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
Vvi19g0740 . . . . . . . Aed4g2394 Aev07g0152 . Ahy17g0244 . Aip07g00182 . . . . . Apr2g0286 . . . Bach12g01380 . . . Bva12g02637 . . Car05g01112 . Cca09g01199 . . . . . . . . Gma08g03049 Gma18g00727 . . Gso8g2711 Gso8g2711 . . . . . . . . . . . . . . . . Lasa5g01164 . . . . . . . . . . . . . Mepo3g04777 . . . . . . . . . Phco11g01879 . . . Psa5g3934 . Pste7g01420 . Pte9g01178 . . . Pumo1g00815 . Pvu6g0579 . Rops11g02614 . Seca6g02943 . Spst6g01934 . . Ssu9g1058 . Sto5g1863 . . . . . . Vian6g00464 . Vifa2g01054 . Vimu2g02406 . Viun6g00922 . Vivi3g05324 . . .
Vvi19g0741 . . . . . Adu07g00175 Aed3g2582 . Aev07g0150 . Ahy17g0243 . Aip07g00181 . . . . . . Apr9g1833 . Arst7g00279 . . . . Bva12g02636 . Car02g02125 . Cca05g02014 . . . Dod08g0184 . . . . . . . Gma02g02800 Gma14g00134 . . . . . Lal22g0051 . . . . . . . . . . . . . Lasa2g02336 . . . . . . . . . . . Mal8g0247 . . . . . . . Mtr5g3404 . . . Phco3g00160 . . . Psa2g0192 . Pste8g00299 . . . . . . . Pvu8g2869 . Rops9g00228 . Seca8g00209 . Spst8g00969 Ssu6g3560 . Sto9g2018 . . Tpr4g0206 . . . Tsu05g04017 . Vian7g01116 . Vifa1g03497 . Vimu1g00309 . Viun8g02971 . Vivi7g02589 Vra6g0145 .
Vvi19g0742 . . . . Adu04g00512 . . Aed4g2391 . . . Ahy11g0558 . Aip01g00545 . . . Amo11g0358 Apr2g0288 . Arst4g00783 . Bach7g01145 . Bisa07g0334 . Bva12g02635 . . Car05g01113 . Cca09g01204 Dere02g3332 . . Dod05g0690 Enph4g0246 . Glsi11g3112 . Gma08g03051 Gma18g00725 . . Gso8g2715 Gso8g2715 . . . Lal22g0050 . . . . . . . . . . Lapu6g01675 . Lasa1g01172 . . . . . . . . . Lja6g1266 Lja6g2522 . . Mepo6g01031 . Mesa5g03626 . . . . . Phac6g00731 . Phco11g00904 . Prci3g0349 . . . Pste2g02677 . Pte9g01181 . . . Pumo2g00261 . Pvu6g1467 . Rops11g01152 . Seca6g04364 . Spst6g01281 . . Ssu9g1063 . . . . Trre3g01131 . . . Vian6g01336 . Vifa1g09804 . Vimu2g01199 . Viun6g02186 . Vivi4g03178 . . .
Vvi19g0743 . . . . Adu01g00285 . . Aed4g2386 . . . Ahy11g0557 . Aip01g00544 . . . Amo11g0357 . . Arst1g00394 . . . . . Bva12g02634 . . . . Cca09g01208 . . . Dod05g0689 . . . . . Gma18g00723 . . . . . . . . . Lal3g0806 . . . . . . . . . . . . . . . . . . . . Lja6g1265 . . . Mepo3g04794 . Mesa9g02009 . . . . . . . Phco11g01875 . . . Psa5g3932 . Pste7g01432 . . . . . Pumo1g00793 . Pvu6g0582 . Rops11g02609 . Seca6g02938 . Spst6g01931 . . Ssu9g1067 . Sto5g1862 . . Trre5g01137 . . . Vian6g00467 . . . Vimu2g02401 . Viun6g00926 . Vivi3g05322 . . .
Vvi19g0744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0745 . . . . Adu01g00286 . . . . . . Ahy11g0556 . Aip01g00543 . . . . Apr2g0289 . Arst1g00395 . . . . . Bva12g02633 . . . . . . . . Dod05g0688 . . . . . Gma18g00721 . . . . . . . . . . . . . . . . . . Lapu6g02503 . . . . . . . . . . . Lja6g1262 . . . Mepo3g04798 . Mesa9g02015 . . . . . . . Phco11g01873 . . . . . Pste7g01434 . . . . . Pumo1g00791 . Pvu6g0584 . Rops11g00545 . Seca6g02937 . Spst6g01929 . . . . . . . Trre5g01131 . . . Vian6g00469 . . . Vimu2g02399 . Viun6g00928 . . . . .
Vvi19g0746 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0747 . . . . . . . Aed4g2385 . . . . . . . . . . . . . . . . . . . . . . . Cca09g01210 . . . . . . . . Gma08g03052 . . . Gso8g2716 . . . . . . Lal3g0803 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu9g1069 . Sto5g1846 . . . . . . . . . . . . . . . . . .
Vvi19g0748 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0749 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi19g0740 Chr19 8117015 8120697 -
Aed Aed4g2394 Chr4 26243935 26246661 +
Aev Aev07g0152 Chr07 854947 856465 +
Ahy Ahy17g0244 Chr17 2312210 2314656 +
Aip Aip07g00182 Chr07 1412445 1414907 +
Apr Apr2g0286 Chr2 3447002 3450607 -
Bach Bach12g01380 Chr12 9739844 9742643 +
Bva Bva12g02637 Chr12 19432494 19435671 +
Car Car05g01112 Chr05 53088086 53090651 -
Cca Cca09g01199 Chr09 33811781 33815626 -
Gma Gma08g03049 Chr08 47131053 47135447 -
Gma Gma18g00727 Chr18 7706924 7710795 +
Gso Gso8g2711 Chr8 44779236 44783581 -
Gso Gso8g2711 Chr8 44779236 44783581 -
Lasa Lasa5g01164 Chr5 313846610 313848641 -
Mepo Mepo3g04777 Chr3 59722129 59724517 -
Phco Phco11g01879 Chr11 15112553 15114213 +
Psa Psa5g3934 Chr5 310099906 310102556 +
Pste Pste7g01420 Chr7 13026155 13031140 -
Pte Pte9g01178 Chr9 33422932 33426067 -
Pumo Pumo1g00815 Chr1 12376242 12379299 +
Pvu Pvu6g0579 Chr6 17136948 17138975 -
Rops Rops11g02614 Chr11 44705333 44708601 +
Seca Seca6g02943 Chr6 95104862 95107921 +
Spst Spst6g01934 Chr6 18803848 18807566 +
Ssu Ssu9g1058 Chr9 41846463 41846774 -
Sto Sto5g1863 Chr5 13684064 13686821 +
Vian Vian6g00464 Chr6 19259796 19263930 -
Vifa Vifa2g01054 Chr2 285000465 285002820 -
Vimu Vimu2g02406 Chr2 19653982 19658979 +
Viun Viun6g00922 Chr6 18912303 18916229 -
Vivi Vivi3g05324 Chr3 108825991 108828306 +
Vvi Vvi19g0741 Chr19 8126479 8128014 +
Adu Adu07g00175 Chr07 1585298 1587200 -
Aed Aed3g2582 Chr3 27919352 27921004 +
Aev Aev07g0150 Chr07 845358 847269 -
Ahy Ahy17g0243 Chr17 2303812 2305956 -
Aip Aip07g00181 Chr07 1404654 1406600 -
Apr Apr9g1833 Chr9 27121194 27122797 +
Arst Arst7g00279 Chr7 1742040 1743085 -
Bva Bva12g02636 Chr12 19425938 19431543 -
Car Car02g02125 Chr02 51588623 51590727 +
Cca Cca05g02014 Chr05 40001759 40004954 +
Dod Dod08g0184 Chr08 1897688 1899507 -
Gma Gma02g02800 Chr02 53614265 53617214 +
Gma Gma14g00134 Chr14 1089551 1093601 -
Lal Lal22g0051 Chr22 305836 310905 -
Lasa Lasa2g02336 Chr2 499485273 499487000 +
Mal Mal8g0247 Chr8 3648692 3650579 -
Mtr Mtr5g3404 Chr5 42928681 42931431 +
Phco Phco3g00160 Chr3 1031148 1034252 -
Psa Psa2g0192 Chr2 7209825 7212340 -
Pste Pste8g00299 Chr8 1632136 1643375 -
Pvu Pvu8g2869 Chr8 58561060 58564126 +
Rops Rops9g00228 Chr9 2794627 2796827 -
Seca Seca8g00209 Chr8 2564743 2575391 -
Spst Spst8g00969 Chr8 8506913 8508755 +
Ssu Ssu6g3560 Chr6 79197081 79214881 +
Sto Sto9g2018 Chr9 24156097 24161726 -
Tpr Tpr4g0206 Chr4 2150417 2152766 +
Tsu Tsu05g04017 Chr05 51055588 51058014 +
Vian Vian7g01116 Chr7 19309585 19311355 -
Vifa Vifa1g03497 Chr1 543934582 543936447 +
Vimu Vimu1g00309 Chr1 1851643 1853388 -
Viun Viun8g02971 Chr8 37187594 37189374 +
Vivi Vivi7g02589 Chr7 89712331 89714259 -
Vra Vra6g0145 Chr6 1025242 1027596 -
Vvi Vvi19g0742 Chr19 8128770 8133656 -
Adu Adu04g00512 Chr04 6278454 6284715 -
Aed Aed4g2391 Chr4 26231167 26236527 +
Ahy Ahy11g0558 Chr11 8604924 8610258 +
Aip Aip01g00545 Chr01 8074722 8080019 +
Amo Amo11g0358 Chr11 5686882 5692128 +
Apr Apr2g0288 Chr2 3461869 3466963 -
Arst Arst4g00783 Chr4 6257256 6263552 -
Bach Bach7g01145 Chr7 22165718 22168730 +
Bisa Bisa07g0334 Chr07 8860472 8867962 +
Bva Bva12g02635 Chr12 19420261 19425614 +
Car Car05g01113 Chr05 53092725 53096910 -
Cca Cca09g01204 Chr09 33906664 33913521 -
Dere Dere02g3332 Chr02 41851449 41863115 +
Dod Dod05g0690 Chr05 10340191 10346135 +
Enph Enph4g0246 Chr4 7183415 7194326 +
Glsi Glsi11g3112 Chr11 29038016 29043769 +
Gma Gma08g03051 Chr08 47146303 47153584 -
Gma Gma18g00725 Chr18 7670885 7681420 +
Gso Gso8g2715 Chr8 44794117 44802749 -
Gso Gso8g2715 Chr8 44794117 44802749 -
Lal Lal22g0050 Chr22 303370 308313 +
Lapu Lapu6g01675 Chr6 16605198 16615153 -
Lasa Lasa1g01172 Chr1 95664834 95670274 +
Lja Lja6g1266 Chr6 36841189 36846219 +
Lja Lja6g2522 Chr6 54095265 54101671 -
Mepo Mepo6g01031 Chr6 10860105 10866602 -
Mesa Mesa5g03626 Chr5 63777594 63782922 +
Phac Phac6g00731 Chr6 11968530 11974894 -
Phco Phco11g00904 Chr11 6703470 6712527 -
Prci Prci3g0349 Chr3 4455163 4462576 +
Pste Pste2g02677 Chr2 26951479 26959647 -
Pte Pte9g01181 Chr9 33432475 33434784 -
Pumo Pumo2g00261 Chr2 5090740 5098253 +
Pvu Pvu6g1467 Chr6 25527767 25536011 +
Rops Rops11g01152 Chr11 16931545 16937641 -
Seca Seca6g04364 Chr6 111227250 111234950 +
Spst Spst6g01281 Chr6 11805957 11813400 -
Ssu Ssu9g1063 Chr9 41884226 41889750 -
Trre Trre3g01131 Chr3 8251373 8256789 -
Vian Vian6g01336 Chr6 30952325 30961394 +
Vifa Vifa1g09804 Chr1 1592694329 1592699499 +
Vimu Vimu2g01199 Chr2 8031007 8031809 -
Viun Viun6g02186 Chr6 27674220 27683568 +
Vivi Vivi4g03178 Chr4 144493517 144499797 +
Vvi Vvi19g0743 Chr19 8137684 8146734 -
Adu Adu01g00285 Chr01 3574229 3577598 -
Aed Aed4g2386 Chr4 26200491 26203740 +
Ahy Ahy11g0557 Chr11 8591848 8602816 +
Aip Aip01g00544 Chr01 8069161 8072511 +
Amo Amo11g0357 Chr11 5681227 5684490 +
Arst Arst1g00394 Chr1 3578466 3581688 -
Bva Bva12g02634 Chr12 19416580 19419264 +
Cca Cca09g01208 Chr09 34025720 34028817 -
Dod Dod05g0689 Chr05 10329332 10333670 +
Gma Gma18g00723 Chr18 7606020 7609045 +
Lal Lal3g0806 Chr3 7340241 7345240 +
Lja Lja6g1265 Chr6 36835952 36838592 +
Mepo Mepo3g04794 Chr3 59942225 59945936 -
Mesa Mesa9g02009 Chr9 44068636 44071601 -
Phco Phco11g01875 Chr11 15088635 15092607 +
Psa Psa5g3932 Chr5 310071651 310072830 -
Pste Pste7g01432 Chr7 13082419 13085248 -
Pumo Pumo1g00793 Chr1 12005888 12009037 +
Pvu Pvu6g0582 Chr6 17164364 17167752 -
Rops Rops11g02609 Chr11 44622128 44625245 +
Seca Seca6g02938 Chr6 95074408 95077528 +
Spst Spst6g01931 Chr6 18725864 18728285 +
Ssu Ssu9g1067 Chr9 41961162 41964007 -
Sto Sto5g1862 Chr5 13678279 13681981 +
Trre Trre5g01137 Chr5 7992927 7995195 +
Vian Vian6g00467 Chr6 19320704 19323433 -
Vimu Vimu2g02401 Chr2 19611506 19615405 +
Viun Viun6g00926 Chr6 18942921 18945846 -
Vivi Vivi3g05322 Chr3 108812554 108813907 +
Vvi Vvi19g0744 Chr19 8198188 8202124 +
Vvi Vvi19g0745 Chr19 8202948 8204569 -
Adu Adu01g00286 Chr01 3584027 3586213 -
Ahy Ahy11g0556 Chr11 8563157 8565463 +
Aip Aip01g00543 Chr01 8032591 8034886 +
Apr Apr2g0289 Chr2 3471566 3486262 -
Arst Arst1g00395 Chr1 3588074 3590258 -
Bva Bva12g02633 Chr12 19413961 19416148 +
Dod Dod05g0688 Chr05 10322223 10325283 +
Gma Gma18g00721 Chr18 7591069 7593970 +
Lapu Lapu6g02503 Chr6 24988029 24991176 +
Lja Lja6g1262 Chr6 36810782 36813085 +
Mepo Mepo3g04798 Chr3 60004959 60007922 -
Mesa Mesa9g02015 Chr9 44239906 44242161 -
Phco Phco11g01873 Chr11 15079573 15081397 +
Pste Pste7g01434 Chr7 13094217 13097180 -
Pumo Pumo1g00791 Chr1 11996156 11998977 +
Pvu Pvu6g0584 Chr6 17173382 17175727 -
Rops Rops11g00545 Chr11 7556463 7558577 +
Seca Seca6g02937 Chr6 95068106 95070648 +
Spst Spst6g01929 Chr6 18678412 18680724 +
Trre Trre5g01131 Chr5 7947493 7955674 +
Vian Vian6g00469 Chr6 19335263 19337483 -
Vimu Vimu2g02399 Chr2 19597743 19599974 +
Viun Viun6g00928 Chr6 18953258 18955245 -
Vvi Vvi19g0746 Chr19 8205248 8210362 +
Vvi Vvi19g0747 Chr19 8223620 8239517 -
Aed Aed4g2385 Chr4 26193099 26199716 +
Cca Cca09g01210 Chr09 34075912 34079105 -
Gma Gma08g03052 Chr08 47159170 47162188 -
Gso Gso8g2716 Chr8 44806346 44809409 -
Lal Lal3g0803 Chr3 7316858 7320046 +
Ssu Ssu9g1069 Chr9 41984656 41986911 -
Sto Sto5g1846 Chr5 13524898 13526948 +
Vvi Vvi19g0748 Chr19 8231599 8231985 +
Vvi Vvi19g0749 Chr19 8237520 8237662 +