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
Vvi18g0736 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0737 . . . . . . . Aed4g1575 Aev08g0396 . Ahy17g3235 . Aip07g03515 . . . . . . Apr5g1468 . . . . . . . Bva10g00654 . . . Cca03g01812 . . Dod08g2014 . . . . . Gma04g00418 . Gma14g00772 Gma17g02265 Gso4g0389 . Gso4g0389 Gso4g0389 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4925 . . . . . . . . . . . . . . . . . . Ssu1g3719 . Sto9g3501 . . . . . . . . . . . . . . . . . .
Vvi18g0738 Acco10g1781 . Accr4g00990 . . . Aed6g0374 Aed4g1574 Aev09g2471 . Ahy19g3329 . Aip09g03792 . Alju08g1019 . Amo19g4268 . Apr9g0373 Apr5g1469 . . Bach12g00292 Bach3g02191 Bisa09g1810 . Bva06g02143 Bva10g00655 Car04g03394 . Cca05g00105 Cca03g01813 Dere04g0320 . Dod06g0487 . Enph1g1215 . Glsi08g1825 . . Gma06g00407 Gma14g00770 Gma17g02266 . . . . . . . Lal8g0667 . . . . . . . . . Lapu8g00834 . Lasa6g00043 Lele01g0815 Lele02g0786 Lele03g0805 Lele04g0804 . . . . . Lja5g3098 Mal1g5710 . . Mepo4g00324 . Mesa1g00360 Mibi05g0916 . Mtr1g0464 . . Phac1g00357 Phco7g00514 Phco2g00320 Prci8g0221 . Psa6g4926 . Pste2g01133 Pste8g00831 . Pte1g02506 . Pte2g00388 Pumo10g00335 Pumo9g00329 Pvu9g0726 Pvu1g0271 . Rops9g02160 Seca4g01380 Seca4g01380 Spst9g00523 . Ssu5g0312 Ssu1g3720 . Sto9g3502 Tpr1g3637 . . Trre1g00394 Tsu01g00448 . Vian4g02198 Vian7g00676 . Vifa3g04861 Vimu10g03235 Vimu1g02938 Viun9g03396 Viun8g00396 Vivi4g05551 Vivi4g05551 Vra6g1814 Vra5g1458
Vvi18g0739 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma14g00769 Gma17g02267 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco2g00318 . . . . . . . . . . . Pumo9g00328 . Pvu1g0270 . . . Seca8g03595 . . . . . . . . . . . . . Vian7g00678 . Vifa3g04865 . Vimu1g02939 . Viun8g00395 . . . .
Vvi18g0740 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0741 . . . . . . . . Aev09g2474 . Ahy19g3326 . Aip09g03789 . . . Amo19g4270 . . . . . . . . . . . . . . . . . Dod06g0481 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4929 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0742 . . . . . . . Aed4g1573 . . . . . . . . . . Apr9g0375 Apr5g1470 . . . . . Bisa05g0167 . . . Car05g02786 . Cca03g01814 . Dere05g1688 . . . . . Glsi10g0404 Gma04g00417 Gma06g00406 Gma14g00767 Gma17g02268 Gso4g0388 Gso4g0388 Gso4g0388 Gso4g0388 . . . Lal8g0666 . . . . . . . . . Lapu8g00837 . Lasa5g03789 . . . . . . . . Lja1g4107 Lja5g3099 . Mal2g1112 . . . . . . . Mtr3g3706 . . . Phco2g00315 . . . Psa5g0889 . Pste8g00835 . . . . . Pumo9g00327 . Pvu1g0268 . . . . . Spst8g02217 . Ssu1g3722 Sto5g1124 . . Tpr7g0865 . . . Tsu07g00898 . Vian7g00680 . . . . . Viun8g00390 . Vivi3g01804 . .
Vvi18g0743 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0745 . . . . . . . . . . . . . . . . . . Apr9g0376 . . . . . . . . . Car04g03397 . . . . . . . . . . . . . Gma14g00766 Gma17g02269 . . . . . . . Lal8g0665 . . . . . . . . . Lapu8g00838 . Lasa6g00045 . . . . . . . . . Lja5g3100 Mal1g5712 . . Mepo4g00319 . Mesa1g00356 . . Mtr1g0468 . . Phac1g00350 . Phco2g00313 . . . . . Pste8g00838 . . . . . Pumo9g00326 . Pvu1g0267 . . . . . Spst8g02216 . . . . Tpr1g3639 . . Trre1g00390 Tsu01g00446 . . Vian7g00681 . . . . . Viun8g00389 . Vivi4g05555 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev09g2474 Chr09 26575815 26578846 -
Ahy Ahy19g3326 Chr19 156290070 156292676 +
Aip Aip09g03789 Chr09 144650007 144652549 +
Amo Amo19g4270 Chr19 159394934 159397618 -
Dod Dod06g0481 Chr06 5911182 5915595 +
Psa Psa6g4929 Chr6 430021030 430027260 -
Aev Aev09g2471 Chr09 26558155 26563207 -
Ahy Ahy19g3329 Chr19 156306706 156312329 +
Aip Aip09g03792 Chr09 144666654 144672244 +
Amo Amo19g4268 Chr19 159365606 159371226 -
Dod Dod06g0487 Chr06 5950824 5955984 +
Psa Psa6g4926 Chr6 429908130 429914029 -
Psa Psa6g4925 Chr6 429871212 429872470 +
Vvi Vvi18g0736 Chr18 7733852 7734088 +
Vvi Vvi18g0737 Chr18 7746357 7747144 +
Aed Aed4g1575 Chr4 20574517 20575413 -
Aev Aev08g0396 Chr08 2184407 2185160 -
Ahy Ahy17g3235 Chr17 134446241 134447330 +
Aip Aip07g03515 Chr07 125195309 125196203 +
Apr Apr5g1468 Chr5 18716020 18716584 +
Bva Bva10g00654 Chr10 5631738 5632725 +
Cca Cca03g01812 Chr03 37342556 37343457 +
Dod Dod08g2014 Chr08 47363931 47366028 +
Gma Gma04g00418 Chr04 3633069 3633949 -
Gma Gma14g00772 Chr14 7929783 7935327 -
Gma Gma17g02265 Chr17 40538309 40543695 +
Gso Gso4g0389 Chr4 3555408 3556337 -
Gso Gso4g0389 Chr4 3555408 3556337 -
Gso Gso4g0389 Chr4 3555408 3556337 -
Psa Psa6g4925 Chr6 429871212 429872470 +
Ssu Ssu1g3719 Chr1 93513195 93513846 +
Sto Sto9g3501 Chr9 34248945 34249595 +
Vvi Vvi18g0738 Chr18 7749907 7763469 -
Acco Acco10g1781 Chr10 30909289 30913356 +
Accr Accr4g00990 Chr4 9402648 9406701 -
Aed Aed6g0374 Chr6 3219128 3224101 +
Aed Aed4g1574 Chr4 20570250 20572178 +
Aev Aev09g2471 Chr09 26558155 26563207 -
Ahy Ahy19g3329 Chr19 156306706 156312329 +
Aip Aip09g03792 Chr09 144666654 144672244 +
Alju Alju08g1019 Chr08 7719038 7723300 -
Amo Amo19g4268 Chr19 159365606 159371226 -
Apr Apr9g0373 Chr9 5015300 5021012 -
Apr Apr5g1469 Chr5 18720924 18723461 -
Bach Bach12g00292 Chr12 1950975 1954631 +
Bach Bach3g02191 Chr3 28956397 28960538 -
Bisa Bisa09g1810 Chr09 28148292 28160610 -
Bva Bva06g02143 Chr06 14122330 14126447 +
Bva Bva10g00655 Chr10 5633189 5639035 -
Car Car04g03394 Chr04 62570923 62576524 -
Cca Cca05g00105 Chr05 2505013 2510942 -
Cca Cca03g01813 Chr03 37349432 37352580 -
Dere Dere04g0320 Chr04 3200186 3205019 +
Dod Dod06g0487 Chr06 5950824 5955984 +
Enph Enph1g1215 Chr1 38116848 38121705 +
Glsi Glsi08g1825 Chr08 12926875 12931869 -
Gma Gma06g00407 Chr06 3502205 3505215 +
Gma Gma14g00770 Chr14 7912713 7918436 +
Gma Gma17g02266 Chr17 40546611 40552763 -
Lal Lal8g0667 Chr8 4708414 4714696 +
Lapu Lapu8g00834 Chr8 26496585 26503068 -
Lasa Lasa6g00043 Chr6 1689850 1694864 +
Lele Lele01g0815 Chr01 4720555 4731244 -
Lele Lele02g0786 Chr02 4807814 4811707 -
Lele Lele03g0805 Chr03 4720593 4724580 -
Lele Lele04g0804 Chr04 4941508 4951984 -
Lja Lja5g3098 Chr5 60641280 60646714 -
Mal Mal1g5710 Chr1 133813024 133817815 -
Mepo Mepo4g00324 Chr4 4911958 4916461 +
Mesa Mesa1g00360 Chr1 4470764 4474511 +
Mibi Mibi05g0916 Chr05 8603233 8607290 -
Mtr Mtr1g0464 Chr1 5366435 5371247 -
Phac Phac1g00357 Chr1 2304221 2310347 +
Phco Phco7g00514 Chr7 3751572 3755547 +
Phco Phco2g00320 Chr2 2609866 2614589 +
Prci Prci8g0221 Chr8 1341217 1346144 -
Psa Psa6g4926 Chr6 429908130 429914029 -
Pste Pste2g01133 Chr2 12335668 12337960 +
Pste Pste8g00831 Chr8 4282467 4287574 -
Pte Pte1g02506 Chr1 45547229 45553441 -
Pte Pte2g00388 Chr2 3015554 3020365 +
Pumo Pumo10g00335 Chr10 4482803 4486362 -
Pumo Pumo9g00329 Chr9 5169084 5174888 +
Pvu Pvu9g0726 Chr9 11841444 11844434 +
Pvu Pvu1g0271 Chr1 2436070 2441993 +
Rops Rops9g02160 Chr9 39586419 39592410 -
Seca Seca4g01380 Chr4 22285542 22288024 -
Seca Seca4g01380 Chr4 22285542 22288024 -
Spst Spst9g00523 Chr9 4614846 4618070 +
Ssu Ssu5g0312 Chr5 6602808 6608806 +
Ssu Ssu1g3720 Chr1 93525526 93529508 -
Sto Sto9g3502 Chr9 34252642 34255984 -
Tpr Tpr1g3637 Chr1 40516636 40522710 -
Trre Trre1g00394 Chr1 2801200 2805795 +
Tsu Tsu01g00448 Chr01 3810586 3814867 +
Vian Vian4g02198 Chr4 38772627 38776123 -
Vian Vian7g00676 Chr7 14902666 14907529 -
Vifa Vifa3g04861 Chr3 1407773539 1407778445 -
Vimu Vimu10g03235 Chr10 42758158 42761649 -
Vimu Vimu1g02938 Chr1 41710588 41715362 -
Viun Viun9g03396 Chr9 40376084 40380681 -
Viun Viun8g00396 Chr8 2681116 2686052 +
Vivi Vivi4g05551 Chr4 190651623 190656756 -
Vivi Vivi4g05551 Chr4 190651623 190656756 -
Vra Vra6g1814 Chr6 34611947 34617248 -
Vra Vra5g1458 Chr5 21283947 21286793 -
Vvi Vvi18g0739 Chr18 7770220 7773076 -
Gma Gma14g00769 Chr14 7901991 7903472 +
Gma Gma17g02267 Chr17 40561283 40563179 -
Phco Phco2g00318 Chr2 2597947 2599592 +
Pumo Pumo9g00328 Chr9 5158254 5160003 +
Pvu Pvu1g0270 Chr1 2424964 2427322 +
Seca Seca8g03595 Chr8 103441510 103444072 -
Vian Vian7g00678 Chr7 14926558 14928344 -
Vifa Vifa3g04865 Chr3 1409976394 1409977060 -
Vimu Vimu1g02939 Chr1 41729681 41732210 -
Viun Viun8g00395 Chr8 2673133 2674596 +
Vvi Vvi18g0740 Chr18 7787653 7788777 -
Vvi Vvi18g0741 Chr18 7790780 7794390 -
Aev Aev09g2474 Chr09 26575815 26578846 -
Ahy Ahy19g3326 Chr19 156290070 156292676 +
Aip Aip09g03789 Chr09 144650007 144652549 +
Amo Amo19g4270 Chr19 159394934 159397618 -
Dod Dod06g0481 Chr06 5911182 5915595 +
Psa Psa6g4929 Chr6 430021030 430027260 -
Vvi Vvi18g0742 Chr18 7799326 7812505 +
Aed Aed4g1573 Chr4 20561233 20568661 -
Apr Apr9g0375 Chr9 5051355 5061574 +
Apr Apr5g1470 Chr5 18728131 18736872 +
Bisa Bisa05g0167 Chr05 2551289 2559010 +
Car Car05g02786 Chr05 72916422 72924669 -
Cca Cca03g01814 Chr03 37355336 37367084 +
Dere Dere05g1688 Chr05 26589748 26596096 -
Glsi Glsi10g0404 Chr10 2604047 2611071 -
Gma Gma04g00417 Chr04 3621269 3626635 -
Gma Gma06g00406 Chr06 3489314 3495581 -
Gma Gma14g00767 Chr14 7879891 7889025 -
Gma Gma17g02268 Chr17 40574970 40584909 +
Gso Gso4g0388 Chr4 3543063 3551132 -
Gso Gso4g0388 Chr4 3543063 3551132 -
Gso Gso4g0388 Chr4 3543063 3551132 -
Gso Gso4g0388 Chr4 3543063 3551132 -
Lal Lal8g0666 Chr8 4693819 4699921 -
Lapu Lapu8g00837 Chr8 26527001 26536459 +
Lasa Lasa5g03789 Chr5 598299622 598307913 -
Lja Lja1g4107 Chr1 52098998 52107723 +
Lja Lja5g3099 Chr5 60654365 60667773 +
Mal Mal2g1112 Chr2 13120819 13122946 -
Mtr Mtr3g3706 Chr3 50862211 50863708 -
Phco Phco2g00315 Chr2 2572046 2580854 -
Psa Psa5g0889 Chr5 69667406 69678084 +
Pste Pste8g00835 Chr8 4306915 4314477 +
Pumo Pumo9g00327 Chr9 5124333 5131387 -
Pvu Pvu1g0268 Chr1 2404367 2413536 -
Spst Spst8g02217 Chr8 32040759 32044950 -
Ssu Ssu1g3722 Chr1 93552938 93558541 +
Sto Sto5g1124 Chr5 7540935 7547822 +
Tpr Tpr7g0865 Chr7 7660223 7671172 +
Tsu Tsu07g00898 Chr07 7328808 7343143 +
Vian Vian7g00680 Chr7 14944261 14952375 +
Viun Viun8g00390 Chr8 2647772 2657482 -
Vivi Vivi3g01804 Chr3 29234228 29243040 +
Vvi Vvi18g0743 Chr18 7813675 7832715 +
Vvi Vvi18g0744 Chr18 7834552 7838117 +
Vvi Vvi18g0745 Chr18 7839602 7842815 +
Apr Apr9g0376 Chr9 5062660 5066315 +
Car Car04g03397 Chr04 62618098 62622008 +
Gma Gma14g00766 Chr14 7873765 7878018 -
Gma Gma17g02269 Chr17 40587167 40589754 +
Lal Lal8g0665 Chr8 4687941 4691829 -
Lapu Lapu8g00838 Chr8 26537188 26541848 +
Lasa Lasa6g00045 Chr6 1900803 1904481 +
Lja Lja5g3100 Chr5 60669546 60673833 +
Mal Mal1g5712 Chr1 133869079 133872319 +
Mepo Mepo4g00319 Chr4 4859163 4863254 -
Mesa Mesa1g00356 Chr1 4405860 4409392 -
Mtr Mtr1g0468 Chr1 5418094 5422202 +
Phac Phac1g00350 Chr1 2264482 2269193 -
Phco Phco2g00313 Chr2 2566757 2570678 -
Pste Pste8g00838 Chr8 4321233 4325676 +
Pumo Pumo9g00326 Chr9 5119547 5123142 -
Pvu Pvu1g0267 Chr1 2399760 2403667 -
Spst Spst8g02216 Chr8 32013048 32031191 -
Tpr Tpr1g3639 Chr1 40536759 40541183 +
Trre Trre1g00390 Chr1 2780742 2784747 -
Tsu Tsu01g00446 Chr01 3791158 3795548 -
Vian Vian7g00681 Chr7 14953822 14954748 +
Viun Viun8g00389 Chr8 2642743 2646762 -
Vivi Vivi4g05555 Chr4 190790891 190794203 +