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
Vvi2g1002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1003 . . . . . . Aed6g0095 . Aev05g0214 . Ahy15g0176 . Aip05g00177 . . . . . Apr7g1829 Apr3g0488 . . . . . . Bva08g01076 Bva11g01343 . . Cca06g01064 . . . Dod02g0223 . . . . . Gma01g01533 Gma09g01975 . . Gso1g1271 Gso1g1271 . . Lal15g0360 . . . . . Lan18g0811 . . . . . . . . . . . . . . . . . Lja2g0753 Lja4g2982 Mal6g0587 Mal5g3154 . . . . . . Mtr5g1129 Mtr8g2247 . . . . . . Psa2g3214 Psa4g2573 . . . . . . . . . . . . . . . . Ssu2g2033 . Sto6g4121 Sto11g1254 Tpr2g1381 Tpr4g4450 . . Tsu05g01131 Tsu04g02782 . . . . . . . . . . Vra11g0985 .
Vvi2g1004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma01g00071 . . . Gso1g0068 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1006 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1007 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1008 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1009 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1010 Acco11g1351 . . . . . . . . . . . . . Alju09g1361 . . . . . Arst5g00244 . Bach4g00919 . Bisa11g2030 . . . . . . . Dere09g1298 . . . Enph13g1598 . Glsi05g1109 . . . . . . . . . . . . . . . . . . . . . . . Lasa2g03682 . . . . . . . . . . . . . Mepo5g01257 . . . Mibi12g1145 . . . . . . . Prci10g1378 . . . Pste1g00284 . Pte14g00754 . . . . . Pvu2g1334 . . . . . . . . . . . . . . . . . . . . . . . Viun2g00611 . . . . .
Vvi2g1011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal16g1798 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g1002 Chr2 14734139 14734447 -
Vvi Vvi2g1003 Chr2 14820631 14824363 +
Aed Aed6g0095 Chr6 928398 930503 -
Aev Aev05g0214 Chr05 1614469 1619203 +
Ahy Ahy15g0176 Chr15 2063558 2071413 +
Aip Aip05g00177 Chr05 1930051 1935874 +
Apr Apr7g1829 Chr7 25613996 25620930 +
Apr Apr3g0488 Chr3 10127483 10131832 -
Bva Bva08g01076 Chr08 5499740 5506312 -
Bva Bva11g01343 Chr11 13602769 13609201 +
Cca Cca06g01064 Chr06 24686601 24693109 +
Dod Dod02g0223 Chr02 3108435 3115837 +
Gma Gma01g01533 Chr01 50834548 50839753 +
Gma Gma09g01975 Chr09 45396809 45400803 +
Gso Gso1g1271 Chr1 49115769 49123059 +
Gso Gso1g1271 Chr1 49115769 49123059 +
Lal Lal15g0360 Chr15 2421792 2426973 -
Lan Lan18g0811 Chr18 13530044 13534175 +
Lja Lja2g0753 Chr2 6869115 6871439 -
Lja Lja4g2982 Chr4 54700972 54706342 +
Mal Mal6g0587 Chr6 7749573 7754984 -
Mal Mal5g3154 Chr5 92227889 92233026 +
Mtr Mtr5g1129 Chr5 11205730 11211832 -
Mtr Mtr8g2247 Chr8 32674741 32682835 +
Psa Psa2g3214 Chr2 367333845 367337960 +
Psa Psa4g2573 Chr4 206029575 206033799 -
Ssu Ssu2g2033 Chr2 73736036 73741031 +
Sto Sto6g4121 Chr6 44657922 44663033 -
Sto Sto11g1254 Chr11 12319881 12324588 -
Tpr Tpr2g1381 Chr2 16122701 16128384 -
Tpr Tpr4g4450 Chr4 52301829 52309481 -
Tsu Tsu05g01131 Chr05 9896303 9900374 -
Tsu Tsu04g02782 Chr04 32373872 32379261 -
Vra Vra11g0985 Chr11 8749979 8757285 -
Vvi Vvi2g1004 Chr2 14943456 14983872 +
Gma Gma01g00071 Chr01 787338 795783 +
Gso Gso1g0068 Chr1 796873 805447 +
Vvi Vvi2g1005 Chr2 15027967 15028609 +
Vvi Vvi2g1006 Chr2 15040884 15044339 +
Vvi Vvi2g1007 Chr2 15063250 15064326 -
Vvi Vvi2g1008 Chr2 15070663 15071346 +
Vvi Vvi2g1009 Chr2 15083113 15086780 -
Vvi Vvi2g1010 Chr2 15143097 15143624 +
Acco Acco11g1351 Chr11 27766458 27771995 -
Alju Alju09g1361 Chr09 37396861 37401514 -
Arst Arst5g00244 Chr5 2203178 2207976 -
Bach Bach4g00919 Chr4 6160263 6164121 +
Bisa Bisa11g2030 Chr11 43202742 43206516 +
Dere Dere09g1298 Chr09 16965916 16978530 +
Enph Enph13g1598 Chr13 21616708 21621349 +
Glsi Glsi05g1109 Chr05 60900308 60903262 -
Lasa Lasa2g03682 Chr2 547516425 547518824 +
Mepo Mepo5g01257 Chr5 12786163 12790822 +
Mibi Mibi12g1145 Chr12 26732744 26737082 -
Prci Prci10g1378 Chr10 9219794 9224605 +
Pste Pste1g00284 Chr1 1003965 1006247 +
Pte Pte14g00754 Chr14 29082127 29087080 -
Pvu Pvu2g1334 Chr2 25936758 25939838 +
Viun Viun2g00611 Chr2 14871951 14873072 +
Vvi Vvi2g1011 Chr2 15210356 15211878 +
Lal Lal16g1798 Chr16 17113540 17118510 -