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
Vvi16g0959 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0960 . . . . . . . . . . Ahy15g3571 Ahy15g1353 Aip05g03888 Aip05g01419 . . . Amo15g0213 . . . . . . . . Bva03g01353 . . . . . . . . . . . . . Gma09g01284 . . . Gso9g1101 . . . . . . . . . . . . . . . . Lapu7g02019 . . . . . . . . . . . Lja5g0658 . Mal8g3135 . Mepo4g04213 . Mesa1g04605 . . . Mtr6g1235 . Phac7g01128 . Phco6g02448 . . . . . Pste4g02899 . . . . . . . Pvu7g0750 . . . . . Spst10g00936 . . . . . . . . . . . Vian3g00658 . Vifa3g02886 . Vimu3g03010 . . . . . .
Vvi16g0961 . . . . Adu05g03414 . . . . Aev05g0052 Ahy15g3572 Ahy15g1352 Aip05g03889 Aip05g01418 Alju02g3648 . . Amo15g0213 . . Arst5g04344 . . . Bisa01g0782 . Bva03g01352 . . . Cca02g02226 Cca08g00705 . . . Dod02g0045 Enph12g0885 . . . Gma10g02204 . . . Gso10g2075 . . . . . . Lal24g0055 . . . . . . . . Lapu4g00649 . . . . . . . . . . . Lja2g2648 . . Mal8g3134 Mepo5g04338 . Mesa22g01874 . . . . Mtr6g1236 . . Phco5g00739 . Prci14g2168 . Psa6g4493 . Pste9g01141 . . . . . Pumo6g02543 . Pvu4g1170 . Rops5g00935 . . . . . Ssu7g0813 . . . . Tpr2g4147 . . . Tsu06g02917 Vian8g01035 . Vifa1g04483 . Vimu8g02172 . Viun4g02114 . . . Vra8g2210 .
Vvi16g0962 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g2419 . . . . . . . . . . . . . . . . . . .
Vvi16g0963 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g01351 . . . . . . . . . . . . . Gma09g02355 . . . Gso9g2122 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0659 Mal1g2083 . . . . . . . Mtr1g3718 Mtr6g1237 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g0775 Tpr2g4263 . . Tsu01g04388 . . . . . . . . . . . . .
Vvi16g0964 Acco01g0250 . Accr1g00056 . Adu05g03415 . Aed1g2293 Aed7g0623 Aev05g2886 . Ahy15g3573 . Aip05g03890 . Alju02g3650 . . . . Apr6g0666 Arst5g04345 . Bach1g01139 . Bisa01g0783 . Bva03g01347 Bva04g01174 . . Cca02g02225 Cca08g00708 Dere06g1317 . Dod02g3002 . Enph12g0883 . Glsi01g1489 . Gma10g02203 . . . Gso10g2074 . . . . . Lal9g0820 . . . . . . . . . Lapu4g00653 Lapu7g02018 . Lasa6g04054 Lele45g0163 Lele46g0181 . Lele48g1278 . . . . Lja2g2650 Lja5g0660 . Mal8g3098 Mepo5g04343 . Mesa22g01881 . Mibi01g3404 . . Mtr6g1238 . Phac7g01129 Phco5g00740 Phco6g02447 Prci14g2169 . Psa6g4491 . Pste9g01140 . Pte16g00295 . Pte18g00386 . Pumo6g02537 . Pvu4g1169 Pvu7g0751 Rops5g00938 Rops6g02703 Seca10g03890 Seca10g04143 Spst4g03236 Spst10g00935 Ssu7g0814 Ssu9g0025 Sto10g2414 . . Tpr2g4264 Trre11g01197 . . Tsu06g02921 Vian8g01032 Vian3g00659 Vifa1g04471 Vifa3g02885 Vimu8g02174 Vimu3g03007 Viun4g02111 Viun7g03212 Vivi2g05335 Vivi1g04421 Vra8g2207 .
Vvi16g0965 . . . . . . . Aed7g0624 . . . . . . . . . . . Apr6g0665 . . Bach1g01138 . . . Bva03g01346 . . . . Cca08g00710 . . . . . . . . Gma16g01549 . . . Gso16g1479 . . . . . . . . Lal13g0052 . . . . . . Lapu4g00654 . . . . . . . . . . . Lja2g2651 . . . . . . . . . . . . . . . . . . . Pste9g01139 . . . . . Pumo6g02536 . Pvu4g1168 . Rops5g00943 . Seca10g03888 . Spst4g03237 . . . . . . . . . . . Vian8g01031 . . . Vimu8g02175 . Viun4g02110 . . . . .
Vvi16g0966 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0967 . . . . . . Aed1g2295 . . . . . . . . . . . . . . . . . . . Bva03g01338 Bva04g01175 . . Cca02g02222 . . . . . . . . . Gma10g02201 . . . Gso10g2072 . . . . . . . . . . . . . . . . . . Lasa6g04052 . . . . . . . . . . Mal1g2088 . . Mepo4g04211 . Mesa1g04603 . . Mtr1g3716 . . Phac7g01132 . Phco6g02445 . . Psa6g4485 . . Pste4g02862 . . . . . . . Pvu7g0754 . Rops6g02698 . Seca8g07350 . Spst10g00933 Ssu7g0817 . Sto10g2387 . Tpr1g0779 . . Trre1g05358 Tsu01g04385 . . Vian3g00661 . Vifa3g02877 . Vimu3g03005 . Viun7g03207 . Vivi1g04424 Vra8g2205 .
Vvi16g0968 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g01336 . . . . . . . . . . . . . Gma10g02200 . . . Gso10g2071 . . . . . . . . . . . . . . . . Lapu7g02016 . . . . . . . . . . . Lja5g0662 Mal1g2089 . . Mepo4g04210 . Mesa1g04602 . . Mtr1g3715 . . . . Phco6g02444 . . Psa6g4483 . . Pste4g02859 . . . . . . . Pvu7g0755 . . . . . . . . Sto10g2383 Sto8g4125 Tpr1g0781 . . Trre1g05356 Tsu01g04384 . . . . . . . . . . Vivi1g04425 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vifa Vifa1g04483 Chr1 697098993 697101160 +
Gma Gma09g02355 Chr09 48936745 48940567 +
Vvi Vvi16g0959 Chr16 17816895 17817823 -
Vvi Vvi16g0960 Chr16 17819178 17822079 -
Ahy Ahy15g3571 Chr15 158457873 158461952 -
Ahy Ahy15g1353 Chr15 22547870 22552426 -
Aip Aip05g03888 Chr05 147040655 147044772 -
Aip Aip05g01419 Chr05 21703404 21715833 -
Amo Amo15g0213 Chr15 7860425 7864908 +
Bva Bva03g01353 Chr03 13063700 13066589 +
Gma Gma09g01284 Chr09 34884974 34888329 +
Gso Gso9g1101 Chr9 31700496 31704234 +
Lapu Lapu7g02019 Chr7 36415814 36420465 +
Lja Lja5g0658 Chr5 5935228 5939420 -
Mal Mal8g3135 Chr8 85442537 85443160 +
Mepo Mepo4g04213 Chr4 51968490 51972062 +
Mesa Mesa1g04605 Chr1 71945935 71949487 +
Mtr Mtr6g1235 Chr6 17729010 17740068 -
Phac Phac7g01128 Chr7 7025740 7029716 -
Phco Phco6g02448 Chr6 45912829 45916420 +
Pste Pste4g02899 Chr4 20462874 20467609 +
Pvu Pvu7g0750 Chr7 6693535 6697334 -
Spst Spst10g00936 Chr10 10097675 10116407 +
Vian Vian3g00658 Chr3 6674125 6677222 -
Vifa Vifa3g02886 Chr3 811186634 811189432 +
Vimu Vimu3g03010 Chr3 44067925 44071029 +
Vvi Vvi16g0961 Chr16 17827695 17830625 -
Adu Adu05g03414 Chr05 106514555 106546734 -
Aev Aev05g0052 Chr05 401155 405776 -
Ahy Ahy15g3572 Chr15 158462982 158468431 -
Ahy Ahy15g1352 Chr15 22485607 22493004 -
Aip Aip05g03889 Chr05 147047920 147056687 -
Aip Aip05g01418 Chr05 21655106 21660456 -
Alju Alju02g3648 Chr02 55268730 55273479 -
Amo Amo15g0213 Chr15 7860425 7864908 +
Arst Arst5g04344 Chr5 105218520 105222614 -
Bisa Bisa01g0782 Chr01 12530246 12533580 -
Bva Bva03g01352 Chr03 13051436 13055084 +
Cca Cca02g02226 Chr02 42785199 42791837 +
Cca Cca08g00705 Chr08 13249049 13252500 -
Dod Dod02g0045 Chr02 879442 885934 -
Enph Enph12g0885 Chr12 15473582 15477253 +
Gma Gma10g02204 Chr10 49613271 49617313 +
Gso Gso10g2075 Chr10 47726008 47730449 +
Lal Lal24g0055 Chr24 340957 344725 -
Lapu Lapu4g00649 Chr4 7946671 7949764 -
Lja Lja2g2648 Chr2 36923482 36931558 +
Mal Mal8g3134 Chr8 85436809 85441039 +
Mepo Mepo5g04338 Chr5 56397060 56409425 -
Mesa Mesa22g01874 Chr22 41525131 41534969 -
Mtr Mtr6g1236 Chr6 17743470 17752217 -
Phco Phco5g00739 Chr5 8227403 8230258 -
Prci Prci14g2168 Chr14 28851452 28855842 -
Psa Psa6g4493 Chr6 393396226 393399742 -
Pste Pste9g01141 Chr9 8755552 8758689 +
Pumo Pumo6g02543 Chr6 59456200 59459659 +
Pvu Pvu4g1170 Chr4 36310909 36313382 +
Rops Rops5g00935 Chr5 18108325 18109557 -
Ssu Ssu7g0813 Chr7 16276426 16279780 -
Tpr Tpr2g4147 Chr2 44171823 44178286 -
Tsu Tsu06g02917 Chr06 38356825 38384998 -
Vian Vian8g01035 Chr8 27355591 27358678 +
Vifa Vifa1g04483 Chr1 697098993 697101160 +
Vimu Vimu8g02172 Chr8 28111967 28113862 -
Viun Viun4g02114 Chr4 36653411 36656853 +
Vra Vra8g2210 Chr8 40418003 40422062 +
Vvi Vvi16g0962 Chr16 17832956 17836814 -
Sto Sto10g2419 Chr10 34447758 34451059 +
Vvi Vvi16g0963 Chr16 17837265 17840061 -
Bva Bva03g01351 Chr03 13044996 13049120 +
Gma Gma09g02355 Chr09 48936745 48940567 +
Gso Gso9g2122 Chr9 45510595 45523289 +
Lja Lja5g0659 Chr5 5941923 5947192 -
Mal Mal1g2083 Chr1 27274978 27278838 -
Mtr Mtr1g3718 Chr1 48784429 48788248 +
Mtr Mtr6g1237 Chr6 17761495 17766740 -
Tpr Tpr1g0775 Chr1 6543768 6547389 -
Tpr Tpr2g4263 Chr2 45940020 45945465 -
Tsu Tsu01g04388 Chr01 51738009 51741560 +
Vvi Vvi16g0964 Chr16 17872954 17874798 +
Acco Acco01g0250 Chr01 2703735 2704898 -
Accr Accr1g00056 Chr1 1418755 1420620 -
Adu Adu05g03415 Chr05 106574832 106577323 +
Aed Aed1g2293 Chr1 19059406 19061169 -
Aed Aed7g0623 Chr7 4637781 4639730 +
Aev Aev05g2886 Chr05 29689862 29691889 -
Ahy Ahy15g3573 Chr15 158503665 158506296 +
Aip Aip05g03890 Chr05 147089897 147092383 +
Alju Alju02g3650 Chr02 55308057 55309928 +
Apr Apr6g0666 Chr6 9745236 9747979 -
Arst Arst5g04345 Chr5 105250563 105253094 +
Bach Bach1g01139 Chr1 24568317 24570248 -
Bisa Bisa01g0783 Chr01 12566635 12568518 +
Bva Bva03g01347 Chr03 13020118 13022046 -
Bva Bva04g01174 Chr04 8003342 8005562 +
Cca Cca02g02225 Chr02 42759196 42760979 -
Cca Cca08g00708 Chr08 13375925 13377826 +
Dere Dere06g1317 Chr06 25501798 25503681 -
Dod Dod02g3002 Chr02 63550531 63552852 -
Enph Enph12g0883 Chr12 15452899 15454761 -
Glsi Glsi01g1489 Chr01 74945570 74947465 -
Gma Gma10g02203 Chr10 49597538 49599310 +
Gso Gso10g2074 Chr10 47710312 47712441 +
Lal Lal9g0820 Chr9 5964422 5966425 +
Lapu Lapu4g00653 Chr4 8166293 8168703 +
Lapu Lapu7g02018 Chr7 36399357 36401973 +
Lasa Lasa6g04054 Chr6 614687950 614690097 -
Lele Lele45g0163 Chr45 1341540 1343390 -
Lele Lele46g0181 Chr46 1084128 1085993 -
Lele Lele48g1278 Chr48 17128845 17130695 +
Lja Lja2g2650 Chr2 37010318 37012712 +
Lja Lja5g0660 Chr5 5960994 5962910 +
Mal Mal8g3098 Chr8 84306050 84308014 -
Mepo Mepo5g04343 Chr5 56486387 56488904 +
Mesa Mesa22g01881 Chr22 41832307 41833317 +
Mibi Mibi01g3404 Chr01 59602881 59604839 +
Mtr Mtr6g1238 Chr6 17813662 17816060 +
Phac Phac7g01129 Chr7 7078470 7080949 -
Phco Phco5g00740 Chr5 8279136 8281076 +
Phco Phco6g02447 Chr6 45882992 45884791 +
Prci Prci14g2169 Chr14 28892573 28894806 +
Psa Psa6g4491 Chr6 393127645 393130489 -
Pste Pste9g01140 Chr9 8695557 8697500 -
Pte Pte16g00295 Chr16 3881353 3883260 -
Pte Pte18g00386 Chr18 8977624 8981257 -
Pumo Pumo6g02537 Chr6 59336465 59339165 -
Pvu Pvu4g1169 Chr4 36181098 36183682 -
Pvu Pvu7g0751 Chr7 6726236 6728345 -
Rops Rops5g00938 Chr5 18185715 18188094 +
Rops Rops6g02703 Chr6 48627971 48630187 -
Seca Seca10g03890 Chr10 81569538 81571538 -
Seca Seca10g04143 Chr10 92220597 92225577 -
Spst Spst4g03236 Chr4 72076211 72078148 +
Spst Spst10g00935 Chr10 10093915 10095990 +
Ssu Ssu7g0814 Chr7 16374210 16376033 +
Ssu Ssu9g0025 Chr9 3412378 3417714 -
Sto Sto10g2414 Chr10 34363159 34365289 -
Tpr Tpr2g4264 Chr2 45958689 45960931 -
Trre Trre11g01197 Chr11 11463322 11465265 -
Tsu Tsu06g02921 Chr06 38446407 38448533 -
Vian Vian8g01032 Chr8 27295228 27297174 -
Vian Vian3g00659 Chr3 6697136 6698941 -
Vifa Vifa1g04471 Chr1 694122947 694124983 -
Vifa Vifa3g02885 Chr3 809849795 809851795 -
Vimu Vimu8g02174 Chr8 28177601 28181157 +
Vimu Vimu3g03007 Chr3 44036287 44039875 +
Viun Viun4g02111 Chr4 36610853 36613253 -
Viun Viun7g03212 Chr7 34515341 34517495 +
Vivi Vivi2g05335 Chr2 177976869 177979195 +
Vivi Vivi1g04421 Chr1 94262182 94264793 +
Vra Vra8g2207 Chr8 40394421 40396917 +
Vvi Vvi16g0965 Chr16 17881747 17897817 +
Aed Aed7g0624 Chr7 4647210 4651639 +
Apr Apr6g0665 Chr6 9710322 9717329 -
Bach Bach1g01138 Chr1 24552404 24556650 -
Bva Bva03g01346 Chr03 13006276 13011312 -
Cca Cca08g00710 Chr08 13410000 13416506 +
Gma Gma16g01549 Chr16 35823703 35828531 -
Gso Gso16g1479 Chr16 34952621 34957824 -
Lal Lal13g0052 Chr13 341643 346355 +
Lapu Lapu4g00654 Chr4 8189232 8196476 +
Lja Lja2g2651 Chr2 37052835 37057985 +
Pste Pste9g01139 Chr9 8667380 8672999 -
Pumo Pumo6g02536 Chr6 59307408 59317782 -
Pvu Pvu4g1168 Chr4 36118564 36124916 -
Rops Rops5g00943 Chr5 18240672 18250408 +
Seca Seca10g03888 Chr10 81469312 81475941 -
Spst Spst4g03237 Chr4 72092792 72097748 +
Vian Vian8g01031 Chr8 27267770 27273955 -
Vimu Vimu8g02175 Chr8 28233993 28245387 +
Viun Viun4g02110 Chr4 36590878 36596027 -
Vvi Vvi16g0966 Chr16 17905499 17909663 +
Vvi Vvi16g0967 Chr16 17911251 17915030 -
Aed Aed1g2295 Chr1 19083690 19087983 -
Bva Bva03g01338 Chr03 12950444 12954638 +
Bva Bva04g01175 Chr04 8022074 8026411 -
Cca Cca02g02222 Chr02 42738960 42743100 +
Gma Gma10g02201 Chr10 49577371 49582077 +
Gso Gso10g2072 Chr10 47689195 47693939 +
Lasa Lasa6g04052 Chr6 614628064 614631020 +
Mal Mal1g2088 Chr1 27370556 27377219 -
Mepo Mepo4g04211 Chr4 51949751 51954816 +
Mesa Mesa1g04603 Chr1 71926318 71931528 +
Mtr Mtr1g3716 Chr1 48765619 48771449 +
Phac Phac7g01132 Chr7 7102079 7106752 -
Phco Phco6g02445 Chr6 45857213 45861034 +
Psa Psa6g4485 Chr6 392716917 392722302 +
Pste Pste4g02862 Chr4 20120452 20121696 +
Pvu Pvu7g0754 Chr7 6743232 6747224 -
Rops Rops6g02698 Chr6 48400170 48403309 +
Seca Seca8g07350 Chr8 170235565 170247484 +
Spst Spst10g00933 Chr10 10080298 10083992 +
Ssu Ssu7g0817 Chr7 16424004 16429401 -
Sto Sto10g2387 Chr10 34117546 34122567 -
Tpr Tpr1g0779 Chr1 6587933 6593445 -
Trre Trre1g05358 Chr1 59374209 59377866 +
Tsu Tsu01g04385 Chr01 51703400 51706854 +
Vian Vian3g00661 Chr3 6710873 6715786 -
Vifa Vifa3g02877 Chr3 808356714 808367470 -
Vimu Vimu3g03005 Chr3 44016580 44020986 +
Viun Viun7g03207 Chr7 34492782 34496973 +
Vivi Vivi1g04424 Chr1 94308706 94324272 +
Vra Vra8g2205 Chr8 40378305 40382138 +
Vvi Vvi16g0968 Chr16 17920170 17930273 -
Bva Bva03g01336 Chr03 12942756 12947068 +
Gma Gma10g02200 Chr10 49565096 49570473 +
Gso Gso10g2071 Chr10 47677400 47682782 +
Lapu Lapu7g02016 Chr7 36375345 36379496 +
Lja Lja5g0662 Chr5 5973505 5978126 -
Mal Mal1g2089 Chr1 27395472 27399899 -
Mepo Mepo4g04210 Chr4 51932812 51939670 +
Mesa Mesa1g04602 Chr1 71895851 71905477 +
Mtr Mtr1g3715 Chr1 48748086 48754382 +
Phco Phco6g02444 Chr6 45846791 45851411 +
Psa Psa6g4483 Chr6 392389634 392391936 +
Pste Pste4g02859 Chr4 20100620 20108697 +
Pvu Pvu7g0755 Chr7 6755316 6760591 -
Sto Sto10g2383 Chr10 34079144 34084486 -
Sto Sto8g4125 Chr8 44004158 44020087 +
Tpr Tpr1g0781 Chr1 6610591 6615198 -
Trre Trre1g05356 Chr1 59364119 59372768 +
Tsu Tsu01g04384 Chr01 51684914 51695598 +
Vivi Vivi1g04425 Chr1 94335043 94341052 -
Vifa Vifa1g04483 Chr1 697098993 697101160 +