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
Vvi4g1344 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1345 . . . . . . . . Aev05g0405 . Ahy15g0392 . Aip05g00384 . . . . . . . . . . . . . . . . . . . . . Dod02g0427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4553 . . . . . . . . . . . . . . . . . Psa2g3473 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1346 . . . . Adu01g00790 . Aed11g1191 . Aev05g0404 . Ahy15g0391 . Aip05g00383 . . . . . Apr1g0492 . Arst1g01067 Arst5g00511 Bach10g00633 Bach4g00760 . . Bva08g00884 . . . Cca06g01242 . . . Dod02g0426 . . . . . Gma11g00718 Gma01g01679 Gma02g00419 Gma16g01169 Gso11g0669 Gso11g0669 Gso11g0669 Gso11g0669 . Lal15g1524 Lal23g1478 . . . . . . . . . . Lapu2g00775 Lasa4g02198 Lasa2g03451 . . . . . . . . Lja2g0573 Lja4g3109 Mal6g0996 Mal5g3305 Mepo1g02160 Mepo5g01015 Mesa29g02322 Mesa17g01064 . . Mtr5g0899 Mtr8g2386 Phac3g04145 Phac2g01669 Phco8g00379 Phco4g00839 . . Psa2g3472 Psa4g2377 Pste7g01754 Pste1g03119 Pte14g00843 . . . Pumo4g02239 . Pvu3g2729 Pvu2g1100 Rops2g03229 . Seca12g02962 . Spst3g03772 Spst3g03772 Ssu2g2233 . . Sto4g0331 Tpr2g1134 Tpr4g4305 . Trre9g01262 Tsu05g00867 Tsu04g03541 Vian1g01860 . Vifa4g02302 . Vimu7g03093 Vimu7g03093 Viun3g03540 . . . Vra11g0798 .
Vvi4g1347 . . . . . . Aed11g1190 . Aev05g0403 . Ahy15g0390 . Aip05g00382 . . . . . . Apr7g1119 . Arst5g00509 . Bach4g00761 . Bisa11g1823 Bva08g00885 . . . Cca06g01241 . . Dere09g1091 Dod02g0425 . . . . Glsi05g1320 Gma11g00719 Gma01g01678 . . Gso11g0670 Gso11g0670 . . . . Lal23g1479 . . . . . . . . . . Lapu2g00776 . Lasa2g03452 . . . . . . . . Lja2g0574 . Mal6g0995 . . Mepo5g01016 . Mesa17g01070 . . Mtr5g0900 . . Phac2g01667 . Phco4g00838 . . Psa2g3471 . . Pste1g03120 . . . . . . . Pvu2g1099 . . . . . . Ssu2g2232 . . Sto11g1457 Tpr2g1135 . . Trre9g01263 Tsu05g00868 . . . . . . Vimu7g03094 . . . . Vra11g0799 .
Vvi4g1348 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1349 . . . . . . . . . . . . Aip05g00381 . . . . . . Apr7g1120 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0637 Mal6g0994 . . . . . . . Mtr5g0901 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1456 Tpr2g1137 . . . . . . . . . . . . . . . . .
Vvi4g1350 . . . . . . . . . . . Ahy17g2245 . Aip07g02404 . . . Amo17g2114 . . . . . . . . . . . . . . . . . Dod08g2293 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1351 . . . . . . . . Aev05g0402 . Ahy15g0386 . Aip05g00375 . . . . . . . . . . . . . . . . . . . . . Dod02g0424 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1352 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1353 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev05g0405 Chr05 2803171 2808124 +
Ahy Ahy15g0392 Chr15 4599606 4605595 +
Aip Aip05g00384 Chr05 4336180 4340873 +
Dod Dod02g0427 Chr02 5683686 5688710 +
Psa Psa2g3473 Chr2 383325421 383330578 +
Aev Aev05g0404 Chr05 2798901 2800822 -
Ahy Ahy15g0391 Chr15 4596138 4598572 -
Aip Aip05g00383 Chr05 4325640 4328217 -
Dod Dod02g0426 Chr02 5679517 5682669 -
Psa Psa2g3472 Chr2 383278995 383280923 -
Aev Aev05g0402 Chr05 2786538 2786846 -
Ahy Ahy15g0386 Chr15 4476563 4477186 -
Aip Aip05g00375 Chr05 4132522 4132992 -
Dod Dod02g0424 Chr02 5663635 5665079 -
Vvi Vvi4g1344 Chr4 20339633 20340347 -
Vvi Vvi4g1345 Chr4 20341501 20342566 -
Aev Aev05g0405 Chr05 2803171 2808124 +
Ahy Ahy15g0392 Chr15 4599606 4605595 +
Aip Aip05g00384 Chr05 4336180 4340873 +
Dod Dod02g0427 Chr02 5683686 5688710 +
Lja Lja1g4553 Chr1 59481824 59489735 +
Psa Psa2g3473 Chr2 383325421 383330578 +
Vvi Vvi4g1346 Chr4 20350501 20354485 +
Adu Adu01g00790 Chr01 10644757 10648439 -
Aed Aed11g1191 Chr11 17230285 17232444 -
Aev Aev05g0404 Chr05 2798901 2800822 -
Ahy Ahy15g0391 Chr15 4596138 4598572 -
Aip Aip05g00383 Chr05 4325640 4328217 -
Apr Apr1g0492 Chr1 6016316 6024847 +
Arst Arst1g01067 Chr1 10642043 10645663 -
Arst Arst5g00511 Chr5 4306481 4308876 -
Bach Bach10g00633 Chr10 4472447 4475132 +
Bach Bach4g00760 Chr4 5071335 5074629 +
Bva Bva08g00884 Chr08 4526957 4530332 +
Cca Cca06g01242 Chr06 26910757 26913515 -
Dod Dod02g0426 Chr02 5679517 5682669 -
Gma Gma11g00718 Chr11 6038015 6040490 +
Gma Gma01g01679 Chr01 52463551 52466087 -
Gma Gma02g00419 Chr02 4284774 4287732 +
Gma Gma16g01169 Chr16 28936511 28942562 +
Gso Gso11g0669 Chr11 5984240 5986858 +
Gso Gso11g0669 Chr11 5984240 5986858 +
Gso Gso11g0669 Chr11 5984240 5986858 +
Gso Gso11g0669 Chr11 5984240 5986858 +
Lal Lal15g1524 Chr15 17363601 17367607 -
Lal Lal23g1478 Chr23 15099194 15102743 +
Lapu Lapu2g00775 Chr2 6937716 6940602 +
Lasa Lasa4g02198 Chr4 440681239 440683843 +
Lasa Lasa2g03451 Chr2 536420909 536422669 +
Lja Lja2g0573 Chr2 5150584 5152554 +
Lja Lja4g3109 Chr4 58838122 58843488 +
Mal Mal6g0996 Chr6 14918260 14920406 -
Mal Mal5g3305 Chr5 96463037 96466329 +
Mepo Mepo1g02160 Chr1 22192400 22196390 -
Mepo Mepo5g01015 Chr5 9994349 9997028 +
Mesa Mesa29g02322 Chr29 31845860 31849166 -
Mesa Mesa17g01064 Chr17 13566826 13569083 +
Mtr Mtr5g0899 Chr5 8933560 8936521 +
Mtr Mtr8g2386 Chr8 34270525 34274708 +
Phac Phac3g04145 Chr3 40599781 40601769 -
Phac Phac2g01669 Chr2 17117844 17121026 -
Phco Phco8g00379 Chr8 3464175 3466119 +
Phco Phco4g00839 Chr4 6494463 6496357 -
Psa Psa2g3472 Chr2 383278995 383280923 -
Psa Psa4g2377 Chr4 191629659 191634046 -
Pste Pste7g01754 Chr7 16278789 16282026 -
Pste Pste1g03119 Chr1 14069752 14072416 +
Pte Pte14g00843 Chr14 29866636 29869362 -
Pumo Pumo4g02239 Chr4 33060746 33063166 -
Pvu Pvu3g2729 Chr3 49211768 49214274 -
Pvu Pvu2g1100 Chr2 21510899 21513855 -
Rops Rops2g03229 Chr2 59054777 59058166 +
Seca Seca12g02962 Chr12 56644057 56647746 -
Spst Spst3g03772 Chr3 87778071 87780229 +
Spst Spst3g03772 Chr3 87778071 87780229 +
Ssu Ssu2g2233 Chr2 78770264 78772077 -
Sto Sto4g0331 Chr4 2574857 2576587 -
Tpr Tpr2g1134 Chr2 13253150 13256319 +
Tpr Tpr4g4305 Chr4 50272175 50276065 -
Trre Trre9g01262 Chr9 10673875 10676287 +
Tsu Tsu05g00867 Chr05 7495111 7497582 +
Tsu Tsu04g03541 Chr04 44621559 44625216 -
Vian Vian1g01860 Chr1 22061722 22063124 -
Vifa Vifa4g02302 Chr4 694900105 694902519 +
Vimu Vimu7g03093 Chr7 26229778 26232013 +
Vimu Vimu7g03093 Chr7 26229778 26232013 +
Viun Viun3g03540 Chr3 42242897 42245134 +
Vra Vra11g0798 Chr11 6570808 6573587 +
Vvi Vvi4g1347 Chr4 20358251 20371243 -
Aed Aed11g1190 Chr11 17220346 17229202 +
Aev Aev05g0403 Chr05 2790129 2797538 +
Ahy Ahy15g0390 Chr15 4586111 4594057 +
Aip Aip05g00382 Chr05 4315973 4323932 +
Apr Apr7g1119 Chr7 18152470 18163578 -
Arst Arst5g00509 Chr5 4296747 4304703 +
Bach Bach4g00761 Chr4 5075973 5083643 -
Bisa Bisa11g1823 Chr11 40157405 40159868 -
Bva Bva08g00885 Chr08 4530815 4538864 -
Cca Cca06g01241 Chr06 26897592 26909322 +
Dere Dere09g1091 Chr09 14353341 14360169 -
Dod Dod02g0425 Chr02 5668686 5678712 +
Glsi Glsi05g1320 Chr05 62384875 62396414 +
Gma Gma11g00719 Chr11 6042327 6050820 -
Gma Gma01g01678 Chr01 52452461 52462203 +
Gso Gso11g0670 Chr11 5988332 5997312 -
Gso Gso11g0670 Chr11 5988332 5997312 -
Lal Lal23g1479 Chr23 15103721 15113582 -
Lapu Lapu2g00776 Chr2 6941497 6951745 -
Lasa Lasa2g03452 Chr2 536438744 536449140 +
Lja Lja2g0574 Chr2 5153857 5162581 -
Mal Mal6g0995 Chr6 14904456 14916136 +
Mepo Mepo5g01016 Chr5 9998858 10010549 -
Mesa Mesa17g01070 Chr17 13609164 13620814 -
Mtr Mtr5g0900 Chr5 8937805 8949687 -
Phac Phac2g01667 Chr2 17105617 17116708 +
Phco Phco4g00838 Chr4 6482086 6492392 +
Psa Psa2g3471 Chr2 383233317 383244694 +
Pste Pste1g03120 Chr1 14075739 14092836 -
Pvu Pvu2g1099 Chr2 21498604 21509530 +
Ssu Ssu2g2232 Chr2 78757261 78768072 +
Sto Sto11g1457 Chr11 13835986 13847517 +
Tpr Tpr2g1135 Chr2 13263343 13273103 -
Trre Trre9g01263 Chr9 10686156 10694899 -
Tsu Tsu05g00868 Chr05 7501155 7509961 -
Vimu Vimu7g03094 Chr7 26233981 26244470 -
Vra Vra11g0799 Chr11 6574822 6585675 -
Vvi Vvi4g1348 Chr4 20372628 20375247 -
Vvi Vvi4g1349 Chr4 20382440 20383000 -
Aip Aip05g00381 Chr05 4298243 4301687 -
Apr Apr7g1120 Chr7 18168284 18169020 +
Lja Lja4g0637 Chr4 5275010 5282324 +
Mal Mal6g0994 Chr6 14899719 14900300 +
Mtr Mtr5g0901 Chr5 8950607 8951304 -
Sto Sto11g1456 Chr11 13832569 13832883 -
Tpr Tpr2g1137 Chr2 13305908 13307680 -
Vvi Vvi4g1350 Chr4 20384072 20386896 +
Ahy Ahy17g2245 Chr17 108974704 108978882 -
Aip Aip07g02404 Chr07 101173601 101177764 -
Amo Amo17g2114 Chr17 109694498 109698660 -
Dod Dod08g2293 Chr08 50971860 50978235 +
Vvi Vvi4g1351 Chr4 20391434 20391799 -
Aev Aev05g0402 Chr05 2786538 2786846 -
Ahy Ahy15g0386 Chr15 4476563 4477186 -
Aip Aip05g00375 Chr05 4132522 4132992 -
Dod Dod02g0424 Chr02 5663635 5665079 -
Vvi Vvi4g1352 Chr4 20392724 20394902 +
Vvi Vvi4g1353 Chr4 20407719 20425803 +
Apr Apr1g0492 Chr1 6016316 6024847 +
Lja Lja1g4553 Chr1 59481824 59489735 +
Lja Lja4g0637 Chr4 5275010 5282324 +
Gma Gma16g01169 Chr16 28936511 28942562 +
Ahy Ahy17g2245 Chr17 108974704 108978882 -
Aip Aip07g02404 Chr07 101173601 101177764 -
Amo Amo17g2114 Chr17 109694498 109698660 -
Dod Dod08g2293 Chr08 50971860 50978235 +
Dod Dod08g2293 Chr08 50971860 50978235 +