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
Vvi19g0560 . . . . Adu01g00132 . . Aed4g2517 . . . Ahy11g0733 . Aip01g00720 . . . Amo11g2200 Apr2g0144 . Arst1g00200 . Bach12g01478 . . . Bva12g02768 . . Car05g00960 . Cca09g01057 . . . . . . . . Gma08g02946 Gma18g00895 . . Gso8g2601 Gso8g2601 . . . . . . . . . . . . . . . . Lasa5g00977 . . . . . . . . . Lja6g1442 . . . Mepo3g04541 . Mesa9g01636 . . . . . . . Phco11g02069 . . . . . Pste7g01220 . . . . . Pumo1g00935 . Pvu6g0415 . Rops11g02896 . . . Spst6g02089 . . Ssu9g0897 . Sto5g1943 . . Trre5g01405 . . . Vian6g00124 . Vifa2g00888 . Vimu2g02898 . Viun6g00709 . Vivi3g05784 . . .
Vvi19g0561 . . . . Adu01g00133 . . . . Aev01g1007 . Ahy11g0732 . Aip01g00719 . . . Amo11g2199 Apr2g0154 . Arst1g00201 . Bach12g01476 . . . . . . Car05g00963 . Cca09g01063 . . . Dod05g0872 . . . . Gma08g02951 Gma18g00880 . . Gso8g2605 Gso8g2605 . . . . . Lal3g0951 . . . . . . . . . . Lasa5g00990 . . . . . . . . . . . . . Mepo3g04553 . Mesa9g01660 . . . . . Phac6g00530 . Phco11g02052 . . . . . Pste7g01229 . . . . . Pumo1g00924 . Pvu6g0423 . . . Seca6g03073 . Spst6g02069 . . Ssu9g0906 . . . . Trre5g01400 . . . Vian6g00120 . Vifa2g00902 . Vimu2g02887 . Viun6g00745 . . . . .
Vvi19g0562 . . . . Adu01g00136 . . Aed4g2505 . Aev01g1008 . Ahy11g0730 . Aip01g00717 . . . Amo11g2197 Apr2g0156 . Arst1g00204 . Bach12g01475 . Bisa09g0007 . . . . Car05g00965 . Cca09g01065 Dere04g2169 . . Dod05g0873 . . Glsi08g0039 . Gma08g02952 Gma18g00879 . . Gso8g2607 Gso8g2607 . . . . . . . Lal11g1058 . . . . . . . . Lasa5g00995 . . . . . . . . . . . . . Mepo3g04558 . Mesa9g01665 . . . . . . . Phco11g02050 . . . . . Pste7g01234 . . . . . Pumo1g00921 . Pvu6g0425 . Rops11g02813 . Seca6g03071 . Spst6g02066 . . . Sto9g1862 Sto5g1942 . . Trre5g01397 . . . Vian6g00118 . Vifa2g00911 . Vimu2g02885 . Viun6g00749 . . . . .
Vvi19g0563 . . . . . . . . . . . Ahy11g0729 . Aip01g00716 . . . Amo11g2196 . . . . . . . . . . . . . . . . . Dod05g0874 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0564 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0566 . . . . . . Aed3g2484 . . . . . . . . . . . . Apr9g1721 . . . . . . . . . . Cca05g01914 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal8g0493 . . . . . . . Mtr5g3260 . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g3437 . . . . Tpr4g3254 . . . Tsu05g03805 . . . . . . . . . . Vra6g0264 .
Vvi19g0567 . . . . Adu01g00137 . . . . . . . . . . . . . Apr2g0157 . Arst1g00205 . Bach12g01474 . . . Bva12g02765 . . Car05g00966 . Cca09g01066 . . . . . . . . Gma08g02953 Gma18g00878 . . Gso8g2608 Gso8g2608 . . . . . . . . . . . . . . . . Lasa5g00996 . . . . . . . . . . . . . Mepo3g04560 . Mesa9g01667 . . . . . . . Phco11g02049 . . . Psa5g4172 . Pste7g01237 . . Pte8g00080 . . Pumo1g00920 . Pvu6g0426 . Rops11g02812 . Seca6g03070 . Spst6g02065 . . Ssu9g0910 . Sto5g1941 . . Trre5g01395 . . . Vian6g00117 . Vifa2g00912 . Vimu2g02883 . Viun6g00751 . . . . .
Vvi19g0568 . . . . Adu01g00138 . . Aed4g2504 . . . Ahy11g0728 . Aip01g00715 . . . Amo11g2195 Apr2g0158 . Arst1g00206 . Bach12g01473 . . . . . . Car05g00967 . Cca09g01067 . . . Dod05g0875 . . . . Gma08g02954 Gma18g00877 . . Gso8g2609 Gso8g2609 . . . . . . . . . . . . . . . . Lasa5g00997 . . . . . . . . . . . . . Mepo3g04561 . Mesa9g01668 . . . . . . . Phco11g02048 . . . . . Pste7g01238 . . Pte8g00079 . . . . Pvu6g0427 . Rops11g02811 . Seca6g03069 . Spst6g02064 . . Ssu9g0911 . Sto5g1940 . . Trre5g01394 . . . Vian6g00116 . Vifa2g00913 . Vimu2g02882 . Viun6g00752 . . . . .
Vvi19g0569 . . . . . Adu07g00627 . . . . Ahy17g0438 . Aip07g00367 . . . . . . . . Arst7g00505 . . . Bisa05g1982 . . Car02g02024 . . . . Dere05g1310 . . . Enph7g2064 . Glsi10g2089 . . Gma02g02723 Gma14g00216 . . . . Lal18g1555 . Lal6g0081 . . . Lan2g1297 . Lan2g1297 . . . . . . Lasa2g02206 . . . . . . . . . . . . . . . Mesa17g04326 . . . . . Phac8g03555 . Phco3g00280 . Prci2g2769 . . . Pste8g00492 . . . Pte8g00077 . Pumo9g01918 . Pvu8g2748 . Rops9g00380 . Seca8g00367 . Spst8g00848 . . Sto9g1863 Sto5g1938 . . . Trre9g04907 . . . Vian7g01221 . Vifa1g03217 . Vimu1g00463 . Viun8g02781 . Vivi7g02776 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal3g0951 Chr3 10161195 10163764 -
Vvi Vvi19g0560 Chr19 6234393 6236285 -
Adu Adu01g00132 Chr01 1872483 1875858 +
Aed Aed4g2517 Chr4 27146269 27148031 +
Ahy Ahy11g0733 Chr11 12596717 12600174 -
Aip Aip01g00720 Chr01 11920697 11924078 -
Amo Amo11g2200 Chr11 120878436 120882066 -
Apr Apr2g0144 Chr2 2056337 2058418 -
Arst Arst1g00200 Chr1 1872469 1874685 +
Bach Bach12g01478 Chr12 10457863 10459905 +
Bva Bva12g02768 Chr12 20093631 20095571 +
Car Car05g00960 Chr05 50101645 50102958 -
Cca Cca09g01057 Chr09 31180284 31182549 -
Gma Gma08g02946 Chr08 45933560 45934965 -
Gma Gma18g00895 Chr18 10490320 10492083 +
Gso Gso8g2601 Chr8 43654800 43656223 -
Gso Gso8g2601 Chr8 43654800 43656223 -
Lasa Lasa5g00977 Chr5 264869366 264871051 +
Lja Lja6g1442 Chr6 40156329 40158251 -
Mepo Mepo3g04541 Chr3 56000447 56000974 -
Mesa Mesa9g01636 Chr9 37477613 37478143 +
Phco Phco11g02069 Chr11 17153103 17154941 -
Pste Pste7g01220 Chr7 11299203 11305806 +
Pumo Pumo1g00935 Chr1 14476174 14483628 -
Pvu Pvu6g0415 Chr6 14946766 14948580 +
Rops Rops11g02896 Chr11 50680009 50686981 -
Spst Spst6g02089 Chr6 21745118 21746986 -
Ssu Ssu9g0897 Chr9 38350701 38352150 -
Sto Sto5g1943 Chr5 14506228 14511198 +
Trre Trre5g01405 Chr5 9903661 9905469 +
Vian Vian6g00124 Chr6 3357852 3358592 -
Vifa Vifa2g00888 Chr2 233409061 233412483 -
Vimu Vimu2g02898 Chr2 27437477 27439423 -
Viun Viun6g00709 Chr6 17108498 17109527 -
Vivi Vivi3g05784 Chr3 134112975 134114927 -
Vvi Vvi19g0561 Chr19 6242197 6245435 +
Adu Adu01g00133 Chr01 1876604 1879733 +
Aev Aev01g1007 Chr01 10017924 10019921 +
Ahy Ahy11g0732 Chr11 12592872 12596291 -
Aip Aip01g00719 Chr01 11917315 11920524 -
Amo Amo11g2199 Chr11 120874853 120878277 -
Apr Apr2g0154 Chr2 2125603 2128059 +
Arst Arst1g00201 Chr1 1876671 1879728 +
Bach Bach12g01476 Chr12 10450594 10452252 -
Car Car05g00963 Chr05 50165837 50169115 +
Cca Cca09g01063 Chr09 31353764 31356386 +
Dod Dod05g0872 Chr05 15552866 15559734 +
Gma Gma08g02951 Chr08 46005381 46008070 +
Gma Gma18g00880 Chr18 10278039 10280652 -
Gso Gso8g2605 Chr8 43715115 43717766 +
Gso Gso8g2605 Chr8 43715115 43717766 +
Lal Lal3g0951 Chr3 10161195 10163764 -
Lasa Lasa5g00990 Chr5 276525462 276527972 +
Mepo Mepo3g04553 Chr3 56406581 56410784 +
Mesa Mesa9g01660 Chr9 38108806 38113096 +
Phac Phac6g00530 Chr6 10313759 10317194 +
Phco Phco11g02052 Chr11 17008864 17011428 -
Pste Pste7g01229 Chr7 11361459 11364618 +
Pumo Pumo1g00924 Chr1 13990255 13992985 -
Pvu Pvu6g0423 Chr6 15093458 15096465 +
Seca Seca6g03073 Chr6 96835027 96837542 -
Spst Spst6g02069 Chr6 21233951 21236638 -
Ssu Ssu9g0906 Chr9 38628903 38632053 +
Trre Trre5g01400 Chr5 9859633 9862060 -
Vian Vian6g00120 Chr6 3256467 3259108 -
Vifa Vifa2g00902 Chr2 239652867 239655532 +
Vimu Vimu2g02887 Chr2 27256494 27259159 -
Viun Viun6g00745 Chr6 17183302 17184973 +
Vvi Vvi19g0562 Chr19 6246855 6252380 +
Adu Adu01g00136 Chr01 1891463 1896359 +
Aed Aed4g2505 Chr4 27090005 27101974 -
Aev Aev01g1008 Chr01 10022224 10027976 +
Ahy Ahy11g0730 Chr11 12567139 12572203 -
Aip Aip01g00717 Chr01 11892103 11896977 -
Amo Amo11g2197 Chr11 120849444 120853996 -
Apr Apr2g0156 Chr2 2134695 2139278 +
Arst Arst1g00204 Chr1 1891450 1896304 +
Bach Bach12g01475 Chr12 10444832 10449855 -
Bisa Bisa09g0007 Chr09 115879 121219 +
Car Car05g00965 Chr05 50186155 50190853 +
Cca Cca09g01065 Chr09 31388289 31393103 +
Dere Dere04g2169 Chr04 24847536 24853089 -
Dod Dod05g0873 Chr05 15628017 15632918 +
Glsi Glsi08g0039 Chr08 430593 433954 +
Gma Gma08g02952 Chr08 46013218 46018139 +
Gma Gma18g00879 Chr18 10269016 10273523 -
Gso Gso8g2607 Chr8 43719115 43724357 +
Gso Gso8g2607 Chr8 43719115 43724357 +
Lal Lal11g1058 Chr11 14175044 14180342 -
Lasa Lasa5g00995 Chr5 278213516 278218283 +
Mepo Mepo3g04558 Chr3 56480316 56486161 +
Mesa Mesa9g01665 Chr9 38162863 38166628 +
Phco Phco11g02050 Chr11 16986272 16990369 -
Pste Pste7g01234 Chr7 11377569 11382424 +
Pumo Pumo1g00921 Chr1 13979871 13984996 -
Pvu Pvu6g0425 Chr6 15123164 15127625 +
Rops Rops11g02813 Chr11 48724675 48730366 -
Seca Seca6g03071 Chr6 96823469 96828353 -
Spst Spst6g02066 Chr6 21218568 21223512 -
Sto Sto9g1862 Chr9 22985073 22989228 +
Sto Sto5g1942 Chr5 14487338 14499122 -
Trre Trre5g01397 Chr5 9838746 9842266 -
Vian Vian6g00118 Chr6 3218107 3222687 -
Vifa Vifa2g00911 Chr2 241702523 241706953 -
Vimu Vimu2g02885 Chr2 27188082 27190471 -
Viun Viun6g00749 Chr6 17199999 17204383 +
Vvi Vvi19g0563 Chr19 6254808 6263368 +
Ahy Ahy11g0729 Chr11 12553958 12558169 -
Aip Aip01g00716 Chr01 11879239 11883355 -
Amo Amo11g2196 Chr11 120836159 120840144 -
Dod Dod05g0874 Chr05 15634518 15641673 +
Vvi Vvi19g0564 Chr19 6264243 6264509 -
Vvi Vvi19g0565 Chr19 6267451 6270131 +
Vvi Vvi19g0566 Chr19 6273383 6279227 +
Aed Aed3g2484 Chr3 27366185 27371359 +
Apr Apr9g1721 Chr9 26359876 26364269 +
Cca Cca05g01914 Chr05 38981963 38987329 +
Mal Mal8g0493 Chr8 7413813 7419105 -
Mtr Mtr5g3260 Chr5 41425929 41430987 +
Ssu Ssu6g3437 Chr6 77100956 77107164 +
Tpr Tpr4g3254 Chr4 38577287 38582346 -
Tsu Tsu05g03805 Chr05 49251013 49256438 +
Vra Vra6g0264 Chr6 1959810 1965829 -
Vvi Vvi19g0567 Chr19 6281385 6293711 +
Adu Adu01g00137 Chr01 1900396 1904432 +
Apr Apr2g0157 Chr2 2142167 2147849 +
Arst Arst1g00205 Chr1 1900378 1904450 +
Bach Bach12g01474 Chr12 10441735 10444099 -
Bva Bva12g02765 Chr12 20076296 20079132 -
Car Car05g00966 Chr05 50192021 50195404 +
Cca Cca09g01066 Chr09 31409587 31414948 +
Gma Gma08g02953 Chr08 46019479 46024143 +
Gma Gma18g00878 Chr18 10262140 10267734 -
Gso Gso8g2608 Chr8 43725473 43730498 +
Gso Gso8g2608 Chr8 43725473 43730498 +
Lasa Lasa5g00996 Chr5 278219426 278222407 +
Mepo Mepo3g04560 Chr3 56495728 56501177 +
Mesa Mesa9g01667 Chr9 38174943 38178727 +
Phco Phco11g02049 Chr11 16973576 16984363 -
Psa Psa5g4172 Chr5 330679012 330685177 +
Pste Pste7g01237 Chr7 11385351 11389837 +
Pte Pte8g00080 Chr8 1593478 1595166 -
Pumo Pumo1g00920 Chr1 13967778 13972840 -
Pvu Pvu6g0426 Chr6 15129214 15134956 +
Rops Rops11g02812 Chr11 48710378 48717772 -
Seca Seca6g03070 Chr6 96816228 96822509 -
Spst Spst6g02065 Chr6 21207323 21211998 -
Ssu Ssu9g0910 Chr9 38655736 38661109 +
Sto Sto5g1941 Chr5 14480792 14485168 -
Trre Trre5g01395 Chr5 9819380 9822945 -
Vian Vian6g00117 Chr6 3212945 3216907 -
Vifa Vifa2g00912 Chr2 241814078 241816689 +
Vimu Vimu2g02883 Chr2 27181005 27184895 -
Viun Viun6g00751 Chr6 17208142 17212243 +
Vvi Vvi19g0568 Chr19 6294331 6295254 -
Adu Adu01g00138 Chr01 1904952 1906199 -
Aed Aed4g2504 Chr4 27088353 27089261 +
Ahy Ahy11g0728 Chr11 12551837 12553243 +
Aip Aip01g00715 Chr01 11877170 11878395 +
Amo Amo11g2195 Chr11 120834025 120835551 +
Apr Apr2g0158 Chr2 2148793 2150035 -
Arst Arst1g00206 Chr1 1904790 1905924 -
Bach Bach12g01473 Chr12 10440389 10441303 +
Car Car05g00967 Chr05 50195971 50197268 -
Cca Cca09g01067 Chr09 31415867 31417228 -
Dod Dod05g0875 Chr05 15642108 15643269 -
Gma Gma08g02954 Chr08 46026386 46027466 -
Gma Gma18g00877 Chr18 10260397 10261326 +
Gso Gso8g2609 Chr8 43732431 43733667 -
Gso Gso8g2609 Chr8 43732431 43733667 -
Lasa Lasa5g00997 Chr5 278228119 278229060 -
Mepo Mepo3g04561 Chr3 56502002 56503144 -
Mesa Mesa9g01668 Chr9 38179826 38180764 -
Phco Phco11g02048 Chr11 16971621 16972553 +
Pste Pste7g01238 Chr7 11391173 11392114 -
Pte Pte8g00079 Chr8 1591763 1593061 +
Pvu Pvu6g0427 Chr6 15135599 15136786 -
Rops Rops11g02811 Chr11 48705807 48706803 +
Seca Seca6g03069 Chr6 96813783 96814709 +
Spst Spst6g02064 Chr6 21204932 21206041 +
Ssu Ssu9g0911 Chr9 38662529 38663062 -
Sto Sto5g1940 Chr5 14476983 14477921 +
Trre Trre5g01394 Chr5 9817280 9818166 +
Vian Vian6g00116 Chr6 3210968 3211888 +
Vifa Vifa2g00913 Chr2 241898720 241899634 -
Vimu Vimu2g02882 Chr2 27178721 27180385 +
Viun Viun6g00752 Chr6 17212828 17214159 -
Vvi Vvi19g0569 Chr19 6299296 6305684 +
Adu Adu07g00627 Chr07 6775712 6781046 +
Ahy Ahy17g0438 Chr17 4251962 4255626 -
Aip Aip07g00367 Chr07 3213679 3217350 -
Arst Arst7g00505 Chr7 3256300 3259907 -
Bisa Bisa05g1982 Chr05 41603850 41609737 +
Car Car02g02024 Chr02 50681272 50685433 +
Dere Dere05g1310 Chr05 21444968 21449722 +
Enph Enph7g2064 Chr7 29769891 29774973 +
Glsi Glsi10g2089 Chr10 15431433 15436881 -
Gma Gma02g02723 Chr02 52935121 52940587 +
Gma Gma14g00216 Chr14 1839540 1844816 -
Lal Lal18g1555 Chr18 17253435 17255859 +
Lal Lal6g0081 Chr6 479432 483461 -
Lan Lan2g1297 Chr2 23880139 23883861 +
Lan Lan2g1297 Chr2 23880139 23883861 +
Lasa Lasa2g02206 Chr2 496334612 496338964 +
Mesa Mesa17g04326 Chr17 73688473 73693287 +
Phac Phac8g03555 Chr8 42814987 42820763 +
Phco Phco3g00280 Chr3 2004241 2010626 -
Prci Prci2g2769 Chr2 30333301 30340561 -
Pste Pste8g00492 Chr8 2572389 2580387 -
Pte Pte8g00077 Chr8 1572118 1576183 -
Pumo Pumo9g01918 Chr9 48460209 48469824 -
Pvu Pvu8g2748 Chr8 57719404 57725138 +
Rops Rops9g00380 Chr9 5143213 5148635 -
Seca Seca8g00367 Chr8 4224744 4227662 -
Spst Spst8g00848 Chr8 7609681 7615751 +
Sto Sto9g1863 Chr9 22997076 22997569 +
Sto Sto5g1938 Chr5 14457518 14462814 -
Trre Trre9g04907 Chr9 55403171 55408213 +
Vian Vian7g01221 Chr7 20436313 20442279 -
Vifa Vifa1g03217 Chr1 503429499 503433965 +
Vimu Vimu1g00463 Chr1 2810791 2816612 -
Viun Viun8g02781 Chr8 36290130 36296298 +
Vivi Vivi7g02776 Chr7 91914613 91918765 -