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
Vvi3g0273 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g2409 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g1377 . . . . . . . . . . . . . . . . . . .
Vvi3g0274 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g1367 Sto10g0029 . . . . . . . . . . . . . . . . . .
Vvi3g0275 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g1365 . . . . . . . . . . . . . . . . . . .
Vvi3g0276 . . . . . Adu01g00829 . . Aev04g3367 . Ahy13g0725 . Aip03g00764 . . . Amo13g0750 . . . . Arst1g01119 . . . . Bva13g00183 Bva14g00253 Car06g03794 . Cca04g00420 . . . Dod03g3169 . . . . . . . . Gma12g00375 . . . . . . . . . . . . . . . . . . . Lasa4g01997 . . . . . . . . . . . . . . . Mesa29g02369 . . . . . . . Phco8g00347 . . Psa7g4221 Psa2g3427 . . . . Pte14g00828 . . . . Pvu3g2759 . . . . . Spst3g03743 . . . . . . . Trre15g02545 . . . . . . . Vimu7g03146 . . . Vivi1g03202 Vra2g0399 .
Vvi3g0277 . . . . . . . . . . . . . . . . . . Apr5g0317 . . . . . . . Bva13g00182 Bva14g00252 Car06g03793 . Cca04g00419 . . . . . . . . . . . . Gma12g00374 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g2856 . . . . . . . . . . . . . . . . . . . Vra2g0398 .
Vvi3g0278 . Acco01g2043 . Accr1g01743 . Adu03g00495 . . Aev04g3365 Aev05g0362 Ahy13g0720 Ahy15g0339 Aip03g00760 Aip05g00335 . Alju02g2006 Amo13g0747 . Apr5g0316 . . Arst3g00651 . . . Bisa01g3976 Bva13g00181 Bva14g00251 Car06g03792 . Cca04g00418 . . . Dod03g3166 . . . . Glsi01g0213 . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02107 . . . . . . . . . . . . . . . . . . . . . . . Phco9g00494 . Prci14g0235 Psa7g4220 Psa2g3426 . . . . . . . Pumo10g00715 . Pvu11g0449 . Rops3g00544 . Seca4g03479 . . . . . . . . . Trre7g02797 . . . . . Vifa6g01200 . Vimu5g02356 . . . . Vra2g0397 .
Vvi3g0279 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0280 . Acco12g0277 . Accr10g01724 . Adu01g00830 . . Aev04g3363 Aev05g0363 Ahy13g0719 Ahy15g0341 Aip03g00759 Aip05g00336 . . . . Apr5g0315 . . Arst1g01120 . . . . . Bva14g00250 Car06g03791 . Cca04g00417 . . Dere13g0792 Dod03g3164 . . . . Glsi09g0698 . . . Gma12g00372 . . . . . . . . . . . . . . . . . . . Lasa4g02001 . . . . . . Lele55g0227 . . . . . . Mepo1g02199 . . . . . . . . . Phco8g00346 . . . . . . . . . . . . . Pvu3g2760 . . . . . Spst3g03742 . . . . . . . Trre15g02544 . . . . . . . Vimu7g03147 . . . . . .
Vvi3g0281 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0282 . Acco01g2047 . Accr1g01747 . Adu03g00497 . . Aev04g3362 Aev05g0364 Ahy13g0718 Ahy15g0342 Aip03g00758 Aip05g00337 . Alju02g2001 Amo13g0745 . Apr5g0314 . . Arst3g00654 . . . Bisa01g3981 Bva13g00179 Bva14g00248 Car06g03789 . Cca04g00416 . . . Dod03g3163 . . . . Glsi01g0211 . . . . . . . . . . . . . . . . . . . . . Lapu11g00767 . Lasa7g02115 . . . . . . . . . . . . . . . . . . . . . Phac11g00651 . Phco9g00492 . Prci14g0233 Psa7g4218 . . Pste1g01787 . . . . . Pumo10g00717 . Pvu11g0447 . Rops3g00541 . . . . . . . . . . . Trre7g02793 . . . . . Vifa6g01198 . . . Viun11g02454 . . Vra2g0396 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0273 Chr3 2380407 2384360 +
Lja Lja1g2409 Chr1 27806871 27811008 -
Sto Sto2g1377 Chr2 14915115 14927237 -
Vvi Vvi3g0274 Chr3 2403446 2408906 +
Sto Sto2g1367 Chr2 14737668 14741824 -
Sto Sto10g0029 Chr10 273245 278352 +
Vvi Vvi3g0275 Chr3 2413660 2420140 +
Sto Sto2g1365 Chr2 14716103 14721685 -
Vvi Vvi3g0276 Chr3 2421825 2422718 -
Adu Adu01g00829 Chr01 11087402 11088489 -
Aev Aev04g3367 Chr04 32435795 32436664 -
Ahy Ahy13g0725 Chr13 7490395 7491600 -
Aip Aip03g00764 Chr03 7302042 7303065 -
Amo Amo13g0750 Chr13 9233272 9234625 -
Arst Arst1g01119 Chr1 11084555 11085710 -
Bva Bva13g00183 Chr13 884140 884988 +
Bva Bva14g00253 Chr14 1306800 1307657 +
Car Car06g03794 Chr06 69660630 69661694 -
Cca Cca04g00420 Chr04 4199567 4200590 +
Dod Dod03g3169 Chr03 64282437 64283663 -
Gma Gma12g00375 Chr12 3081144 3082022 +
Lasa Lasa4g01997 Chr4 407580001 407580939 -
Mesa Mesa29g02369 Chr29 32337708 32338574 -
Phco Phco8g00347 Chr8 3200414 3202294 -
Psa Psa7g4221 Chr7 342785561 342787537 +
Psa Psa2g3427 Chr2 381374119 381375864 +
Pte Pte14g00828 Chr14 29761370 29762105 +
Pvu Pvu3g2759 Chr3 49454295 49455209 +
Spst Spst3g03743 Chr3 87439919 87442824 -
Trre Trre15g02545 Chr15 21413559 21414488 +
Vimu Vimu7g03146 Chr7 26644157 26645029 -
Vivi Vivi1g03202 Chr1 69723668 69724728 -
Vra Vra2g0399 Chr2 3096331 3098877 +
Vvi Vvi3g0277 Chr3 2426905 2427267 -
Apr Apr5g0317 Chr5 2874422 2874862 -
Bva Bva13g00182 Chr13 881900 882760 +
Bva Bva14g00252 Chr14 1303044 1303901 +
Car Car06g03793 Chr06 69657427 69658423 -
Cca Cca04g00419 Chr04 4195616 4196473 +
Gma Gma12g00374 Chr12 3077608 3078462 +
Ssu Ssu3g2856 Chr3 83168061 83168948 -
Vra Vra2g0398 Chr2 3090528 3092422 +
Vvi Vvi3g0278 Chr3 2429670 2430563 -
Acco Acco01g2043 Chr01 36234248 36235090 +
Accr Accr1g01743 Chr1 47503392 47504246 +
Adu Adu03g00495 Chr03 4530539 4531472 -
Aev Aev04g3365 Chr04 32431638 32432480 -
Aev Aev05g0362 Chr05 2577480 2578337 +
Ahy Ahy13g0720 Chr13 7469390 7470717 -
Ahy Ahy15g0339 Chr15 4076600 4077859 -
Aip Aip03g00760 Chr03 7280383 7281228 -
Aip Aip05g00335 Chr05 3780522 3781502 -
Alju Alju02g2006 Chr02 19352852 19353727 +
Amo Amo13g0747 Chr13 9204524 9205877 -
Apr Apr5g0316 Chr5 2871884 2872765 -
Arst Arst3g00651 Chr3 4538816 4539794 -
Bisa Bisa01g3976 Chr01 95670241 95670812 -
Bva Bva13g00181 Chr13 878811 879698 +
Bva Bva14g00251 Chr14 1300110 1300997 +
Car Car06g03792 Chr06 69653459 69654491 +
Cca Cca04g00418 Chr04 4191843 4192776 +
Dod Dod03g3166 Chr03 64269215 64270307 -
Glsi Glsi01g0213 Chr01 1712110 1712976 +
Lasa Lasa7g02107 Chr7 493586628 493587533 +
Phco Phco9g00494 Chr9 3602323 3603183 +
Prci Prci14g0235 Chr14 1861190 1862278 -
Psa Psa7g4220 Chr7 342778317 342785434 +
Psa Psa2g3426 Chr2 381370621 381373597 -
Pumo Pumo10g00715 Chr10 9173402 9173920 -
Pvu Pvu11g0449 Chr11 3777150 3778012 +
Rops Rops3g00544 Chr3 6809461 6810333 +
Seca Seca4g03479 Chr4 60532366 60532776 +
Trre Trre7g02797 Chr7 24216529 24217374 +
Vifa Vifa6g01200 Chr6 387947239 387948123 +
Vimu Vimu5g02356 Chr5 34363510 34364190 -
Vra Vra2g0397 Chr2 3083027 3084654 +
Vvi Vvi3g0279 Chr3 2431058 2432305 +
Vvi Vvi3g0280 Chr3 2434389 2435285 -
Acco Acco12g0277 Chr12 2441232 2442101 -
Accr Accr10g01724 Chr10 41387139 41388008 +
Adu Adu01g00830 Chr01 11094374 11100230 -
Aev Aev04g3363 Chr04 32426667 32427545 -
Aev Aev05g0363 Chr05 2579708 2580583 +
Ahy Ahy13g0719 Chr13 7467150 7468574 -
Ahy Ahy15g0341 Chr15 4083832 4085650 -
Aip Aip03g00759 Chr03 7278020 7279036 -
Aip Aip05g00336 Chr05 3787651 3788639 -
Apr Apr5g0315 Chr5 2869493 2870380 -
Arst Arst1g01120 Chr1 11091598 11092433 -
Bva Bva14g00250 Chr14 1297927 1298808 +
Car Car06g03791 Chr06 69649992 69650879 +
Cca Cca04g00417 Chr04 4189345 4190223 +
Dere Dere13g0792 Chr13 9827778 9828620 -
Dod Dod03g3164 Chr03 64267011 64267514 -
Glsi Glsi09g0698 Chr09 4824967 4825839 -
Gma Gma12g00372 Chr12 3067923 3068819 +
Lasa Lasa4g02001 Chr4 408158187 408158717 -
Lele Lele55g0227 Chr55 1392065 1392946 -
Mepo Mepo1g02199 Chr1 22561149 22562000 -
Phco Phco8g00346 Chr8 3195096 3196601 -
Pvu Pvu3g2760 Chr3 49459043 49460152 +
Spst Spst3g03742 Chr3 87435715 87436593 -
Trre Trre15g02544 Chr15 21404296 21405180 +
Vimu Vimu7g03147 Chr7 26646550 26647422 -
Vvi Vvi3g0281 Chr3 2435964 2437997 +
Vvi Vvi3g0282 Chr3 2438799 2439692 -
Acco Acco01g2047 Chr01 36245696 36246571 +
Accr Accr1g01747 Chr1 47527703 47528569 -
Adu Adu03g00497 Chr03 4535164 4536009 -
Aev Aev04g3362 Chr04 32424401 32425294 -
Aev Aev05g0364 Chr05 2582048 2582905 +
Ahy Ahy13g0718 Chr13 7463984 7466244 -
Ahy Ahy15g0342 Chr15 4086235 4087313 +
Aip Aip03g00758 Chr03 7275852 7276658 -
Aip Aip05g00337 Chr05 3790046 3791024 +
Alju Alju02g2001 Chr02 19334173 19335067 -
Amo Amo13g0745 Chr13 9187860 9188720 -
Apr Apr5g0314 Chr5 2865069 2865959 -
Arst Arst3g00654 Chr3 4549074 4549975 -
Bisa Bisa01g3981 Chr01 95755945 95756796 +
Bva Bva13g00179 Chr13 874578 875456 +
Bva Bva14g00248 Chr14 1293885 1294766 +
Car Car06g03789 Chr06 69644685 69645425 +
Cca Cca04g00416 Chr04 4184306 4185193 +
Dod Dod03g3163 Chr03 64263899 64264780 -
Glsi Glsi01g0211 Chr01 1694290 1695144 +
Lapu Lapu11g00767 Chr11 10574063 10574962 -
Lasa Lasa7g02115 Chr7 494587290 494588195 +
Phac Phac11g00651 Chr11 4349057 4350473 +
Phco Phco9g00492 Chr9 3597887 3598861 +
Prci Prci14g0233 Chr14 1851808 1853717 +
Psa Psa7g4218 Chr7 342742507 342744367 -
Pste Pste1g01787 Chr1 5458152 5475582 +
Pumo Pumo10g00717 Chr10 9175230 9176117 +
Pvu Pvu11g0447 Chr11 3772861 3773736 +
Rops Rops3g00541 Chr3 6796629 6797522 +
Trre Trre7g02793 Chr7 24202576 24203421 +
Vifa Vifa6g01198 Chr6 387893067 387893951 -
Viun Viun11g02454 Chr11 38144371 38146571 -
Vra Vra2g0396 Chr2 3081164 3082326 +
Vimu Vimu7g03146 Chr7 26644157 26645029 -
Vimu Vimu7g03147 Chr7 26646550 26647422 -