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
Vvi19g0720 . . . . . . . . . . . Ahy11g0589 . Aip01g00578 . . . Amo11g0389 . . . . . . . . Bva12g02650 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1295 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1866 . . . . . . . . . . . . . . . . . .
Vvi19g0721 . . . . Adu01g00261 . . Aed4g2409 . . . . . . . . . . Apr2g0273 . Arst1g00365 . . . . . . . . Car05g01099 . Cca09g01181 . . . . . . . . Gma08g03040 . . . Gso8g2698 . . . . . . . . . . . . . . . Lapu6g02522 . Lasa5g01145 . . . . . . . . . Lja6g1291 . . . Mepo3g04728 . Mesa9g01953 . . . . . . . Phco11g01893 . . . . . Pste7g01403 . . . . . Pumo1g00825 . Pvu6g0562 . Rops11g02645 . Seca6g02960 . Spst6g01945 . . Ssu9g1042 . . . . Trre5g01187 . . . Vian6g00454 . Vifa2g01035 . Vimu2g02419 . Viun6g00911 . Vivi3g05371 . . .
Vvi19g0722 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0723 . . . . . Adu07g00208 Aed3g2575 . Aev07g0166 . Ahy17g0299 . Aip07g00217 . . . . . . Apr9g1822 . Arst7g00327 . Bach3g00925 . . . . Car02g02114 . Cca05g02005 Cca09g01182 . . Dod08g0206 . . . . . . . Gma02g02795 Gma14g00143 . . . . Lal18g1610 Lal22g0058 . . . . Lan2g1353 Lan2g1353 . . . . . . . Lasa2g02324 . . . . . . . . Lja6g1290 . . Mal8g0284 . Mepo7g02885 . Mesa17g04476 . . . Mtr5g3367 . . . Phco3g00178 . . . . . Pste8g00319 . . . Pte8g00004 . Pumo9g01809 . Pvu8g2848 . Rops9g00263 . Seca6g02959 . Spst8g00954 Ssu6g3550 Ssu9g1044 . . . Tpr4g0175 . Trre9g05161 . Tsu05g03990 . Vian7g01129 . Vifa1g03468 . Vimu1g00337 . Viun8g02945 . Vivi7g02616 Vra6g0156 Vra6g0156
Vvi19g0724 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0727 . . . . . . . . . Aev01g0840 . Ahy11g0588 . Aip01g00577 . . . Amo11g0388 . Apr9g1933 . . . . . . Bva12g02646 . Car02g02236 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr5g3567 . . . . . . Psa5g3949 . . . . . . . . . . . . . . . . . . . . . . Tpr4g0419 . . . Tsu05g04216 . . . . . . . . . . . .
Vvi19g0728 . . . . . . . Aed4g2408 . . . . . . . . . . Apr2g0274 . . . . . . . Bva12g02645 . Car02g02117 Car05g01100 . Cca09g01183 . . . . . . . . Gma08g03041 . . . Gso8g2701 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g0182 . . . . . . Psa5g3948 . . . . . . . . . . . . . . . . . . Ssu9g1046 . . . Tpr5g3341 . . . . . . . . . . . . . . . Vra6g0152
Vvi19g0729 . . . Accr3g02601 . Adu07g00029 . . . . . Ahy11g0586 . Aip01g00575 . Alju07g0241 . Amo11g0383 . . . Arst7g00085 . . . Bisa05g2455 Bva12g02644 . . . . . . Dere05g0484 . . . Enph7g1694 . Glsi10g2676 . . . . . . . . . . . Lal3g0812 . . . . . . . . . . . . . . . . . Lele26g1959 Lele27g0164 Lele28g1962 . . . Mal5g0218 . Mepo7g03116 . Mesa17g04735 . Mibi08g0208 . Mtr8g0180 . . . Phco3g00038 . Prci2g3591 . . . Pste8g00080 . . . . . Pumo9g01673 . Pvu8g2987 . Rops9g00049 . Seca8g00051 . Spst8g01094 . . . . . . . . . Tsu08g00148 . Vian7g01003 . Vifa1g03808 . Vimu1g00174 . Viun8g03124 . Vivi7g02419 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Apr Apr9g1933 Chr9 27798166 27802150 +
Vvi Vvi19g0720 Chr19 7835197 7836564 +
Ahy Ahy11g0589 Chr11 9245485 9248581 -
Aip Aip01g00578 Chr01 8686179 8688300 -
Amo Amo11g0389 Chr11 6264725 6266713 -
Bva Bva12g02650 Chr12 19520414 19522582 -
Lja Lja6g1295 Chr6 37708909 37710183 -
Sto Sto5g1866 Chr5 13737793 13739214 -
Vvi Vvi19g0721 Chr19 7842956 7844371 +
Adu Adu01g00261 Chr01 3364625 3366765 +
Aed Aed4g2409 Chr4 26326780 26328557 -
Apr Apr2g0273 Chr2 3322189 3324721 +
Arst Arst1g00365 Chr1 3368679 3370875 +
Car Car05g01099 Chr05 52749275 52753063 +
Cca Cca09g01181 Chr09 33369680 33371691 +
Gma Gma08g03040 Chr08 46999660 47001761 +
Gso Gso8g2698 Chr8 44653223 44655395 +
Lapu Lapu6g02522 Chr6 25183057 25185239 -
Lasa Lasa5g01145 Chr5 311320178 311321584 +
Lja Lja6g1291 Chr6 37681929 37683320 -
Mepo Mepo3g04728 Chr3 58899763 58901327 +
Mesa Mesa9g01953 Chr9 42811136 42811807 +
Phco Phco11g01893 Chr11 15244418 15245806 -
Pste Pste7g01403 Chr7 12777978 12779363 +
Pumo Pumo1g00825 Chr1 12562072 12564104 -
Pvu Pvu6g0562 Chr6 16917446 16919543 +
Rops Rops11g02645 Chr11 45244527 45246571 -
Seca Seca6g02960 Chr6 95457810 95460029 -
Spst Spst6g01945 Chr6 19003383 19004768 -
Ssu Ssu9g1042 Chr9 41322682 41324067 +
Trre Trre5g01187 Chr5 8383407 8384825 -
Vian Vian6g00454 Chr6 18927722 18929107 +
Vifa Vifa2g01035 Chr2 280893212 280894621 -
Vimu Vimu2g02419 Chr2 19829718 19832386 -
Viun Viun6g00911 Chr6 18813043 18815193 +
Vivi Vivi3g05371 Chr3 109904634 109911119 +
Vvi Vvi19g0722 Chr19 7850485 7850859 +
Vvi Vvi19g0723 Chr19 7850970 7865908 -
Adu Adu07g00208 Chr07 2027966 2033618 -
Aed Aed3g2575 Chr3 27873567 27881961 -
Aev Aev07g0166 Chr07 933994 939601 +
Ahy Ahy17g0299 Chr17 2821359 2822905 -
Aip Aip07g00217 Chr07 1879219 1885940 -
Apr Apr9g1822 Chr9 27055063 27063285 -
Arst Arst7g00327 Chr7 2179311 2184910 -
Bach Bach3g00925 Chr3 19862065 19866235 -
Car Car02g02114 Chr02 51521063 51528159 -
Cca Cca05g02005 Chr05 39921694 39926949 -
Cca Cca09g01182 Chr09 33373450 33379603 -
Dod Dod08g0206 Chr08 2400647 2409913 +
Gma Gma02g02795 Chr02 53538726 53547378 -
Gma Gma14g00143 Chr14 1148567 1170174 +
Lal Lal18g1610 Chr18 17555438 17563770 -
Lal Lal22g0058 Chr22 348830 363480 +
Lan Lan2g1353 Chr2 24239468 24246705 -
Lan Lan2g1353 Chr2 24239468 24246705 -
Lasa Lasa2g02324 Chr2 499285253 499293018 -
Lja Lja6g1290 Chr6 37677048 37680994 +
Mal Mal8g0284 Chr8 4029295 4036636 +
Mepo Mepo7g02885 Chr7 39836899 39844683 -
Mesa Mesa17g04476 Chr17 75880389 75887755 -
Mtr Mtr5g3367 Chr5 42584223 42592222 -
Phco Phco3g00178 Chr3 1296446 1303812 +
Pste Pste8g00319 Chr8 1721847 1740076 +
Pte Pte8g00004 Chr8 110905 123855 +
Pumo Pumo9g01809 Chr9 47220682 47228541 +
Pvu Pvu8g2848 Chr8 58474461 58482457 -
Rops Rops9g00263 Chr9 3295121 3304497 +
Seca Seca6g02959 Chr6 95447488 95455745 +
Spst Spst8g00954 Chr8 8401160 8408698 -
Ssu Ssu6g3550 Chr6 78873099 78882214 -
Ssu Ssu9g1044 Chr9 41328025 41341852 -
Tpr Tpr4g0175 Chr4 1929642 1936414 -
Trre Trre9g05161 Chr9 56922927 56928940 -
Tsu Tsu05g03990 Chr05 50856153 50860666 -
Vian Vian7g01129 Chr7 19490419 19502598 +
Vifa Vifa1g03468 Chr1 539741729 539746820 -
Vimu Vimu1g00337 Chr1 1984454 1991789 +
Viun Viun8g02945 Chr8 37028387 37036365 -
Vivi Vivi7g02616 Chr7 89937997 89945357 +
Vra Vra6g0156 Chr6 1133242 1141155 +
Vra Vra6g0156 Chr6 1133242 1141155 +
Vvi Vvi19g0724 Chr19 7874612 7876568 +
Vvi Vvi19g0725 Chr19 7886270 7891416 +
Vvi Vvi19g0726 Chr19 7899723 7903096 +
Vvi Vvi19g0727 Chr19 7911343 7917664 -
Aev Aev01g0840 Chr01 8233817 8242372 -
Ahy Ahy11g0588 Chr11 9233980 9245482 +
Aip Aip01g00577 Chr01 8674149 8685214 +
Amo Amo11g0388 Chr11 6252278 6263781 +
Apr Apr9g1933 Chr9 27798166 27802150 +
Bva Bva12g02646 Chr12 19509146 19512579 +
Car Car02g02236 Chr02 52423264 52424684 -
Mtr Mtr5g3567 Chr5 44503613 44505436 -
Psa Psa5g3949 Chr5 310737972 310744001 +
Tpr Tpr4g0419 Chr4 3988156 3990132 -
Tsu Tsu05g04216 Chr05 52668176 52674173 -
Vvi Vvi19g0728 Chr19 7926080 7935919 -
Aed Aed4g2408 Chr4 26319436 26326255 +
Apr Apr2g0274 Chr2 3332954 3339218 -
Bva Bva12g02645 Chr12 19500544 19506746 +
Car Car02g02117 Chr02 51535033 51541806 -
Car Car05g01100 Chr05 52762870 52771001 -
Cca Cca09g01183 Chr09 33403287 33410387 -
Gma Gma08g03041 Chr08 47021628 47030493 +
Gso Gso8g2701 Chr8 44678720 44685971 +
Mtr Mtr8g0182 Chr8 2185323 2192685 +
Psa Psa5g3948 Chr5 310680775 310688193 +
Ssu Ssu9g1046 Chr9 41393215 41395988 -
Tpr Tpr5g3341 Chr5 56329969 56339791 -
Vra Vra6g0152 Chr6 1089689 1096066 +
Vvi Vvi19g0729 Chr19 7936440 7941661 -
Accr Accr3g02601 Chr3 53930586 53932138 +
Adu Adu07g00029 Chr07 362841 364477 +
Ahy Ahy11g0586 Chr11 9181278 9188237 +
Aip Aip01g00575 Chr01 8618378 8626131 +
Alju Alju07g0241 Chr07 2808860 2810786 -
Amo Amo11g0383 Chr11 6199649 6206646 +
Arst Arst7g00085 Chr7 526704 528048 +
Bisa Bisa05g2455 Chr05 57386582 57396074 -
Bva Bva12g02644 Chr12 19494374 19497866 +
Dere Dere05g0484 Chr05 7600263 7601981 +
Enph Enph7g1694 Chr7 22050422 22052342 -
Glsi Glsi10g2676 Chr10 45812281 45813378 +
Lal Lal3g0812 Chr3 7394130 7401893 +
Lele Lele26g1959 Chr26 23048155 23049590 +
Lele Lele27g0164 Chr27 1251664 1253860 -
Lele Lele28g1962 Chr28 22878219 22879656 +
Mal Mal5g0218 Chr5 3806338 3816135 +
Mepo Mepo7g03116 Chr7 41992644 41995868 -
Mesa Mesa17g04735 Chr17 79643617 79644083 -
Mibi Mibi08g0208 Chr08 3079278 3080603 -
Mtr Mtr8g0180 Chr8 2157696 2168000 +
Phco Phco3g00038 Chr3 306712 308107 +
Prci Prci2g3591 Chr2 45834702 45836426 +
Pste Pste8g00080 Chr8 494829 495812 +
Pumo Pumo9g01673 Chr9 45870766 45872527 +
Pvu Pvu8g2987 Chr8 59318664 59320347 -
Rops Rops9g00049 Chr9 684236 686812 +
Seca Seca8g00051 Chr8 711360 714453 +
Spst Spst8g01094 Chr8 9457497 9459578 -
Tsu Tsu08g00148 Chr08 1401609 1411714 +
Vian Vian7g01003 Chr7 18350911 18352109 +
Vifa Vifa1g03808 Chr1 586996762 586997996 -
Vimu Vimu1g00174 Chr1 961314 962523 +
Viun Viun8g03124 Chr8 37986505 37987878 -
Vivi Vivi7g02419 Chr7 88110830 88112586 +