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
Vvi18g1346 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal21g0544 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1347 Acco10g2487 . Accr4g00288 . . . . Aed10g0394 Aev08g0857 . Ahy17g2689 . Aip07g02937 . . . Amo17g2600 . . . . . . . Bisa09g0979 . . . Car04g01756 . . Cca03g01039 Dere04g1160 . . . Enph1g1780 . Glsi08g1019 . Gma04g02302 Gma06g01094 . . Gso4g2017 Gso4g2017 . . . Lal17g0524 . . . . . . . . . . . . . . . . . . . . . . Lja1g4932 . . Mal2g1858 Mepo3g06484 . Mesa9g04000 . Mibi05g0244 . . Mtr3g3054 . . Phco7g01356 . Prci15g0359 . . Psa5g1899 Pste2g03332 . . . . . Pumo10g01342 . Pvu9g1394 . Rops10g02020 . . . . . . Ssu1g2890 . Sto9g2808 . Tpr2g5396 . . . . Vian4g01443 . Vifa2g02789 . Vimu10g02395 . . . . . . .
Vvi18g1348 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1349 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1350 . . . . . . . Aed10g0395 . . . . . . . . . . Apr9g0724 . . . Bach12g00927 . Bisa09g0978 . Bva06g02926 . . . Cca05g00042 Cca03g01037 Dere04g1161 . . . Enph1g1781 . Glsi08g1018 . Gma04g02301 Gma06g01095 Gma14g01553 . Gso4g2016 Gso4g2016 Gso4g2016 . . Lal17g0525 Lal21g0545 . . . . . . . . . Lapu9g01407 . Lasa5g02938 . . . . . . . . . Lja1g4931 . . Mal2g1857 Mepo3g06485 . . . . . . Mtr3g3055 . . Phco7g01357 . Prci15g0357 . . Psa5g1896 Pste2g03334 . . . . . Pumo10g01343 . Pvu9g1395 Pvu1g0754 Rops10g02023 . . . . . . . Sto5g0318 Sto8g2395 . Tpr2g5395 . . . . . . . . Vimu10g01617 Vimu1g02050 . . . . . .
Vvi18g1351 Acco10g2488 . Accr4g00286 . Adu08g00490 . . Aed10g0396 Aev08g0855 . Ahy17g2688 . Aip07g02936 . Alju08g0290 . . . . . Arst8g00630 . Bach12g00928 . Bisa09g0977 . Bva06g02927 . . . . Cca03g01036 Dere04g1162 . . . Enph1g1782 . . . Gma04g02300 Gma06g01096 . . Gso4g2015 Gso4g2015 . . Lal4g0456 . . . . . Lan14g0565 . . . . . Lapu9g01406 . Lasa5g03685 . . Lele02g0229 . Lele04g0235 . . . . Lja1g4927 . . Mal2g1856 Mepo3g07113 . Mesa9g04649 . Mibi05g0243 . . Mtr3g3056 . . Phco7g01358 . Prci15g0356 . . . Pste2g03335 . . . . . Pumo10g01344 . Pvu9g1396 . Rops10g02024 . Seca4g02478 . . . . Ssu1g2888 . Sto9g2806 . Tpr2g5394 . . . . Vian4g01441 . Vifa2g02787 . Vimu10g02398 . Viun9g02271 . Vivi3g02923 . . .
Vvi18g1352 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1353 . Acco05g1907 . Accr3g01068 . Adu06g02596 . . . . . . . . . Alju07g1878 . . Apr9g0723 . . . . . . Bisa05g0267 Bva06g02928 . Car04g02950 . Cca05g00041 . . Dere05g1599 . . . Enph7g0710 . Glsi10g1268 . . Gma14g01558 . . . . . . . . . . . . . . . . . . . . . . . . . Lele25g0899 Lele26g0906 Lele27g1179 Lele28g0888 . . Mal1g5115 . . . . . . Mibi08g1643 Mtr1g0871 . . . . Phco2g00826 . Prci2g1399 . . . . . . . . . . . Pvu1g0753 . . . . . . . . Sto5g1192 Sto9g2805 Tpr1g3094 . . . Tsu01g00989 . . . . . . Vimu1g02053 . . . Vivi4g04653 . .
Vvi18g1354 Acco10g2489 . Accr4g00285 . Adu08g00489 . . . Aev08g0854 . Ahy17g2686 . Aip07g02934 . Alju08g0288 . Amo17g2597 . . . Arst8g00629 . Bach12g00931 . . . Bva06g02929 . . . . . Dere04g1164 . . . Enph1g1783 . . . Gma04g02299 Gma06g01097 . . Gso4g2014 Gso4g2014 . . Lal4g0457 . Lal21g0546 . . . Lan14g0564 . Lan14g0564 . . . Lapu9g01405 . Lasa5g02942 . Lele01g0233 Lele02g0228 Lele03g0239 Lele04g0234 . . . . Lja1g4926 . . Mal2g1852 Mepo3g06488 . Mesa9g04005 . Mibi05g0242 . . Mtr3g3059 . . Phco7g01359 . Prci15g0355 . . . Pste2g03336 . . . . . Pumo10g01347 . Pvu9g1397 . Rops10g02026 . Seca8g02579 . . . . . . Sto9g2802 . Tpr2g5391 Trre5g03746 . . . Vian4g01440 . Vifa2g02785 . Vimu10g02401 . . . Vivi3g02921 . . .
Vvi18g1355 . . . . . . . . . . . . . . . . . . Apr9g0713 . . . . . . . Bva06g02930 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0315 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto8g2395 Chr8 16263569 16267482 +
Sto Sto5g1192 Chr5 8040323 8043125 -
Vvi Vvi18g1346 Chr18 13646454 13647443 -
Lal Lal21g0544 Chr21 3971581 3972165 -
Vvi Vvi18g1347 Chr18 13650264 13655312 -
Acco Acco10g2487 Chr10 36197217 36202410 -
Accr Accr4g00288 Chr4 2817486 2819174 +
Aed Aed10g0394 Chr10 3204134 3206260 -
Aev Aev08g0857 Chr08 5037650 5040063 +
Ahy Ahy17g2689 Chr17 124325465 124328652 +
Aip Aip07g02937 Chr07 115470497 115472998 +
Amo Amo17g2600 Chr17 125159006 125161691 +
Bisa Bisa09g0979 Chr09 14286951 14288875 +
Car Car04g01756 Chr04 18397807 18400414 -
Cca Cca03g01039 Chr03 25348682 25351837 +
Dere Dere04g1160 Chr04 12954927 12956756 -
Enph Enph1g1780 Chr1 42825192 42827529 -
Glsi Glsi08g1019 Chr08 7520083 7521913 +
Gma Gma04g02302 Chr04 53455616 53458545 +
Gma Gma06g01094 Chr06 10287173 10290577 -
Gso Gso4g2017 Chr4 50519634 50522999 +
Gso Gso4g2017 Chr4 50519634 50522999 +
Lal Lal17g0524 Chr17 3644622 3647637 -
Lja Lja1g4932 Chr1 67972535 67975006 +
Mal Mal2g1858 Chr2 22374119 22375801 +
Mepo Mepo3g06484 Chr3 78826049 78828740 -
Mesa Mesa9g04000 Chr9 72438270 72440329 -
Mibi Mibi05g0244 Chr05 2487553 2489213 +
Mtr Mtr3g3054 Chr3 44404137 44406904 -
Phco Phco7g01356 Chr7 12286200 12288742 -
Prci Prci15g0359 Chr15 2383521 2386077 +
Psa Psa5g1899 Chr5 146528491 146531896 +
Pste Pste2g03332 Chr2 33358817 33363171 -
Pumo Pumo10g01342 Chr10 17799909 17803500 -
Pvu Pvu9g1394 Chr9 19845927 19848786 -
Rops Rops10g02020 Chr10 36782336 36785876 -
Ssu Ssu1g2890 Chr1 76126228 76129352 +
Sto Sto9g2808 Chr9 29685020 29686593 +
Tpr Tpr2g5396 Chr2 60804139 60807145 +
Vian Vian4g01443 Chr4 28968097 28970953 +
Vifa Vifa2g02789 Chr2 776191624 776193468 +
Vimu Vimu10g02395 Chr10 34897487 34905764 -
Vvi Vvi18g1348 Chr18 13662478 13665624 -
Vvi Vvi18g1349 Chr18 13666578 13667021 -
Vvi Vvi18g1350 Chr18 13668059 13671210 -
Aed Aed10g0395 Chr10 3210330 3214207 -
Apr Apr9g0724 Chr9 12598409 12604382 +
Bach Bach12g00927 Chr12 6589617 6592688 -
Bisa Bisa09g0978 Chr09 14279909 14285316 +
Bva Bva06g02926 Chr06 18253557 18257169 -
Cca Cca05g00042 Chr05 1048611 1054696 +
Cca Cca03g01037 Chr03 25321965 25329762 +
Dere Dere04g1161 Chr04 12959677 12964462 -
Enph Enph1g1781 Chr1 42828449 42831052 -
Glsi Glsi08g1018 Chr08 7509353 7518361 +
Gma Gma04g02301 Chr04 53442106 53445567 +
Gma Gma06g01095 Chr06 10293904 10297861 -
Gma Gma14g01553 Chr14 37599394 37605172 -
Gso Gso4g2016 Chr4 50506453 50510406 +
Gso Gso4g2016 Chr4 50506453 50510406 +
Gso Gso4g2016 Chr4 50506453 50510406 +
Lal Lal17g0525 Chr17 3651873 3655579 -
Lal Lal21g0545 Chr21 3972804 3977500 -
Lapu Lapu9g01407 Chr9 28295478 28298860 +
Lasa Lasa5g02938 Chr5 519115911 519118202 +
Lja Lja1g4931 Chr1 67943220 67947862 +
Mal Mal2g1857 Chr2 22367567 22371218 +
Mepo Mepo3g06485 Chr3 78832755 78836293 -
Mtr Mtr3g3055 Chr3 44411370 44414801 -
Phco Phco7g01357 Chr7 12292576 12296774 -
Prci Prci15g0357 Chr15 2374969 2378716 +
Psa Psa5g1896 Chr5 146345052 146347688 -
Pste Pste2g03334 Chr2 33394657 33398132 -
Pumo Pumo10g01343 Chr10 17829706 17830940 -
Pvu Pvu9g1395 Chr9 19855978 19859401 -
Pvu Pvu1g0754 Chr1 9908789 9911465 +
Rops Rops10g02023 Chr10 36826091 36826345 -
Sto Sto5g0318 Chr5 1897525 1900552 +
Sto Sto8g2395 Chr8 16263569 16267482 +
Tpr Tpr2g5395 Chr2 60795970 60800258 +
Vimu Vimu10g01617 Chr10 19387716 19390557 +
Vimu Vimu1g02050 Chr1 28492146 28499799 -
Vvi Vvi18g1351 Chr18 13676218 13681381 -
Acco Acco10g2488 Chr10 36202506 36204596 -
Accr Accr4g00286 Chr4 2813247 2815418 +
Adu Adu08g00490 Chr08 8784247 8792086 +
Aed Aed10g0396 Chr10 3217282 3219437 -
Aev Aev08g0855 Chr08 5027582 5029559 +
Ahy Ahy17g2688 Chr17 124320195 124323387 +
Aip Aip07g02936 Chr07 115464705 115467652 +
Alju Alju08g0290 Chr08 2124433 2128207 +
Arst Arst8g00630 Chr8 8755965 8758668 +
Bach Bach12g00928 Chr12 6595265 6597391 -
Bisa Bisa09g0977 Chr09 14269419 14272411 +
Bva Bva06g02927 Chr06 18258656 18260863 -
Cca Cca03g01036 Chr03 25303767 25308193 +
Dere Dere04g1162 Chr04 12969004 12971723 -
Enph Enph1g1782 Chr1 42838659 42842157 -
Gma Gma04g02300 Chr04 53435121 53437904 +
Gma Gma06g01096 Chr06 10301312 10303787 -
Gso Gso4g2015 Chr4 50499654 50502530 +
Gso Gso4g2015 Chr4 50499654 50502530 +
Lal Lal4g0456 Chr4 3213506 3217048 -
Lan Lan14g0565 Chr14 11866081 11869911 +
Lapu Lapu9g01406 Chr9 28288389 28291166 +
Lasa Lasa5g03685 Chr5 586750414 586751295 -
Lele Lele02g0229 Chr02 1294078 1296388 +
Lele Lele04g0235 Chr04 1393745 1396066 +
Lja Lja1g4927 Chr1 67801741 67805734 +
Mal Mal2g1856 Chr2 22363644 22364343 -
Mepo Mepo3g07113 Chr3 84823888 84824992 -
Mesa Mesa9g04649 Chr9 80450012 80450902 -
Mibi Mibi05g0243 Chr05 2483516 2485628 +
Mtr Mtr3g3056 Chr3 44417966 44421370 +
Phco Phco7g01358 Chr7 12298581 12302894 -
Prci Prci15g0356 Chr15 2365366 2368922 +
Pste Pste2g03335 Chr2 33404116 33409262 -
Pumo Pumo10g01344 Chr10 17834457 17837760 -
Pvu Pvu9g1396 Chr9 19861948 19866511 -
Rops Rops10g02024 Chr10 36829481 36832396 -
Seca Seca4g02478 Chr4 42321729 42321968 -
Ssu Ssu1g2888 Chr1 76100281 76102692 +
Sto Sto9g2806 Chr9 29674622 29677319 +
Tpr Tpr2g5394 Chr2 60781065 60784182 -
Vian Vian4g01441 Chr4 28948497 28958698 +
Vifa Vifa2g02787 Chr2 775339690 775342018 -
Vimu Vimu10g02398 Chr10 34916548 34922621 -
Viun Viun9g02271 Chr9 32095576 32101904 +
Vivi Vivi3g02923 Chr3 48770593 48773315 -
Vvi Vvi18g1352 Chr18 13682660 13687105 -
Vvi Vvi18g1353 Chr18 13701215 13706216 -
Acco Acco05g1907 Chr05 35522007 35526895 +
Accr Accr3g01068 Chr3 12054081 12056506 -
Adu Adu06g02596 Chr06 101483040 101488122 +
Alju Alju07g1878 Chr07 45114840 45119389 +
Apr Apr9g0723 Chr9 12556413 12560566 +
Bisa Bisa05g0267 Chr05 4165572 4168330 -
Bva Bva06g02928 Chr06 18261224 18265414 -
Car Car04g02950 Chr04 56713233 56718165 -
Cca Cca05g00041 Chr05 1039065 1043278 +
Dere Dere05g1599 Chr05 25677260 25681446 +
Enph Enph7g0710 Chr7 13058062 13061594 +
Glsi Glsi10g1268 Chr10 8548587 8553939 -
Gma Gma14g01558 Chr14 37780683 37783957 -
Lele Lele25g0899 Chr25 5754387 5757216 -
Lele Lele26g0906 Chr26 5820043 5822928 -
Lele Lele27g1179 Chr27 18927701 18930486 +
Lele Lele28g0888 Chr28 5733366 5736070 -
Mal Mal1g5115 Chr1 123050481 123056583 -
Mibi Mibi08g1643 Chr08 32980483 32984167 +
Mtr Mtr1g0871 Chr1 10005915 10012379 +
Phco Phco2g00826 Chr2 9477900 9480963 -
Prci Prci2g1399 Chr2 10575995 10579605 -
Pvu Pvu1g0753 Chr1 9885382 9888871 -
Sto Sto5g1192 Chr5 8040323 8043125 -
Sto Sto9g2805 Chr9 29670413 29673460 +
Tpr Tpr1g3094 Chr1 35451669 35456701 -
Tsu Tsu01g00989 Chr01 9067274 9072239 +
Vimu Vimu1g02053 Chr1 28509386 28513627 +
Vivi Vivi4g04653 Chr4 174701595 174706631 -
Vvi Vvi18g1354 Chr18 13720719 13730113 +
Acco Acco10g2489 Chr10 36212261 36217322 +
Accr Accr4g00285 Chr4 2806567 2811658 -
Adu Adu08g00489 Chr08 8779077 8783423 -
Aev Aev08g0854 Chr08 5022348 5027196 -
Ahy Ahy17g2686 Chr17 124303990 124311354 +
Aip Aip07g02934 Chr07 115452772 115457080 +
Alju Alju08g0288 Chr08 2112525 2117696 -
Amo Amo17g2597 Chr17 125136804 125144208 +
Arst Arst8g00629 Chr8 8750370 8755464 -
Bach Bach12g00931 Chr12 6601108 6606573 +
Bva Bva06g02929 Chr06 18266375 18272277 +
Dere Dere04g1164 Chr04 12990506 12996842 +
Enph Enph1g1783 Chr1 42841136 42849078 +
Gma Gma04g02299 Chr04 53426016 53433570 -
Gma Gma06g01097 Chr06 10305190 10312442 +
Gso Gso4g2014 Chr4 50490715 50498098 -
Gso Gso4g2014 Chr4 50490715 50498098 -
Lal Lal4g0457 Chr4 3219977 3225749 +
Lal Lal21g0546 Chr21 3984306 3991594 +
Lan Lan14g0564 Chr14 11859045 11865070 -
Lan Lan14g0564 Chr14 11859045 11865070 -
Lapu Lapu9g01405 Chr9 28278626 28287468 -
Lasa Lasa5g02942 Chr5 519448417 519453751 +
Lele Lele01g0233 Chr01 1336546 1341451 -
Lele Lele02g0228 Chr02 1287216 1292655 -
Lele Lele03g0239 Chr03 1309796 1314724 -
Lele Lele04g0234 Chr04 1386000 1391052 -
Lja Lja1g4926 Chr1 67787291 67797429 -
Mal Mal2g1852 Chr2 22332594 22340066 -
Mepo Mepo3g06488 Chr3 78862804 78869974 +
Mesa Mesa9g04005 Chr9 72474729 72481547 +
Mibi Mibi05g0242 Chr05 2455217 2460251 -
Mtr Mtr3g3059 Chr3 44433998 44441256 +
Phco Phco7g01359 Chr7 12304056 12311227 +
Prci Prci15g0355 Chr15 2347148 2358550 -
Pste Pste2g03336 Chr2 33410260 33419669 +
Pumo Pumo10g01347 Chr10 17852986 17856792 +
Pvu Pvu9g1397 Chr9 19869361 19877283 +
Rops Rops10g02026 Chr10 36844496 36850254 +
Seca Seca8g02579 Chr8 59023708 59027184 +
Sto Sto9g2802 Chr9 29661998 29667484 -
Tpr Tpr2g5391 Chr2 60743191 60750375 -
Trre Trre5g03746 Chr5 37569307 37575938 +
Vian Vian4g01440 Chr4 28937992 28945986 -
Vifa Vifa2g02785 Chr2 772335943 772342230 -
Vimu Vimu10g02401 Chr10 34938383 34941316 +
Vivi Vivi3g02921 Chr3 48736080 48742418 -
Vvi Vvi18g1355 Chr18 13733152 13734200 -
Apr Apr9g0713 Chr9 12313869 12314849 +
Bva Bva06g02930 Chr06 18274204 18275088 -
Sto Sto5g0315 Chr5 1876010 1876909 +