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
Vvi18g0286 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0287 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0387 . . . . . . . . . . . . . . . . . . .
Vvi18g0288 . . . . . . Aed3g1544 . . . . . . . . . . . Apr9g0823 . . Arst8g00740 . . . . . Bva12g02090 . . Cca05g00946 . . . . . . . . . . . Gma14g01396 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco3g01452 . . . . . . . . . Pte8g01014 . Pumo9g01193 . Pvu8g1661 . . . . . . Ssu6g2305 . . Sto9g2907 . . . . . . . Vian7g00164 . . . . . Viun8g01310 . . . .
Vvi18g0289 . . . . . . Aed3g1546 . . . . Ahy17g1881 . Aip07g01951 . . . . Apr9g0826 . . . . . . . Bva06g02839 Bva12g02091 . . Cca05g00947 . . . . Dod08g1388 . . . . . . Gma14g01394 Gma13g00597 . . . . . . . Lal6g0541 . Lal22g0491 . . . . . . . . . . . . . . . . . . . Lja1g5840 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g2306 . Sto5g0388 Sto9g2908 . . . . . . . . . . . . . . . . . .
Vvi18g0290 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0291 . . . . . . Aed3g1547 . . . . . . . . . . . Apr9g0827 . . . . . . . . Bva12g02092 Car04g02914 . Cca05g00948 . . . . . . . . . . . Gma14g01392 Gma13g00598 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5841 Mal1g5071 . . . . . . . Mtr1g0905 . . . . . . . Psa6g0964 . . . . . . . . . . . . . . . . . Ssu6g2307 . Sto5g0389 . Tpr1g3062 . . . Tsu01g01028 . . . . . . . . . . . . .
Vvi18g0292 . . . . . . Aed3g1550 . . . . . . . . . . . Apr9g0830 . . . . Bach3g01537 . . . Bva12g02093 . . Cca05g00950 . . . . . . . . . . . . . . . . . . . . . . Lal22g0490 . . . . . . . . . . . . . . . . . . . Lja1g5845 Mal1g5063 . . . . . . . Mtr1g0910 . . . . Phco3g01446 . . Psa6g0965 . . . . . . . . Pumo9g01200 . Pvu8g1668 . Rops9g01635 . . . Spst8g01358 Ssu6g2310 . . Sto9g2909 Tpr1g3061 . . . Tsu01g01032 . . . . . . Vimu1g02180 . Viun8g01114 . . . .
Vvi18g0293 . . . . . . . Aed10g0304 . . . Ahy17g1886 . Aip07g01955 . . . Amo17g1504 . Apr1g0185 . Arst7g02332 . Bach3g01538 . . Bva06g02838 Bva12g02094 Car04g02913 . . Cca03g01127 . . . Dod08g1384 . . . . Gma04g02381 Gma06g01017 . Gma13g00601 Gso4g2082 Gso4g2082 . Gso4g2082 . Lal17g0469 . Lal6g0540 . Lal22g0488 . . . . . . . . . . . . . . . . . . . Lja1g5846 Mal1g5062 . . . . . . . Mtr1g0911 . . . . Phco3g01445 . . Psa6g0966 . . . . . . Pte8g01016 . . . Pvu8g1669 . . . . . Spst8g01357 . Ssu1g2995 . . Tpr1g3060 . . . Tsu01g01033 . . . . . . Vimu1g02182 . . . . . .
Vvi18g0294 . . . . Adu08g00593 . . Aed10g0302 Aev08g0945 . Ahy17g2827 . Aip07g03085 . . . . . . Apr1g0184 Arst8g00760 . . . . . Bva06g02837 . Car05g02150 . . Cca03g01128 . . . . . . . . Gma04g02382 Gma06g01016 . . Gso4g2083 Gso4g2083 . . Lal4g0415 . . . . . Lan14g0605 . . . . . Lapu9g01488 . Lasa5g02790 . . . . . . . . . Lja1g5052 . . . Mepo3g06374 . Mesa9g03881 . . . . Mtr3g2949 Phac9g00866 . Phco7g01247 . . . . Psa5g2039 Pste2g03080 . . . . . Pumo10g01246 . Pvu9g1291 . Rops10g01900 . Seca4g02310 . Spst9g01296 . . Ssu1g2996 Sto5g0390 . . Tpr2g4973 Trre5g03453 . . Tsu07g02322 Vian4g01541 . Vifa2g02632 . Vimu10g02252 . Viun9g02388 . Vivi3g03105 . . Vra5g0786
Vvi18g0295 . Acco05g2717 . Accr3g00308 Adu08g02616 . . Aed10g0301 Aev08g0946 . Ahy17g2828 Ahy17g1887 Aip07g03086 Aip07g01956 . Alju07g2678 Amo17g2728 Amo17g1506 Apr9g0831 Apr1g0183 Arst8g03613 Arst7g02328 Bach2g02371 Bach3g01540 . Bisa05g0946 Bva06g02836 Bva12g02095 Car04g02912 Car05g02545 Cca05g00953 Cca03g01129 . Dere05g2509 Dod08g1379 Dod08g1379 . Enph7g1294 . Glsi10g1182 Gma04g02008 Gma06g01407 Gma14g01388 Gma13g00602 Gso4g1749 Gso4g1749 Gso4g1749 Gso4g1749 . . . Lal6g0539 Lal18g1123 Lal22g0487 . . . . . . . . . . . . . . Lele25g0269 Lele26g0281 Lele27g1819 Lele28g0289 . Lja1g5848 Mal1g5061 Mal2g1449 . . . . . Mibi08g2382 Mtr1g0912 Mtr3g3400 . . Phco7g01739 Phco3g01444 . Prci2g0421 . Psa5g0358 Pste2g00088 Pste8g01956 . . . . . Pumo9g01202 Pvu9g1573 Pvu8g1670 . . . . Spst9g01920 Spst8g01356 . Ssu1g2998 Sto5g0391 Sto9g2910 Tpr1g3059 Tpr3g3209 . . Tsu01g01034 Tsu07g01258 . Vian7g00171 . Vifa3g04042 . Vimu1g02185 . Viun8g01316 . . . Vra5g0787
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Mal Mal2g1449 Chr2 17432436 17435970 +
Mtr Mtr3g3400 Chr3 47870283 47874381 -
Tpr Tpr3g3209 Chr3 35241962 35245599 -
Tsu Tsu07g01258 Chr07 10967007 10970895 +
Vvi Vvi18g0286 Chr18 2845459 2846977 +
Vvi Vvi18g0287 Chr18 2855325 2859833 +
Bva Bva12g02089 Chr12 16321640 16325865 +
Sto Sto5g0387 Chr5 2424457 2427983 +
Vvi Vvi18g0288 Chr18 2861371 2864687 -
Aed Aed3g1544 Chr3 19895320 19896305 -
Apr Apr9g0823 Chr9 15852332 15854704 -
Arst Arst8g00740 Chr8 10282837 10283632 +
Bva Bva12g02090 Chr12 16326066 16327346 -
Cca Cca05g00946 Chr05 25206285 25206896 -
Gma Gma14g01396 Chr14 29551412 29553842 +
Phco Phco3g01452 Chr3 15549529 15552332 -
Pte Pte8g01014 Chr8 34331488 34333282 -
Pumo Pumo9g01193 Chr9 35705613 35705921 -
Pvu Pvu8g1661 Chr8 41129444 41133691 +
Ssu Ssu6g2305 Chr6 52287666 52289754 -
Sto Sto9g2907 Chr9 30357344 30358256 -
Vian Vian7g00164 Chr7 5613910 5614864 -
Viun Viun8g01310 Chr8 19639869 19642996 -
Vvi Vvi18g0289 Chr18 2866572 2870657 -
Aed Aed3g1546 Chr3 19911226 19913868 -
Ahy Ahy17g1881 Chr17 59460561 59464104 -
Aip Aip07g01951 Chr07 54656277 54659762 -
Apr Apr9g0826 Chr9 15879622 15883099 -
Bva Bva06g02839 Chr06 17791018 17793267 +
Bva Bva12g02091 Chr12 16328177 16330293 -
Cca Cca05g00947 Chr05 25207982 25211125 -
Dod Dod08g1388 Chr08 22982384 22985222 +
Gma Gma14g01394 Chr14 29398762 29405620 +
Gma Gma13g00597 Chr13 19094604 19097973 -
Lal Lal6g0541 Chr6 3470041 3472748 +
Lal Lal22g0491 Chr22 3242835 3245205 +
Lja Lja1g5840 Chr1 104919143 104923072 -
Ssu Ssu6g2306 Chr6 52294050 52296707 -
Sto Sto5g0388 Chr5 2428657 2430472 -
Sto Sto9g2908 Chr9 30360251 30362207 -
Vvi Vvi18g0290 Chr18 2875900 2876019 +
Vvi Vvi18g0291 Chr18 2877455 2879921 +
Aed Aed3g1547 Chr3 19915364 19919286 +
Apr Apr9g0827 Chr9 15889018 15893984 +
Bva Bva12g02092 Chr12 16331226 16334074 +
Car Car04g02914 Chr04 56238279 56241716 -
Cca Cca05g00948 Chr05 25212737 25216182 +
Gma Gma14g01392 Chr14 29357781 29362104 -
Gma Gma13g00598 Chr13 19109909 19115252 +
Lja Lja1g5841 Chr1 104926653 104929942 +
Mal Mal1g5071 Chr1 121934808 121938416 -
Mtr Mtr1g0905 Chr1 10455794 10459623 +
Psa Psa6g0964 Chr6 36943222 36946867 +
Ssu Ssu6g2307 Chr6 52321549 52325387 +
Sto Sto5g0389 Chr5 2432738 2435007 +
Tpr Tpr1g3062 Chr1 35092636 35096086 -
Tsu Tsu01g01028 Chr01 9441077 9444625 +
Vvi Vvi18g0292 Chr18 2881206 2881514 +
Aed Aed3g1550 Chr3 19939437 19939775 +
Apr Apr9g0830 Chr9 15918813 15919239 +
Bach Bach3g01537 Chr3 24480821 24481168 +
Bva Bva12g02093 Chr12 16335820 16336412 +
Cca Cca05g00950 Chr05 25222067 25226447 +
Lal Lal22g0490 Chr22 3236712 3237041 -
Lja Lja1g5845 Chr1 104974414 104975024 +
Mal Mal1g5063 Chr1 121783410 121783745 -
Mtr Mtr1g0910 Chr1 10512847 10513607 +
Phco Phco3g01446 Chr3 15432953 15433282 -
Psa Psa6g0965 Chr6 36985828 36989173 +
Pumo Pumo9g01200 Chr9 36130632 36131520 +
Pvu Pvu8g1668 Chr8 41277985 41278714 +
Rops Rops9g01635 Chr9 28660953 28661552 +
Spst Spst8g01358 Chr8 12722894 12723220 -
Ssu Ssu6g2310 Chr6 52559896 52560240 +
Sto Sto9g2909 Chr9 30363348 30363686 +
Tpr Tpr1g3061 Chr1 35067039 35067705 -
Tsu Tsu01g01032 Chr01 9486532 9486985 +
Vimu Vimu1g02180 Chr1 31182167 31182502 +
Viun Viun8g01114 Chr8 13972544 13973679 +
Vvi Vvi18g0293 Chr18 2882123 2885275 -
Aed Aed10g0304 Chr10 2451542 2455023 +
Ahy Ahy17g1886 Chr17 59881255 59886290 +
Aip Aip07g01955 Chr07 55056665 55061627 +
Amo Amo17g1504 Chr17 54992819 54997832 +
Apr Apr1g0185 Chr1 2057823 2060948 +
Arst Arst7g02332 Chr7 55002417 55007370 +
Bach Bach3g01538 Chr3 24481932 24485538 -
Bva Bva06g02838 Chr06 17786189 17790465 +
Bva Bva12g02094 Chr12 16336604 16340857 -
Car Car04g02913 Chr04 56228385 56236111 +
Cca Cca03g01127 Chr03 27326967 27332113 -
Dod Dod08g1384 Chr08 22781783 22786249 +
Gma Gma04g02381 Chr04 54176755 54181727 -
Gma Gma06g01017 Chr06 9501987 9507564 +
Gma Gma13g00601 Chr13 19144451 19150380 -
Gso Gso4g2082 Chr4 51246705 51251253 -
Gso Gso4g2082 Chr4 51246705 51251253 -
Gso Gso4g2082 Chr4 51246705 51251253 -
Lal Lal17g0469 Chr17 3228495 3233027 +
Lal Lal6g0540 Chr6 3464452 3468473 +
Lal Lal22g0488 Chr22 3231737 3236192 +
Lja Lja1g5846 Chr1 104975666 104980860 -
Mal Mal1g5062 Chr1 121776919 121781849 +
Mtr Mtr1g0911 Chr1 10515373 10520330 -
Phco Phco3g01445 Chr3 15425787 15431866 +
Psa Psa6g0966 Chr6 36991222 36995761 -
Pte Pte8g01016 Chr8 34339026 34343370 -
Pvu Pvu8g1669 Chr8 41279249 41284196 -
Spst Spst8g01357 Chr8 12717903 12722205 +
Ssu Ssu1g2995 Chr1 78653190 78657551 -
Tpr Tpr1g3060 Chr1 35060734 35065848 +
Tsu Tsu01g01033 Chr01 9487645 9492699 -
Vimu Vimu1g02182 Chr1 31183747 31188534 -
Vvi Vvi18g0294 Chr18 2885857 2893998 +
Adu Adu08g00593 Chr08 10743259 10745078 +
Aed Aed10g0302 Chr10 2445006 2446874 -
Aev Aev08g0945 Chr08 5589514 5590176 +
Ahy Ahy17g2827 Chr17 127153653 127155310 +
Aip Aip07g03085 Chr07 118181717 118183355 +
Apr Apr1g0184 Chr1 2052299 2054502 -
Arst Arst8g00760 Chr8 10714113 10715593 +
Bva Bva06g02837 Chr06 17783355 17785263 -
Car Car05g02150 Chr05 66699988 66702306 -
Cca Cca03g01128 Chr03 27336131 27341031 +
Gma Gma04g02382 Chr04 54183437 54186045 +
Gma Gma06g01016 Chr06 9499359 9501746 -
Gso Gso4g2083 Chr4 51252910 51255505 +
Gso Gso4g2083 Chr4 51252910 51255505 +
Lal Lal4g0415 Chr4 2877899 2885108 -
Lan Lan14g0605 Chr14 12900993 12903834 +
Lapu Lapu9g01488 Chr9 29257495 29259945 +
Lasa Lasa5g02790 Chr5 508368706 508370472 -
Lja Lja1g5052 Chr1 71264399 71266997 +
Mepo Mepo3g06374 Chr3 77812718 77815318 -
Mesa Mesa9g03881 Chr9 70985650 70987795 -
Mtr Mtr3g2949 Chr3 43368405 43370913 -
Phac Phac9g00866 Chr9 6545304 6547968 -
Phco Phco7g01247 Chr7 11071231 11073203 -
Psa Psa5g2039 Chr5 157544236 157546926 +
Pste Pste2g03080 Chr2 30737371 30739697 -
Pumo Pumo10g01246 Chr10 16370963 16373461 -
Pvu Pvu9g1291 Chr9 18581655 18584034 -
Rops Rops10g01900 Chr10 35069607 35071977 -
Seca Seca4g02310 Chr4 39312244 39315513 -
Spst Spst9g01296 Chr9 12521587 12523600 -
Ssu Ssu1g2996 Chr1 78662905 78665394 +
Sto Sto5g0390 Chr5 2440422 2443201 +
Tpr Tpr2g4973 Chr2 55518531 55520969 -
Trre Trre5g03453 Chr5 31343947 31346079 -
Tsu Tsu07g02322 Chr07 26314772 26317267 -
Vian Vian4g01541 Chr4 30608974 30610856 +
Vifa Vifa2g02632 Chr2 703835449 703836641 -
Vimu Vimu10g02252 Chr10 32993773 32995641 -
Viun Viun9g02388 Chr9 33356767 33359328 +
Vivi Vivi3g03105 Chr3 52562909 52565249 +
Vra Vra5g0786 Chr5 13460190 13462619 +
Vvi Vvi18g0295 Chr18 2899090 2905064 +
Acco Acco05g2717 Chr05 42519376 42522724 +
Accr Accr3g00308 Chr3 3371997 3375208 -
Adu Adu08g02616 Chr08 42258004 42261792 -
Aed Aed10g0301 Chr10 2441118 2444325 +
Aev Aev08g0946 Chr08 5591123 5599605 -
Ahy Ahy17g2828 Chr17 127155474 127158676 -
Ahy Ahy17g1887 Chr17 59925368 59931471 -
Aip Aip07g03086 Chr07 118183488 118186525 -
Aip Aip07g01956 Chr07 55101387 55107267 -
Alju Alju07g2678 Chr07 52317172 52320393 +
Amo Amo17g2728 Chr17 128071444 128073631 -
Amo Amo17g1506 Chr17 55038753 55042034 -
Apr Apr9g0831 Chr9 15928423 15933905 -
Apr Apr1g0183 Chr1 2047002 2051604 +
Arst Arst8g03613 Chr8 46630660 46634487 -
Arst Arst7g02328 Chr7 54816041 54822202 +
Bach Bach2g02371 Chr2 30051508 30055213 -
Bach Bach3g01540 Chr3 24489957 24493327 -
Bisa Bisa05g0946 Chr05 16334468 16337703 -
Bva Bva06g02836 Chr06 17778015 17782559 +
Bva Bva12g02095 Chr12 16345300 16349634 -
Car Car04g02912 Chr04 56215890 56221403 +
Car Car05g02545 Chr05 70522012 70525142 -
Cca Cca05g00953 Chr05 25263750 25268819 -
Cca Cca03g01129 Chr03 27344947 27349288 -
Dere Dere05g2509 Chr05 35608703 35611511 +
Dod Dod08g1379 Chr08 22519930 22524366 +
Dod Dod08g1379 Chr08 22519930 22524366 +
Enph Enph7g1294 Chr7 18444212 18448402 +
Glsi Glsi10g1182 Chr10 7967843 7970607 +
Gma Gma04g02008 Chr04 50529297 50533501 +
Gma Gma06g01407 Chr06 13316460 13320627 -
Gma Gma14g01388 Chr14 29238572 29243106 -
Gma Gma13g00602 Chr13 19171308 19175844 -
Gso Gso4g1749 Chr4 47615300 47619418 +
Gso Gso4g1749 Chr4 47615300 47619418 +
Gso Gso4g1749 Chr4 47615300 47619418 +
Gso Gso4g1749 Chr4 47615300 47619418 +
Lal Lal6g0539 Chr6 3458871 3463119 +
Lal Lal18g1123 Chr18 14192570 14197512 -
Lal Lal22g0487 Chr22 3226073 3231101 +
Lele Lele25g0269 Chr25 1586586 1589543 -
Lele Lele26g0281 Chr26 1647004 1651796 -
Lele Lele27g1819 Chr27 23133307 23136251 +
Lele Lele28g0289 Chr28 1708736 1714016 -
Lja Lja1g5848 Chr1 105005268 105010143 -
Mal Mal1g5061 Chr1 121758451 121762369 +
Mal Mal2g1449 Chr2 17432436 17435970 +
Mibi Mibi08g2382 Chr08 41578130 41581232 +
Mtr Mtr1g0912 Chr1 10530264 10535262 -
Mtr Mtr3g3400 Chr3 47870283 47874381 -
Phco Phco7g01739 Chr7 17589517 17592482 +
Phco Phco3g01444 Chr3 15412761 15419467 +
Prci Prci2g0421 Chr2 3018237 3022315 -
Psa Psa5g0358 Chr5 26090097 26095130 +
Pste Pste2g00088 Chr2 337679 341423 -
Pste Pste8g01956 Chr8 15082889 15088280 +
Pumo Pumo9g01202 Chr9 36145531 36151140 -
Pvu Pvu9g1573 Chr9 22147050 22151176 +
Pvu Pvu8g1670 Chr8 41291780 41297209 -
Spst Spst9g01920 Chr9 26971907 26978790 -
Spst Spst8g01356 Chr8 12702938 12715496 +
Ssu Ssu1g2998 Chr1 78669982 78673437 -
Sto Sto5g0391 Chr5 2444745 2447831 -
Sto Sto9g2910 Chr9 30365170 30372952 -
Tpr Tpr1g3059 Chr1 35039118 35044467 +
Tpr Tpr3g3209 Chr3 35241962 35245599 -
Tsu Tsu01g01034 Chr01 9496738 9501735 -
Tsu Tsu07g01258 Chr07 10967007 10970895 +
Vian Vian7g00171 Chr7 5751762 5756009 +
Vifa Vifa3g04042 Chr3 1192091395 1192094517 +
Vimu Vimu1g02185 Chr1 31290699 31295575 +
Viun Viun8g01316 Chr8 19749878 19754697 -
Vra Vra5g0787 Chr5 13464778 13470028 -