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
Vvi4g0604 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal8g1569 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0646 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0605 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5563 . . . . . . . Mtr1g0245 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr1g3419 . . . Tsu01g00667 . . . . . . . . . . . .
Vvi4g0606 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3335 . . . . . . . . . . . . . . . . . .
Vvi4g0607 . . . . . . . . . . . Ahy18g2747 . Aip08g03128 . . . . . . . . . . . . . . . . . . . . . Dod09g0852 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g0719 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0608 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0609 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma17g02144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0610 . . . . Adu03g02447 . Aed4g1771 . . . . . . . . . . . . . Arst3g03272 . Bach2g01745 . . . . . . . Cca03g01600 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu9g00261 . . . . . . . . . . . . . . . Mepo6g02154 . Mesa5g02403 . . . . . . . Phco7g02514 . . . . . Pste2g00987 . . . . . . . Pvu9g2174 . . . . . Spst9g02666 . Ssu1g3486 . . . . . Trre3g03294 . . . . . . . Vimu10g00696 . . . Vivi4g01239 . Vra5g1232 .
Vvi4g0611 Acco13g0981 . Accr12g00950 . . . . Aed6g1173 . . . . . . Alju13g1174 . . . . . . . Bach2g01746 . Bisa02g0388 . . . . Car04g03198 . Cca05g00498 Dere14g0153 . . . Enph5g0788 . Glsi13g0874 . Gma14g01063 . . . Gso14g0982 . . . . . . . . . . . . . . . Lapu9g00267 . . . Lele17g0725 Lele18g0796 Lele19g0833 Lele20g0624 . . . . . . . . Mepo6g02151 . Mesa5g02408 . Mibi13g0950 . . . . . Phco7g02522 . Prci9g1189 . Psa5g0735 Psa6g0645 . . Pte3g00504 . . . . . Pvu9g2183 . . . . . Spst9g02675 . . Ssu5g0547 . . . . . . . . . . . . Vimu10g00681 . . . Vivi4g01237 . . .
Vvi4g0612 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0613 . . . . . . . . . . . . . Aip10g02437 . . . . . Apr9g0193 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g0642 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma17g02144 Chr17 38972419 38975791 +
Vvi Vvi4g0604 Chr4 5932157 5936516 +
Lal Lal8g1569 Chr8 20016521 20019255 -
Psa Psa6g0646 Chr6 21839855 21843060 -
Vvi Vvi4g0605 Chr4 5941634 5970124 -
Mal Mal1g5563 Chr1 131105141 131109704 +
Mtr Mtr1g0245 Chr1 2732902 2751303 +
Tpr Tpr1g3419 Chr1 38494906 38508435 +
Tsu Tsu01g00667 Chr01 5896517 5911189 -
Vvi Vvi4g0606 Chr4 5975556 6003089 -
Sto Sto9g3335 Chr9 33257334 33269103 +
Vvi Vvi4g0607 Chr4 6021156 6034187 -
Ahy Ahy18g2747 Chr18 131039048 131041543 +
Aip Aip08g03128 Chr08 121417963 121439969 +
Dod Dod09g0852 Chr09 26966498 26970400 -
Psa Psa5g0719 Chr5 57305227 57307266 +
Vvi Vvi4g0608 Chr4 6038250 6040928 -
Vvi Vvi4g0609 Chr4 6044941 6058044 -
Gma Gma17g02144 Chr17 38972419 38975791 +
Vvi Vvi4g0610 Chr4 6067869 6071553 +
Adu Adu03g02447 Chr03 69656051 69660673 +
Aed Aed4g1771 Chr4 22018699 22023854 +
Arst Arst3g03272 Chr3 69912965 69917516 +
Bach Bach2g01745 Chr2 25844054 25847664 +
Cca Cca03g01600 Chr03 34807104 34812685 -
Lapu Lapu9g00261 Chr9 2543379 2550024 +
Mepo Mepo6g02154 Chr6 26028211 26034361 -
Mesa Mesa5g02403 Chr5 41853343 41858497 +
Phco Phco7g02514 Chr7 43949951 43956411 +
Pste Pste2g00987 Chr2 10492852 10498808 +
Pvu Pvu9g2174 Chr9 31212154 31217674 +
Spst Spst9g02666 Chr9 60711456 60718257 +
Ssu Ssu1g3486 Chr1 89228093 89231500 -
Trre Trre3g03294 Chr3 41244474 41248419 +
Vimu Vimu10g00696 Chr10 5990222 5994470 -
Vivi Vivi4g01239 Chr4 40184414 40188075 -
Vra Vra5g1232 Chr5 18694583 18698754 -
Vvi Vvi4g0611 Chr4 6081523 6082146 +
Acco Acco13g0981 Chr13 7916551 7917365 -
Accr Accr12g00950 Chr12 9929577 9930191 -
Aed Aed6g1173 Chr6 16464162 16466342 -
Alju Alju13g1174 Chr13 30472895 30473748 +
Bach Bach2g01746 Chr2 25855209 25855811 +
Bisa Bisa02g0388 Chr02 6600611 6601204 +
Car Car04g03198 Chr04 60337570 60338396 -
Cca Cca05g00498 Chr05 11059907 11060626 +
Dere Dere14g0153 Chr14 1613645 1615195 +
Enph Enph5g0788 Chr5 6476501 6480204 -
Glsi Glsi13g0874 Chr13 27157873 27158475 +
Gma Gma14g01063 Chr14 13880051 13881244 +
Gso Gso14g0982 Chr14 13743366 13745565 +
Lapu Lapu9g00267 Chr9 2613983 2614576 +
Lele Lele17g0725 Chr17 18963785 18964399 +
Lele Lele18g0796 Chr18 4990256 4991714 -
Lele Lele19g0833 Chr19 5032104 5033638 -
Lele Lele20g0624 Chr20 13518920 13519534 +
Mepo Mepo6g02151 Chr6 25929989 25932714 -
Mesa Mesa5g02408 Chr5 42048300 42048749 +
Mibi Mibi13g0950 Chr13 12164314 12164877 -
Phco Phco7g02522 Chr7 44023057 44023647 -
Prci Prci9g1189 Chr9 25891692 25892727 +
Psa Psa5g0735 Chr5 59288308 59291567 -
Psa Psa6g0645 Chr6 21805937 21806876 -
Pte Pte3g00504 Chr3 3998788 4002012 -
Pvu Pvu9g2183 Chr9 31337541 31338567 +
Spst Spst9g02675 Chr9 60819083 60819655 +
Ssu Ssu5g0547 Chr5 12043017 12043604 +
Vimu Vimu10g00681 Chr10 5860566 5861156 -
Vivi Vivi4g01237 Chr4 40123271 40123714 -
Vvi Vvi4g0612 Chr4 6089443 6091887 -
Lja Lja5g2898 Chr5 56911837 56918393 -
Vvi Vvi4g0613 Chr4 6104685 6127894 +
Aip Aip10g02437 Chr10 109850863 109851234 +
Apr Apr9g0193 Chr9 2463464 2469999 -
Psa Psa6g0642 Chr6 21744869 21752293 -
Acco Acco13g0981 Chr13 7916551 7917365 -
Accr Accr12g00950 Chr12 9929577 9930191 -
Alju Alju13g1174 Chr13 30472895 30473748 +
Bach Bach2g01746 Chr2 25855209 25855811 +
Bisa Bisa02g0388 Chr02 6600611 6601204 +
Dere Dere14g0153 Chr14 1613645 1615195 +
Enph Enph5g0788 Chr5 6476501 6480204 -
Glsi Glsi13g0874 Chr13 27157873 27158475 +
Lapu Lapu9g00267 Chr9 2613983 2614576 +
Lele Lele17g0725 Chr17 18963785 18964399 +
Lele Lele18g0796 Chr18 4990256 4991714 -
Lele Lele19g0833 Chr19 5032104 5033638 -
Lele Lele20g0624 Chr20 13518920 13519534 +
Mepo Mepo6g02151 Chr6 25929989 25932714 -
Mesa Mesa5g02408 Chr5 42048300 42048749 +
Mibi Mibi13g0950 Chr13 12164314 12164877 -
Phco Phco7g02522 Chr7 44023057 44023647 -
Prci Prci9g1189 Chr9 25891692 25892727 +
Pte Pte3g00504 Chr3 3998788 4002012 -
Pte Pte3g00504 Chr3 3998788 4002012 -
Pvu Pvu9g2183 Chr9 31337541 31338567 +
Spst Spst9g02675 Chr9 60819083 60819655 +
Vimu Vimu10g00681 Chr10 5860566 5861156 -
Vivi Vivi4g01237 Chr4 40123271 40123714 -
Adu Adu03g02447 Chr03 69656051 69660673 +
Arst Arst3g03272 Chr3 69912965 69917516 +
Bach Bach2g01745 Chr2 25844054 25847664 +
Lapu Lapu9g00261 Chr9 2543379 2550024 +
Mepo Mepo6g02154 Chr6 26028211 26034361 -
Mesa Mesa5g02403 Chr5 41853343 41858497 +
Phco Phco7g02514 Chr7 43949951 43956411 +
Pste Pste2g00987 Chr2 10492852 10498808 +
Pvu Pvu9g2174 Chr9 31212154 31217674 +
Spst Spst9g02666 Chr9 60711456 60718257 +
Trre Trre3g03294 Chr3 41244474 41248419 +
Vimu Vimu10g00696 Chr10 5990222 5994470 -
Vivi Vivi4g01239 Chr4 40184414 40188075 -