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
Vvi16g1349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal17g0566 Lal4g0493 . . . . Lan15g0682 Lan15g0682 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g1814 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1350 Acco09g1868 . Accr7g00291 . Adu08g00422 . . . Aev08g0797 . Ahy17g2581 Ahy16g2949 Aip07g02785 Aip06g03152 Alju08g0247 . . Amo16g3571 Apr1g0665 . Arst8g00525 . Bach12g00975 . Bisa09g0926 . Bva12g01951 Bva06g02975 . . . . Dere04g1223 . . . . . Glsi08g0958 . . . . . . . . . Lal17g0565 . Lal21g0569 . . . . . . . . . Lapu9g01345 . Lasa5g03026 . Lele01g0197 Lele02g0196 Lele03g0203 Lele04g0193 . . . . Lja1g4835 . . . Mepo3g06546 . Mesa9g04082 . Mibi05g0205 . . . Phac9g01397 . Phco7g01426 . Prci15g0297 . . . Pste2g03439 . Pte3g00214 . . . Pumo10g01409 . Pvu9g0542 . Rops10g02111 . Seca4g02585 . Spst9g01467 . . . Sto9g2744 Sto5g1279 . . Trre5g03861 . . . Vian4g01370 . Vifa2g02712 . Vimu10g02141 . Viun9g02172 . Vivi3g02841 . . .
Vvi16g1351 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g1352 Acco10g2534 . Accr4g00245 . Adu08g00424 . . . Aev08g0799 . Ahy17g2583 . Aip07g02788 . Alju08g0248 . Amo17g2494 . Apr1g0667 . Arst8g00528 . . . Bisa09g0929 . Bva12g01952 . . . . . Dere04g1220 . . . Enph1g1816 . Glsi08g0960 . . . . . . . . . . Lal4g0492 Lal21g0568 . . . . . . . . . Lapu9g01347 . Lasa5g03022 . Lele01g0198 Lele02g0197 . Lele44g0222 . . . . Lja1g4838 . . . Mepo3g06543 . . . Mibi05g0206 . . . . . Phco7g01424 . Prci15g0299 . . . Pste2g03435 . . . . . Pumo10g01406 . Pvu9g0544 . . . Seca4g02578 . Spst9g01465 . . . Sto9g2746 Sto5g1277 . . Trre5g03858 . . . Vian4g01373 . Vifa2g02715 . Vimu10g02146 . Viun9g02176 . Vivi3g02845 . . .
Vvi16g1353 Acco10g2533 . Accr4g00246 . Adu08g00426 . . . . . . . . . Alju08g0249 . . . Apr1g0668 . Arst8g00533 . Bach12g00974 . Bisa09g0930 . Bva12g01953 Bva06g02974 . . . . . . . . Enph1g1815 . Glsi08g0961 . . . . . . . . . Lal17g0564 . . . . . Lan15g0683 . . . . . Lapu9g01348 . Lasa5g03018 . Lele01g0199 Lele02g0199 Lele03g0204 Lele04g0195 . . . . Lja1g4839 . . . Mepo3g06542 . Mesa9g04074 . Mibi05g0207 . . . . . Phco7g01423 . Prci15g0300 . Psa5g1838 . Pste2g03434 . . . . . Pumo10g01405 . Pvu9g0545 . Rops10g02107 . Seca4g02574 . Spst9g01464 . . . Sto9g2747 Sto5g1275 . . . . . . Vian4g01374 . Vifa2g02716 . Vimu10g02147 . Viun9g02180 . Vivi3g02852 . . .
Vvi16g1354 . . . . . . . . . . . . . . . . . . Apr1g0669 . . . Bach12g00973 . . . Bva12g01954 Bva06g02973 . . . . . . . . . . . . . . . . . . . . Lal17g0563 . . . . . Lan15g0684 . . . . . Lapu9g01349 . Lasa5g03017 . . . . . . . . . Lja1g4840 . . . Mepo3g06541 . Mesa9g04073 . . . . . . . Phco7g01422 . . . Psa5g1839 . Pste2g03433 . . . . . Pumo10g01404 . Pvu9g0546 . Rops10g02106 . Seca4g02573 . Spst9g01463 . . . . Sto5g1274 . . Trre5g03856 . . . Vian4g01375 . Vifa2g02717 . Vimu10g02149 . Viun9g02184 . Vivi3g02853 . . .
Vvi16g1355 . . . . . . . . Aev08g0803 . Ahy17g2586 . Aip07g02791 . . . Amo17g2499 . Apr1g0670 . . . . . . . Bva12g01955 Bva06g02972 . . . . . . . . . . . . . . . . . . . . . Lal4g0491 . . . . . . . . . . . . . . . . . . . . . . Lja1g4841 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2748 Sto5g1273 . . . . . . . . . . . . . . . . . .
Vvi16g1356 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0001 . . . . . . . . . . . . . . . . . . Apr1g0342 . . . . . . . Bva06g01586 . . Car06g00600 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4383 Lja4g0518 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0002 . . . . . . Aed10g0747 Aed5g2199 . . . . . . . . . . . Apr2g1110 . . . . . . Bva06g01586 Bva05g00178 . Car05g02586 Cca03g00264 Cca09g02343 . . . . . . . . Gma06g01448 Gma08g00063 Gma05g01959 . Gso6g1376 Gso6g1376 Gso6g1376 . Lal19g0993 Lal7g0847 Lal14g1418 . Lal4g0673 . Lan1g1511 Lan1g1511 Lan1g1511 . Lan1g1511 . . . . . . . . . . . . . Lja1g4383 Lja4g0518 Mal7g4831 Mal2g1391 . . . . . . Mtr8g3368 Mtr3g3454 . . . Phco7g01925 . . . Psa7g0913 . . . . . . . . . Pvu9g1641 . . . . . . Ssu1g2454 Ssu5g2948 . . Tpr3g0739 Tpr3g3259 . . Tsu02g00563 Tsu07g01200 . . . . . . . . . . . Vra7g3564
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g1349 Chr16 21928265 21930226 +
Lal Lal17g0566 Chr17 4027497 4029395 +
Lal Lal4g0493 Chr4 3536349 3538271 +
Lan Lan15g0682 Chr15 15484196 15486382 -
Lan Lan15g0682 Chr15 15484196 15486382 -
Psa Psa5g1814 Chr5 139535630 139538968 -
Vvi Vvi16g1350 Chr16 21934684 21938154 -
Acco Acco09g1868 Chr09 35581417 35584140 -
Accr Accr7g00291 Chr7 3904274 3906890 +
Adu Adu08g00422 Chr08 7447533 7449972 +
Aev Aev08g0797 Chr08 4604756 4606573 +
Ahy Ahy17g2581 Chr17 121607729 121610170 +
Ahy Ahy16g2949 Chr16 144146400 144150327 +
Aip Aip07g02785 Chr07 112952966 112955396 +
Aip Aip06g03152 Chr06 127239191 127243123 +
Alju Alju08g0247 Chr08 1770728 1773675 +
Amo Amo16g3571 Chr16 145921549 145925515 +
Apr Apr1g0665 Chr1 7938414 7941475 +
Arst Arst8g00525 Chr8 7419699 7422180 +
Bach Bach12g00975 Chr12 6936935 6939707 -
Bisa Bisa09g0926 Chr09 13319263 13325535 +
Bva Bva12g01951 Chr12 15485251 15488188 +
Bva Bva06g02975 Chr06 18548058 18551573 -
Dere Dere04g1223 Chr04 13702600 13707015 -
Glsi Glsi08g0958 Chr08 7061215 7069808 +
Lal Lal17g0565 Chr17 4027390 4033243 -
Lal Lal21g0569 Chr21 4216807 4221050 -
Lapu Lapu9g01345 Chr9 27570935 27575245 +
Lasa Lasa5g03026 Chr5 527489681 527491407 -
Lele Lele01g0197 Chr01 1103760 1106395 +
Lele Lele02g0196 Chr02 1063588 1066001 +
Lele Lele03g0203 Chr03 1077376 1080006 +
Lele Lele04g0193 Chr04 1069240 1078544 +
Lja Lja1g4835 Chr1 65871378 65875338 +
Mepo Mepo3g06546 Chr3 79429491 79432068 -
Mesa Mesa9g04082 Chr9 73459908 73460982 -
Mibi Mibi05g0205 Chr05 2035392 2038212 +
Phac Phac9g01397 Chr9 11181407 11185625 +
Phco Phco7g01426 Chr7 13240118 13246085 -
Prci Prci15g0297 Chr15 1933019 1937905 +
Pste Pste2g03439 Chr2 35043598 35046859 -
Pte Pte3g00214 Chr3 1901563 1901965 +
Pumo Pumo10g01409 Chr10 18819453 18825381 -
Pvu Pvu9g0542 Chr9 9828616 9832517 +
Rops Rops10g02111 Chr10 38342943 38348997 -
Seca Seca4g02585 Chr4 44331119 44337917 -
Spst Spst9g01467 Chr9 14811496 14817574 -
Sto Sto9g2744 Chr9 29261354 29264016 +
Sto Sto5g1279 Chr5 8701503 8704840 -
Trre Trre5g03861 Chr5 39568339 39571499 -
Vian Vian4g01370 Chr4 27739944 27743325 +
Vifa Vifa2g02712 Chr2 746746269 746746864 +
Vimu Vimu10g02141 Chr10 31430298 31433710 +
Viun Viun9g02172 Chr9 31247235 31253793 +
Vivi Vivi3g02841 Chr3 47381460 47383952 +
Vvi Vvi16g1351 Chr16 21939879 21947044 -
Vvi Vvi16g1352 Chr16 21957186 21959751 +
Acco Acco10g2534 Chr10 36516060 36517792 -
Accr Accr4g00245 Chr4 2379802 2381556 +
Adu Adu08g00424 Chr08 7482007 7486442 +
Aev Aev08g0799 Chr08 4617148 4618929 +
Ahy Ahy17g2583 Chr17 121658568 121662958 +
Aip Aip07g02788 Chr07 112999181 113004001 +
Alju Alju08g0248 Chr08 1779368 1781116 +
Amo Amo17g2494 Chr17 122443817 122445520 +
Apr Apr1g0667 Chr1 7950093 7955453 +
Arst Arst8g00528 Chr8 7454205 7458572 +
Bisa Bisa09g0929 Chr09 13335821 13337506 +
Bva Bva12g01952 Chr12 15491332 15495059 +
Dere Dere04g1220 Chr04 13685093 13695348 -
Enph Enph1g1816 Chr1 43143387 43149000 -
Glsi Glsi08g0960 Chr08 7074497 7076825 +
Lal Lal4g0492 Chr4 3526366 3533259 -
Lal Lal21g0568 Chr21 4209203 4214667 -
Lapu Lapu9g01347 Chr9 27594698 27599379 +
Lasa Lasa5g03022 Chr5 527149433 527155351 +
Lele Lele01g0198 Chr01 1110664 1112401 +
Lele Lele02g0197 Chr02 1069427 1073093 +
Lele Lele44g0222 Chr44 1455998 1460812 -
Lja Lja1g4838 Chr1 65917780 65922600 +
Mepo Mepo3g06543 Chr3 79407438 79409837 -
Mibi Mibi05g0206 Chr05 2041501 2043044 +
Phco Phco7g01424 Chr7 13200182 13202475 -
Prci Prci15g0299 Chr15 1944356 1946837 +
Pste Pste2g03435 Chr2 34918397 34919929 -
Pumo Pumo10g01406 Chr10 18786772 18792992 -
Pvu Pvu9g0544 Chr9 9855546 9859550 +
Seca Seca4g02578 Chr4 44180071 44186930 -
Spst Spst9g01465 Chr9 14778371 14780499 -
Sto Sto9g2746 Chr9 29270267 29271526 +
Sto Sto5g1277 Chr5 8681966 8683936 -
Trre Trre5g03858 Chr5 39473711 39475152 -
Vian Vian4g01373 Chr4 27786575 27788617 +
Vifa Vifa2g02715 Chr2 747520220 747521214 +
Vimu Vimu10g02146 Chr10 31488040 31490390 +
Viun Viun9g02176 Chr9 31299560 31304347 +
Vivi Vivi3g02845 Chr3 47422085 47429135 +
Vvi Vvi16g1353 Chr16 21963841 21967786 +
Acco Acco10g2533 Chr10 36508585 36515462 -
Accr Accr4g00246 Chr4 2384642 2388795 +
Adu Adu08g00426 Chr08 7490776 7496057 -
Alju Alju08g0249 Chr08 1781754 1789269 +
Apr Apr1g0668 Chr1 7960054 7971396 +
Arst Arst8g00533 Chr8 7463174 7468255 -
Bach Bach12g00974 Chr12 6929487 6935796 -
Bisa Bisa09g0930 Chr09 13355990 13360300 +
Bva Bva12g01953 Chr12 15495862 15500393 +
Bva Bva06g02974 Chr06 18541031 18546466 -
Enph Enph1g1815 Chr1 43135242 43141312 -
Glsi Glsi08g0961 Chr08 7081110 7086810 +
Lal Lal17g0564 Chr17 4019038 4024578 -
Lan Lan15g0683 Chr15 15491095 15496603 +
Lapu Lapu9g01348 Chr9 27606943 27612872 +
Lasa Lasa5g03018 Chr5 526874174 526878885 -
Lele Lele01g0199 Chr01 1113201 1119568 +
Lele Lele02g0199 Chr02 1075004 1079596 +
Lele Lele03g0204 Chr03 1084292 1093308 +
Lele Lele04g0195 Chr04 1086483 1090586 +
Lja Lja1g4839 Chr1 65951682 65957664 +
Mepo Mepo3g06542 Chr3 79396063 79403095 -
Mesa Mesa9g04074 Chr9 73395121 73400882 -
Mibi Mibi05g0207 Chr05 2048448 2053852 +
Phco Phco7g01423 Chr7 13149694 13154084 -
Prci Prci15g0300 Chr15 1950371 1956132 +
Psa Psa5g1838 Chr5 141145752 141151777 +
Pste Pste2g03434 Chr2 34889773 34895559 -
Pumo Pumo10g01405 Chr10 18762240 18768100 -
Pvu Pvu9g0545 Chr9 9872261 9877808 +
Rops Rops10g02107 Chr10 38244966 38250587 -
Seca Seca4g02574 Chr4 44123842 44131186 -
Spst Spst9g01464 Chr9 14758606 14770657 -
Sto Sto9g2747 Chr9 29274423 29278473 +
Sto Sto5g1275 Chr5 8673980 8677314 -
Vian Vian4g01374 Chr4 27820247 27824572 +
Vifa Vifa2g02716 Chr2 748241054 748246014 +
Vimu Vimu10g02147 Chr10 31505144 31509454 +
Viun Viun9g02180 Chr9 31320001 31325711 +
Vivi Vivi3g02852 Chr3 47466332 47471600 +
Vvi Vvi16g1354 Chr16 21971524 21974363 +
Apr Apr1g0669 Chr1 7975256 7979045 +
Bach Bach12g00973 Chr12 6924669 6926652 -
Bva Bva12g01954 Chr12 15501775 15506089 +
Bva Bva06g02973 Chr06 18535719 18539741 -
Lal Lal17g0563 Chr17 4010701 4014851 -
Lan Lan15g0684 Chr15 15501168 15505307 +
Lapu Lapu9g01349 Chr9 27615082 27619152 +
Lasa Lasa5g03017 Chr5 526806540 526808035 -
Lja Lja1g4840 Chr1 65960802 65964275 +
Mepo Mepo3g06541 Chr3 79385897 79389748 -
Mesa Mesa9g04073 Chr9 73387769 73390283 -
Phco Phco7g01422 Chr7 13135964 13138640 -
Psa Psa5g1839 Chr5 141167637 141171111 +
Pste Pste2g03433 Chr2 34851266 34855343 -
Pumo Pumo10g01404 Chr10 18752186 18756455 -
Pvu Pvu9g0546 Chr9 9885933 9890018 +
Rops Rops10g02106 Chr10 38237053 38241098 -
Seca Seca4g02573 Chr4 44109745 44113698 -
Spst Spst9g01463 Chr9 14750805 14753216 -
Sto Sto5g1274 Chr5 8657888 8665112 -
Trre Trre5g03856 Chr5 39437201 39439682 -
Vian Vian4g01375 Chr4 27846670 27849333 +
Vifa Vifa2g02717 Chr2 748430564 748432377 +
Vimu Vimu10g02149 Chr10 31527274 31529944 +
Viun Viun9g02184 Chr9 31333661 31337705 +
Vivi Vivi3g02853 Chr3 47483516 47486442 +
Vvi Vvi16g1355 Chr16 21976204 21979074 -
Aev Aev08g0803 Chr08 4636983 4637954 -
Ahy Ahy17g2586 Chr17 122075142 122079500 -
Aip Aip07g02791 Chr07 113384476 113388733 -
Amo Amo17g2499 Chr17 122779482 122783867 -
Apr Apr1g0670 Chr1 7982515 7986619 -
Bva Bva12g01955 Chr12 15506926 15510724 -
Bva Bva06g02972 Chr06 18531743 18535157 +
Lal Lal4g0491 Chr4 3519361 3523699 +
Lja Lja1g4841 Chr1 65966149 65969238 -
Sto Sto9g2748 Chr9 29279693 29282582 -
Sto Sto5g1273 Chr5 8652198 8655068 +
Vvi Vvi16g1356 Chr16 22015221 22015892 -
Vvi Vvi17g0001 Chr17 9321 13368 +
Apr Apr1g0342 Chr1 4161756 4173146 +
Bva Bva06g01586 Chr06 11315951 11322636 +
Car Car06g00600 Chr06 6065556 6069334 -
Lja Lja1g4383 Chr1 56710107 56714102 +
Lja Lja4g0518 Chr4 4257069 4261146 +
Vvi Vvi17g0002 Chr17 23971 30276 +
Aed Aed10g0747 Chr10 6150882 6156077 -
Aed Aed5g2199 Chr5 24084803 24088770 -
Apr Apr2g1110 Chr2 17400350 17403745 -
Bva Bva06g01586 Chr06 11315951 11322636 +
Bva Bva05g00178 Chr05 865355 866325 -
Car Car05g02586 Chr05 70884521 70888030 -
Cca Cca03g00264 Chr03 3905465 3910090 +
Cca Cca09g02343 Chr09 48731703 48735156 -
Gma Gma06g01448 Chr06 13799519 13803517 -
Gma Gma08g00063 Chr08 539908 543595 -
Gma Gma05g01959 Chr05 40939463 40942619 -
Gso Gso6g1376 Chr6 13526686 13530776 -
Gso Gso6g1376 Chr6 13526686 13530776 -
Gso Gso6g1376 Chr6 13526686 13530776 -
Lal Lal19g0993 Chr19 13818482 13821032 -
Lal Lal7g0847 Chr7 15057524 15060782 -
Lal Lal14g1418 Chr14 15427989 15432961 -
Lal Lal4g0673 Chr4 5206601 5209917 -
Lan Lan1g1511 Chr1 25528571 25531123 +
Lan Lan1g1511 Chr1 25528571 25531123 +
Lan Lan1g1511 Chr1 25528571 25531123 +
Lan Lan1g1511 Chr1 25528571 25531123 +
Lja Lja1g4383 Chr1 56710107 56714102 +
Lja Lja4g0518 Chr4 4257069 4261146 +
Mal Mal7g4831 Chr7 116788335 116791997 -
Mal Mal2g1391 Chr2 16671312 16674396 +
Mtr Mtr8g3368 Chr8 44191966 44196568 -
Mtr Mtr3g3454 Chr3 48401391 48405047 -
Phco Phco7g01925 Chr7 23721715 23724109 -
Psa Psa7g0913 Chr7 68921033 68926429 +
Pvu Pvu9g1641 Chr9 23048771 23052165 +
Ssu Ssu1g2454 Chr1 68167871 68170696 +
Ssu Ssu5g2948 Chr5 76213090 76215832 -
Tpr Tpr3g0739 Chr3 7083490 7087999 +
Tpr Tpr3g3259 Chr3 35898355 35901828 -
Tsu Tsu02g00563 Chr02 4749450 4753482 +
Tsu Tsu07g01200 Chr07 10286972 10290672 +
Vra Vra7g3564 Chr7 54972141 54975527 +
Apr Apr1g0342 Chr1 4161756 4173146 +