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
Vvi2g0702 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0703 . . . . Adu05g00492 Adu01g01277 Aed11g1558 Aed6g0627 Aev05g0808 Aev01g0423 Ahy15g0465 Ahy11g1194 Aip05g00466 Aip01g01260 Alju09g1906 Alju12g0399 . Amo11g1110 Apr7g0758 Apr10g1681 . . . . . . Bva08g00411 Bva11g01903 Car08g00358 Car07g01313 Cca06g01623 Cca11g01512 . . Dod02g0895 . . . . . Gma01g02050 Gma11g00365 Gma05g00648 Gma17g01387 . . . . Lal15g0227 . . . Lal16g0860 Lal23g1260 . . . . . . . Lapu3g01395 . . . . . . . . . . . . Mal6g1485 Mal5g3785 . . . . . . Mtr5g0490 Mtr4g3511 . . Phco4g01278 Phco8g00861 . Prci5g0424 . . . Pste7g00700 Pte14g01023 Pte12g00235 Pte3g02093 Pte2g00417 . . Pvu2g0038 Pvu3g2345 . . . . Spst2g00496 Spst3g04199 Ssu2g2662 Ssu6g1702 Sto6g3491 . Tpr2g5587 . . . Tsu05g00457 Tsu04g02276 . . . Vifa4g02810 Vimu7g02654 Vimu7g02654 . . . . Vra11g0443 Vra7g1306
Vvi2g0704 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0705 . . . . . Adu01g01271 . . . . . . . . . . . . . . . Arst1g01692 . Bach10g00313 . . . . . . . . . . . . . . . . . . . Gma17g01392 . . . . . . . . Lal16g0858 . . . . . . . . Lapu3g01400 . Lasa4g02722 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste7g00707 . . . Pte12g00237 . Pumo4g01774 . Pvu3g2349 . . . . . Spst3g04194 . . . . . . . Trre15g03505 . . . . . . . Vimu11g00256 . Viun3g04044 . Vivi1g02622 . .
Vvi2g0706 . . . . Adu05g00053 . . Aed6g0630 . Aev01g0425 . Ahy11g1190 . Aip01g01256 . . . . . Apr3g0663 Arst5g00073 . . . . . Bva08g00415 . . . . Cca11g01509 . . . Dod05g1278 . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g00527 . . . . . . . . . . . . Mal5g3782 Mepo5g01444 . . . . . Mtr5g1259 Mtr4g3508 . . Phco4g00461 . . . . . Pste1g01278 . Pte14g00665 . . . Pumo8g01334 . Pvu2g1490 . Rops1g01187 . Seca12g03533 . Spst2g01299 . . Ssu6g1705 Sto6g3493 . . Tpr4g3880 . . . Tsu04g02270 Vian10g01266 . Vifa1g08924 . . . Viun2g00598 . Vivi2g01028 . . Vra7g1302
Vvi2g0707 . . . . . . . . . . . . . . . . . . Apr7g0761 . . . . . . . . Bva11g01900 Car08g00359 . Cca06g01619 . . . . . . . . . Gma01g00984 Gma11g00370 . . Gso1g0833 Gso1g0833 . . Lal15g0226 . . . . Lal23g1262 Lan18g0938 . . . . Lan18g0938 Lapu2g00429 . . . . . . . . . . . Lja2g0174 . Mal6g1484 . . . . . . . Mtr5g0491 . Phac2g00817 . Phco4g01273 . . . . . . . . . . . . . Pvu2g0043 . . . . . Spst2g00501 . Ssu2g2657 . . . Tpr2g5588 . . . Tsu05g00458 . . . . . Vimu7g02657 . . . Vivi2g03610 . Vra11g0445 .
Vvi2g0708 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0709 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0710 . . . . . . . . Aev05g0807 . Ahy15g0466 . Aip05g00467 . . . . . . . . . . . . . . . . . . . . . Dod02g0894 . . . . . Gma01g02049 . . . Gso1g1728 . . . Lal15g0425 . . . . . Lan18g0744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1850 . . . . . . . . . . . . . . . . . .
Vvi2g0711 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0702 Chr2 6597031 6597204 +
Vvi Vvi2g0703 Chr2 6621379 6628822 +
Adu Adu05g00492 Chr05 5193465 5196946 +
Adu Adu01g01277 Chr01 29458518 29462736 -
Aed Aed11g1558 Chr11 19717966 19721314 -
Aed Aed6g0627 Chr6 5374444 5383054 +
Aev Aev05g0808 Chr05 5630320 5632796 -
Aev Aev01g0423 Chr01 3630289 3636685 +
Ahy Ahy15g0465 Chr15 5559022 5562080 +
Ahy Ahy11g1194 Chr11 37126658 37131076 +
Aip Aip05g00466 Chr05 5320235 5323272 +
Aip Aip01g01260 Chr01 35165922 35170066 +
Alju Alju09g1906 Chr09 42935039 42943835 +
Alju Alju12g0399 Chr12 4797240 4802184 -
Amo Amo11g1110 Chr11 34080529 34084873 +
Apr Apr7g0758 Chr7 14572787 14576866 +
Apr Apr10g1681 Chr10 29569874 29582506 +
Bva Bva08g00411 Chr08 2128923 2130723 +
Bva Bva11g01903 Chr11 16418234 16423035 -
Car Car08g00358 Chr08 2931966 2934852 +
Car Car07g01313 Chr07 12080451 12087060 +
Cca Cca06g01623 Chr06 31361229 31365527 -
Cca Cca11g01512 Chr11 38123960 38128890 -
Dod Dod02g0895 Chr02 11410535 11414001 -
Gma Gma01g02050 Chr01 55850430 55854025 -
Gma Gma11g00365 Chr11 3007726 3016709 +
Gma Gma05g00648 Chr05 7157354 7162502 +
Gma Gma17g01387 Chr17 12844540 12850213 +
Lal Lal15g0227 Chr15 1538665 1544240 -
Lal Lal16g0860 Chr16 5620959 5625132 +
Lal Lal23g1260 Chr23 13715604 13719510 +
Lapu Lapu3g01395 Chr3 15685326 15693284 +
Mal Mal6g1485 Chr6 27506301 27510730 -
Mal Mal5g3785 Chr5 106307189 106312783 -
Mtr Mtr5g0490 Chr5 4586409 4590872 +
Mtr Mtr4g3511 Chr4 48802912 48808455 -
Phco Phco4g01278 Chr4 10817969 10822100 -
Phco Phco8g00861 Chr8 8785580 8790252 +
Prci Prci5g0424 Chr5 5589478 5594202 -
Pste Pste7g00700 Chr7 6390169 6396908 +
Pte Pte14g01023 Chr14 31912051 31915919 +
Pte Pte12g00235 Chr12 1896741 1901233 +
Pte Pte3g02093 Chr3 35708439 35712924 +
Pte Pte2g00417 Chr2 3213669 3215142 -
Pvu Pvu2g0038 Chr2 533273 537661 +
Pvu Pvu3g2345 Chr3 44799140 44804353 +
Spst Spst2g00496 Chr2 4037990 4041196 +
Spst Spst3g04199 Chr3 93410408 93415003 -
Ssu Ssu2g2662 Chr2 86545740 86557678 -
Ssu Ssu6g1702 Chr6 28712105 28716780 +
Sto Sto6g3491 Chr6 40545830 40548856 +
Tpr Tpr2g5587 Chr2 64706125 64710043 +
Tsu Tsu05g00457 Chr05 3549538 3555410 +
Tsu Tsu04g02276 Chr04 25377508 25383967 -
Vifa Vifa4g02810 Chr4 891933300 891938781 -
Vimu Vimu7g02654 Chr7 22389432 22392341 +
Vimu Vimu7g02654 Chr7 22389432 22392341 +
Vra Vra11g0443 Chr11 3285982 3288922 +
Vra Vra7g1306 Chr7 29892343 29898349 -
Vvi Vvi2g0704 Chr2 6636464 6636649 +
Vvi Vvi2g0705 Chr2 6637468 6638866 +
Adu Adu01g01271 Chr01 29287396 29292311 +
Arst Arst1g01692 Chr1 29599514 29601506 +
Bach Bach10g00313 Chr10 2203317 2205697 -
Gma Gma17g01392 Chr17 12907176 12908282 -
Lal Lal16g0858 Chr16 5610894 5612988 +
Lapu Lapu3g01400 Chr3 15732049 15745445 -
Lasa Lasa4g02722 Chr4 517397030 517398425 +
Pste Pste7g00707 Chr7 6464100 6474744 -
Pte Pte12g00237 Chr12 1907177 1909935 +
Pumo Pumo4g01774 Chr4 23363682 23364761 -
Pvu Pvu3g2349 Chr3 44823862 44825185 -
Spst Spst3g04194 Chr3 93354729 93355820 +
Trre Trre15g03505 Chr15 41972482 41974607 -
Vimu Vimu11g00256 Chr11 2540119 2545808 -
Viun Viun3g04044 Chr3 48064088 48065718 +
Vivi Vivi1g02622 Chr1 55485483 55487359 -
Vvi Vvi2g0706 Chr2 6647111 6657480 +
Adu Adu05g00053 Chr05 581324 583782 +
Aed Aed6g0630 Chr6 5392384 5400149 -
Aev Aev01g0425 Chr01 3640846 3646667 -
Ahy Ahy11g1190 Chr11 36930449 36936651 +
Aip Aip01g01256 Chr01 34980019 34985695 +
Apr Apr3g0663 Chr3 16918406 16919557 +
Arst Arst5g00073 Chr5 601112 603467 +
Bva Bva08g00415 Chr08 2141028 2147219 -
Cca Cca11g01509 Chr11 38101944 38106538 +
Dod Dod05g1278 Chr05 36165486 36172309 +
Lasa Lasa2g00527 Chr2 98551945 98553583 -
Mal Mal5g3782 Chr5 106284276 106290030 +
Mepo Mepo5g01444 Chr5 15123034 15125145 -
Mtr Mtr5g1259 Chr5 12938157 12941262 +
Mtr Mtr4g3508 Chr4 48780179 48785810 +
Phco Phco4g00461 Chr4 3207968 3210948 +
Pste Pste1g01278 Chr1 4065012 4069705 -
Pte Pte14g00665 Chr14 27660710 27662785 -
Pumo Pumo8g01334 Chr8 45557675 45565017 +
Pvu Pvu2g1490 Chr2 28079750 28082617 -
Rops Rops1g01187 Chr1 27628120 27631413 +
Seca Seca12g03533 Chr12 81198953 81205383 -
Spst Spst2g01299 Chr2 11671997 11673592 +
Ssu Ssu6g1705 Chr6 28730451 28736210 -
Sto Sto6g3493 Chr6 40561634 40566099 -
Tpr Tpr4g3880 Chr4 44966844 44973190 -
Tsu Tsu04g02270 Chr04 25327792 25333386 +
Vian Vian10g01266 Chr10 21193108 21196415 +
Vifa Vifa1g08924 Chr1 1413715741 1413717431 +
Viun Viun2g00598 Chr2 14667611 14671338 +
Vivi Vivi2g01028 Chr2 40971443 40973115 +
Vra Vra7g1302 Chr7 29861462 29866838 +
Vvi Vvi2g0707 Chr2 6658119 6661725 -
Apr Apr7g0761 Chr7 14587386 14589368 +
Bva Bva11g01900 Chr11 16408487 16411234 -
Car Car08g00359 Chr08 2937330 2939590 +
Cca Cca06g01619 Chr06 31330916 31334194 -
Gma Gma01g00984 Chr01 34570508 34580103 -
Gma Gma11g00370 Chr11 3026224 3031900 +
Gso Gso1g0833 Chr1 33080301 33090152 -
Gso Gso1g0833 Chr1 33080301 33090152 -
Lal Lal15g0226 Chr15 1533043 1535302 -
Lal Lal23g1262 Chr23 13724281 13726590 +
Lan Lan18g0938 Chr18 14638195 14640483 +
Lan Lan18g0938 Chr18 14638195 14640483 +
Lapu Lapu2g00429 Chr2 3596438 3603237 +
Lja Lja2g0174 Chr2 1505941 1508681 +
Mal Mal6g1484 Chr6 27501703 27503405 -
Mtr Mtr5g0491 Chr5 4591652 4594094 +
Phac Phac2g00817 Chr2 5014616 5019329 -
Phco Phco4g01273 Chr4 10789125 10791161 -
Pvu Pvu2g0043 Chr2 557077 559275 +
Spst Spst2g00501 Chr2 4069942 4070969 +
Ssu Ssu2g2657 Chr2 86509368 86512339 -
Tpr Tpr2g5588 Chr2 64711514 64714191 +
Tsu Tsu05g00458 Chr05 3556457 3559550 +
Vimu Vimu7g02657 Chr7 22402006 22405069 -
Vivi Vivi2g03610 Chr2 144825394 144828593 -
Vra Vra11g0445 Chr11 3302928 3304322 +
Vvi Vvi2g0708 Chr2 6675174 6677529 +
Vvi Vvi2g0709 Chr2 6679456 6679611 -
Vvi Vvi2g0710 Chr2 6680635 6681662 -
Aev Aev05g0807 Chr05 5626082 5628483 -
Ahy Ahy15g0466 Chr15 5562980 5566505 +
Aip Aip05g00467 Chr05 5324161 5327580 +
Dod Dod02g0894 Chr02 11403630 11407659 -
Gma Gma01g02049 Chr01 55843675 55849258 -
Gso Gso1g1728 Chr1 54050431 54054010 -
Lal Lal15g0425 Chr15 2896881 2903028 -
Lan Lan18g0744 Chr18 12843875 12851876 +
Sto Sto11g1850 Chr11 17226979 17230968 -
Vvi Vvi2g0711 Chr2 6683686 6683850 -