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
Vvi4g1424 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1425 . . . . . Adu10g00576 . . . . . . . . . Alju03g0707 . . . . . Arst10g00746 . . . Bisa07g0495 . . . . . . . Dere02g2434 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa1g00143 . . . . . . . . . . . . . . . Mesa5g04517 . . . . . Phac6g03013 . Phco11g00136 . Prci3g0485 . . . Pste2g01642 . . . . . Pumo2g01132 . Pvu6g2174 . . . . . . . . . . . . . . . . . Vian6g02018 . Vifa1g10837 . Vimu2g00354 . . . . . .
Vvi4g1426 . . . Accr5g00525 . . . . . . . . . . . Alju03g0702 . . . . . Arst10g00745 . . . Bisa07g0499 . . . . . . . Dere02g2433 . . . . . Glsi11g2745 . . . . . . . . . . . . . . . . . . . . . . . Lasa1g00145 . . . . . . . . . . . . . . . . . . . . . . . Phco11g00137 . Prci3g0484 . . . . . . . . . . . Pvu6g2173 . . . . . . . . . . . . . . . . . . . . . Vimu2g00356 . . . Vivi1g08695 . .
Vvi4g1427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1428 . . . . Adu07g00653 . . . . . . . . . . . . . . . Arst7g00953 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g01885 Lasa5g00987 . . . . . . . . . . . . Mepo7g02409 Mepo3g04546 Mesa17g03860 Mesa9g01649 . . . . . . Phco3g00846 Phco11g02056 . . . . Pste8g00968 Pste7g01225 . Pte8g00283 . . Pumo9g02206 Pumo1g00926 Pvu8g2218 Pvu6g0420 Rops9g00711 Rops11g02863 Seca8g00741 . Spst8g00585 Spst6g02085 . . . . . . Trre9g04513 Trre5g01401 . . Vian7g01467 . Vifa1g02587 Vifa2g00898 Vimu1g00778 Vimu2g02893 Viun8g02454 . Vivi7g03163 Vivi3g05746 . .
Vvi4g1429 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1430 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1431 . . . . . . . . . . . . . . . . . . Apr1g0485 . . . . . . . Bva05g01594 . . . . . . . . . . . . . . . . . . . . . Lal21g0652 . . . . . Lan3g0724 . . . . . Lapu9g01160 . Lasa5g03296 . . . . . . . . . Lja1g4541 . Mal2g1549 . Mepo3g06792 . Mesa9g04309 . . . Mtr3g3314 . . . Phco7g01685 . . . Psa5g1488 . Pste2g03685 . Pte3g00052 . . . Pumo10g01630 . Pvu9g1522 . Rops10g02334 . Seca4g02011 . Spst9g01741 . . . Sto3g3155 Sto4g0324 Tpr3g3111 . Trre5g04256 . Tsu07g01356 . Vian4g01107 . Vifa2g03134 . Vimu10g01794 . Viun9g01836 . Vivi3g02508 . . .
Vvi4g1432 . . . . . . . . Aev03g2882 . Ahy13g3100 . Aip03g03511 . . . . . . . Arst3g04057 . . . . . Bva05g01593 . . . . . . . Dod04g2504 . . . . . . . . . . . . . . Lal4g0613 Lal17g0710 . . . . . . . . . Lapu9g01159 . Lasa5g03297 . . . . . . . . . Lja1g4540 . Mal2g1548 . Mepo3g06793 . Mesa9g04310 . . . Mtr3g3315 . . . Phco7g01686 . . . . . Pste2g03687 . . . . . . . Pvu9g1523 . Rops10g02335 . Seca4g02010 . Spst9g01743 . . . . . Tpr3g3112 . Trre5g04258 . Tsu07g01355 . . . Vifa2g03135 . Vimu10g01793 . Viun9g01835 . Vivi3g02507 . . .
Vvi4g1433 . . . . Adu10g01732 . . . . Aev08g0610 . Ahy20g1964 . Aip10g02307 . . . Amo20g2491 Apr1g0484 . Arst10g02225 . . . . . Bva05g01592 . . . . . . . . Dod09g1781 . . . . . . . . . . . . . Lal4g0614 . . . . . . . . . . Lapu9g01158 . . . . . . . . . . . Lja1g4539 . . . . . . . . . . . . . Phco7g01687 . . . . . Pste2g03689 . . Pte1g02119 . . Pumo10g01633 . Pvu9g1524 . Rops10g02336 . Seca4g02009 . Spst9g01744 . . . Sto3g3157 Sto4g0323 . . . . . . Vian4g01105 . . . Vimu10g01791 . Viun9g01834 . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Accr Accr5g00525 Chr5 26455533 26458966 +
Alju Alju03g0702 Chr03 30602504 30605700 -
Bisa Bisa07g0499 Chr07 12620690 12630465 -
Dere Dere02g2433 Chr02 26170729 26176598 +
Glsi Glsi11g2745 Chr11 20555528 20558819 +
Prci Prci3g0484 Chr3 6276412 6283849 -
Alju Alju03g0707 Chr03 30751350 30757415 +
Bisa Bisa07g0495 Chr07 12490994 12495788 -
Dere Dere02g2434 Chr02 26192317 26197268 +
Prci Prci3g0485 Chr3 6326108 6330843 +
Vifa Vifa1g10837 Chr1 1823154368 1823156352 +
Accr Accr5g00525 Chr5 26455533 26458966 +
Alju Alju03g0702 Chr03 30602504 30605700 -
Bisa Bisa07g0499 Chr07 12620690 12630465 -
Dere Dere02g2433 Chr02 26170729 26176598 +
Glsi Glsi11g2745 Chr11 20555528 20558819 +
Prci Prci3g0484 Chr3 6276412 6283849 -
Alju Alju03g0707 Chr03 30751350 30757415 +
Bisa Bisa07g0495 Chr07 12490994 12495788 -
Dere Dere02g2434 Chr02 26192317 26197268 +
Prci Prci3g0485 Chr3 6326108 6330843 +
Vifa Vifa1g10837 Chr1 1823154368 1823156352 +
Vvi Vvi4g1424 Chr4 21225419 21226076 +
Vvi Vvi4g1425 Chr4 21229251 21230747 +
Adu Adu10g00576 Chr10 6548512 6556555 +
Alju Alju03g0707 Chr03 30751350 30757415 +
Arst Arst10g00746 Chr10 6213094 6215016 +
Bisa Bisa07g0495 Chr07 12490994 12495788 -
Dere Dere02g2434 Chr02 26192317 26197268 +
Lasa Lasa1g00143 Chr1 10183962 10185928 -
Mesa Mesa5g04517 Chr5 74575105 74577540 +
Phac Phac6g03013 Chr6 26225054 26230390 +
Phco Phco11g00136 Chr11 875517 877643 -
Prci Prci3g0485 Chr3 6326108 6330843 +
Pste Pste2g01642 Chr2 17184243 17188078 -
Pumo Pumo2g01132 Chr2 16566534 16570748 +
Pvu Pvu6g2174 Chr6 31181086 31182728 +
Vian Vian6g02018 Chr6 37285267 37286987 +
Vifa Vifa1g10837 Chr1 1823154368 1823156352 +
Vimu Vimu2g00354 Chr2 2001533 2003494 -
Vvi Vvi4g1426 Chr4 21234508 21237843 +
Accr Accr5g00525 Chr5 26455533 26458966 +
Alju Alju03g0702 Chr03 30602504 30605700 -
Arst Arst10g00745 Chr10 6197507 6204786 +
Bisa Bisa07g0499 Chr07 12620690 12630465 -
Dere Dere02g2433 Chr02 26170729 26176598 +
Glsi Glsi11g2745 Chr11 20555528 20558819 +
Lasa Lasa1g00145 Chr1 10280156 10282551 -
Phco Phco11g00137 Chr11 882495 885927 -
Prci Prci3g0484 Chr3 6276412 6283849 -
Pvu Pvu6g2173 Chr6 31179481 31180855 +
Vimu Vimu2g00356 Chr2 2012284 2015390 -
Vivi Vivi1g08695 Chr1 249325467 249328954 +
Vvi Vvi4g1427 Chr4 21238415 21239744 -
Vvi Vvi4g1428 Chr4 21241493 21242831 +
Adu Adu07g00653 Chr07 7038742 7044709 -
Arst Arst7g00953 Chr7 7204052 7210639 -
Lasa Lasa2g01885 Chr2 483749990 483752330 -
Lasa Lasa5g00987 Chr5 267406697 267415858 +
Mepo Mepo7g02409 Chr7 34990354 34994341 +
Mepo Mepo3g04546 Chr3 56110565 56138581 -
Mesa Mesa17g03860 Chr17 67148381 67151274 +
Mesa Mesa9g01649 Chr9 37739603 37740321 -
Phco Phco3g00846 Chr3 7087753 7091088 +
Phco Phco11g02056 Chr11 17051027 17062160 +
Pste Pste8g00968 Chr8 5041137 5044616 -
Pste Pste7g01225 Chr7 11335319 11336573 -
Pte Pte8g00283 Chr8 6456637 6459487 -
Pumo Pumo9g02206 Chr9 54865590 54869732 -
Pumo Pumo1g00926 Chr1 14006410 14017153 +
Pvu Pvu8g2218 Chr8 52601583 52607767 -
Pvu Pvu6g0420 Chr6 15045864 15050901 -
Rops Rops9g00711 Chr9 10488576 10491741 -
Rops Rops11g02863 Chr11 49863271 49863888 +
Seca Seca8g00741 Chr8 9497408 9501585 -
Spst Spst8g00585 Chr8 5549643 5554393 +
Spst Spst6g02085 Chr6 21659561 21665132 +
Trre Trre9g04513 Chr9 52525753 52528681 +
Trre Trre5g01401 Chr5 9870086 9874158 +
Vian Vian7g01467 Chr7 23341975 23345246 -
Vifa Vifa1g02587 Chr1 406366524 406369002 -
Vifa Vifa2g00898 Chr2 234440952 234444655 -
Vimu Vimu1g00778 Chr1 5123114 5126362 -
Vimu Vimu2g02893 Chr2 27326803 27332119 +
Viun Viun8g02454 Chr8 34258919 34263195 +
Vivi Vivi7g03163 Chr7 96483398 96486542 +
Vivi Vivi3g05746 Chr3 131871456 131875023 +
Vvi Vvi4g1429 Chr4 21244408 21247369 +
Vvi Vvi4g1430 Chr4 21247719 21250071 -
Vvi Vvi4g1431 Chr4 21277236 21300122 +
Apr Apr1g0485 Chr1 5923445 5945589 -
Bva Bva05g01594 Chr05 12987122 12991161 -
Lal Lal21g0652 Chr21 4992773 4997357 +
Lan Lan3g0724 Chr3 13269682 13274803 -
Lapu Lapu9g01160 Chr9 25128947 25136626 -
Lasa Lasa5g03296 Chr5 551417660 551421228 +
Lja Lja1g4541 Chr1 59312729 59319050 -
Mal Mal2g1549 Chr2 18540778 18544912 -
Mepo Mepo3g06792 Chr3 81673978 81678067 +
Mesa Mesa9g04309 Chr9 76154436 76167543 +
Mtr Mtr3g3314 Chr3 47087272 47091104 +
Phco Phco7g01685 Chr7 16683803 16690139 +
Psa Psa5g1488 Chr5 114342097 114346024 -
Pste Pste2g03685 Chr2 40291282 40297555 +
Pte Pte3g00052 Chr3 687039 690866 +
Pumo Pumo10g01630 Chr10 21456967 21462389 +
Pvu Pvu9g1522 Chr9 21565904 21572265 +
Rops Rops10g02334 Chr10 41166488 41174222 +
Seca Seca4g02011 Chr4 34328239 34333804 -
Spst Spst9g01741 Chr9 19286264 19297112 +
Sto Sto3g3155 Chr3 36420587 36424734 +
Sto Sto4g0324 Chr4 2513889 2518916 -
Tpr Tpr3g3111 Chr3 34231305 34232355 +
Trre Trre5g04256 Chr5 44489152 44493830 +
Tsu Tsu07g01356 Chr07 11943916 11945837 -
Vian Vian4g01107 Chr4 17864299 17878538 -
Vifa Vifa2g03134 Chr2 901044646 901046505 +
Vimu Vimu10g01794 Chr10 25282242 25291837 -
Viun Viun9g01836 Chr9 27936394 27945678 -
Vivi Vivi3g02508 Chr3 41957505 41960400 -
Vvi Vvi4g1432 Chr4 21301345 21301881 -
Aev Aev03g2882 Chr03 28236910 28237500 -
Ahy Ahy13g3100 Chr13 124875266 124876522 +
Aip Aip03g03511 Chr03 114847346 114848110 +
Arst Arst3g04057 Chr3 114022107 114023046 +
Bva Bva05g01593 Chr05 12984829 12986771 +
Dod Dod04g2504 Chr04 48871838 48872645 -
Lal Lal4g0613 Chr4 4508820 4509401 -
Lal Lal17g0710 Chr17 5023291 5023851 -
Lapu Lapu9g01159 Chr9 25127140 25127730 +
Lasa Lasa5g03297 Chr5 551421663 551422244 -
Lja Lja1g4540 Chr1 59310785 59311586 +
Mal Mal2g1548 Chr2 18539513 18540088 +
Mepo Mepo3g06793 Chr3 81678280 81679012 -
Mesa Mesa9g04310 Chr9 76168145 76168717 -
Mtr Mtr3g3315 Chr3 47091277 47092173 -
Phco Phco7g01686 Chr7 16691852 16692430 -
Pste Pste2g03687 Chr2 40298399 40299312 -
Pvu Pvu9g1523 Chr9 21573787 21574377 -
Rops Rops10g02335 Chr10 41175190 41175950 -
Seca Seca4g02010 Chr4 34326572 34327147 +
Spst Spst9g01743 Chr9 19298781 19299455 -
Tpr Tpr3g3112 Chr3 34233893 34234918 -
Trre Trre5g04258 Chr5 44502148 44502729 -
Tsu Tsu07g01355 Chr07 11942591 11943636 +
Vifa Vifa2g03135 Chr2 901046937 901047521 -
Vimu Vimu10g01793 Chr10 25279892 25280470 +
Viun Viun9g01835 Chr9 27933883 27935207 +
Vivi Vivi3g02507 Chr3 41956430 41957460 +
Vvi Vvi4g1433 Chr4 21316201 21318165 -
Adu Adu10g01732 Chr10 79828577 79830883 -
Aev Aev08g0610 Chr08 3495230 3500198 +
Ahy Ahy20g1964 Chr20 110207343 110209762 -
Aip Aip10g02307 Chr10 103394920 103396638 -
Amo Amo20g2491 Chr20 116360831 116364089 -
Apr Apr1g0484 Chr1 5921045 5923996 +
Arst Arst10g02225 Chr10 78748528 78751312 -
Bva Bva05g01592 Chr05 12982546 12984828 +
Dod Dod09g1781 Chr09 39455645 39457596 -
Lal Lal4g0614 Chr4 4518878 4521579 -
Lapu Lapu9g01158 Chr9 25117490 25120103 +
Lja Lja1g4539 Chr1 59302942 59305413 +
Phco Phco7g01687 Chr7 16699674 16701623 -
Pste Pste2g03689 Chr2 40353351 40355410 -
Pte Pte1g02119 Chr1 42373945 42376420 +
Pumo Pumo10g01633 Chr10 21501713 21502760 -
Pvu Pvu9g1524 Chr9 21581464 21584492 -
Rops Rops10g02336 Chr10 41189429 41191863 -
Seca Seca4g02009 Chr4 34304258 34306755 +
Spst Spst9g01744 Chr9 19307857 19309592 -
Sto Sto3g3157 Chr3 36433943 36435746 -
Sto Sto4g0323 Chr4 2508365 2510192 +
Vian Vian4g01105 Chr4 17848587 17850314 +
Vimu Vimu10g01791 Chr10 25263377 25265101 +
Viun Viun9g01834 Chr9 27924619 27927095 +