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
Vvi3g0543 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0544 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00264 Bva14g00338 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0545 . . . . . Adu10g03041 . . Aev03g0202 . Ahy20g1516 . Aip10g01733 . . . Amo20g1673 . . . . . . . . . . . Car06g01690 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3411 . . . . Mesa1g01375 . . Mtr4g2842 . . . . . . . Psa7g2779 . . . . . . . . . . Pvu3g0122 . . . . . . . . . . Tpr4g1815 . . . Tsu02g02021 . . . . . . Vimu7g00358 . . . . . .
Vvi3g0546 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0547 . . . . . . . . . . . . Aip10g01732 . . . . . . . . . . . . . Bva13g00263 Bva14g00337 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0548 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g01689 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g3412 . . . . . . . Mtr4g2843 . . . . . . . Psa7g2778 . . . . . . . . . . . . . . . . . . . . . Tpr4g1814 . . . Tsu02g03428 . . . . . . . . . . . . .
Vvi3g0549 . Acco12g2017 . Accr10g00088 . . . . . Aev05g0599 . Ahy15g0692 . Aip05g00707 . Alju12g0138 . . . . . . . Bach10g00493 . Bisa01g1933 . . . . . . . Dere13g0572 . Dod02g0656 . Enph14g0500 . Glsi09g0497 . . . . . . . . . . Lal9g0179 . . . . . . . . . . Lapu3g01595 . Lasa4g02446 . . . . Lele53g0102 Lele54g0103 Lele55g1393 Lele56g1329 . . . . . Mepo1g01973 . . . Mibi10g0108 . . . . . Phco8g00550 . Prci5g0162 . . . . . . Pte14g00943 Pte12g00378 . Pumo4g02040 . Pvu3g2557 . . . Seca12g02582 . Spst3g03960 . . . . . . . Trre15g03960 . . . Vian1g01715 . Vifa4g02538 . Vimu11g00549 . Viun3g03758 . Vivi1g02944 . .
Vvi3g0550 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00262 Bva14g00336 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo4g01250 . Mesa1g01376 . . . . . . . . . . Psa6g2211 . . Pste1g03641 . . . . . Pumo8g00196 . Pvu3g0120 . Rops1g00243 . Seca10g05320 . Spst2g02142 . . Sto2g0649 . . . . Trre1g01324 . . . Vian10g01811 . Vifa3g03844 . Vimu7g00362 . Viun2g00239 . . . .
Vvi3g0551 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0552 . . . . . Adu10g03038 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu2g01761 . . . . . . . . . . . Lja2g3383 . . . Mepo4g01251 . Mesa1g01377 . . . . . . . Phco8g03302 . . Psa6g2212 . . Pste1g03649 . . . . . . . Pvu3g0118 . Rops1g00249 . Seca10g05318 . Spst2g02145 . . . . . . . Trre1g01325 . . . Vian10g01814 . Vifa3g03843 . Vimu7g00370 . Viun2g00235 . Vivi4g03859 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0543 Chr3 4762346 4762540 +
Vvi Vvi3g0544 Chr3 4768405 4771888 -
Bva Bva13g00264 Chr13 1249266 1250603 +
Bva Bva14g00338 Chr14 1680557 1681954 +
Vvi Vvi3g0545 Chr3 4775199 4779682 -
Adu Adu10g03041 Chr10 106371735 106373062 +
Aev Aev03g0202 Chr03 1572918 1574661 +
Ahy Ahy20g1516 Chr20 43785742 43788274 +
Aip Aip10g01733 Chr10 40925471 40926311 +
Amo Amo20g1673 Chr20 47462406 47465211 +
Car Car06g01690 Chr06 16634747 16636773 +
Mal Mal7g3411 Chr7 99075545 99077591 -
Mesa Mesa1g01375 Chr1 18929528 18932047 -
Mtr Mtr4g2842 Chr4 42098806 42101428 -
Psa Psa7g2779 Chr7 199159297 199161034 +
Pvu Pvu3g0122 Chr3 1113109 1116918 +
Tpr Tpr4g1815 Chr4 18917964 18925286 -
Tsu Tsu02g02021 Chr02 19701273 19704045 -
Vimu Vimu7g00358 Chr7 4095378 4098818 -
Vvi Vvi3g0546 Chr3 4780371 4780867 +
Vvi Vvi3g0547 Chr3 4782500 4783619 -
Aip Aip10g01732 Chr10 40924093 40925459 +
Bva Bva13g00263 Chr13 1246532 1247972 +
Bva Bva14g00337 Chr14 1678275 1679639 +
Vvi Vvi3g0548 Chr3 4798956 4800827 -
Car Car06g01689 Chr06 16627057 16629611 +
Mal Mal7g3412 Chr7 99084435 99085917 -
Mtr Mtr4g2843 Chr4 42101522 42103615 -
Psa Psa7g2778 Chr7 198937799 198939803 +
Tpr Tpr4g1814 Chr4 18911894 18914455 -
Tsu Tsu02g03428 Chr02 38355622 38358935 -
Vvi Vvi3g0549 Chr3 4802389 4802910 -
Acco Acco12g2017 Chr12 31699022 31699750 -
Accr Accr10g00088 Chr10 1414038 1414766 +
Aev Aev05g0599 Chr05 4141758 4142525 +
Ahy Ahy15g0692 Chr15 9280161 9281619 -
Aip Aip05g00707 Chr05 8956721 8958095 -
Alju Alju12g0138 Chr12 1730092 1730820 +
Bach Bach10g00493 Chr10 3546270 3546989 -
Bisa Bisa01g1933 Chr01 33827398 33837681 +
Dere Dere13g0572 Chr13 7155680 7156390 -
Dod Dod02g0656 Chr02 8560668 8562319 +
Enph Enph14g0500 Chr14 6984391 6985384 -
Glsi Glsi09g0497 Chr09 3436249 3436965 -
Lal Lal9g0179 Chr9 1112466 1118396 -
Lapu Lapu3g01595 Chr3 19693432 19694919 -
Lasa Lasa4g02446 Chr4 476432492 476433172 -
Lele Lele53g0102 Chr53 750825 751535 +
Lele Lele54g0103 Chr54 819686 820396 +
Lele Lele55g1393 Chr55 20295687 20296397 -
Lele Lele56g1329 Chr56 16554232 16554942 -
Mepo Mepo1g01973 Chr1 20146878 20148260 +
Mibi Mibi10g0108 Chr10 1749765 1750499 +
Phco Phco8g00550 Chr8 5454027 5454725 +
Prci Prci5g0162 Chr5 2431983 2433378 +
Pte Pte14g00943 Chr14 31095185 31097015 +
Pte Pte12g00378 Chr12 3139954 3140765 -
Pumo Pumo4g02040 Chr4 28896704 28899331 -
Pvu Pvu3g2557 Chr3 47458824 47459525 -
Seca Seca12g02582 Chr12 41976443 41977153 -
Spst Spst3g03960 Chr3 90030938 90031636 +
Trre Trre15g03960 Chr15 49706254 49706967 +
Vian Vian1g01715 Chr1 19790083 19790781 -
Vifa Vifa4g02538 Chr4 768858147 768858815 -
Vimu Vimu11g00549 Chr11 5828897 5829595 -
Viun Viun3g03758 Chr3 44700309 44701709 +
Vivi Vivi1g02944 Chr1 64209374 64210841 +
Vvi Vvi3g0550 Chr3 4804336 4809859 -
Bva Bva13g00262 Chr13 1241616 1245969 +
Bva Bva14g00336 Chr14 1671313 1676262 +
Mepo Mepo4g01250 Chr4 16063293 16069439 -
Mesa Mesa1g01376 Chr1 18933553 18941806 -
Psa Psa6g2211 Chr6 156332190 156340154 -
Pste Pste1g03641 Chr1 17395133 17404964 -
Pumo Pumo8g00196 Chr8 6256821 6262939 +
Pvu Pvu3g0120 Chr3 1086614 1093669 +
Rops Rops1g00243 Chr1 6891981 6902820 -
Seca Seca10g05320 Chr10 121341680 121347531 +
Spst Spst2g02142 Chr2 20389436 20400519 -
Sto Sto2g0649 Chr2 5511598 5514561 -
Trre Trre1g01324 Chr1 9914247 9919525 -
Vian Vian10g01811 Chr10 29944709 29950360 -
Vifa Vifa3g03844 Chr3 1131364761 1131383079 +
Vimu Vimu7g00362 Chr7 4148312 4149507 -
Viun Viun2g00239 Chr2 4623218 4636605 +
Vvi Vvi3g0551 Chr3 4813468 4814652 +
Vvi Vvi3g0552 Chr3 4815139 4817457 -
Adu Adu10g03038 Chr10 106360086 106362093 +
Lapu Lapu2g01761 Chr2 31280826 31283327 -
Lja Lja2g3383 Chr2 77409369 77411852 -
Mepo Mepo4g01251 Chr4 16074335 16077034 -
Mesa Mesa1g01377 Chr1 18944920 18947291 -
Phco Phco8g03302 Chr8 47666805 47669012 -
Psa Psa6g2212 Chr6 156378481 156381560 -
Pste Pste1g03649 Chr1 17471209 17474222 -
Pvu Pvu3g0118 Chr3 1072645 1075091 +
Rops Rops1g00249 Chr1 7044072 7046882 -
Seca Seca10g05318 Chr10 121314432 121316687 +
Spst Spst2g02145 Chr2 20418419 20420401 -
Trre Trre1g01325 Chr1 9923525 9926014 -
Vian Vian10g01814 Chr10 29971225 29974985 -
Vifa Vifa3g03843 Chr3 1130758798 1130761552 +
Vimu Vimu7g00370 Chr7 4202208 4204684 -
Viun Viun2g00235 Chr2 4531038 4533215 +
Vivi Vivi4g03859 Chr4 157946146 157949052 -