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
Vvi2g0412 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g4895 . . . . . . . Mtr8g3427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g0672 . . . Tsu02g00491 . . . . . . . . . . . .
Vvi2g0413 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma05g02013 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0414 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0415 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00188 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0444 . . . . . . . . . . . . . . . . . . Psa7g0801 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0416 . . . . . . . . . Aev03g3048 . Ahy13g2877 . Aip03g03245 . . . Amo13g3529 . . . . . . . . . . . Car06g00545 . . . . . Dod04g2695 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g0815 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0417 . . . . . . . . . . . . . . . Alju05g2256 . . . Apr10g1357 . . . Bach6g00710 . Bisa06g1182 . . . . . . . Dere11g1039 . . . Enph10g0645 . Glsi07g0905 . . . . . . . . . . Lal23g0256 . Lal16g1228 . . . . . . . . Lapu10g00092 . Lasa4g00953 . . . . . Lele38g0017 . . . . . . . Mepo1g03712 . Mesa29g04320 . Mibi04g0013 . . . Phac10g01173 . Phco1g00812 . Prci12g1505 . Psa7g0817 . Pste6g02157 . . Pte1g00692 . . Pumo7g00875 . Pvu10g0997 . Rops4g01454 . Seca4g11249 . Spst4g01797 . . Sto6g3265 . . . . Trre15g01208 . . . Vian9g00701 . Vifa4g00599 . Vimu9g00353 . Viun10g01850 . Vivi7g04469 . .
Vvi2g0418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0419 . . . . . . . Aed6g1368 . . . . . . . . . . . Apr10g1476 . . . . . . . . . Car07g01132 . Cca11g01747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2378 . Mal5g3963 . . . . . . . Mtr4g3678 . . . . . . . Psa4g1513 . . . . . . . . . . . . . . . . . Ssu6g1473 . . . Tpr5g2733 . . . . . . . . . . . . . . . Vra7g1632
Vvi2g0420 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal15g0307 . . . . . Lan18g0859 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0421 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0412 Chr2 3458409 3461761 +
Mal Mal7g4895 Chr7 117616654 117619094 +
Mtr Mtr8g3427 Chr8 44839444 44843119 +
Tpr Tpr3g0672 Chr3 6513175 6516262 -
Tsu Tsu02g00491 Chr02 4091705 4094933 -
Vvi Vvi2g0413 Chr2 3472607 3475501 -
Gma Gma05g02013 Chr05 41459762 41462720 -
Vvi Vvi2g0414 Chr2 3477188 3480789 -
Vvi Vvi2g0415 Chr2 3482614 3486975 -
Bva Bva08g00188 Chr08 928500 931327 +
Lja Lja4g0444 Chr4 3638215 3641643 +
Psa Psa7g0801 Chr7 58277235 58279870 +
Vvi Vvi2g0416 Chr2 3488607 3495840 -
Aev Aev03g3048 Chr03 29361860 29369907 -
Ahy Ahy13g2877 Chr13 115244522 115248781 +
Aip Aip03g03245 Chr03 105843367 105847634 +
Amo Amo13g3529 Chr13 119717452 119721770 +
Car Car06g00545 Chr06 5519132 5525880 +
Dod Dod04g2695 Chr04 50887500 50893517 -
Psa Psa7g0815 Chr7 59332754 59339760 -
Vvi Vvi2g0417 Chr2 3496566 3497741 -
Alju Alju05g2256 Chr05 55879198 55880243 +
Apr Apr10g1357 Chr10 25882243 25884268 +
Bach Bach6g00710 Chr6 5280236 5280730 +
Bisa Bisa06g1182 Chr06 41742197 41744701 -
Dere Dere11g1039 Chr11 20052646 20055227 -
Enph Enph10g0645 Chr10 8748903 8750083 +
Glsi Glsi07g0905 Chr07 8664392 8667237 +
Lal Lal23g0256 Chr23 2555500 2557633 +
Lal Lal16g1228 Chr16 8571176 8573584 +
Lapu Lapu10g00092 Chr10 2523374 2525473 -
Lasa Lasa4g00953 Chr4 50958746 50959734 +
Lele Lele38g0017 Chr38 131830 132875 -
Mepo Mepo1g03712 Chr1 43365083 43367108 -
Mesa Mesa29g04320 Chr29 71245575 71246775 -
Mibi Mibi04g0013 Chr04 287460 289079 -
Phac Phac10g01173 Chr10 33252873 33254973 -
Phco Phco1g00812 Chr1 7541309 7543035 +
Prci Prci12g1505 Chr12 32408679 32420759 +
Psa Psa7g0817 Chr7 59363649 59368536 -
Pste Pste6g02157 Chr6 10214838 10216936 +
Pte Pte1g00692 Chr1 9320206 9321488 -
Pumo Pumo7g00875 Chr7 15298968 15301336 +
Pvu Pvu10g0997 Chr10 34846249 34848313 -
Rops Rops4g01454 Chr4 37057314 37059702 -
Seca Seca4g11249 Chr4 251032759 251034634 -
Spst Spst4g01797 Chr4 58105656 58107284 -
Sto Sto6g3265 Chr6 39001740 39003313 +
Trre Trre15g01208 Chr15 9418133 9419953 +
Vian Vian9g00701 Chr9 8977588 8979240 +
Vifa Vifa4g00599 Chr4 169235570 169236813 -
Vimu Vimu9g00353 Chr9 4223860 4225517 +
Viun Viun10g01850 Chr10 33429699 33431942 -
Vivi Vivi7g04469 Chr7 115166620 115168325 +
Vvi Vvi2g0418 Chr2 3503767 3503985 +
Vvi Vvi2g0419 Chr2 3511310 3513340 +
Aed Aed6g1368 Chr6 18314832 18316660 +
Apr Apr10g1476 Chr10 27172873 27174381 -
Car Car07g01132 Chr07 10085814 10087696 -
Cca Cca11g01747 Chr11 42096690 42098468 +
Lja Lja4g2378 Chr4 26594006 26595586 -
Mal Mal5g3963 Chr5 109194048 109196081 -
Mtr Mtr4g3678 Chr4 50550020 50553340 -
Psa Psa4g1513 Chr4 106002460 106005073 +
Ssu Ssu6g1473 Chr6 24182592 24183029 -
Tpr Tpr5g2733 Chr5 49480727 49484081 -
Vra Vra7g1632 Chr7 34771101 34773148 -
Vvi Vvi2g0420 Chr2 3513982 3520687 -
Lal Lal15g0307 Chr15 2052334 2055402 -
Lan Lan18g0859 Chr18 13975914 13978092 +
Vvi Vvi2g0421 Chr2 3524010 3526293 -
Prci Prci12g1505 Chr12 32408679 32420759 +
Alju Alju05g2256 Chr05 55879198 55880243 +
Apr Apr10g1357 Chr10 25882243 25884268 +
Bach Bach6g00710 Chr6 5280236 5280730 +
Bisa Bisa06g1182 Chr06 41742197 41744701 -
Dere Dere11g1039 Chr11 20052646 20055227 -
Enph Enph10g0645 Chr10 8748903 8750083 +
Glsi Glsi07g0905 Chr07 8664392 8667237 +
Lapu Lapu10g00092 Chr10 2523374 2525473 -
Lasa Lasa4g00953 Chr4 50958746 50959734 +
Lele Lele38g0017 Chr38 131830 132875 -
Mepo Mepo1g03712 Chr1 43365083 43367108 -
Mesa Mesa29g04320 Chr29 71245575 71246775 -
Mibi Mibi04g0013 Chr04 287460 289079 -
Phac Phac10g01173 Chr10 33252873 33254973 -
Phco Phco1g00812 Chr1 7541309 7543035 +
Prci Prci12g1505 Chr12 32408679 32420759 +
Pste Pste6g02157 Chr6 10214838 10216936 +
Pte Pte1g00692 Chr1 9320206 9321488 -
Pumo Pumo7g00875 Chr7 15298968 15301336 +
Pvu Pvu10g0997 Chr10 34846249 34848313 -
Rops Rops4g01454 Chr4 37057314 37059702 -
Seca Seca4g11249 Chr4 251032759 251034634 -
Seca Seca4g11249 Chr4 251032759 251034634 -
Spst Spst4g01797 Chr4 58105656 58107284 -
Trre Trre15g01208 Chr15 9418133 9419953 +
Vian Vian9g00701 Chr9 8977588 8979240 +
Vifa Vifa4g00599 Chr4 169235570 169236813 -
Vimu Vimu9g00353 Chr9 4223860 4225517 +
Viun Viun10g01850 Chr10 33429699 33431942 -
Vivi Vivi7g04469 Chr7 115166620 115168325 +
Vivi Vivi7g04469 Chr7 115166620 115168325 +
Aed Aed6g1368 Chr6 18314832 18316660 +
Cca Cca11g01747 Chr11 42096690 42098468 +
Lja Lja4g2378 Chr4 26594006 26595586 -
Ssu Ssu6g1473 Chr6 24182592 24183029 -
Vra Vra7g1632 Chr7 34771101 34773148 -