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
Vvi18g0776 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1137 . . . . . . . . . . . . . . . . . . .
Vvi18g0777 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0778 Acco10g1765 . Accr4g01000 . Adu08g01009 . Aed6g0361 Aed4g1550 Aev08g0380 . Ahy17g3251 . Aip07g03535 . Alju08g1037 . . . Apr9g0387 Apr5g1485 Arst8g01337 . Bach12g00279 Bach3g02207 Bisa09g1835 . Bva06g02126 Bva10g00674 Car04g03406 Car05g02770 Cca05g00124 Cca03g01847 Dere04g0303 . . . Enph1g1201 . Glsi08g1839 . Gma04g00406 Gma06g00392 Gma14g00759 Gma17g02278 Gso4g0375 Gso4g0375 Gso4g0375 Gso4g0375 . Lal17g0119 Lal21g0224 Lal8g0657 Lal10g0837 . . . . . . . Lapu9g02117 Lapu8g00846 Lasa5g03761 Lasa5g03761 Lele01g0828 Lele02g0802 Lele03g0817 Lele04g0821 . . . . Lja1g4125 Lja5g3109 Mal1g5726 Mal2g1168 Mepo3g07173 Mepo4g00307 . Mesa1g00346 Mibi05g0933 . Mtr1g0479 Mtr3g3681 . . Phco7g00496 Phco2g00304 Prci8g0238 . . . . . . . . . Pumo10g00354 Pumo9g00312 Pvu9g0707 Pvu1g0259 Rops10g01133 Rops9g02176 Seca4g01411 Seca4g01411 Spst9g00501 Spst8g02204 Ssu5g0295 Ssu1g3743 . Sto9g3519 . . Trre5g04892 Trre1g00378 Tsu01g00437 Tsu07g00916 Vian4g02215 Vian7g00688 Vifa2g03649 . Vimu10g03259 Vimu1g02952 Viun9g03425 Viun8g00382 Vivi3g01855 Vivi4g05567 Vra6g1827 Vra5g1474
Vvi18g0779 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0780 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0781 . . . . Adu08g01010 . Aed6g0359 Aed4g1548 Aev08g0377 . Ahy17g3252 . Aip07g03536 . . . Amo17g2844 . Apr9g0388 Apr5g1486 Arst8g01338 . Bach12g00278 . . . Bva06g02124 Bva10g00676 . Car05g02769 Cca05g00127 Cca03g01850 . . . . . . . . Gma04g00404 Gma06g00391 Gma14g00756 Gma17g02281 Gso4g0374 Gso4g0374 Gso4g0374 Gso4g0374 Lal4g0136 . . . . . Lan14g0890 . . . . . Lapu9g02119 . Lasa5g03760 . . . . . . . . . Lja1g4127 Lja5g3112 . Mal2g1169 Mepo3g07172 . . . . . . Mtr3g3680 Phac9g01531 . Phco7g00494 . . . . Psa5g0945 Pste2g01098 . . Pte1g02518 . . Pumo10g00356 . Pvu9g0705 . Rops10g01132 . Seca4g01414 . Spst9g00499 . Ssu5g0293 Ssu1g3744 . . . . Trre5g04885 . . Tsu07g00917 Vian4g02218 . Vifa2g03648 . Vimu10g03260 . Viun9g03426 . Vivi3g01859 . . Vra5g1475
Vvi18g0782 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0783 . . . . Adu08g01013 . . Aed4g1547 Aev08g0376 . Ahy17g3253 . Aip07g03537 . . . . . . Apr5g1487 Arst8g01340 . Bach12g00277 . . . Bva06g02123 Bva10g00679 . Car05g02768 . Cca03g01852 . . . . . . . . Gma04g00403 Gma06g00389 . . Gso4g0373 Gso4g0373 . . . . Lal21g0223 . . . . . . . . . Lapu9g02120 . Lasa5g03759 . . . . . . . . . Lja1g4128 . . Mal2g1170 Mepo3g07171 . . . . . . Mtr3g3679 Phac9g01533 . Phco7g00493 . . . . Psa5g0946 Pste2g01097 . . . . . Pumo10g00357 . Pvu9g0704 . Rops10g01131 . Seca4g01415 . Spst9g00498 . . Ssu1g3746 Sto5g1146 . . . Trre5g04884 . . Tsu07g00918 Vian4g02219 . Vifa2g03647 . Vimu10g03263 . Viun9g03427 . Vivi3g01861 . . Vra5g1476
Vvi18g0784 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca03g01853 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g1171 . . . . . . . Mtr3g3678 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g3747 . Sto9g3521 . . . . . Tsu07g00919 . . . . . . . . . . . Vra5g1477
Vvi18g0785 . . . . . . . . Aev08g0375 . Ahy17g3254 . Aip07g03538 . . . Amo17g2843 . . Apr5g1488 . . . . . . . Bva10g00680 . . . Cca03g01854 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4129 . . . . . . . . . . . . . . . . . . Psa5g0947 . . . . . . . . . . . . . . . . . Ssu1g3749 Sto5g1147 . . . . . . . . . . . . . . . . . . Vra5g1478
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0776 Chr18 8045718 8048970 +
Sto Sto5g1137 Chr5 7609539 7622776 +
Vvi Vvi18g0777 Chr18 8053061 8054991 +
Vvi Vvi18g0778 Chr18 8057608 8058099 +
Acco Acco10g1765 Chr10 30772593 30773072 -
Accr Accr4g01000 Chr4 9524205 9524684 +
Adu Adu08g01009 Chr08 18132488 18133288 +
Aed Aed6g0361 Chr6 3121494 3121856 -
Aed Aed4g1550 Chr4 20445950 20446450 -
Aev Aev08g0380 Chr08 2106649 2107050 -
Ahy Ahy17g3251 Chr17 134599301 134600089 +
Aip Aip07g03535 Chr07 125342570 125343374 +
Alju Alju08g1037 Chr08 7831013 7831492 +
Apr Apr9g0387 Chr9 5233264 5233772 +
Apr Apr5g1485 Chr5 18824375 18825215 +
Arst Arst8g01337 Chr8 18100666 18101461 +
Bach Bach12g00279 Chr12 1879818 1880291 -
Bach Bach3g02207 Chr3 29072553 29073026 +
Bisa Bisa09g1835 Chr09 28652252 28652737 +
Bva Bva06g02126 Chr06 14055999 14056752 -
Bva Bva10g00674 Chr10 5705604 5708777 +
Car Car04g03406 Chr04 62705019 62705824 +
Car Car05g02770 Chr05 72813849 72814830 -
Cca Cca05g00124 Chr05 2802344 2803039 +
Cca Cca03g01847 Chr03 37815874 37816869 +
Dere Dere04g0303 Chr04 3042447 3042941 -
Enph Enph1g1201 Chr1 37992792 37993295 -
Glsi Glsi08g1839 Chr08 13018339 13022030 +
Gma Gma04g00406 Chr04 3524388 3525231 -
Gma Gma06g00392 Chr06 3390060 3390883 -
Gma Gma14g00759 Chr14 7794261 7795264 -
Gma Gma17g02278 Chr17 40687964 40688798 +
Gso Gso4g0375 Chr4 3448794 3449599 -
Gso Gso4g0375 Chr4 3448794 3449599 -
Gso Gso4g0375 Chr4 3448794 3449599 -
Gso Gso4g0375 Chr4 3448794 3449599 -
Lal Lal17g0119 Chr17 729117 732012 +
Lal Lal21g0224 Chr21 1485961 1486425 -
Lal Lal8g0657 Chr8 4624707 4625186 +
Lal Lal10g0837 Chr10 15981877 15982353 -
Lapu Lapu9g02117 Chr9 35899148 35899873 +
Lapu Lapu8g00846 Chr8 26612735 26613450 +
Lasa Lasa5g03761 Chr5 595462294 595462794 -
Lasa Lasa5g03761 Chr5 595462294 595462794 -
Lele Lele01g0828 Chr01 4787112 4787594 +
Lele Lele02g0802 Chr02 4892133 4892621 +
Lele Lele03g0817 Chr03 4791800 4792282 +
Lele Lele04g0821 Chr04 5034176 5034658 +
Lja Lja1g4125 Chr1 52309841 52310714 +
Lja Lja5g3109 Chr5 60775575 60776262 +
Mal Mal1g5726 Chr1 134034784 134035215 +
Mal Mal2g1168 Chr2 13712825 13713319 +
Mepo Mepo3g07173 Chr3 85393297 85394192 -
Mepo Mepo4g00307 Chr4 4752606 4753419 -
Mesa Mesa1g00346 Chr1 4274601 4275041 -
Mibi Mibi05g0933 Chr05 8739637 8740110 +
Mtr Mtr1g0479 Chr1 5510385 5511110 +
Mtr Mtr3g3681 Chr3 50693221 50694165 -
Phco Phco7g00496 Chr7 3649145 3650363 -
Phco Phco2g00304 Chr2 2483402 2483806 -
Prci Prci8g0238 Chr8 1479466 1480296 +
Pumo Pumo10g00354 Chr10 4670535 4671511 +
Pumo Pumo9g00312 Chr9 5006360 5007100 -
Pvu Pvu9g0707 Chr9 11683184 11684228 -
Pvu Pvu1g0259 Chr1 2305397 2305801 -
Rops Rops10g01133 Chr10 23480561 23481231 -
Rops Rops9g02176 Chr9 39796057 39796766 +
Seca Seca4g01411 Chr4 22706781 22708012 +
Seca Seca4g01411 Chr4 22706781 22708012 +
Spst Spst9g00501 Chr9 4492678 4493172 -
Spst Spst8g02204 Chr8 31847691 31848077 -
Ssu Ssu5g0295 Chr5 6304084 6304476 -
Ssu Ssu1g3743 Chr1 93876675 93877166 +
Sto Sto9g3519 Chr9 34324517 34324999 +
Trre Trre5g04892 Chr5 50728848 50729342 -
Trre Trre1g00378 Chr1 2700604 2701192 -
Tsu Tsu01g00437 Chr01 3718707 3719555 -
Tsu Tsu07g00916 Chr07 7476023 7476941 +
Vian Vian4g02215 Chr4 38931119 38931616 +
Vian Vian7g00688 Chr7 15049630 15050001 +
Vifa Vifa2g03649 Chr2 1065461458 1065461958 -
Vimu Vimu10g03259 Chr10 42874368 42878037 +
Vimu Vimu1g02952 Chr1 41857819 41860741 +
Viun Viun9g03425 Chr9 40492331 40493100 +
Viun Viun8g00382 Chr8 2558190 2559734 -
Vivi Vivi3g01855 Chr3 30056744 30057782 +
Vivi Vivi4g05567 Chr4 191026479 191027310 +
Vra Vra6g1827 Chr6 34738747 34741092 +
Vra Vra5g1474 Chr5 21398331 21399254 +
Vvi Vvi18g0779 Chr18 8065110 8065391 -
Vvi Vvi18g0780 Chr18 8069331 8072096 +
Vvi Vvi18g0781 Chr18 8077398 8077952 +
Adu Adu08g01010 Chr08 18169178 18170074 +
Aed Aed6g0359 Chr6 3099186 3099698 -
Aed Aed4g1548 Chr4 20434419 20434934 -
Aev Aev08g0377 Chr08 2086511 2087068 -
Ahy Ahy17g3252 Chr17 134634069 134635193 +
Aip Aip07g03536 Chr07 125375450 125376013 +
Amo Amo17g2844 Chr17 130487605 130488571 -
Apr Apr9g0388 Chr9 5260291 5261024 +
Apr Apr5g1486 Chr5 18838773 18840419 +
Arst Arst8g01338 Chr8 18137402 18138521 +
Bach Bach12g00278 Chr12 1871065 1872036 -
Bva Bva06g02124 Chr06 14048817 14049741 -
Bva Bva10g00676 Chr10 5718993 5719896 +
Car Car05g02769 Chr05 72795081 72796270 -
Cca Cca05g00127 Chr05 2899649 2900985 +
Cca Cca03g01850 Chr03 37834259 37834915 +
Gma Gma04g00404 Chr04 3501429 3502321 -
Gma Gma06g00391 Chr06 3372719 3373893 -
Gma Gma14g00756 Chr14 7769739 7770396 -
Gma Gma17g02281 Chr17 40727625 40728742 +
Gso Gso4g0374 Chr4 3425523 3426720 -
Gso Gso4g0374 Chr4 3425523 3426720 -
Gso Gso4g0374 Chr4 3425523 3426720 -
Gso Gso4g0374 Chr4 3425523 3426720 -
Lal Lal4g0136 Chr4 849503 850015 -
Lan Lan14g0890 Chr14 15494600 15495813 +
Lapu Lapu9g02119 Chr9 35916095 35917027 +
Lasa Lasa5g03760 Chr5 594977620 594978153 -
Lja Lja1g4127 Chr1 52343479 52344683 +
Lja Lja5g3112 Chr5 60832604 60833497 +
Mal Mal2g1169 Chr2 13727325 13727867 +
Mepo Mepo3g07172 Chr3 85378198 85379187 -
Mtr Mtr3g3680 Chr3 50676569 50677655 -
Phac Phac9g01531 Chr9 12414874 12416249 +
Phco Phco7g00494 Chr7 3630640 3631167 -
Psa Psa5g0945 Chr5 72598615 72600474 +
Pste Pste2g01098 Chr2 11878027 11879054 -
Pte Pte1g02518 Chr1 45621144 45622660 +
Pumo Pumo10g00356 Chr10 4696445 4698087 +
Pvu Pvu9g0705 Chr9 11661417 11663266 -
Rops Rops10g01132 Chr10 23455543 23456754 -
Seca Seca4g01414 Chr4 22762743 22763294 +
Spst Spst9g00499 Chr9 4477802 4478317 -
Ssu Ssu5g0293 Chr5 6247666 6248169 -
Ssu Ssu1g3744 Chr1 93925890 93926426 +
Trre Trre5g04885 Chr5 50635460 50636008 -
Tsu Tsu07g00917 Chr07 7499941 7501730 +
Vian Vian4g02218 Chr4 38957362 38957907 +
Vifa Vifa2g03648 Chr2 1063646846 1063647367 -
Vimu Vimu10g03260 Chr10 42897071 42899545 +
Viun Viun9g03426 Chr9 40506512 40507579 +
Vivi Vivi3g01859 Chr3 30105958 30107016 +
Vra Vra5g1475 Chr5 21413801 21414760 +
Vvi Vvi18g0782 Chr18 8083711 8084610 +
Vvi Vvi18g0783 Chr18 8101704 8128765 +
Adu Adu08g01013 Chr08 18203563 18207565 +
Aed Aed4g1547 Chr4 20427801 20431679 -
Aev Aev08g0376 Chr08 2071113 2081271 -
Ahy Ahy17g3253 Chr17 134647034 134651277 +
Aip Aip07g03537 Chr07 125388432 125392362 +
Apr Apr5g1487 Chr5 18843474 18847180 +
Arst Arst8g01340 Chr8 18179460 18183437 +
Bach Bach12g00277 Chr12 1864808 1869126 -
Bva Bva06g02123 Chr06 14043116 14047366 -
Bva Bva10g00679 Chr10 5725083 5726362 +
Car Car05g02768 Chr05 72783529 72787223 -
Cca Cca03g01852 Chr03 37848015 37852748 +
Gma Gma04g00403 Chr04 3493180 3497463 -
Gma Gma06g00389 Chr06 3363525 3367894 -
Gso Gso4g0373 Chr4 3417749 3422085 -
Gso Gso4g0373 Chr4 3417749 3422085 -
Lal Lal21g0223 Chr21 1471805 1476018 -
Lapu Lapu9g02120 Chr9 35919858 35924932 +
Lasa Lasa5g03759 Chr5 594893964 594898108 -
Lja Lja1g4128 Chr1 52348232 52352417 +
Mal Mal2g1170 Chr2 13731547 13737043 +
Mepo Mepo3g07171 Chr3 85370727 85375118 -
Mtr Mtr3g3679 Chr3 50669216 50673629 -
Phac Phac9g01533 Chr9 12420813 12425959 +
Phco Phco7g00493 Chr7 3622527 3627278 -
Psa Psa5g0946 Chr5 72625504 72630241 +
Pste Pste2g01097 Chr2 11855618 11859591 -
Pumo Pumo10g00357 Chr10 4701849 4707225 +
Pvu Pvu9g0704 Chr9 11653910 11658816 -
Rops Rops10g01131 Chr10 23447655 23452166 -
Seca Seca4g01415 Chr4 22768153 22771605 +
Spst Spst9g00498 Chr9 4469794 4474171 -
Ssu Ssu1g3746 Chr1 93941445 93945579 +
Sto Sto5g1146 Chr5 7649110 7653406 +
Trre Trre5g04884 Chr5 50626237 50630225 -
Tsu Tsu07g00918 Chr07 7503753 7507310 +
Vian Vian4g02219 Chr4 38965466 38969709 +
Vifa Vifa2g03647 Chr2 1063511845 1063516012 -
Vimu Vimu10g03263 Chr10 42906631 42908121 +
Viun Viun9g03427 Chr9 40512256 40517502 +
Vivi Vivi3g01861 Chr3 30111106 30115742 +
Vra Vra5g1476 Chr5 21419256 21424251 +
Vvi Vvi18g0784 Chr18 8135122 8137527 +
Cca Cca03g01853 Chr03 37856319 37858724 +
Mal Mal2g1171 Chr2 13740532 13742910 +
Mtr Mtr3g3678 Chr3 50664098 50666747 -
Ssu Ssu1g3747 Chr1 93950995 93953401 +
Sto Sto9g3521 Chr9 34334559 34341824 +
Tsu Tsu07g00919 Chr07 7515727 7518132 +
Vra Vra5g1477 Chr5 21426552 21428903 +
Vvi Vvi18g0785 Chr18 8151295 8153700 +
Aev Aev08g0375 Chr08 2059304 2061751 +
Ahy Ahy17g3254 Chr17 134652221 134654854 +
Aip Aip07g03538 Chr07 125393536 125395878 +
Amo Amo17g2843 Chr17 130467692 130470363 -
Apr Apr5g1488 Chr5 18848558 18850972 +
Bva Bva10g00680 Chr10 5728061 5730493 -
Cca Cca03g01854 Chr03 37863287 37865695 -
Lja Lja1g4129 Chr1 52358757 52361531 +
Psa Psa5g0947 Chr5 72656356 72658903 +
Ssu Ssu1g3749 Chr1 94021332 94027034 -
Sto Sto5g1147 Chr5 7655429 7658031 +
Vra Vra5g1478 Chr5 21436525 21439156 -