aed Aed5g1029 Chr5 8124809 8128813 -
Cca Cca04g01274 Chr04 15662522 15666439 -
Gma Gma06g02458 Chr06 46923207 46927656 +
Lal Lal1g0537 Chr1 3452330 3455207 -
Ssu Ssu3g1983 Chr3 65041425 65044907 +
Sto Sto7g0401 Chr7 2929760 2932835 +
Ahy Ahy17g0472 Chr17 4541411 4548842 +
Aip Aip07g00411 Chr07 3489271 3495417 +
Vvi Vvi19g0490 Chr19 5400807 5404480 +
Acco Acco01g3376 Chr01 50836424 50838668 +
Accr Accr1g03057 Chr1 67445138 67447416 +
Adu Adu03g01601 Chr03 25693315 25696523 -
Aed Aed1g0713 Chr1 8281243 8283557 +
Aed Aed5g1029 Chr5 8124809 8128813 -
Ahy Ahy13g1732 Chr13 27540710 27544180 -
Aip Aip03g01937 Chr03 26479557 26482729 -
Alju Alju02g0645 Chr02 4716618 4718821 -
Arst Arst3g02128 Chr3 25999358 26002491 -
Bach Bach13g00874 Chr13 14054581 14057625 +
Bisa Bisa12g0694 Chr12 10998884 11001432 +
Bva Bva09g00758 Chr09 3865536 3868640 -
Bva Bva07g01868 Chr07 16823888 16826482 +
Car Car01g02133 Chr01 46904392 46907444 +
Cca Cca10g00989 Chr10 11622136 11624611 -
Cca Cca04g01274 Chr04 15662522 15666439 -
Dere Dere08g0567 Chr08 8694925 8697790 +
Dod Dod03g1949 Chr03 43625856 43629761 +
Enph Enph3g1056 Chr3 31735324 31738437 +
Glsi Glsi14g1176 Chr14 12923979 12926893 +
Gma Gma06g02458 Chr06 46923207 46927656 +
Gma Gma12g01230 Chr12 16211401 16214776 -
Gma Gma12g02024 Chr12 40896762 40898656 -
Gma Gma13g02533 Chr13 40207583 40210186 +
Gso Gso6g2214 Chr6 42784664 42788864 +
Gso Gso6g2214 Chr6 42784664 42788864 +
Gso Gso6g2214 Chr6 42784664 42788864 +
Gso Gso6g2214 Chr6 42784664 42788864 +
Lal Lal9g0470 Chr9 3121585 3124293 -
Lal Lal1g0537 Chr1 3452330 3455207 -
Lan Lan8g1432 Chr8 21466007 21468266 +
Lan Lan8g1432 Chr8 21466007 21468266 +
Lasa Lasa1g05128 Chr1 828550768 828552755 +
Lasa Lasa7g02750 Chr7 544862088 544865773 -
Lele Lele09g0768 Chr09 6034446 6036829 +
Lele Lele10g0697 Chr10 5268032 5270469 +
Lele Lele11g0770 Chr11 7765593 7767976 +
Lele Lele12g0568 Chr12 14130726 14133158 -
Lja Lja3g3824 Chr3 75330504 75335707 +
Mal Mal4g0963 Chr4 12783032 12785075 -
Mepo Mepo6g03247 Chr6 44431567 44433884 +
Mepo Mepo2g02879 Chr2 38561239 38564748 -
Mesa Mesa5g01292 Chr5 18307203 18309244 -
Mesa Mesa13g02175 Chr13 25555897 25558903 +
Mibi Mibi01g0557 Chr01 5214652 5217012 -
Mtr Mtr2g2750 Chr2 40770768 40773231 +
Phac Phac5g01328 Chr5 31870714 31873878 +
Phco Phco10g01029 Chr10 30787238 30789059 +
Phco Phco9g01611 Chr9 37821840 37825108 -
Prci Prci7g2002 Chr7 34308215 34310903 +
Psa Psa5g5742 Chr5 499053664 499056608 +
Pste Pste3g02583 Chr3 18762813 18765347 +
Pste Pste1g03740 Chr1 18294176 18297797 -
Pte Pte15g01933 Chr15 25460495 25463694 -
Pumo Pumo4g03235 Chr4 66660219 66662380 -
Pumo Pumo11g00891 Chr11 32863457 32867654 +
Pvu Pvu5g0942 Chr5 26093746 26096198 +
Pvu Pvu11g1466 Chr11 33734065 33737984 -
Rops Rops7g01161 Chr7 15505863 15509525 -
Rops Rops3g01656 Chr3 25916902 25921470 -
Seca Seca4g04685 Chr4 87189588 87194211 +
Seca Seca4g04685 Chr4 87189588 87194211 +
Spst Spst5g00993 Chr5 9610213 9612025 -
Spst Spst11g00778 Chr11 31518819 31522591 +
Ssu Ssu8g1029 Chr8 17673224 17675324 -
Ssu Ssu3g1983 Chr3 65041425 65044907 +
Sto Sto7g0401 Chr7 2929760 2932835 +
Tpr Tpr7g3651 Chr7 45307872 45310303 +
Trre Trre11g03569 Chr11 48913374 48915366 +
Trre Trre7g02187 Chr7 17381789 17384761 -
Tsu Tsu02g04547 Chr02 54472939 54475566 +
Vian Vian11g00914 Chr11 10595708 10597520 -
Vian Vian5g00593 Chr5 21515869 21519232 +
Vifa Vifa1g02646 Chr1 416609082 416611157 -
Vifa Vifa6g01764 Chr6 673115341 673117941 +
Vimu Vimu4g01242 Chr4 11540006 11541825 -
Vimu Vimu5g01102 Chr5 18597913 18601262 +
Viun Viun11g01038 Chr11 22449930 22453943 +
Vivi Vivi5g03528 Chr5 127483709 127487127 -
Vvi Vvi19g0491 Chr19 5405275 5406294 +
Adu Adu08g01851 Chr08 30471378 30472247 -
Aed Aed1g0715 Chr1 8283997 8285004 +
Aev Aev10g2317 Chr10 23087452 23088483 -
Ahy Ahy18g1068 Chr18 15902359 15903715 -
Aip Aip08g01119 Chr08 15064744 15065787 -
Arst Arst8g02548 Chr8 34821469 34823540 -
Bva Bva07g01869 Chr07 16827347 16828729 +
Cca Cca10g00988 Chr10 11620255 11621813 -
Dod Dod10g1118 Chr10 30503682 30504719 +
Gma Gma12g02023 Chr12 40894680 40896046 -
Lapu Lapu5g00847 Chr5 9044307 9045323 +
Lasa Lasa1g05129 Chr1 828553962 828554996 +
Mal Mal4g0962 Chr4 12780980 12782017 -
Mepo Mepo6g03249 Chr6 44434640 44435665 +
Mesa Mesa5g01291 Chr5 18305226 18306251 -
Mtr Mtr2g2751 Chr2 40773718 40775693 +
Phco Phco10g01030 Chr10 30789754 30790770 +
Pste Pste3g02585 Chr3 18765746 18766765 +
Pumo Pumo4g03234 Chr4 66658450 66659469 -
Pvu Pvu5g0943 Chr5 26096639 26097655 +
Rops Rops7g01159 Chr7 15504387 15505523 -
Seca Seca4g05889 Chr4 113202061 113203089 -
Spst Spst5g00992 Chr5 9608462 9609478 -
Ssu Ssu8g1028 Chr8 17671447 17672472 -
Tpr Tpr7g3652 Chr7 45310970 45312593 +
Trre Trre11g03570 Chr11 48916467 48917507 +
Tsu Tsu02g04548 Chr02 54476132 54477690 +
Vian Vian11g00913 Chr11 10593970 10594986 -
Vifa Vifa1g02645 Chr1 416607157 416608194 -
Vimu Vimu4g01241 Chr4 11538213 11539306 -
Viun Viun5g02769 Chr5 39211323 39212745 +
Vvi Vvi19g0492 Chr19 5407427 5410337 -
Psa Psa5g6098 Chr5 522397014 522401790 +
Vvi Vvi19g0493 Chr19 5411582 5414544 -
Acco Acco01g3377 Chr01 50839795 50842881 -
Acco Acco08g0870 Chr08 7884140 7887698 -
Accr Accr1g03058 Chr1 67452229 67455375 -
Accr Accr13g00859 Chr13 9776480 9780082 -
Adu Adu08g01850 Chr08 30467485 30470991 +
Aed Aed5g1028 Chr5 8120410 8123219 +
Aev Aev10g2316 Chr10 23083524 23086834 +
Ahy Ahy18g1067 Chr18 15898520 15902077 +
Aip Aip08g01118 Chr08 15061022 15064513 +
Alju Alju02g0643 Chr02 4712584 4715724 +
Alju Alju10g0883 Chr10 8079822 8083406 -
Apr Apr5g0003 Chr5 15264 17783 +
Arst Arst8g02547 Chr8 34818551 34822069 +
Bach Bach13g00875 Chr13 14059803 14063352 -
Bach Bach9g00629 Chr9 4355106 4367465 +
Bisa Bisa12g0695 Chr12 11002284 11005618 -
Bisa Bisa02g3120 Chr02 79070875 79074994 +
Bva Bva09g00756 Chr09 3861148 3864497 +
Bva Bva07g01870 Chr07 16828730 16832122 -
Car Car01g02134 Chr01 46907505 46915371 -
Cca Cca10g00987 Chr10 11616743 11620431 +
Cca Cca04g01273 Chr04 15658031 15661734 +
Dere Dere08g0568 Chr08 8698675 8702330 -
Dere Dere07g0175 Chr07 3788202 3791731 +
Dod Dod10g1119 Chr10 30505486 30507206 -
Enph Enph3g1057 Chr3 31738484 31742460 -
Enph Enph8g0491 Chr8 13644179 13649472 +
Glsi Glsi14g1177 Chr14 12927766 12930885 -
Glsi Glsi04g0934 Chr04 7431939 7434950 -
Gma Gma06g02459 Chr06 46932128 46935043 -
Gma Gma12g01228 Chr12 16177629 16180450 +
Gma Gma12g02022 Chr12 40891226 40894526 +
Gma Gma13g02534 Chr13 40210474 40215746 -
Gso Gso6g2215 Chr6 42792708 42795920 -
Gso Gso6g2215 Chr6 42792708 42795920 -
Gso Gso6g2215 Chr6 42792708 42795920 -
Gso Gso6g2215 Chr6 42792708 42795920 -
Lal Lal1g0536 Chr1 3448585 3452187 +
Lapu Lapu5g00846 Chr5 9044061 9049613 -
Lapu Lapu5g00846 Chr5 9044061 9049613 -
Lasa Lasa1g05130 Chr1 828555621 828558316 -
Lasa Lasa7g02749 Chr7 544858839 544861446 +
Lja Lja3g3825 Chr3 75338883 75342174 -
Mal Mal4g0961 Chr4 12775327 12780258 +
Mibi Mibi01g0556 Chr01 5207797 5213653 +
Mibi Mibi07g0861 Chr07 11182078 11186037 -
Mtr Mtr2g2752 Chr2 40775162 40779511 -
Phco Phco10g01031 Chr10 30791444 30794583 -
Phco Phco9g01609 Chr9 37788006 37790714 +
Prci Prci7g2003 Chr7 34311696 34315493 -
Prci Prci6g1036 Chr6 7220802 7225315 -
Psa Psa5g5743 Chr5 499059643 499065017 -
Pste Pste3g02586 Chr3 18767161 18770992 -
Pste Pste1g03739 Chr1 18287977 18291399 +
Pte Pte15g01932 Chr15 25451713 25454877 +
Pumo Pumo4g03233 Chr4 66654724 66657737 +
Pumo Pumo11g00893 Chr11 32876340 32878932 -
Pvu Pvu5g0944 Chr5 26097951 26101414 -
Pvu Pvu11g1465 Chr11 33726459 33729897 +
Rops Rops7g01157 Chr7 15500506 15504102 +
Rops Rops3g01655 Chr3 25912189 25915574 +
Seca Seca4g04687 Chr4 87197763 87201571 -
Seca Seca4g04687 Chr4 87197763 87201571 -
Spst Spst5g00991 Chr5 9604641 9607807 +
Ssu Ssu8g1027 Chr8 17667924 17670741 +
Ssu Ssu3g1985 Chr3 65049945 65052720 -
Sto Sto7g0402 Chr7 2933966 2938097 -
Tpr Tpr7g3653 Chr7 45312508 45316036 -
Trre Trre11g03571 Chr11 48918293 48921126 -
Tsu Tsu02g04549 Chr02 54477750 54481074 -
Vian Vian11g00912 Chr11 10590539 10593303 +
Vian Vian5g00594 Chr5 21535057 21537597 -
Vifa Vifa1g02644 Chr1 416603649 416606531 +
Vifa Vifa6g01765 Chr6 673118816 673121441 -
Vimu Vimu4g01240 Chr4 11534659 11537622 +
Vimu Vimu5g01104 Chr5 18623894 18626976 -
Viun Viun5g02771 Chr5 39212811 39215725 -
Viun Viun11g01039 Chr11 22503250 22506405 -
Vivi Vivi5g03527 Chr5 127480445 127483371 +
Vvi Vvi19g0494 Chr19 5418523 5421453 -
Vvi Vvi19g0495 Chr19 5423967 5430258 +
Vvi Vvi19g0496 Chr19 5432059 5434734 -
Vvi Vvi19g0497 Chr19 5439371 5442340 +
Ahy Ahy17g0472 Chr17 4541411 4548842 +
Aip Aip07g00411 Chr07 3489271 3495417 +
Vvi Vvi19g0498 Chr19 5444319 5447306 +
Gma Gma14g00227 Chr14 1932124 1937119 +
Vvi Vvi19g0499 Chr19 5477937 5480948 +