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
Vvi17g0063 . . . . . . . Aed5g2231 . . . . . . . . . . Apr1g0323 Apr2g1146 . . . Bach2g02288 . . Bva06g01540 Bva05g00214 . Car05g02625 . Cca09g02378 . . . . . . . . . Gma08g00093 . . . . . . . . Lal14g1436 Lal17g0827 . . . . . . . . . Lapu9g00945 . Lasa5g03524 . . . . . . . . Lja1g4342 Lja4g0473 Mal7g4865 Mal2g1353 . . . . . . Mtr8g3399 Mtr3g3488 . . . Phco7g01848 . . . Psa7g0874 . Pste2g00364 . . . . . . . Pvu9g1680 . . . . . Spst9g02169 . Ssu5g2987 . . Tpr3g0705 Tpr3g3297 . . Tsu02g00528 Tsu07g01157 . . . . . Vimu10g01463 . . . . . Vra7g3538
Vvi17g0064 . . . . . . Aed10g0782 Aed5g2232 Aev08g2432 . Ahy18g2929 . Aip08g03327 . . . . . Apr1g0322 Apr2g1147 . Arst3g03788 . Bach2g02287 . . Bva06g01539 Bva05g00215 . Car05g02626 Cca03g00297 Cca09g02379 . . Dod09g0112 . . . . . Gma06g01485 Gma08g00094 Gma05g01988 . Gso6g1410 Gso6g1410 Gso6g1410 . Lal19g1012 Lal7g0867 Lal14g1442 Lal17g0828 Lal4g0698 . Lan1g1486 Lan1g1486 Lan1g1486 Lan1g1486 Lan1g1486 . . Lapu9g00946 . Lasa5g03526 . . . . . . . . Lja1g4341 Lja4g0472 Mal7g4866 Mal2g1352 . Mepo3g06971 . . . . Mtr8g3400 Mtr3g3489 . Phac9g02701 . Phco7g01838 . . . Psa7g0872 . Pste2g00362 . . . Pte1g02030 . . . Pvu9g1681 . . . . . Spst9g02167 Ssu1g2413 Ssu5g2988 . . Tpr3g0704 Tpr3g3298 . Trre5g04693 Tsu02g00527 Tsu07g01156 . . . . . Vimu10g01462 . . . . Vra5g0638 Vra7g3448
Vvi17g0065 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma17g01229 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa4g1568 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0068 . . . . . . Aed10g0783 . Aev08g2429 . Ahy18g2930 . Aip08g03328 . . . . . Apr1g0321 . . . . . . . Bva06g01537 . . Car05g02627 Cca03g00298 . . . Dod09g0113 . . . . . Gma06g01486 . . . Gso6g1411 . . . . . . Lal17g0829 . . . . . . . . . . . . . . . . . . . . Lja1g4340 . . Mal2g1351 . . . . . . . Mtr3g3490 . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2411 . . . . Tpr3g3299 . . . Tsu07g01155 . . . . . . . . . . Vra5g0639 .
Vvi17g0069 . . . . . . . Aed5g2233 Aev08g2428 . Ahy18g2931 . Aip08g03330 . . . . . . Apr2g1148 . . . . . . Bva06g01536 . . Car06g00573 . Cca09g02380 . . Dod09g0114 . . . . . . Gma08g00096 Gma05g01990 . . . . . Lal19g1013 Lal7g0868 Lal14g1443 . . . Lan1g1485 Lan1g1485 Lan1g1485 . . . . Lapu3g03533 . Lasa7g04654 . . . . . . . . . Lja4g0471 . . . Mepo2g04551 . Mesa13g00542 . . Mtr8g3401 . . Phac2g04281 . Phco4g03228 . . . Psa7g0856 . Pste3g01193 . . . Pte3g00138 . Pumo6g00550 . Pvu2g2922 . . . Seca12g06415 . Spst3g01166 . Ssu5g2989 . . Tpr3g0702 . . . Tsu02g00525 . . Vian1g03778 . Vifa6g03426 . Vimu11g04337 . Viun3g00652 . Vivi5g05758 . Vra7g3449
Vvi17g0070 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0071 . . . . . . Aed10g0784 Aed5g2234 Aev08g2427 . Ahy18g2932 . Aip08g03331 . . . . . Apr1g0320 Apr2g1149 . . . . . . Bva06g01535 Bva05g00216 . Car05g02628 Cca03g00299 Cca09g02381 . . Dod09g0115 . . . . . Gma06g01487 Gma04g01920 . . Gso6g1413 Gso6g1413 . . . . . Lal17g0830 Lal4g0700 Lal21g0777 . . . . . . . . . . . . . . . . . . Lja1g4339 . . Mal2g1350 . . . . . . . Mtr3g3491 . . . Phco4g03231 . . . . . . . . . . . Pumo6g00549 . Pvu2g2926 . Rops2g00633 . Seca12g06417 . . Ssu1g2410 . . . . Tpr3g3300 . . . Tsu07g01154 . . . Vifa2g03417 . . . Viun3g00649 . . Vra5g0642 .
Vvi17g0072 . . . . . Adu03g02861 . Aed5g2235 . . . . . . . . . . . Apr2g1150 . Arst3g03784 . . . . Bva06g01534 . . Car06g00572 . Cca09g02382 . . . . . . . . . Gma08g00097 Gma05g01991 . . . . . . Lal7g0869 . . . . . . . . . . . Lapu3g03536 . Lasa7g04655 . . . . . . . . . Lja4g0469 Mal7g4869 . . . . . . . Mtr8g3403 . . Phac2g04286 . . . . . Psa7g0855 . Pste3g01185 . . . . . Pumo6g00548 . Pvu2g2928 . Rops2g00632 . Seca12g06418 . . . Ssu5g2992 Sto4g0166 . Tpr3g0701 . . . Tsu02g00524 . . Vian1g03781 . Vifa6g03427 . Vimu11g04341 . Viun3g00647 . Vivi5g05759 . Vra7g3453
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja4g0473 Chr4 3871343 3873318 -
Mal Mal7g4865 Chr7 117176694 117179189 +
Mtr Mtr8g3399 Chr8 44513216 44515660 +
Psa Psa7g0872 Chr7 64195324 64197406 +
Tpr Tpr3g0705 Chr3 6798575 6801845 -
Tsu Tsu02g00528 Chr02 4462291 4465417 -
Gma Gma17g01229 Chr17 10830731 10836106 +
Vvi Vvi17g0063 Chr17 546502 548441 +
Aed Aed5g2231 Chr5 24309745 24311491 +
Apr Apr1g0323 Chr1 3894303 3896530 -
Apr Apr2g1146 Chr2 17732311 17734415 +
Bach Bach2g02288 Chr2 29466720 29468244 -
Bva Bva06g01540 Chr06 11060989 11063110 -
Bva Bva05g00214 Chr05 1068770 1070621 +
Car Car05g02625 Chr05 71286887 71289086 +
Cca Cca09g02378 Chr09 49135030 49138392 +
Gma Gma08g00093 Chr08 796341 798838 +
Lal Lal14g1436 Chr14 15569722 15571509 +
Lal Lal17g0827 Chr17 6136153 6138597 +
Lapu Lapu9g00945 Chr9 14609398 14611969 +
Lasa Lasa5g03524 Chr5 572608255 572609665 +
Lja Lja1g4342 Chr1 56096151 56098412 -
Lja Lja4g0473 Chr4 3871343 3873318 -
Mal Mal7g4865 Chr7 117176694 117179189 +
Mal Mal2g1353 Chr2 16254593 16256140 -
Mtr Mtr8g3399 Chr8 44513216 44515660 +
Mtr Mtr3g3488 Chr3 48762775 48764685 +
Phco Phco7g01848 Chr7 20219685 20221405 -
Psa Psa7g0874 Chr7 65380687 65383159 +
Pste Pste2g00364 Chr2 3025696 3028677 -
Pvu Pvu9g1680 Chr9 23670710 23672989 -
Spst Spst9g02169 Chr9 47893269 47894233 -
Ssu Ssu5g2987 Chr5 76872399 76874765 +
Tpr Tpr3g0705 Chr3 6798575 6801845 -
Tpr Tpr3g3297 Chr3 36309213 36311449 +
Tsu Tsu02g00528 Chr02 4462291 4465417 -
Tsu Tsu07g01157 Chr07 9875402 9877646 -
Vimu Vimu10g01463 Chr10 15851212 15853865 -
Vra Vra7g3538 Chr7 54715149 54717044 -
Vvi Vvi17g0064 Chr17 551002 552646 +
Aed Aed10g0782 Chr10 6485935 6488554 +
Aed Aed5g2232 Chr5 24317601 24320126 +
Aev Aev08g2432 Chr08 23262866 23264564 -
Ahy Ahy18g2929 Chr18 134292467 134295573 +
Aip Aip08g03327 Chr08 124473475 124527943 +
Apr Apr1g0322 Chr1 3873443 3876711 -
Apr Apr2g1147 Chr2 17743402 17746104 +
Arst Arst3g03788 Chr3 107599137 107600764 -
Bach Bach2g02287 Chr2 29458676 29461061 -
Bva Bva06g01539 Chr06 11051902 11053515 -
Bva Bva05g00215 Chr05 1074886 1077149 +
Car Car05g02626 Chr05 71292828 71296701 +
Cca Cca03g00297 Chr03 4478153 4480575 +
Cca Cca09g02379 Chr09 49151482 49154091 +
Dod Dod09g0112 Chr09 1636671 1640818 +
Gma Gma06g01485 Chr06 14261210 14281518 +
Gma Gma08g00094 Chr08 806392 808380 +
Gma Gma05g01988 Chr05 41238365 41241300 +
Gso Gso6g1410 Chr6 14014395 14017176 +
Gso Gso6g1410 Chr6 14014395 14017176 +
Gso Gso6g1410 Chr6 14014395 14017176 +
Lal Lal19g1012 Chr19 13989509 13992240 +
Lal Lal7g0867 Chr7 15218478 15220902 +
Lal Lal14g1442 Chr14 15585522 15587922 +
Lal Lal17g0828 Chr17 6148084 6151018 +
Lal Lal4g0698 Chr4 5632440 5634641 +
Lan Lan1g1486 Chr1 24976085 24979031 -
Lan Lan1g1486 Chr1 24976085 24979031 -
Lan Lan1g1486 Chr1 24976085 24979031 -
Lan Lan1g1486 Chr1 24976085 24979031 -
Lan Lan1g1486 Chr1 24976085 24979031 -
Lapu Lapu9g00946 Chr9 14660018 14667282 +
Lasa Lasa5g03526 Chr5 572938586 572940117 +
Lja Lja1g4341 Chr1 56065196 56067527 -
Lja Lja4g0472 Chr4 3859831 3862565 -
Mal Mal7g4866 Chr7 117195997 117197947 +
Mal Mal2g1352 Chr2 16245452 16249090 -
Mepo Mepo3g06971 Chr3 83366754 83368834 +
Mtr Mtr8g3400 Chr8 44534094 44536422 +
Mtr Mtr3g3489 Chr3 48767382 48772842 +
Phac Phac9g02701 Chr9 25732134 25741905 -
Phco Phco7g01838 Chr7 19762678 19772391 -
Psa Psa7g0872 Chr7 64195324 64197406 +
Pste Pste2g00362 Chr2 2985144 2987857 -
Pte Pte1g02030 Chr1 41420367 41422561 -
Pvu Pvu9g1681 Chr9 23692658 23700111 -
Spst Spst9g02167 Chr9 47707830 47708793 -
Ssu Ssu1g2413 Chr1 67383767 67385486 -
Ssu Ssu5g2988 Chr5 76903674 76905964 +
Tpr Tpr3g0704 Chr3 6782963 6785705 -
Tpr Tpr3g3298 Chr3 36316766 36321201 +
Trre Trre5g04693 Chr5 48857237 48859058 -
Tsu Tsu02g00527 Chr02 4446193 4448838 -
Tsu Tsu07g01156 Chr07 9865482 9866444 -
Vimu Vimu10g01462 Chr10 15796910 15798769 -
Vra Vra5g0638 Chr5 9840232 9842393 +
Vra Vra7g3448 Chr7 53819120 53821450 +
Vvi Vvi17g0065 Chr17 559339 562728 -
Vvi Vvi17g0066 Chr17 563888 567370 -
Gma Gma17g01229 Chr17 10830731 10836106 +
Psa Psa4g1568 Chr4 109324073 109324825 +
Vvi Vvi17g0067 Chr17 569936 579943 +
Vvi Vvi17g0068 Chr17 582569 588323 -
Aed Aed10g0783 Chr10 6493167 6499268 -
Aev Aev08g2429 Chr08 23227359 23232237 +
Ahy Ahy18g2930 Chr18 134310164 134315852 -
Aip Aip08g03328 Chr08 124541975 124547280 -
Apr Apr1g0321 Chr1 3854617 3867731 +
Bva Bva06g01537 Chr06 11033011 11038290 +
Car Car05g02627 Chr05 71300571 71305685 -
Cca Cca03g00298 Chr03 4551047 4558530 -
Dod Dod09g0113 Chr09 1654237 1665400 -
Gma Gma06g01486 Chr06 14303426 14311506 -
Gso Gso6g1411 Chr6 14024136 14032641 -
Lal Lal17g0829 Chr17 6156180 6165254 -
Lja Lja1g4340 Chr1 56047750 56055342 +
Mal Mal2g1351 Chr2 16223213 16237544 +
Mtr Mtr3g3490 Chr3 48777755 48785319 -
Ssu Ssu1g2411 Chr1 67301006 67312232 +
Tpr Tpr3g3299 Chr3 36325605 36333680 -
Tsu Tsu07g01155 Chr07 9853523 9859712 +
Vra Vra5g0639 Chr5 9863754 9882188 -
Vvi Vvi17g0069 Chr17 588893 591668 +
Aed Aed5g2233 Chr5 24329349 24332778 +
Aev Aev08g2428 Chr08 23221608 23225795 -
Ahy Ahy18g2931 Chr18 134317638 134325387 +
Aip Aip08g03330 Chr08 124550795 124557454 +
Apr Apr2g1148 Chr2 17754200 17759101 +
Bva Bva06g01536 Chr06 11029885 11032806 -
Car Car06g00573 Chr06 5766461 5771969 -
Cca Cca09g02380 Chr09 49172871 49177833 +
Dod Dod09g0114 Chr09 1672207 1676883 +
Gma Gma08g00096 Chr08 820461 829552 +
Gma Gma05g01990 Chr05 41252614 41257231 +
Lal Lal19g1013 Chr19 14001736 14004173 +
Lal Lal7g0868 Chr7 15227647 15231495 +
Lal Lal14g1443 Chr14 15595332 15599666 +
Lan Lan1g1485 Chr1 24930901 24933617 -
Lan Lan1g1485 Chr1 24930901 24933617 -
Lan Lan1g1485 Chr1 24930901 24933617 -
Lapu Lapu3g03533 Chr3 58729352 58739710 +
Lasa Lasa7g04654 Chr7 676813661 676817196 +
Lja Lja4g0471 Chr4 3846327 3851219 -
Mepo Mepo2g04551 Chr2 53972068 53976727 +
Mesa Mesa13g00542 Chr13 6357314 6359546 -
Mtr Mtr8g3401 Chr8 44554789 44558787 +
Phac Phac2g04281 Chr2 41277744 41282470 +
Phco Phco4g03228 Chr4 52954994 52961247 +
Psa Psa7g0856 Chr7 63002543 63006580 -
Pste Pste3g01193 Chr3 7613173 7623737 -
Pte Pte3g00138 Chr3 1385847 1388470 -
Pumo Pumo6g00550 Chr6 6916363 6921968 -
Pvu Pvu2g2922 Chr2 44765594 44772781 +
Seca Seca12g06415 Chr12 156174906 156180782 +
Spst Spst3g01166 Chr3 15209751 15214485 -
Ssu Ssu5g2989 Chr5 76936290 76941617 +
Tpr Tpr3g0702 Chr3 6759132 6763447 -
Tsu Tsu02g00525 Chr02 4425238 4428467 -
Vian Vian1g03778 Chr1 60735565 60738225 +
Vifa Vifa6g03426 Chr6 1128552482 1128556297 +
Vimu Vimu11g04337 Chr11 64700337 64706261 +
Viun Viun3g00652 Chr3 4005247 4014389 -
Vivi Vivi5g05758 Chr5 161360691 161365448 +
Vra Vra7g3449 Chr7 53836416 53840312 +
Vvi Vvi17g0070 Chr17 592949 596681 -
Vvi Vvi17g0071 Chr17 600066 601386 -
Aed Aed10g0784 Chr10 6499732 6502418 -
Aed Aed5g2234 Chr5 24333892 24334353 -
Aev Aev08g2427 Chr08 23217878 23219352 +
Ahy Ahy18g2932 Chr18 134328164 134330786 -
Aip Aip08g03331 Chr08 124560698 124562727 -
Apr Apr1g0320 Chr1 3849352 3850708 +
Apr Apr2g1149 Chr2 17760221 17761061 -
Bva Bva06g01535 Chr06 11027160 11029251 +
Bva Bva05g00216 Chr05 1081295 1082760 -
Car Car05g02628 Chr05 71307645 71310766 -
Cca Cca03g00299 Chr03 4563296 4566454 -
Cca Cca09g02381 Chr09 49180536 49186452 -
Dod Dod09g0115 Chr09 1677699 1679708 -
Gma Gma06g01487 Chr06 14322901 14326296 -
Gma Gma04g01920 Chr04 49531324 49536675 +
Gso Gso6g1413 Chr6 14043840 14047070 -
Gso Gso6g1413 Chr6 14043840 14047070 -
Lal Lal17g0830 Chr17 6167021 6171142 -
Lal Lal4g0700 Chr4 5652828 5656542 -
Lal Lal21g0777 Chr21 6559745 6565903 -
Lja Lja1g4339 Chr1 56042773 56045072 +
Mal Mal2g1350 Chr2 16217852 16219294 +
Mtr Mtr3g3491 Chr3 48793384 48796073 -
Phco Phco4g03231 Chr4 52967085 52967648 -
Pumo Pumo6g00549 Chr6 6913512 6915130 +
Pvu Pvu2g2926 Chr2 44786272 44787307 -
Rops Rops2g00633 Chr2 9007693 9009300 +
Seca Seca12g06417 Chr12 156184804 156186209 -
Ssu Ssu1g2410 Chr1 67283359 67285379 +
Tpr Tpr3g3300 Chr3 36335712 36338883 -
Tsu Tsu07g01154 Chr07 9849356 9851115 +
Vifa Vifa2g03417 Chr2 985336693 985337699 -
Viun Viun3g00649 Chr3 3997636 3998127 +
Vra Vra5g0642 Chr5 9901211 9903812 -
Vvi Vvi17g0072 Chr17 605080 637111 -
Adu Adu03g02861 Chr03 108689187 108698340 +
Aed Aed5g2235 Chr5 24336019 24345758 -
Apr Apr2g1150 Chr2 17763406 17773233 -
Arst Arst3g03784 Chr3 107414996 107424146 +
Bva Bva06g01534 Chr06 11017618 11025570 +
Car Car06g00572 Chr06 5749643 5761960 +
Cca Cca09g02382 Chr09 49195414 49212551 -
Gma Gma08g00097 Chr08 834358 852327 -
Gma Gma05g01991 Chr05 41260663 41272414 -
Lal Lal7g0869 Chr7 15232460 15242305 -
Lapu Lapu3g03536 Chr3 58762962 58775608 -
Lasa Lasa7g04655 Chr7 676841877 676851128 -
Lja Lja4g0469 Chr4 3827543 3840249 +
Mal Mal7g4869 Chr7 117253950 117262421 -
Mtr Mtr8g3403 Chr8 44568902 44578620 -
Phac Phac2g04286 Chr2 41317974 41333723 -
Psa Psa7g0855 Chr7 62959993 62970467 +
Pste Pste3g01185 Chr3 7561103 7592675 +
Pumo Pumo6g00548 Chr6 6910307 6911491 +
Pvu Pvu2g2928 Chr2 44800210 44802278 -
Rops Rops2g00632 Chr2 8990307 9004292 +
Seca Seca12g06418 Chr12 156191757 156205849 -
Ssu Ssu5g2992 Chr5 76972043 76994764 -
Sto Sto4g0166 Chr4 1221609 1231580 +
Tpr Tpr3g0701 Chr3 6747073 6756433 +
Tsu Tsu02g00524 Chr02 4400631 4410592 +
Vian Vian1g03781 Chr1 60775164 60805372 -
Vifa Vifa6g03427 Chr6 1128587608 1128595609 -
Vimu Vimu11g04341 Chr11 64732259 64756394 -
Viun Viun3g00647 Chr3 3976967 3990797 +
Vivi Vivi5g05759 Chr5 161371470 161380432 -
Vra Vra7g3453 Chr7 53884306 53913885 -