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
Vvi4g0664 . . . . Adu10g01881 . Aed4g1722 . . Aev08g0537 . Ahy20g2099 . Aip10g02472 . . . . . . Arst10g02389 . Bach12g00436 . . . Bva10g00458 Bva06g02317 Car05g02903 . Cca03g01641 . . . . Dod09g1876 . . . . . . Gma04g00555 Gma06g00544 . . . . . . Lal17g0199 . . . . . . . . . Lapu9g01957 . Lasa5g03975 . . . . . . . . . Lja1g3955 . Mal2g0957 . Mepo3g07371 . Mesa9g04923 . . . Mtr3g3849 . Phac9g00259 . Phco7g00675 . . . Psa5g0782 . . . . . . . Pumo10g00170 . Pvu9g0885 . Rops10g01337 . Seca4g01101 . Spst9g00698 . Ssu1g3540 . . . Tpr7g0715 . . . Tsu07g00720 . Vian4g02053 . Vifa2g03909 . . . Viun9g03177 . Vivi3g01466 . Vra5g1309 .
Vvi4g0665 . . . . . . . . . . . . . . . . . . . Apr9g0234 . . . . . . . . . Car04g03244 . . . . . . . . . . . Gma17g02117 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr1g0300 . . . . . . . Psa6g0576 . . . . . . . . . . . . . . . . . . Sto5g0937 . . Tpr1g3466 . . . Tsu01g00614 . . . . . . . . . . . .
Vvi4g0666 . . . . . . . . . . . . . . . . . . . Apr9g0235 . . . . . . Bva10g00459 Bva06g02316 . . . . . . . . . . . . . Gma17g02116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3369 . . . . . . . . . . . . . . . . . .
Vvi4g0667 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0668 . . . . . . . . . Aev08g0536 . Ahy20g2100 . Aip10g02473 . . . Amo20g2715 . Apr9g0236 . . . . . . Bva10g00460 Bva06g02315 . Car04g03245 . . . . . Dod09g1878 . . . . . Gma17g02115 . . . . . . Lal21g0300 . Lal17g0198 . . . Lan3g1117 . Lan3g1117 . . . . . . . . . . . . . . . . Lja5g2924 . . . . . . . . . Mtr1g0301 . . . . . . . Psa6g0575 . . . . . . . . . . . . . . . . . . Sto5g0939 Sto9g3370 . Tpr1g3468 . . . Tsu01g00613 . . . . . . . . . . . .
Vvi4g0669 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0670 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0671 . . . . Adu10g01886 . . . . . . . . . . . . . . Apr9g0237 Arst10g02395 . . . . . Bva10g00461 . Car05g02902 . Cca03g01642 . . . . . . . . . . Gma17g02114 Gma04g00554 Gma06g00543 . . . . Lal21g0299 . . . . . Lan3g1118 . . . . . Lapu9g01958 . Lasa5g03972 . . . . . . . . . Lja1g3956 . Mal2g0961 . Mepo3g07366 . Mesa9g04918 . . . Mtr3g3848 . . . Phco7g00674 . . . . . . . . Pte1g02418 . . Pumo10g00171 . Pvu9g0884 . . . Seca4g01104 . Spst9g00697 . . . Sto5g0940 . Tpr7g0716 . Trre5g05102 . Tsu07g00721 . . . . . Vimu10g03047 . Viun9g03178 . Vivi3g01469 . Vra5g1310 .
Vvi4g0672 . . . . . . . . . . . . . . . . . . . Apr9g0238 . . . . . . Bva10g00462 . . Car04g03246 . . . . . . . . . . . Gma17g02113 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2927 . . . . . . . . . Mtr1g0302 . . . . . . . Psa6g0573 . . . . . . . . . . . . . . . . . . . Sto9g3371 . Tpr1g3469 . . . Tsu01g00612 . . . . . . . . . . . .
Vvi4g0673 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma17g02116 Chr17 38618707 38624296 +
Vvi Vvi4g0664 Chr4 6906030 6906329 -
Adu Adu10g01881 Chr10 86048820 86049725 -
Aed Aed4g1722 Chr4 21610007 21610309 +
Aev Aev08g0537 Chr08 3044301 3044603 +
Ahy Ahy20g2099 Chr20 118039375 118040085 -
Aip Aip10g02472 Chr10 110682719 110683618 -
Arst Arst10g02389 Chr10 84966175 84966766 -
Bach Bach12g00436 Chr12 2956979 2957702 +
Bva Bva10g00458 Chr10 4661372 4661674 -
Bva Bva06g02317 Chr06 15006711 15007524 +
Car Car05g02903 Chr05 73994622 74004090 +
Cca Cca03g01641 Chr03 35436729 35437679 -
Dod Dod09g1876 Chr09 40366620 40366922 -
Gma Gma04g00555 Chr04 4997712 4998319 +
Gma Gma06g00544 Chr06 4812196 4812871 +
Lal Lal17g0199 Chr17 1202473 1202784 +
Lapu Lapu9g01957 Chr9 34433588 34434942 -
Lasa Lasa5g03975 Chr5 615037347 615037649 +
Lja Lja1g3955 Chr1 50204166 50204965 -
Mal Mal2g0957 Chr2 11168099 11168401 -
Mepo Mepo3g07371 Chr3 87107006 87107934 +
Mesa Mesa9g04923 Chr9 83649680 83649982 +
Mtr Mtr3g3849 Chr3 52280063 52280731 +
Phac Phac9g00259 Chr9 1671764 1672533 +
Phco Phco7g00675 Chr7 5141835 5142888 +
Psa Psa5g0782 Chr5 62996164 62997075 -
Pumo Pumo10g00170 Chr10 2422160 2423284 -
Pvu Pvu9g0885 Chr9 13547024 13547783 +
Rops Rops10g01337 Chr10 26099375 26099894 +
Seca Seca4g01101 Chr4 17648040 17648342 -
Spst Spst9g00698 Chr9 5971776 5972078 +
Ssu Ssu1g3540 Chr1 90304079 90305100 -
Tpr Tpr7g0715 Chr7 6351162 6351710 -
Tsu Tsu07g00720 Chr07 5892019 5893092 -
Vian Vian4g02053 Chr4 37340023 37340325 -
Vifa Vifa2g03909 Chr2 1141359275 1141359577 +
Viun Viun9g03177 Chr9 39075048 39075797 -
Vivi Vivi3g01466 Chr3 24216719 24217340 -
Vra Vra5g1309 Chr5 20006507 20007196 -
Vvi Vvi4g0665 Chr4 6908154 6914744 -
Apr Apr9g0234 Chr9 3058884 3062554 -
Car Car04g03244 Chr04 60848416 60852931 -
Gma Gma17g02117 Chr17 38626439 38635176 +
Mtr Mtr1g0300 Chr1 3386919 3391925 -
Psa Psa6g0576 Chr6 19323869 19329140 +
Sto Sto5g0937 Chr5 6310043 6312896 -
Tpr Tpr1g3466 Chr1 38938019 38941609 -
Tsu Tsu01g00614 Chr01 5414039 5418973 +
Vvi Vvi4g0666 Chr4 6915834 6921007 -
Apr Apr9g0235 Chr9 3065651 3070879 -
Bva Bva10g00459 Chr10 4662276 4664533 -
Bva Bva06g02316 Chr06 15005818 15006578 +
Gma Gma17g02116 Chr17 38618707 38624296 +
Sto Sto9g3369 Chr9 33500324 33502610 -
Vvi Vvi4g0667 Chr4 6928401 6928775 -
Vvi Vvi4g0668 Chr4 6948721 6957387 -
Aev Aev08g0536 Chr08 3037238 3043003 +
Ahy Ahy20g2100 Chr20 118068861 118071776 -
Aip Aip10g02473 Chr10 110712102 110714593 -
Amo Amo20g2715 Chr20 125035685 125038368 -
Apr Apr9g0236 Chr9 3071903 3077079 -
Bva Bva10g00460 Chr10 4665339 4669310 -
Bva Bva06g02315 Chr06 15001470 15005071 +
Car Car04g03245 Chr04 60854831 60860860 -
Dod Dod09g1878 Chr09 40373196 40377079 -
Gma Gma17g02115 Chr17 38609698 38616413 +
Lal Lal21g0300 Chr21 1984504 1990225 +
Lal Lal17g0198 Chr17 1195235 1199911 +
Lan Lan3g1117 Chr3 23511275 23516333 -
Lan Lan3g1117 Chr3 23511275 23516333 -
Lja Lja5g2924 Chr5 57586311 57591731 -
Mtr Mtr1g0301 Chr1 3393720 3399781 -
Psa Psa6g0575 Chr6 19278420 19285049 +
Sto Sto5g0939 Chr5 6315414 6319302 -
Sto Sto9g3370 Chr9 33503449 33507548 -
Tpr Tpr1g3468 Chr1 38942931 38949514 -
Tsu Tsu01g00613 Chr01 5406837 5412866 +
Vvi Vvi4g0669 Chr4 6981562 6982113 -
Vvi Vvi4g0670 Chr4 6991613 6997781 -
Vvi Vvi4g0671 Chr4 6999827 7003795 +
Adu Adu10g01886 Chr10 86161604 86162874 +
Apr Apr9g0237 Chr9 3083017 3084929 +
Arst Arst10g02395 Chr10 85078660 85080039 +
Bva Bva10g00461 Chr10 4670423 4672277 +
Car Car05g02902 Chr05 73987696 73990343 -
Cca Cca03g01642 Chr03 35441505 35442635 +
Gma Gma17g02114 Chr17 38601133 38603562 -
Gma Gma04g00554 Chr04 4986775 4988801 -
Gma Gma06g00543 Chr06 4809909 4812071 -
Lal Lal21g0299 Chr21 1978471 1980582 -
Lan Lan3g1118 Chr3 23523701 23525062 +
Lapu Lapu9g01958 Chr9 34435480 34437248 +
Lasa Lasa5g03972 Chr5 614736311 614737066 -
Lja Lja1g3956 Chr1 50222483 50224695 +
Mal Mal2g0961 Chr2 11187285 11188453 +
Mepo Mepo3g07366 Chr3 87082071 87083755 -
Mesa Mesa9g04918 Chr9 83618402 83620040 -
Mtr Mtr3g3848 Chr3 52268646 52270664 -
Phco Phco7g00674 Chr7 5139977 5141099 -
Pte Pte1g02418 Chr1 44842130 44844301 +
Pumo Pumo10g00171 Chr10 2427659 2429717 +
Pvu Pvu9g0884 Chr9 13542952 13544338 -
Seca Seca4g01104 Chr4 17664969 17667357 +
Spst Spst9g00697 Chr9 5970073 5971182 -
Sto Sto5g0940 Chr5 6323614 6325103 +
Tpr Tpr7g0716 Chr7 6352692 6354886 +
Trre Trre5g05102 Chr5 52330280 52332064 -
Tsu Tsu07g00721 Chr07 5898523 5900709 +
Vimu Vimu10g03047 Chr10 41377828 41380461 +
Viun Viun9g03178 Chr9 39076380 39077908 +
Vivi Vivi3g01469 Chr3 24319991 24322316 +
Vra Vra5g1310 Chr5 20012202 20013704 +
Vvi Vvi4g0672 Chr4 7004706 7009044 -
Apr Apr9g0238 Chr9 3084850 3089327 -
Bva Bva10g00462 Chr10 4672625 4675385 -
Car Car04g03246 Chr04 60863759 60867219 -
Gma Gma17g02113 Chr17 38597377 38600737 +
Lja Lja5g2927 Chr5 57626412 57629561 -
Mtr Mtr1g0302 Chr1 3402639 3406764 +
Psa Psa6g0573 Chr6 19236969 19239610 +
Sto Sto9g3371 Chr9 33508600 33511011 -
Tpr Tpr1g3469 Chr1 38953374 38957567 -
Tsu Tsu01g00612 Chr01 5399111 5403270 +
Vvi Vvi4g0673 Chr4 7009508 7012932 +