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
Vvi3g1173 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1174 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1175 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g3215 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1176 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1177 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1178 . Acco06g2442 . Accr5g00684 . Adu03g04180 . . . . Ahy20g0800 . Aip10g00801 . . Alju03g0920 . . . . . Arst3g05531 . . . Bisa07g0573 Bva13g00874 Bva14g01038 . . . . . . Dod03g0182 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g02857 . Lasa7g03561 . . . . Lele13g0572 Lele14g0475 Lele15g1913 Lele16g1940 . Lja4g4038 Mal7g3819 Mal4g4867 . Mepo2g03505 . . . Mibi06g0710 Mtr4g3186 Mtr2g0169 . . . Phco4g02400 . Prci3g0680 . Psa1g4945 . Pste3g03351 . . Pte2g00696 . . Pumo6g01622 . Pvu2g2158 . Rops2g01773 . Seca12g05190 . Spst3g00370 . . Sto2g2747 Sto13g2501 Tpr3g1635 Tpr2g2846 . Trre7g04015 Tsu02g01598 Tsu08g04311 . Vian1g03000 . Vifa1g10755 . Vimu11g01256 . Viun3g01740 . Vivi5g04984 . .
Vvi3g1179 . . . . . . . . Aev04g0798 . Ahy20g0798 . Aip10g00800 . . . . . . . . . . . . . Bva13g00875 Bva14g01039 . . . . . . Dod03g0184 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa1g4946 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1180 . . . . . . . . . . Ahy20g0797 . Aip10g00799 . . . . . . . . . . . . . Bva13g00876 Bva14g01042 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3818 . . . . . . . Mtr4g3185 . . . . . . . . Psa1g4994 . . . . . . . . . . . . . . . . . . . Sto13g2504 Tpr3g1636 . . . Tsu02g01599 . . . . . . . . . . . . .
Vvi3g1181 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1182 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g1173 Chr3 16280643 16281023 +
Vvi Vvi3g1174 Chr3 16302188 16303007 -
Vvi Vvi3g1175 Chr3 16337483 16343396 +
Lja Lja6g3215 Chr6 60591043 60593971 +
Vvi Vvi3g1176 Chr3 16344705 16360523 -
Vvi Vvi3g1177 Chr3 16377478 16379511 +
Vvi Vvi3g1178 Chr3 16414993 16420525 -
Acco Acco06g2442 Chr06 21157917 21168479 +
Accr Accr5g00684 Chr5 30270461 30273973 -
Adu Adu03g04180 Chr03 130918888 130921567 +
Ahy Ahy20g0800 Chr20 10174791 10176857 +
Aip Aip10g00801 Chr10 9717959 9726329 +
Alju Alju03g0920 Chr03 36214411 36216157 -
Arst Arst3g05531 Chr3 129682125 129685763 +
Bisa Bisa07g0573 Chr07 14281028 14283387 -
Bva Bva13g00874 Chr13 4085872 4087515 -
Bva Bva14g01038 Chr14 4989972 4993254 -
Dod Dod03g0182 Chr03 1940768 1942124 -
Lapu Lapu3g02857 Chr3 51454641 51462413 +
Lasa Lasa7g03561 Chr7 602452670 602454312 +
Lele Lele13g0572 Chr13 17899724 17901788 -
Lele Lele14g0475 Chr14 16369780 16378502 -
Lele Lele15g1913 Chr15 11875892 11878254 +
Lele Lele16g1940 Chr16 11772540 11777349 +
Lja Lja4g4038 Chr4 73529256 73534833 +
Mal Mal7g3819 Chr7 104030714 104032644 +
Mal Mal4g4867 Chr4 128143506 128145384 +
Mepo Mepo2g03505 Chr2 44608614 44610973 +
Mibi Mibi06g0710 Chr06 24928394 24934859 -
Mtr Mtr4g3186 Chr4 45314542 45317383 +
Mtr Mtr2g0169 Chr2 1721012 1723370 -
Phco Phco4g02400 Chr4 45159867 45161996 +
Prci Prci3g0680 Chr3 8612971 8616495 -
Psa Psa1g4945 Chr1 365274675 365276334 -
Pste Pste3g03351 Chr3 26303333 26309454 +
Pte Pte2g00696 Chr2 5560348 5563641 -
Pumo Pumo6g01622 Chr6 23636901 23639997 +
Pvu Pvu2g2158 Chr2 37009619 37010992 +
Rops Rops2g01773 Chr2 27361790 27364895 -
Seca Seca12g05190 Chr12 140465484 140471722 +
Spst Spst3g00370 Chr3 6544078 6544689 +
Sto Sto2g2747 Chr2 41183520 41187324 -
Sto Sto13g2501 Chr13 31250674 31251640 -
Tpr Tpr3g1635 Chr3 14539911 14544279 -
Tpr Tpr2g2846 Chr2 33038071 33040994 -
Trre Trre7g04015 Chr7 48467227 48468647 +
Tsu Tsu02g01598 Chr02 14027075 14029187 -
Tsu Tsu08g04311 Chr08 61059358 61060101 +
Vian Vian1g03000 Chr1 49332283 49337827 +
Vifa Vifa1g10755 Chr1 1809624366 1809625818 +
Vimu Vimu11g01256 Chr11 13716024 13717821 -
Viun Viun3g01740 Chr3 12608099 12610991 -
Vivi Vivi5g04984 Chr5 150354112 150356886 -
Vvi Vvi3g1179 Chr3 16432183 16440959 -
Aev Aev04g0798 Chr04 4900377 4903797 +
Ahy Ahy20g0798 Chr20 10162071 10166001 +
Aip Aip10g00800 Chr10 9713039 9716897 +
Bva Bva13g00875 Chr13 4088382 4091422 -
Bva Bva14g01039 Chr14 4993203 4996373 -
Dod Dod03g0184 Chr03 1944378 1949620 -
Psa Psa1g4946 Chr1 365278357 365284613 -
Vvi Vvi3g1180 Chr3 16533806 16536517 -
Ahy Ahy20g0797 Chr20 10146765 10149007 -
Aip Aip10g00799 Chr10 9700142 9701852 -
Bva Bva13g00876 Chr13 4094537 4096453 +
Bva Bva14g01042 Chr14 5009571 5011534 +
Mal Mal7g3818 Chr7 104024854 104027154 -
Mtr Mtr4g3185 Chr4 45307995 45312957 -
Psa Psa1g4994 Chr1 367259508 367261716 -
Sto Sto13g2504 Chr13 31266369 31267990 -
Tpr Tpr3g1636 Chr3 14543941 14547260 +
Tsu Tsu02g01599 Chr02 14030814 14033871 +
Vvi Vvi3g1181 Chr3 16574357 16574620 -
Vvi Vvi3g1182 Chr3 16584492 16598698 +