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
Vvi2g0872 Acco11g1308 . . . Adu05g00159 . . . Aev05g0184 . Ahy15g0147 . Aip05g00146 . Alju09g1321 . . . Apr7g1800 . Arst5g00197 . . . Bisa11g2061 . Bva08g01109 Bva11g01322 . . Cca06g01023 . Dere09g1340 . Dod02g0193 . Enph13g1627 . Glsi05g1071 . Gma01g00104 Gma09g01948 . . Gso1g0099 Gso1g0099 . . . . . . . Lal23g1140 . . . . . . . . . . Lele49g0883 Lele50g0924 Lele51g0900 Lele52g0906 . . . . Lja2g0790 . Mal6g0632 . . . . . Mibi12g1104 . Mtr5g1170 . Phac2g02134 . Phco4g00587 . Prci10g1423 . Psa2g3172 . Pste1g00463 . Pte14g00724 . . . Pumo8g00186 . Pvu2g1382 . . . . . Spst2g01183 . . . Sto6g4145 . Tpr2g1416 . . . Tsu05g01172 . . . Vifa1g05952 . Vimu7g03422 . Viun2g01498 . Vivi2g02479 . Vra11g1016 .
Vvi2g0873 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0874 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0875 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0876 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0877 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0878 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0879 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0880 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0881 Acco11g1309 . . . Adu05g00160 . Aed6g0123 . Aev05g0185 . Ahy15g0148 . Aip05g00147 . Alju09g1322 . . . Apr7g1801 . Arst5g00198 . Bach4g00953 . Bisa11g2060 . Bva08g01108 Bva11g01323 . . Cca06g01026 . Dere09g1339 . Dod02g0194 . Enph13g1625 . Glsi05g1072 . Gma01g00103 Gma09g01949 . . Gso1g0098 Gso1g0098 . . Lal15g0374 Lal16g0431 . . . Lal23g1141 Lan18g0796 Lan18g0796 . . . Lan18g0796 Lapu2g00889 . . . Lele49g0882 Lele50g0923 Lele51g0898 Lele52g0904 . . . . Lja2g0784 . Mal6g0631 . Mepo5g01302 . Mesa17g01414 . Mibi12g1106 . Mtr5g1169 . Phac2g02129 . Phco4g00589 . Prci10g1422 . Psa2g3173 . Pste1g00460 . Pte14g00726 . . . Pumo8g01485 . Pvu2g1380 . Rops1g01287 . Seca10g01257 . Spst2g01182 . Ssu2g2002 . Sto6g4144 Sto11g1277 Tpr2g1415 . Trre9g01735 . Tsu05g01171 . Vian10g01042 . Vifa1g05954 . Vimu7g03420 . Viun2g01504 . Vivi2g02480 . Vra11g1014 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0872 Chr2 10191824 10201073 +
Acco Acco11g1308 Chr11 27279073 27283706 +
Adu Adu05g00159 Chr05 1824088 1830030 +
Aev Aev05g0184 Chr05 1423324 1428422 +
Ahy Ahy15g0147 Chr15 1813889 1819928 +
Aip Aip05g00146 Chr05 1669442 1673852 +
Alju Alju09g1321 Chr09 36965931 36970652 +
Apr Apr7g1800 Chr7 25404072 25411265 +
Arst Arst5g00197 Chr5 1844728 1849552 +
Bisa Bisa11g2061 Chr11 43630068 43634843 -
Bva Bva08g01109 Chr08 5659392 5664753 -
Bva Bva11g01322 Chr11 13511892 13517129 +
Cca Cca06g01023 Chr06 24225473 24229643 +
Dere Dere09g1340 Chr09 17449871 17454581 -
Dod Dod02g0193 Chr02 2718080 2724368 +
Enph Enph13g1627 Chr13 21954453 21960633 -
Glsi Glsi05g1071 Chr05 60528673 60533987 +
Gma Gma01g00104 Chr01 1099420 1106881 -
Gma Gma09g01948 Chr09 45140134 45146159 +
Gso Gso1g0099 Chr1 1093661 1100703 -
Gso Gso1g0099 Chr1 1093661 1100703 -
Lal Lal23g1140 Chr23 12886817 12893197 +
Lele Lele49g0883 Chr49 5457661 5461909 -
Lele Lele50g0924 Chr50 5823220 5827828 -
Lele Lele51g0900 Chr51 5536874 5541302 -
Lele Lele52g0906 Chr52 5863484 5868470 -
Lja Lja2g0790 Chr2 7239269 7245717 -
Mal Mal6g0632 Chr6 8677339 8682207 -
Mibi Mibi12g1104 Chr12 26278087 26283163 +
Mtr Mtr5g1170 Chr5 11730676 11735416 -
Phac Phac2g02134 Chr2 23097849 23105281 -
Phco Phco4g00587 Chr4 4439106 4444825 +
Prci Prci10g1423 Chr10 9541168 9547018 -
Psa Psa2g3172 Chr2 363954669 363959595 +
Pste Pste1g00463 Chr1 1522086 1523471 -
Pte Pte14g00724 Chr14 28327452 28333815 +
Pumo Pumo8g00186 Chr8 6072223 6077462 +
Pvu Pvu2g1382 Chr2 26500371 26507500 -
Spst Spst2g01183 Chr2 10436687 10442376 -
Sto Sto6g4145 Chr6 44822519 44827464 -
Tpr Tpr2g1416 Chr2 16538826 16545201 -
Tsu Tsu05g01172 Chr05 10344899 10350901 -
Vifa Vifa1g05952 Chr1 931879820 931884776 +
Vimu Vimu7g03422 Chr7 28854100 28859504 -
Viun Viun2g01498 Chr2 25268461 25274465 +
Vivi Vivi2g02479 Chr2 113842502 113848148 +
Vra Vra11g1016 Chr11 9083327 9090270 -
Vvi Vvi2g0873 Chr2 10221778 10221987 -
Vvi Vvi2g0874 Chr2 10222315 10222512 -
Vvi Vvi2g0875 Chr2 10225186 10225656 -
Vvi Vvi2g0876 Chr2 10234831 10235367 -
Vvi Vvi2g0877 Chr2 10246628 10246921 -
Vvi Vvi2g0878 Chr2 10259625 10260077 +
Vvi Vvi2g0879 Chr2 10263150 10263368 +
Vvi Vvi2g0880 Chr2 10267258 10267601 +
Vvi Vvi2g0881 Chr2 10270255 10293877 -
Acco Acco11g1309 Chr11 27289181 27293869 -
Adu Adu05g00160 Chr05 1833353 1839299 -
Aed Aed6g0123 Chr6 1097848 1103067 +
Aev Aev05g0185 Chr05 1431044 1435387 -
Ahy Ahy15g0148 Chr15 1823456 1829313 -
Aip Aip05g00147 Chr05 1677039 1683126 -
Alju Alju09g1322 Chr09 36977624 36982392 -
Apr Apr7g1801 Chr7 25414484 25419519 -
Arst Arst5g00198 Chr5 1853206 1858898 -
Bach Bach4g00953 Chr4 6407567 6411786 +
Bisa Bisa11g2060 Chr11 43621409 43626018 +
Bva Bva08g01108 Chr08 5654559 5658937 +
Bva Bva11g01323 Chr11 13517552 13521003 -
Cca Cca06g01026 Chr06 24256657 24261979 -
Dere Dere09g1339 Chr09 17442819 17447962 +
Dod Dod02g0194 Chr02 2727998 2732929 -
Enph Enph13g1625 Chr13 21928084 21932286 +
Glsi Glsi05g1072 Chr05 60535423 60540335 -
Gma Gma01g00103 Chr01 1090182 1094864 +
Gma Gma09g01949 Chr09 45149494 45155055 -
Gso Gso1g0098 Chr1 1084220 1088963 +
Gso Gso1g0098 Chr1 1084220 1088963 +
Lal Lal15g0374 Chr15 2518067 2522424 +
Lal Lal16g0431 Chr16 2609481 2614035 +
Lal Lal23g1141 Chr23 12893965 12898225 -
Lan Lan18g0796 Chr18 13399602 13404737 -
Lan Lan18g0796 Chr18 13399602 13404737 -
Lan Lan18g0796 Chr18 13399602 13404737 -
Lapu Lapu2g00889 Chr2 8229959 8234895 -
Lele Lele49g0882 Chr49 5450519 5454629 +
Lele Lele50g0923 Chr50 5812306 5816507 +
Lele Lele51g0898 Chr51 5527669 5531769 +
Lele Lele52g0904 Chr52 5851825 5855919 +
Lja Lja2g0784 Chr2 7140379 7144948 +
Mal Mal6g0631 Chr6 8664315 8669624 +
Mepo Mepo5g01302 Chr5 13260053 13265169 +
Mesa Mesa17g01414 Chr17 18957275 18961765 +
Mibi Mibi12g1106 Chr12 26305770 26309485 -
Mtr Mtr5g1169 Chr5 11722169 11727275 +
Phac Phac2g02129 Chr2 23068248 23073652 +
Phco Phco4g00589 Chr4 4459187 4464415 -
Prci Prci10g1422 Chr10 9532260 9537290 +
Psa Psa2g3173 Chr2 363976553 363981095 -
Pste Pste1g00460 Chr1 1511617 1517842 +
Pte Pte14g00726 Chr14 28336751 28340016 -
Pumo Pumo8g01485 Chr8 49459727 49465923 -
Pvu Pvu2g1380 Chr2 26476938 26482507 +
Rops Rops1g01287 Chr1 29252002 29258287 -
Seca Seca10g01257 Chr10 12456748 12463580 +
Spst Spst2g01182 Chr2 10422927 10428851 +
Ssu Ssu2g2002 Chr2 73312509 73317806 -
Sto Sto6g4144 Chr6 44815906 44820403 +
Sto Sto11g1277 Chr11 12504039 12508194 +
Tpr Tpr2g1415 Chr2 16530769 16535601 +
Trre Trre9g01735 Chr9 15537301 15541714 +
Tsu Tsu05g01171 Chr05 10336841 10341953 +
Vian Vian10g01042 Chr10 11576499 11582098 +
Vifa Vifa1g05954 Chr1 931891422 931895056 -
Vimu Vimu7g03420 Chr7 28839701 28844830 +
Viun Viun2g01504 Chr2 25285683 25291252 -
Vivi Vivi2g02480 Chr2 113856681 113861455 -
Vra Vra11g1014 Chr11 9068102 9073689 +