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
Vvi18g0456 . Acco05g2602 . Accr3g00401 Adu08g00713 Adu07g01891 Aed3g1662 Aed10g0195 Aev08g1048 . Ahy17g2964 Ahy17g2006 Aip07g03226 Aip07g02116 . Alju07g2561 Amo17g3135 . Apr9g0938 Apr1g0087 Arst8g00943 Arst7g02378 . Bach3g01650 . Bisa05g1078 Bva06g02713 Bva12g02222 Car05g01622 Car02g01123 Cca05g01064 Cca03g01242 . Dere05g2373 Dod08g1257 . . Enph7g1209 . Glsi10g1057 Gma04g00928 Gma06g00911 Gma14g01740 Gma13g00707 Gso4g0865 Gso4g0865 Gso4g0865 Gso4g0865 . Lal17g0406 Lal21g0481 Lal6g0470 . Lal22g0444 . . . . . . Lapu9g01596 . Lasa5g01788 Lasa2g00889 . . . . . . . . Lja1g5221 Lja1g5971 Mal8g2432 Mal2g2513 . Mepo7g01541 . . . Mibi08g2270 Mtr5g2167 Mtr3g2346 . . . Phco3g01289 . Prci2g0570 . . . Pste8g01842 . . Pte16g01245 Pte8g01221 . Pumo9g01366 Pvu9g0331 Pvu8g1804 . Rops9g01492 . . . Spst8g01232 Ssu6g2435 Ssu1g3107 Sto5g0514 Sto9g3030 . Tpr7g1173 . . Tsu05g02495 Tsu03g02139 . Vian7g00009 . Vifa1g00512 Vimu10g02506 Vimu1g01862 . . . . . Vra5g0858
Vvi18g0457 Acco10g2304 . Accr4g00472 . Adu08g00714 . Aed3g1663 Aed10g0194 Aev08g1049 . Ahy17g2966 . Aip07g03227 . Alju08g0498 . Amo17g3134 . Apr9g0939 Apr1g0086 Arst8g00945 Arst8g00944 Bach12g00748 Bach3g01651 Bisa09g1545 . Bva06g02712 Bva12g02223 . Car02g01128 Cca05g01065 Cca03g01243 Dere04g0891 . Dod08g1255 . Enph1g1618 . Glsi08g1267 . Gma04g00927 Gma06g00910 Gma14g01742 Gma13g00708 Gso4g0863 Gso4g0863 Gso4g0863 Gso4g0863 . . . Lal6g0469 Lal18g1153 Lal22g0442 . . . . . . . . . Lasa2g00885 Lele01g0397 Lele02g0394 Lele03g0407 Lele04g0402 . . . . . Lja1g5972 Mal8g2429 . . Mepo7g01542 . Mesa17g02772 Mibi05g0439 . Mtr5g2168 . . Phac8g02258 Phco7g01109 Phco3g01287 Prci15g0601 . . . Pste2g02704 Pste8g01841 Pte3g01705 . Pte16g01246 . Pumo10g01129 Pumo9g01367 Pvu9g0332 Pvu8g1805 . Rops9g01491 Seca4g02823 Seca8g01983 Spst9g01163 Spst8g01229 Ssu6g2436 . . Sto9g3031 . . . Trre9g03028 Tsu05g02494 . Vian4g01658 Vian7g00011 . Vifa1g00520 Vimu10g02504 Vimu1g01863 Viun9g02585 Viun8g01500 . Vivi7g01172 . .
Vvi18g0458 . . . . . . Aed3g1664 . . . . . . . . . . . . . . . . . . . Bva06g02711 . . Car02g01129 Cca05g01066 . . . . . . . . . . . Gma14g01743 Gma13g00711 . . . . . . . . . Lal22g0441 . . . . . . . . . Lasa2g00881 . . . . . . . . . Lja1g5973 . . . . . . . . . . . . . Phco3g01286 . . . . . Pste8g01840 . . . Pte8g01220 . Pumo9g01368 . Pvu8g1806 . Rops9g01489 . Seca8g01976 . Spst8g01228 Ssu6g2437 . . Sto9g3032 . . . . . . . . . Vifa1g00523 . Vimu1g01864 . Viun8g01510 . Vivi7g01173 . .
Vvi18g0459 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0461 . . . . . . Aed3g1668 . Aev08g1050 . Ahy17g2968 Ahy17g2008 Aip07g03230 Aip07g02121 . . . Amo17g1712 Apr9g0940 . . . . . . . . . . . Cca05g01067 . . . Dod08g1253 . . . . . . . . Gma13g00713 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal8g2423 . . . . . . . Mtr5g2172 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g2438 . . Sto9g3033 . . . . Tsu05g02490 . . . . . . . . . . . . .
Vvi18g0462 . . . . . . . . . Aev07g1320 . Ahy16g3224 . Aip06g03468 . . . Amo16g3767 . . . . . . . . . Bva12g02224 . Car02g01131 . . . . . . . . . . . . Gma14g01744 . . . . . . . . . Lal18g1154 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0463 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0464 . . . . . . Aed3g1670 . . Aev07g1327 . Ahy16g3223 . Aip06g03467 . . . Amo16g3765 Apr9g0942 Apr1g0085 . . . . . . . . . Car02g01134 Cca05g01068 . . . . . . . . . . . Gma14g01746 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal8g2422 . . . . . . . Mtr5g2174 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g2439 . . . . . . . Tsu05g02489 . . . . . . . . . . . . .
Vvi18g0465 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vifa Vifa1g00523 Chr1 88366899 88367661 -
Vvi Vvi18g0456 Chr18 4494914 4503241 -
Acco Acco05g2602 Chr05 41615048 41620111 +
Accr Accr3g00401 Chr3 4467644 4472708 -
Adu Adu08g00713 Chr08 12943592 12949703 -
Adu Adu07g01891 Chr07 58418526 58424022 -
Aed Aed3g1662 Chr3 21269174 21275395 -
Aed Aed10g0195 Chr10 1563482 1571643 +
Aev Aev08g1048 Chr08 6342883 6346888 -
Ahy Ahy17g2964 Chr17 129811232 129817369 -
Ahy Ahy17g2006 Chr17 74859965 74865399 -
Aip Aip07g03226 Chr07 120697618 120703783 -
Aip Aip07g02116 Chr07 69097287 69101583 -
Alju Alju07g2561 Chr07 51292960 51298202 +
Amo Amo17g3135 Chr17 135678745 135684949 +
Apr Apr9g0938 Chr9 18020654 18027100 -
Apr Apr1g0087 Chr1 977617 984493 +
Arst Arst8g00943 Chr8 12913401 12919492 -
Arst Arst7g02378 Chr7 57263793 57269300 -
Bach Bach3g01650 Chr3 25233575 25238199 -
Bisa Bisa05g1078 Chr05 18571513 18576900 -
Bva Bva06g02713 Chr06 17079603 17087470 +
Bva Bva12g02222 Chr12 17060208 17066183 -
Car Car05g01622 Chr05 60950257 60953970 -
Car Car02g01123 Chr02 32153217 32157697 -
Cca Cca05g01064 Chr05 27418182 27424817 -
Cca Cca03g01242 Chr03 29585642 29594762 -
Dere Dere05g2373 Chr05 34108882 34114321 +
Dod Dod08g1257 Chr08 17684474 17690454 +
Enph Enph7g1209 Chr7 17731633 17738880 +
Glsi Glsi10g1057 Chr10 7034050 7039609 +
Gma Gma04g00928 Chr04 9415253 9423806 +
Gma Gma06g00911 Chr06 8419900 8425576 +
Gma Gma14g01740 Chr14 47150921 47155927 -
Gma Gma13g00707 Chr13 21169855 21176794 -
Gso Gso4g0865 Chr4 9281190 9289296 +
Gso Gso4g0865 Chr4 9281190 9289296 +
Gso Gso4g0865 Chr4 9281190 9289296 +
Gso Gso4g0865 Chr4 9281190 9289296 +
Lal Lal17g0406 Chr17 2736697 2745088 +
Lal Lal21g0481 Chr21 3407240 3414836 +
Lal Lal6g0470 Chr6 2995091 3002965 +
Lal Lal22g0444 Chr22 2890364 2895958 +
Lapu Lapu9g01596 Chr9 30585258 30593609 -
Lasa Lasa5g01788 Chr5 411805123 411811450 -
Lasa Lasa2g00889 Chr2 365270968 365275053 +
Lja Lja1g5221 Chr1 77855205 77866358 -
Lja Lja1g5971 Chr1 109572266 109578283 -
Mal Mal8g2432 Chr8 53948860 53953250 +
Mal Mal2g2513 Chr2 31840651 31846280 +
Mepo Mepo7g01541 Chr7 24406646 24412309 -
Mibi Mibi08g2270 Chr08 40416330 40421462 +
Mtr Mtr5g2167 Chr5 28132934 28138582 -
Mtr Mtr3g2346 Chr3 37260458 37267402 -
Phco Phco3g01289 Chr3 12131845 12136158 +
Prci Prci2g0570 Chr2 4158409 4165750 -
Pste Pste8g01842 Chr8 13128899 13134737 +
Pte Pte16g01245 Chr16 32124454 32129258 -
Pte Pte8g01221 Chr8 36214931 36220571 +
Pumo Pumo9g01366 Chr9 40471290 40474462 -
Pvu Pvu9g0331 Chr9 6988952 6991171 -
Pvu Pvu8g1804 Chr8 45774308 45779976 -
Rops Rops9g01492 Chr9 25114861 25121284 +
Spst Spst8g01232 Chr8 11336990 11341471 +
Ssu Ssu6g2435 Chr6 57152720 57157521 -
Ssu Ssu1g3107 Chr1 81374933 81381528 -
Sto Sto5g0514 Chr5 3250801 3256296 -
Sto Sto9g3030 Chr9 31219182 31227138 -
Tpr Tpr7g1173 Chr7 11710580 11719369 -
Tsu Tsu05g02495 Chr05 33937355 33943338 +
Tsu Tsu03g02139 Chr03 22774785 22781367 +
Vian Vian7g00009 Chr7 619371 623549 -
Vifa Vifa1g00512 Chr1 85420898 85424942 -
Vimu Vimu10g02506 Chr10 36308921 36310890 +
Vimu Vimu1g01862 Chr1 22956382 22960389 -
Vra Vra5g0858 Chr5 14443271 14451544 -
Vvi Vvi18g0457 Chr18 4520978 4529604 +
Acco Acco10g2304 Chr10 34861168 34864126 -
Accr Accr4g00472 Chr4 4575093 4578113 +
Adu Adu08g00714 Chr08 12978947 12983797 +
Aed Aed3g1663 Chr3 21294738 21300317 +
Aed Aed10g0194 Chr10 1544291 1548343 -
Aev Aev08g1049 Chr08 6361706 6365768 +
Ahy Ahy17g2966 Chr17 129885585 129891237 +
Aip Aip07g03227 Chr07 120758690 120763643 +
Alju Alju08g0498 Chr08 3575737 3578624 +
Amo Amo17g3134 Chr17 135631625 135636937 -
Apr Apr9g0939 Chr9 18044350 18048627 +
Apr Apr1g0086 Chr1 952696 956935 -
Arst Arst8g00945 Chr8 12948741 12953590 +
Arst Arst8g00944 Chr8 12948741 12953590 +
Bach Bach12g00748 Chr12 5214076 5217487 -
Bach Bach3g01651 Chr3 25250974 25254090 +
Bisa Bisa09g1545 Chr09 22953595 22956660 -
Bva Bva06g02712 Chr06 17068393 17072189 -
Bva Bva12g02223 Chr12 17077133 17080685 +
Car Car02g01128 Chr02 32395296 32401138 +
Cca Cca05g01065 Chr05 27455131 27460171 +
Cca Cca03g01243 Chr03 29636250 29639701 +
Dere Dere04g0891 Chr04 9419476 9422754 -
Dod Dod08g1255 Chr08 17568811 17575240 -
Enph Enph1g1618 Chr1 41431931 41435115 -
Glsi Glsi08g1267 Chr08 9218061 9221437 +
Gma Gma04g00927 Chr04 9385466 9389910 -
Gma Gma06g00910 Chr06 8386940 8391445 -
Gma Gma14g01742 Chr14 47250931 47255665 +
Gma Gma13g00708 Chr13 21213781 21219163 +
Gso Gso4g0863 Chr4 9245681 9250480 -
Gso Gso4g0863 Chr4 9245681 9250480 -
Gso Gso4g0863 Chr4 9245681 9250480 -
Gso Gso4g0863 Chr4 9245681 9250480 -
Lal Lal6g0469 Chr6 2981369 2985982 -
Lal Lal18g1153 Chr18 14432501 14437541 +
Lal Lal22g0442 Chr22 2867991 2874324 -
Lasa Lasa2g00885 Chr2 363820964 363824101 -
Lele Lele01g0397 Chr01 2332014 2334879 +
Lele Lele02g0394 Chr02 2310522 2313509 +
Lele Lele03g0407 Chr03 2340990 2343932 +
Lele Lele04g0402 Chr04 2400238 2403376 +
Lja Lja1g5972 Chr1 109638017 109643387 +
Mal Mal8g2429 Chr8 53710406 53717148 -
Mepo Mepo7g01542 Chr7 24449660 24456491 +
Mesa Mesa17g02772 Chr17 49162712 49169023 +
Mibi Mibi05g0439 Chr05 4225718 4228849 +
Mtr Mtr5g2168 Chr5 28164906 28170624 +
Phac Phac8g02258 Chr8 30840398 30845721 +
Phco Phco7g01109 Chr7 9395973 9400060 -
Phco Phco3g01287 Chr3 12047358 12051758 -
Prci Prci15g0601 Chr15 3953570 3957840 +
Pste Pste2g02704 Chr2 27257973 27262477 -
Pste Pste8g01841 Chr8 13085275 13090598 -
Pte Pte3g01705 Chr3 16577923 16582643 -
Pte Pte16g01246 Chr16 32139188 32142981 +
Pumo Pumo10g01129 Chr10 14524224 14529066 -
Pumo Pumo9g01367 Chr9 40530725 40536817 +
Pvu Pvu9g0332 Chr9 7052507 7057543 +
Pvu Pvu8g1805 Chr8 45858269 45863276 +
Rops Rops9g01491 Chr9 25066883 25072260 -
Seca Seca4g02823 Chr4 48817652 48822455 +
Seca Seca8g01983 Chr8 41878521 41884454 -
Spst Spst9g01163 Chr9 10657708 10660855 -
Spst Spst8g01229 Chr8 11302014 11306453 -
Ssu Ssu6g2436 Chr6 57199905 57204794 +
Sto Sto9g3031 Chr9 31242889 31243518 +
Trre Trre9g03028 Chr9 38606158 38613321 -
Tsu Tsu05g02494 Chr05 33878359 33884991 -
Vian Vian4g01658 Chr4 32546369 32551572 +
Vian Vian7g00011 Chr7 747378 751778 +
Vifa Vifa1g00520 Chr1 87095521 87098683 -
Vimu Vimu10g02504 Chr10 36249354 36253271 -
Vimu Vimu1g01863 Chr1 23041906 23046350 +
Viun Viun9g02585 Chr9 34977696 34981904 +
Viun Viun8g01500 Chr8 24947753 24953235 +
Vivi Vivi7g01172 Chr7 61231221 61235357 +
Vvi Vvi18g0458 Chr18 4531169 4532101 +
Aed Aed3g1664 Chr3 21303748 21305711 +
Bva Bva06g02711 Chr06 17066285 17067395 -
Car Car02g01129 Chr02 32468609 32470267 +
Cca Cca05g01066 Chr05 27466954 27468632 +
Gma Gma14g01743 Chr14 47280360 47282341 +
Gma Gma13g00711 Chr13 21231156 21233022 +
Lal Lal22g0441 Chr22 2865008 2867107 -
Lasa Lasa2g00881 Chr2 363358470 363359233 +
Lja Lja1g5973 Chr1 109666403 109668171 +
Phco Phco3g01286 Chr3 12034949 12036082 -
Pste Pste8g01840 Chr8 13068597 13071057 -
Pte Pte8g01220 Chr8 36185443 36186236 -
Pumo Pumo9g01368 Chr9 40554845 40556529 +
Pvu Pvu8g1806 Chr8 45920629 45922057 +
Rops Rops9g01489 Chr9 25042393 25043799 -
Seca Seca8g01976 Chr8 41824935 41826802 -
Spst Spst8g01228 Chr8 11295066 11296926 -
Ssu Ssu6g2437 Chr6 57215174 57217101 +
Sto Sto9g3032 Chr9 31248827 31249684 +
Vifa Vifa1g00523 Chr1 88366899 88367661 -
Vimu Vimu1g01864 Chr1 23062884 23064938 +
Viun Viun8g01510 Chr8 25002174 25003575 +
Vivi Vivi7g01173 Chr7 61331946 61332702 +
Vvi Vvi18g0459 Chr18 4536469 4537082 +
Vvi Vvi18g0460 Chr18 4544137 4544337 +
Vvi Vvi18g0461 Chr18 4550434 4552215 +
Aed Aed3g1668 Chr3 21329330 21334410 -
Aev Aev08g1050 Chr08 6367112 6368692 -
Ahy Ahy17g2968 Chr17 129920668 129923066 -
Ahy Ahy17g2008 Chr17 75250656 75253185 -
Aip Aip07g03230 Chr07 120790515 120792924 -
Aip Aip07g02121 Chr07 69467178 69469747 -
Amo Amo17g1712 Chr17 72986238 72989074 -
Apr Apr9g0940 Chr9 18082090 18083879 -
Cca Cca05g01067 Chr05 27480341 27482298 +
Dod Dod08g1253 Chr08 17479528 17480600 +
Gma Gma13g00713 Chr13 21279241 21281496 -
Mal Mal8g2423 Chr8 53501961 53507519 +
Mtr Mtr5g2172 Chr5 28236937 28239868 -
Ssu Ssu6g2438 Chr6 57334587 57336246 +
Sto Sto9g3033 Chr9 31253238 31254771 -
Tsu Tsu05g02490 Chr05 33826862 33831946 +
Vvi Vvi18g0462 Chr18 4564181 4565715 -
Aev Aev07g1320 Chr07 11923916 11926482 -
Ahy Ahy16g3224 Chr16 148849939 148853555 +
Aip Aip06g03468 Chr06 131857994 131860763 +
Amo Amo16g3767 Chr16 149103586 149108095 +
Bva Bva12g02224 Chr12 17082853 17084672 -
Car Car02g01131 Chr02 32713890 32717000 -
Gma Gma14g01744 Chr14 47312501 47315289 +
Lal Lal18g1154 Chr18 14437787 14440269 -
Vvi Vvi18g0463 Chr18 4566745 4574723 -
Vvi Vvi18g0464 Chr18 4584527 4586041 -
Aed Aed3g1670 Chr3 21380546 21383548 -
Aev Aev07g1327 Chr07 11990930 11993049 +
Ahy Ahy16g3223 Chr16 148833585 148836679 +
Aip Aip06g03467 Chr06 131843406 131846329 +
Amo Amo16g3765 Chr16 149063343 149065525 +
Apr Apr9g0942 Chr9 18117234 18119655 -
Apr Apr1g0085 Chr1 946177 947720 -
Car Car02g01134 Chr02 32833798 32834710 -
Cca Cca05g01068 Chr05 27495317 27497380 -
Gma Gma14g01746 Chr14 47320069 47322031 -
Mal Mal8g2422 Chr8 53373540 53464202 +
Mtr Mtr5g2174 Chr5 28279448 28284447 -
Ssu Ssu6g2439 Chr6 57352896 57396784 -
Tsu Tsu05g02489 Chr05 33814947 33818969 +
Vvi Vvi18g0465 Chr18 4586571 4589855 +