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
Vvi2g1062 Acco11g1356 . . . Adu05g00206 . Aed6g0087 . Aev05g0223 . Ahy15g0201 . Aip05g00185 . Alju09g1365 . . . Apr7g1837 . Arst5g00251 . Bach4g00916 . Bisa11g2026 . Bva08g01067 Bva11g01353 . . Cca06g01071 . Dere09g1291 . Dod02g0235 . Enph13g1595 . Glsi05g1113 . Gma01g01539 Gma09g01983 . . Gso1g1275 Gso1g1275 . . . . . . . . . . . . . . Lapu2g00921 . Lasa2g03677 . Lele49g0854 Lele50g0889 Lele51g0870 Lele52g0870 . . . . Lja2g0741 . Mal6g0577 . Mepo5g01252 . Mesa17g01348 . Mibi12g1152 . Mtr5g1122 . Phac2g02054 . Phco4g00645 . Prci10g1370 . Psa2g3222 . Pste1g00244 . Pte14g00759 Pte12g00613 . . Pumo8g01523 . Pvu2g1325 . Rops1g01342 . Seca12g03250 . Spst2g01140 . . . . . Tpr2g1374 . Trre9g01662 . Tsu05g01122 . Vian10g01000 . Vifa1g06034 . Vimu7g03345 . Viun2g01572 . Vivi2g02548 . . .
Vvi2g1063 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1064 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1065 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1339 . . . . . . . . . . . . . . . . . .
Vvi2g1066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1068 . . . . . . . . Aev05g0860 . Ahy15g0413 . Aip05g00405 . . . . . . . . . . . . . . . . . . . . . Dod02g0956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr8g2252 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1069 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1070 . . . . Adu05g00208 . Aed6g0082 . . . Ahy15g0203 . Aip05g00187 . . . . . Apr7g1840 . . . Bach4g00912 . . . Bva08g01063 . . . Cca06g01075 . . . Dod02g0237 . . . . . Gma01g01542 Gma09g01987 . . Gso1g1277 Gso1g1277 . . . . . . . . . . . . . . Lapu2g00924 . Lasa2g03674 . . . . . . . . . Lja2g0737 . Mal6g0574 . Mepo5g01249 . Mesa17g01343 . . . Mtr5g1119 . Phac2g02051 . Phco4g00648 . . . Psa2g3225 . Pste1g00220 . . . . . Pumo8g01527 . Pvu2g1322 . Rops1g01347 . Seca10g01217 . Spst2g01136 . Ssu2g2047 . . . Tpr2g1371 . Trre9g01658 . Tsu05g01116 . Vian10g00994 . . . Vimu7g03330 . Viun2g01582 . . . . .
Vvi2g1071 . . . . . . . Aed7g1354 . . . . . . . . . . . . . . . . . . . . . . . Cca11g01016 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g1062 Chr2 16617662 16628738 -
Acco Acco11g1356 Chr11 27834166 27838101 -
Adu Adu05g00206 Chr05 2215278 2219757 -
Aed Aed6g0087 Chr6 880508 884200 +
Aev Aev05g0223 Chr05 1671998 1675195 -
Ahy Ahy15g0201 Chr15 2329800 2334801 -
Aip Aip05g00185 Chr05 2013965 2018384 -
Alju Alju09g1365 Chr09 37475638 37479501 -
Apr Apr7g1837 Chr7 25684345 25690457 -
Arst Arst5g00251 Chr5 2234936 2239418 -
Bach Bach4g00916 Chr4 6138407 6141661 +
Bisa Bisa11g2026 Chr11 43144049 43150170 +
Bva Bva08g01067 Chr08 5452974 5456464 +
Bva Bva11g01353 Chr11 13646165 13649546 -
Cca Cca06g01071 Chr06 24788875 24794479 -
Dere Dere09g1291 Chr09 16882208 16886595 +
Dod Dod02g0235 Chr02 3232601 3237880 -
Enph Enph13g1595 Chr13 21566262 21571092 +
Glsi Glsi05g1113 Chr05 60927780 60931529 -
Gma Gma01g01539 Chr01 50912956 50918098 -
Gma Gma09g01983 Chr09 45464548 45470309 -
Gso Gso1g1275 Chr1 49193926 49199728 -
Gso Gso1g1275 Chr1 49193926 49199728 -
Lapu Lapu2g00921 Chr2 8518968 8523702 -
Lasa Lasa2g03677 Chr2 547174936 547177548 +
Lele Lele49g0854 Chr49 5282130 5285753 +
Lele Lele50g0889 Chr50 5592853 5596055 +
Lele Lele51g0870 Chr51 5340085 5344111 +
Lele Lele52g0870 Chr52 5635949 5639143 +
Lja Lja2g0741 Chr2 6711167 6716178 +
Mal Mal6g0577 Chr6 7609571 7613194 +
Mepo Mepo5g01252 Chr5 12735758 12739975 +
Mesa Mesa17g01348 Chr17 17524292 17524489 +
Mibi Mibi12g1152 Chr12 26786009 26790411 -
Mtr Mtr5g1122 Chr5 11126248 11130883 +
Phac Phac2g02054 Chr2 22466569 22472555 +
Phco Phco4g00645 Chr4 4870264 4875327 -
Prci Prci10g1370 Chr10 9169754 9174877 +
Psa Psa2g3222 Chr2 368031908 368035799 -
Pste Pste1g00244 Chr1 867221 869014 +
Pte Pte14g00759 Chr14 29112869 29117922 -
Pte Pte12g00613 Chr12 5553383 5559470 +
Pumo Pumo8g01523 Chr8 49848603 49853570 -
Pvu Pvu2g1325 Chr2 25803538 25809031 +
Rops Rops1g01342 Chr1 30098346 30104025 -
Seca Seca12g03250 Chr12 66691251 66696009 +
Spst Spst2g01140 Chr2 10088357 10092045 +
Tpr Tpr2g1374 Chr2 15978211 15981497 +
Trre Trre9g01662 Chr9 14537335 14540128 +
Tsu Tsu05g01122 Chr05 9821591 9824329 +
Vian Vian10g01000 Chr10 10867058 10871867 +
Vifa Vifa1g06034 Chr1 944151459 944153921 -
Vimu Vimu7g03345 Chr7 28309566 28316001 +
Viun Viun2g01572 Chr2 25659255 25664451 -
Vivi Vivi2g02548 Chr2 116397673 116400801 -
Vvi Vvi2g1063 Chr2 16648893 16649144 +
Vvi Vvi2g1064 Chr2 16649840 16650046 +
Vvi Vvi2g1065 Chr2 16654146 16656614 -
Sto Sto11g1339 Chr11 12952445 12956206 -
Vvi Vvi2g1066 Chr2 16659937 16661418 -
Vvi Vvi2g1067 Chr2 16663405 16664185 -
Vvi Vvi2g1068 Chr2 16675912 16678041 +
Aev Aev05g0860 Chr05 6027078 6034838 +
Ahy Ahy15g0413 Chr15 4812528 4813414 -
Aip Aip05g00405 Chr05 4519727 4520384 -
Dod Dod02g0956 Chr02 12144021 12144991 +
Mtr Mtr8g2252 Chr8 32725572 32730858 -
Vvi Vvi2g1069 Chr2 16683834 16683971 +
Vvi Vvi2g1070 Chr2 16688533 16693669 -
Adu Adu05g00208 Chr05 2230355 2231978 -
Aed Aed6g0082 Chr6 849454 851081 +
Ahy Ahy15g0203 Chr15 2347937 2349603 -
Aip Aip05g00187 Chr05 2030952 2032594 -
Apr Apr7g1840 Chr7 25707682 25709405 -
Bach Bach4g00912 Chr4 6121889 6123487 +
Bva Bva08g01063 Chr08 5437855 5439810 +
Cca Cca06g01075 Chr06 24829688 24831247 -
Dod Dod02g0237 Chr02 3250395 3250907 -
Gma Gma01g01542 Chr01 50948141 50950036 -
Gma Gma09g01987 Chr09 45489590 45491508 -
Gso Gso1g1277 Chr1 49229595 49231506 -
Gso Gso1g1277 Chr1 49229595 49231506 -
Lapu Lapu2g00924 Chr2 8550634 8552949 -
Lasa Lasa2g03674 Chr2 547112900 547114891 +
Lja Lja2g0737 Chr2 6689649 6691111 +
Mal Mal6g0574 Chr6 7586291 7587973 +
Mepo Mepo5g01249 Chr5 12713278 12715744 +
Mesa Mesa17g01343 Chr17 17464649 17466986 +
Mtr Mtr5g1119 Chr5 11096802 11099360 +
Phac Phac2g02051 Chr2 22439362 22441724 +
Phco Phco4g00648 Chr4 4899686 4901489 -
Psa Psa2g3225 Chr2 368071136 368073674 -
Pste Pste1g00220 Chr1 777336 778906 +
Pumo Pumo8g01527 Chr8 49897941 49899938 -
Pvu Pvu2g1322 Chr2 25773650 25775716 +
Rops Rops1g01347 Chr1 30131352 30133135 -
Seca Seca10g01217 Chr10 12011783 12013590 +
Spst Spst2g01136 Chr2 10053034 10054846 +
Ssu Ssu2g2047 Chr2 74247550 74249273 -
Tpr Tpr2g1371 Chr2 15954526 15956637 +
Trre Trre9g01658 Chr9 14514923 14516732 +
Tsu Tsu05g01116 Chr05 9754187 9756273 +
Vian Vian10g00994 Chr10 10801716 10803486 +
Vimu Vimu7g03330 Chr7 28231518 28234879 +
Viun Viun2g01582 Chr2 25751953 25753999 -
Vvi Vvi2g1071 Chr2 16704244 16706112 -
Aed Aed7g1354 Chr7 11573168 11578402 -
Cca Cca11g01016 Chr11 23375253 23382055 -
Aev Aev05g0860 Chr05 6027078 6034838 +
Ahy Ahy15g0413 Chr15 4812528 4813414 -
Aip Aip05g00405 Chr05 4519727 4520384 -
Dod Dod02g0956 Chr02 12144021 12144991 +