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
Vvi18g2066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2068 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01890 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g00749 . . . . . . . . . . Mal7g0949 . . . . . . . Mtr4g0856 . . . . . . . . Psa5g2532 . Pste1g04219 . . . . . Pumo10g02727 . Pvu11g2239 . . . . . Spst11g00245 . . . . Tpr4g1072 . . . Tsu06g00792 . . Vian5g00032 . . . Vimu5g00058 . Viun11g00022 . . . .
Vvi18g2069 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2070 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2071 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2072 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2073 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2074 . . . . . Adu03g01047 . . Aev04g3758 . Ahy13g1275 . Aip03g01395 . . . Amo13g1644 . . . . Arst3g01345 . Bach9g01854 . . Bva07g00223 Bva09g01879 . . . . . . Dod03g2476 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu11g01132 . Lasa7g00868 . . . . . . . . . . Mal7g1107 . . . . . . . Mtr4g1021 . . . . Phco9g00071 . . . . . Pste1g00175 . . . . . Pumo11g02299 . Pvu11g0035 . Rops3g00049 . Seca6g00075 . Spst11g00317 . . . . Tpr4g1154 . . . Tsu06g00885 . . Vian5g01876 . . . Vimu5g02850 . Viun11g03028 . Vivi7g04967 . .
Vvi18g2075 . Acco08g1640 . Accr13g01599 . Adu03g01046 . . Aev04g3756 . Ahy13g1274 . Aip03g01393 . . . Amo13g1643 . . . . Arst3g01344 . Bach9g01855 . Bisa02g2306 Bva07g00224 . . . . . . Dere07g1610 Dod03g2477 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu11g01130 . Lasa7g00877 . . . . Lele29g1100 . Lele31g0435 . . . Mal7g1108 . . . . . . Mibi07g1567 Mtr4g1023 . . Phac11g00052 . Phco9g00073 . Prci6g1791 . . . Pste1g00184 . . . . . Pumo11g02297 . Pvu11g0036 . Rops3g00050 . Seca6g00084 . Spst11g00319 . . . . Tpr4g1155 . . . Tsu06g00886 . . Vian5g01874 . . . Vimu5g02848 . Viun11g03024 . Vivi7g04971 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g2066 Chr18 28630411 28632836 -
Vvi Vvi18g2067 Chr18 28652939 28657702 -
Vvi Vvi18g2068 Chr18 28686408 28689328 +
Bva Bva09g01890 Chr09 14548949 14555325 -
Lasa Lasa7g00749 Chr7 53873759 53875125 +
Mal Mal7g0949 Chr7 26288602 26291868 +
Mtr Mtr4g0856 Chr4 10972761 10975803 +
Psa Psa5g2532 Chr5 192593712 192595687 -
Pste Pste1g04219 Chr1 26557376 26561386 -
Pumo Pumo10g02727 Chr10 51017997 51021883 +
Pvu Pvu11g2239 Chr11 50112467 50116453 +
Spst Spst11g00245 Chr11 8126256 8127968 +
Tpr Tpr4g1072 Chr4 10342053 10345200 +
Tsu Tsu06g00792 Chr06 7077753 7081090 +
Vian Vian5g00032 Chr5 611130 613349 -
Vimu Vimu5g00058 Chr5 480986 483170 -
Viun Viun11g00022 Chr11 184538 188349 -
Vvi Vvi18g2069 Chr18 28693228 28694061 +
Bva Bva07g00219 Chr07 3367750 3369891 +
Vvi Vvi18g2070 Chr18 28696481 28733078 -
Bva Bva07g00220 Chr07 3374331 3385969 -
Vvi Vvi18g2071 Chr18 28739676 28739861 -
Vvi Vvi18g2072 Chr18 28740154 28745997 -
Vvi Vvi18g2073 Chr18 28750309 28755668 -
Vvi Vvi18g2074 Chr18 28764746 28768229 -
Adu Adu03g01047 Chr03 11036901 11041704 +
Aev Aev04g3758 Chr04 34805672 34811087 +
Ahy Ahy13g1275 Chr13 15036458 15042851 +
Aip Aip03g01395 Chr03 14511662 14518162 +
Amo Amo13g1644 Chr13 22614928 22621673 +
Arst Arst3g01345 Chr3 11466785 11472408 +
Bach Bach9g01854 Chr9 26344480 26349910 -
Bva Bva07g00223 Chr07 3413692 3418424 -
Bva Bva09g01879 Chr09 13833288 13840078 +
Dod Dod03g2476 Chr03 56322526 56329042 -
Lapu Lapu11g01132 Chr11 13349496 13355760 +
Lasa Lasa7g00868 Chr7 81466186 81471835 +
Mal Mal7g1107 Chr7 32978304 32986797 -
Mtr Mtr4g1021 Chr4 12896413 12905037 +
Phco Phco9g00071 Chr9 483649 487010 -
Pste Pste1g00175 Chr1 656723 661750 -
Pumo Pumo11g02299 Chr11 55587223 55591812 +
Pvu Pvu11g0035 Chr11 256806 262081 -
Rops Rops3g00049 Chr3 686842 691551 -
Seca Seca6g00075 Chr6 1774608 1778366 -
Spst Spst11g00317 Chr11 10970446 10974214 -
Tpr Tpr4g1154 Chr4 11036401 11047754 -
Tsu Tsu06g00885 Chr06 7920565 7930940 -
Vian Vian5g01876 Chr5 40802899 40806085 +
Vimu Vimu5g02850 Chr5 37701925 37705356 +
Viun Viun11g03028 Chr11 41438334 41443515 +
Vivi Vivi7g04967 Chr7 131576141 131584087 +
Vvi Vvi18g2075 Chr18 28782894 28786733 -
Acco Acco08g1640 Chr08 22959236 22961183 +
Accr Accr13g01599 Chr13 28926376 28929300 +
Adu Adu03g01046 Chr03 11003206 11004945 +
Aev Aev04g3756 Chr04 34795236 34799541 +
Ahy Ahy13g1274 Chr13 15007435 15008966 +
Aip Aip03g01393 Chr03 14484739 14486206 +
Amo Amo13g1643 Chr13 22564972 22566833 +
Arst Arst3g01344 Chr3 11433469 11435269 +
Bach Bach9g01855 Chr9 26378323 26381084 -
Bisa Bisa02g2306 Chr02 55521483 55529835 -
Bva Bva07g00224 Chr07 3437137 3439569 -
Dere Dere07g1610 Chr07 23211088 23213985 +
Dod Dod03g2477 Chr03 56342739 56345108 -
Lapu Lapu11g01130 Chr11 13338652 13340591 +
Lasa Lasa7g00877 Chr7 88596570 88600140 -
Lele Lele29g1100 Chr29 8714701 8717036 +
Lele Lele31g0435 Chr31 12200626 12202962 -
Mal Mal7g1108 Chr7 32998481 33002395 -
Mibi Mibi07g1567 Chr07 29266141 29268964 +
Mtr Mtr4g1023 Chr4 12915010 12918920 -
Phac Phac11g00052 Chr11 384944 386199 -
Phco Phco9g00073 Chr9 496945 499035 -
Prci Prci6g1791 Chr6 15576129 15579095 +
Pste Pste1g00184 Chr1 679778 681435 -
Pumo Pumo11g02297 Chr11 55560831 55562606 +
Pvu Pvu11g0036 Chr11 270634 273175 -
Rops Rops3g00050 Chr3 713186 716130 -
Seca Seca6g00084 Chr6 2116660 2119575 -
Spst Spst11g00319 Chr11 10984613 10991178 -
Tpr Tpr4g1155 Chr4 11057609 11061348 -
Tsu Tsu06g00886 Chr06 7952081 7956300 -
Vian Vian5g01874 Chr5 40791057 40793163 +
Vimu Vimu5g02848 Chr5 37690498 37692543 +
Viun Viun11g03024 Chr11 41424367 41426574 +
Vivi Vivi7g04971 Chr7 131792477 131801091 -