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
Vvi1g0371 Acco11g0338 . Accr9g01868 Accr10g01031 Adu09g02724 . . . . Aev09g2598 . Ahy19g3189 . Aip09g03663 Alju09g0407 Alju12g1099 . Amo19g4080 Apr7g1221 . Arst9g03648 . Bach10g01241 Bach10g01113 Bisa11g0659 . . Bva11g00734 . . Cca06g00320 . Dere09g2046 Dere13g1478 . Dod06g0158 Enph13g0542 Enph14g1325 Glsi05g0388 Glsi09g1353 . . . . . . . . . . . . . . . . . . . . Lapu7g02405 Lapu2g01226 Lasa6g04628 Lasa2g03861 . . . . Lele53g0739 Lele54g0735 Lele55g0752 Lele56g0698 Lja2g1454 Lja5g0289 . . Mepo4g04706 . . . Mibi12g0321 Mibi10g1034 . . . Phac8g00466 Phco6g02925 . . Prci5g1331 . . Pste4g00786 Pste1g01942 . . Pte14g00040 Pte12g01045 . Pumo8g00927 Pvu7g0302 Pvu3g0432 . Rops1g00730 . Seca2g00455 Spst10g01419 Spst2g01655 Ssu2g1254 . . Sto6g2760 . . Trre1g05982 . . . . Vian10g01521 . Vifa1g05618 Vimu3g03542 Vimu7g00206 . Viun2g00826 Vivi1g03619 . . .
Vvi1g0372 . . . . . . . Aed1g1873 . . . Ahy19g3190 . Aip09g03664 . . . Amo19g4081 . . . . . . . . Bva01g01709 . Car02g01032 . . Cca02g02641 . . . Dod06g0157 . . . . . . . . . . . . . Lal22g0610 . . . . . . . . . . . . . . . . . . . . . . Lja2g1455 Lja5g0290 Mal1g0379 . . . . . . . Mtr1g4183 . . . . . . . Psa2g1944 . . . . . . . . . . . . . . . . . . Ssu7g0342 Sto11g0684 Sto6g2759 Tpr1g0321 . . . Tsu01g04866 . . . . . . . . . . . . Vra8g2539
Vvi1g0373 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0374 . . . . . . . . . . . Ahy19g3195 . Aip09g03667 . . . Amo19g4086 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1459 Lja5g0292 . Mal5g0302 . . . . . . . Mtr8g3766 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2758 . . . . . Tsu02g00148 . . . . . . . . . . . .
Vvi1g0375 . . . . . . . . . . . Ahy19g3196 . Aip09g03668 . . . Amo19g4089 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g1460 Lja5g0293 . . . . . . . . Mtr1g4181 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0682 Sto6g2753 Tpr1g0324 . . . Tsu01g04862 . . . . . . . . . . . . .
Vvi1g0376 . . . . Adu09g02718 . . Aed1g1876 . Aev09g2592 . Ahy19g3199 . Aip09g03669 . . . Amo19g4090 . . Arst9g03637 . Bach10g01245 . Bisa11g0654 . Bva01g01700 Bva11g00732 Car04g01542 . . Cca02g02638 Dere09g2050 . . Dod06g0155 . . . . . . . . . . . . . Lal22g0609 . . . . . . . . . . Lapu7g02399 . Lasa6g04612 . . Lele50g1553 . Lele52g1509 . . . . Lja2g1461 Lja5g0294 Mal1g0385 . Mepo4g04696 . . . . . Mtr1g4179 . Phac7g00451 . Phco6g02920 . . . Psa6g5157 . Pste4g00794 . . . . . Pumo3g00540 . Pvu7g0308 . Rops6g03268 . . . . . . Ssu7g0351 Sto11g0681 Sto6g2747 Tpr1g0326 . Trre1g05969 . Tsu01g04859 . Vian3g00285 . Vifa3g03528 . Vimu3g03535 . Viun7g03800 . Vivi1g03636 . . Vra8g2536
Vvi1g0377 . . . . . . . . . . . . . . . . . . Apr7g1220 . . . . . . . Bva01g01699 Bva11g00731 Car02g01033 . . . . . . . . . . . . . . . . . . . Lal6g0674 Lal22g0594 Lal18g1031 . . . Lan11g0682 Lan11g0682 Lan11g0682 . . . . . . . . . . . . . . . Lja2g1462 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0680 Sto6g2743 . . . . . . . . . . . . . . . . . .
Vvi1g0378 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0379 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0380 . . . . . . Aed11g0760 Aed1g1877 . Aev09g2589 . Ahy19g3202 . Aip09g03672 . . . Amo19g4093 . . . . . . . . Bva01g01693 Bva11g00729 Car04g01540 . Cca06g00319 Cca02g02636 . . . Dod06g0151 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0296 Mal1g0387 . . . . . . . Mtr1g4177 . . . . . . . Psa6g5155 . . . . . . . . . . . . . . . . . . . Sto11g0675 Sto6g2740 Tpr1g0327 . . . Tsu01g04857 . . . . . . . . . . . Vra11g1502 Vra8g2534
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vifa Vifa1g05618 Chr1 869953753 869956322 -
Vvi Vvi1g0371 Chr1 3519841 3521708 +
Acco Acco11g0338 Chr11 4698284 4701156 -
Accr Accr9g01868 Chr9 40494288 40497823 +
Accr Accr10g01031 Chr10 31527299 31531382 +
Adu Adu09g02724 Chr09 114792606 114794321 -
Aev Aev09g2598 Chr09 27236028 27238190 -
Ahy Ahy19g3189 Chr19 155060110 155062789 +
Aip Aip09g03663 Chr09 143484035 143485795 +
Alju Alju09g0407 Chr09 5836649 5840080 -
Alju Alju12g1099 Chr12 31606457 31615606 +
Amo Amo19g4080 Chr19 157196703 157199739 +
Apr Apr7g1221 Chr7 19305332 19307777 +
Arst Arst9g03648 Chr9 112688865 112691373 -
Bach Bach10g01241 Chr10 9672464 9674965 +
Bach Bach10g01113 Chr10 8253250 8256956 -
Bisa Bisa11g0659 Chr11 18486414 18489835 -
Bva Bva11g00734 Chr11 10268084 10271213 -
Cca Cca06g00320 Chr06 8713898 8717727 +
Dere Dere09g2046 Chr09 27517712 27521577 +
Dere Dere13g1478 Chr13 19932047 19937406 -
Dod Dod06g0158 Chr06 2361092 2364438 -
Enph Enph13g0542 Chr13 11732681 11736802 +
Enph Enph14g1325 Chr14 15068978 15074557 -
Glsi Glsi05g0388 Chr05 52727100 52729556 -
Glsi Glsi09g1353 Chr09 9951540 9955506 -
Lapu Lapu7g02405 Chr7 40288230 40290798 -
Lapu Lapu2g01226 Chr2 22283223 22288966 -
Lasa Lasa6g04628 Chr6 655275731 655277089 +
Lasa Lasa2g03861 Chr2 560977518 560979933 +
Lele Lele53g0739 Chr53 17422776 17426905 +
Lele Lele54g0735 Chr54 14291006 14293841 +
Lele Lele55g0752 Chr55 5021737 5025828 -
Lele Lele56g0698 Chr56 5215657 5218239 -
Lja Lja2g1454 Chr2 14017643 14021410 +
Lja Lja5g0289 Chr5 2556788 2559538 +
Mepo Mepo4g04706 Chr4 56511328 56513297 -
Mibi Mibi12g0321 Chr12 6741797 6744818 -
Mibi Mibi10g1034 Chr10 28917428 28921694 +
Phac Phac8g00466 Chr8 2800767 2804578 +
Phco Phco6g02925 Chr6 50341522 50344544 -
Prci Prci5g1331 Chr5 32613930 32618252 +
Pste Pste4g00786 Chr4 6136345 6139513 +
Pste Pste1g01942 Chr1 6052789 6057398 +
Pte Pte14g00040 Chr14 2440798 2443802 -
Pte Pte12g01045 Chr12 25446349 25451359 +
Pumo Pumo8g00927 Chr8 34714454 34717858 -
Pvu Pvu7g0302 Chr7 2337517 2340032 +
Pvu Pvu3g0432 Chr3 4685430 4689844 -
Rops Rops1g00730 Chr1 18461524 18467416 +
Seca Seca2g00455 Chr2 6475192 6480423 +
Spst Spst10g01419 Chr10 14663146 14665623 -
Spst Spst2g01655 Chr2 15576305 15580027 -
Ssu Ssu2g1254 Chr2 54376089 54379423 -
Sto Sto6g2760 Chr6 34699366 34702282 -
Trre Trre1g05982 Chr1 64125883 64127341 -
Vian Vian10g01521 Chr10 25902045 25905362 -
Vifa Vifa1g05618 Chr1 869953753 869956322 -
Vimu Vimu3g03542 Chr3 48194102 48196020 -
Vimu Vimu7g00206 Chr7 2557668 2560993 +
Viun Viun2g00826 Chr2 18935982 18939096 -
Vivi Vivi1g03619 Chr1 77862090 77864419 +
Vvi Vvi1g0372 Chr1 3523093 3525603 -
Aed Aed1g1873 Chr1 16060445 16064757 -
Ahy Ahy19g3190 Chr19 155062869 155066195 -
Aip Aip09g03664 Chr09 143486422 143489261 -
Amo Amo19g4081 Chr19 157199758 157202633 -
Bva Bva01g01709 Chr01 18093721 18096682 +
Car Car02g01032 Chr02 22670299 22673273 -
Cca Cca02g02641 Chr02 47560567 47563447 +
Dod Dod06g0157 Chr06 2357772 2361012 +
Lal Lal22g0610 Chr22 4277297 4280595 +
Lja Lja2g1455 Chr2 14021902 14025118 -
Lja Lja5g0290 Chr5 2560544 2563345 -
Mal Mal1g0379 Chr1 4329858 4332929 -
Mtr Mtr1g4183 Chr1 53421628 53424834 +
Psa Psa2g1944 Chr2 182149672 182153030 +
Ssu Ssu7g0342 Chr7 5914346 5917169 -
Sto Sto11g0684 Chr11 7856159 7859583 +
Sto Sto6g2759 Chr6 34694153 34697636 +
Tpr Tpr1g0321 Chr1 2764847 2768440 -
Tsu Tsu01g04866 Chr01 55675267 55678763 +
Vra Vra8g2539 Chr8 43303061 43306369 +
Vvi Vvi1g0373 Chr1 3530965 3547664 +
Vvi Vvi1g0374 Chr1 3548938 3552245 -
Ahy Ahy19g3195 Chr19 155095903 155097008 -
Aip Aip09g03667 Chr09 143510232 143512469 +
Amo Amo19g4086 Chr19 157253937 157262301 +
Lja Lja2g1459 Chr2 14097077 14099946 -
Lja Lja5g0292 Chr5 2569985 2573398 -
Mal Mal5g0302 Chr5 4962673 4965995 +
Mtr Mtr8g3766 Chr8 48165644 48169597 +
Sto Sto6g2758 Chr6 34679512 34685083 +
Tsu Tsu02g00148 Chr02 1109748 1113000 -
Vvi Vvi1g0375 Chr1 3557361 3558287 -
Ahy Ahy19g3196 Chr19 155114573 155123010 +
Aip Aip09g03668 Chr09 143513093 143554041 -
Amo Amo19g4089 Chr19 157268313 157270670 -
Lja Lja2g1460 Chr2 14119202 14121225 -
Lja Lja5g0293 Chr5 2577048 2579359 -
Mtr Mtr1g4181 Chr1 53412966 53415936 +
Sto Sto11g0682 Chr11 7837573 7840414 -
Sto Sto6g2753 Chr6 34640197 34644170 -
Tpr Tpr1g0324 Chr1 2777292 2780375 -
Tsu Tsu01g04862 Chr01 55625219 55656649 +
Vvi Vvi1g0376 Chr1 3565291 3568601 -
Adu Adu09g02718 Chr09 114762708 114765378 +
Aed Aed1g1876 Chr1 16094700 16099359 -
Aev Aev09g2592 Chr09 27209232 27211432 +
Ahy Ahy19g3199 Chr19 155131717 155136386 -
Aip Aip09g03669 Chr09 143554911 143558461 -
Amo Amo19g4090 Chr19 157271541 157274249 -
Arst Arst9g03637 Chr9 112657716 112662107 +
Bach Bach10g01245 Chr10 9729306 9732770 -
Bisa Bisa11g0654 Chr11 18232436 18237140 +
Bva Bva01g01700 Chr01 18013095 18016705 +
Bva Bva11g00732 Chr11 10261497 10265629 +
Car Car04g01542 Chr04 15760509 15764865 +
Cca Cca02g02638 Chr02 47533461 47541133 +
Dere Dere09g2050 Chr09 27651029 27654661 -
Dod Dod06g0155 Chr06 2232408 2240436 +
Lal Lal22g0609 Chr22 4271209 4275585 +
Lapu Lapu7g02399 Chr7 40251732 40256873 +
Lasa Lasa6g04612 Chr6 654720946 654723069 +
Lele Lele50g1553 Chr50 20728085 20731430 -
Lele Lele52g1509 Chr52 19101463 19105386 -
Lja Lja2g1461 Chr2 14123148 14136070 -
Lja Lja5g0294 Chr5 2579773 2584609 -
Mal Mal1g0385 Chr1 4370505 4374157 -
Mepo Mepo4g04696 Chr4 56460897 56463665 +
Mtr Mtr1g4179 Chr1 53394325 53398469 +
Phac Phac7g00451 Chr7 2557212 2561934 -
Phco Phco6g02920 Chr6 50304698 50307979 +
Psa Psa6g5157 Chr6 444402916 444406839 +
Pste Pste4g00794 Chr4 6183633 6188733 -
Pumo Pumo3g00540 Chr3 8099080 8104090 -
Pvu Pvu7g0308 Chr7 2364136 2368904 -
Rops Rops6g03268 Chr6 56688929 56693753 +
Ssu Ssu7g0351 Chr7 6291964 6295902 -
Sto Sto11g0681 Chr11 7832660 7835422 +
Sto Sto6g2747 Chr6 34577142 34577599 +
Tpr Tpr1g0326 Chr1 2801641 2805729 -
Trre Trre1g05969 Chr1 64065838 64068382 +
Tsu Tsu01g04859 Chr01 55608908 55612934 +
Vian Vian3g00285 Chr3 2682946 2685938 -
Vifa Vifa3g03528 Chr3 1015300039 1015302144 +
Vimu Vimu3g03535 Chr3 48159492 48162483 +
Viun Viun7g03800 Chr7 38265762 38270629 +
Vivi Vivi1g03636 Chr1 78091435 78094717 -
Vra Vra8g2536 Chr8 43279101 43283952 +
Vvi Vvi1g0377 Chr1 3578388 3585271 +
Apr Apr7g1220 Chr7 19267238 19273011 -
Bva Bva01g01699 Chr01 17998767 18002707 -
Bva Bva11g00731 Chr11 10251568 10255140 -
Car Car02g01033 Chr02 22755881 22760604 +
Lal Lal6g0674 Chr6 4414987 4419796 -
Lal Lal22g0594 Chr22 4187165 4192363 +
Lal Lal18g1031 Chr18 13285145 13289748 -
Lan Lan11g0682 Chr11 5734913 5743225 -
Lan Lan11g0682 Chr11 5734913 5743225 -
Lan Lan11g0682 Chr11 5734913 5743225 -
Lja Lja2g1462 Chr2 14138482 14143184 +
Sto Sto11g0680 Chr11 7809117 7812512 -
Sto Sto6g2743 Chr6 34545646 34550421 -
Vvi Vvi1g0378 Chr1 3587001 3587408 -
Vvi Vvi1g0379 Chr1 3588397 3588567 -
Vvi Vvi1g0380 Chr1 3595488 3600142 -
Aed Aed11g0760 Chr11 10919640 10922508 +
Aed Aed1g1877 Chr1 16105657 16109166 -
Aev Aev09g2589 Chr09 27192966 27195420 +
Ahy Ahy19g3202 Chr19 155169663 155172731 -
Aip Aip09g03672 Chr09 143586120 143591769 -
Amo Amo19g4093 Chr19 157338146 157347434 -
Bva Bva01g01693 Chr01 17976106 17978896 +
Bva Bva11g00729 Chr11 10245400 10248189 +
Car Car04g01540 Chr04 15737452 15740340 +
Cca Cca06g00319 Chr06 8633731 8636433 -
Cca Cca02g02636 Chr02 47519084 47522503 +
Dod Dod06g0151 Chr06 2103802 2106659 +
Lja Lja5g0296 Chr5 2591411 2594261 -
Mal Mal1g0387 Chr1 4392385 4395999 -
Mtr Mtr1g4177 Chr1 53380583 53384061 +
Psa Psa6g5155 Chr6 444363149 444365860 +
Sto Sto11g0675 Chr11 7775298 7787094 +
Sto Sto6g2740 Chr6 34537743 34540987 +
Tpr Tpr1g0327 Chr1 2816013 2822362 -
Tsu Tsu01g04857 Chr01 55597421 55600485 +
Vra Vra11g1502 Chr11 18411535 18414241 +
Vra Vra8g2534 Chr8 43263883 43267631 +
Acco Acco11g0338 Chr11 4698284 4701156 -
Accr Accr9g01868 Chr9 40494288 40497823 +
Adu Adu09g02724 Chr09 114792606 114794321 -
Alju Alju09g0407 Chr09 5836649 5840080 -
Arst Arst9g03648 Chr9 112688865 112691373 -
Bach Bach10g01241 Chr10 9672464 9674965 +
Bisa Bisa11g0659 Chr11 18486414 18489835 -
Dere Dere09g2046 Chr09 27517712 27521577 +
Enph Enph13g0542 Chr13 11732681 11736802 +
Glsi Glsi05g0388 Chr05 52727100 52729556 -
Lapu Lapu7g02405 Chr7 40288230 40290798 -
Lasa Lasa6g04628 Chr6 655275731 655277089 +
Mepo Mepo4g04706 Chr4 56511328 56513297 -
Mibi Mibi12g0321 Chr12 6741797 6744818 -
Phco Phco6g02925 Chr6 50341522 50344544 -
Pste Pste4g00786 Chr4 6136345 6139513 +
Pvu Pvu7g0302 Chr7 2337517 2340032 +
Spst Spst10g01419 Chr10 14663146 14665623 -
Trre Trre1g05982 Chr1 64125883 64127341 -
Vimu Vimu3g03542 Chr3 48194102 48196020 -
Vivi Vivi1g03619 Chr1 77862090 77864419 +
Vifa Vifa1g05618 Chr1 869953753 869956322 -
Lal Lal22g0594 Chr22 4187165 4192363 +