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
Vvi1g0701 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0702 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0703 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0704 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0705 . Acco04g2500 . Accr8g00268 . . . . . . . . . . . Alju06g2473 . . . . . Arst1g02266 . Bach5g00263 . Bisa08g2062 . . Car05g02080 . . . . Dere03g0680 . . . Enph6g0541 . Glsi02g0624 . . . . . . . . . . . Lal23g1085 . . . . . . . . . Lapu3g01180 . Lasa4g03050 . . . . . . . . . . . . . Mepo1g01448 . . . Mibi09g0333 . . . . . . . Prci4g2769 . . . Pste6g01977 . . . . . Pumo4g01479 . Pvu3g2129 . Rops2g04073 . Seca12g01649 . Spst3g04493 . . . . . . . Trre15g02957 . . . Vian1g01255 . Vifa2g01955 . Vimu7g00584 . Viun3g04347 . Vivi1g02211 . .
Vvi1g0706 . . . . Adu03g04116 . . Aed5g1941 . Aev03g2759 . Ahy13g4065 . Aip03g04510 . . . . . . Arst3g05435 . Bach2g00183 . . . . . Car06g00847 . . Cca09g02079 . . . Dod04g2345 . . . . . . Gma08g01208 . . . . . . . . . . . . . . . . . Lapu3g03269 . Lasa7g04278 . . . . . . . . . . Lja4g0777 . Mal7g4509 Mepo2g04188 . Mesa13g00924 . . . . Mtr8g3083 . . Phco4g02894 . . . . Psa7g1355 . . . . . . Pumo6g00871 . Pvu2g2663 . Rops2g00981 . Seca12g06084 . Spst3g01507 . . Ssu5g2653 . . . Tpr3g1017 Trre7g04902 . . Tsu02g00883 Vian1g03484 . Vifa6g02969 . Vimu11g03956 . Viun3g01073 . Vivi5g05179 . . Vra7g2057
Vvi1g0707 . . . . . . . Aed5g1942 . Aev03g2760 . Ahy13g4066 . Aip03g04512 . . . . . . . . . . . . . . Car06g00846 . . Cca09g02081 . . . Dod04g2346 . . . . . . Gma08g01209 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0775 . Mal7g4510 . . . . . . . Mtr8g3084 . . . . . . . Psa7g1354 . . . . . . . . . . . . . . . . . Ssu5g2655 . . . Tpr3g1016 . . . Tsu02g00882 . . . . . . . . . . . Vra7g2058
Vvi1g0708 . . . . Adu03g04120 . . Aed7g1916 . Aev03g2761 . Ahy13g4069 . Aip03g04516 . . . Amo13g5137 . . Arst3g05437 . . . . . . . Car06g00845 . . Cca01g00157 . . . Dod04g0518 . . . . . . Gma08g01210 Gma18g00119 . . . . . . . . . . . . . . . . Lapu3g03271 . Lasa7g04280 . . . . . . . . . . Lja4g0774 . Mal7g4511 Mepo2g04190 . Mesa13g00922 . . . . Mtr8g3085 . . Phco4g02896 . . . . . . . . . . . Pumo6g00869 . Pvu2g2665 . Rops2g00978 . Seca12g06086 . Spst3g01505 . . Ssu9g1747 . . . Tpr3g1015 Trre7g04904 . . Tsu02g00881 Vian1g03486 . Vifa2g02521 . Vimu11g03960 . Viun3g01071 . Vivi5g05177 . . .
Vvi1g0709 . . . . Adu10g00802 . . Aed7g1917 . . . . . . . . . . . . Arst10g01047 . . . . . . . . . . Cca01g00158 . . . . . . . . . . . Gma18g00120 . . . . . . . . . . . . . . . . . . Lasa5g02690 . . . . . . . . . . . . . . . Mesa9g03772 . . . . . . . Phco2g02916 . . . . . Pste7g02344 . . . . . Pumo1g00394 . Pvu1g2640 . Rops11g03792 . Seca6g01836 . Spst1g01950 . . Ssu9g1746 . . . . Trre5g03235 . . . Vian2g03128 . Vifa2g02523 . Vimu6g01579 . Viun1g03384 . Vivi3g03250 . . Vra2g1454
Vvi1g0710 . . . . Adu10g00803 . Aed6g0238 Aed7g1921 . . . . . . . . . . Apr7g1695 . Arst10g01050 . . . . . Bva08g01212 Bva11g01220 Car05g02083 . Cca06g00889 Cca01g00159 . . . . . . . . . Gma01g00216 . Gma18g00121 . . . . . . . . Lal16g0494 Lal15g0436 . . . . . . Lapu6g00133 . Lasa5g02692 . . . . . . . . . Lja2g0910 . Mal6g0044 . Mepo3g06287 . Mesa9g03774 . . . Mtr5g1322 . . . Phco2g02915 . . . . . Pste7g02343 . . . . . Pumo1g00393 . Pvu1g2639 . Rops11g03793 . . . . . Ssu2g1869 Ssu9g1745 Sto11g1212 Sto6g4256 Tpr2g1581 . . . Tsu05g01355 . Vian2g03127 . Vifa2g02525 . Vimu6g01581 . Viun1g03383 . . . Vra11g1133 Vra2g1455
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0701 Chr1 7027729 7030098 -
Vvi Vvi1g0702 Chr1 7036685 7037261 +
Vvi Vvi1g0703 Chr1 7040703 7042665 -
Vvi Vvi1g0704 Chr1 7047898 7050179 -
Vvi Vvi1g0705 Chr1 7066266 7069455 +
Acco Acco04g2500 Chr04 41743807 41750422 +
Accr Accr8g00268 Chr8 3809235 3812776 -
Alju Alju06g2473 Chr06 51719546 51723011 +
Arst Arst1g02266 Chr1 62065887 62069385 +
Bach Bach5g00263 Chr5 1844260 1847667 +
Bisa Bisa08g2062 Chr08 49580000 49583309 -
Car Car05g02080 Chr05 66038509 66042615 +
Dere Dere03g0680 Chr03 10971264 10974994 +
Enph Enph6g0541 Chr6 8774457 8778390 +
Glsi Glsi02g0624 Chr02 4065295 4071099 +
Lal Lal23g1085 Chr23 12515214 12520331 +
Lapu Lapu3g01180 Chr3 12727711 12732154 -
Lasa Lasa4g03050 Chr4 561184241 561187528 +
Mepo Mepo1g01448 Chr1 14270997 14275241 -
Mibi Mibi09g0333 Chr09 4199075 4202481 -
Prci Prci4g2769 Chr4 39802818 39806696 +
Pste Pste6g01977 Chr6 9175481 9179269 +
Pumo Pumo4g01479 Chr4 18744844 18747838 -
Pvu Pvu3g2129 Chr3 42070377 42074164 -
Rops Rops2g04073 Chr2 74220914 74224884 -
Seca Seca12g01649 Chr12 17819500 17823426 -
Spst Spst3g04493 Chr3 96523659 96525587 +
Trre Trre15g02957 Chr15 26304094 26307524 -
Vian Vian1g01255 Chr1 13568038 13571567 -
Vifa Vifa2g01955 Chr2 504703125 504706194 +
Vimu Vimu7g00584 Chr7 5926042 5929064 +
Viun Viun3g04347 Chr3 51274652 51278504 +
Vivi Vivi1g02211 Chr1 46479859 46483353 -
Vvi Vvi1g0706 Chr1 7071017 7072189 -
Adu Adu03g04116 Chr03 130294527 130295645 -
Aed Aed5g1941 Chr5 22419597 22420691 -
Aev Aev03g2759 Chr03 27442491 27445437 -
Ahy Ahy13g4065 Chr13 140082506 140083819 -
Aip Aip03g04510 Chr03 129372121 129373236 -
Arst Arst3g05435 Chr3 129058425 129059793 -
Bach Bach2g00183 Chr2 2278495 2279256 +
Car Car06g00847 Chr06 8319202 8322549 +
Cca Cca09g02079 Chr09 45846922 45848163 -
Dod Dod04g2345 Chr04 47299111 47300249 -
Gma Gma08g01208 Chr08 10274720 10275748 -
Lapu Lapu3g03269 Chr3 55955375 55956421 -
Lasa Lasa7g04278 Chr7 650758046 650759170 -
Lja Lja4g0777 Chr4 6451902 6452972 +
Mal Mal7g4509 Chr7 112993785 112994891 -
Mepo Mepo2g04188 Chr2 50713936 50715202 -
Mesa Mesa13g00924 Chr13 10965548 10966732 +
Mtr Mtr8g3083 Chr8 41416254 41418226 -
Phco Phco4g02894 Chr4 50131762 50132796 -
Psa Psa7g1355 Chr7 98917333 98926730 +
Pumo Pumo6g00871 Chr6 10877889 10878924 +
Pvu Pvu2g2663 Chr2 42494931 42496539 -
Rops Rops2g00981 Chr2 13754312 13755223 +
Seca Seca12g06084 Chr12 152709452 152710844 -
Spst Spst3g01507 Chr3 18521785 18522825 +
Ssu Ssu5g2653 Chr5 71443580 71444689 -
Tpr Tpr3g1017 Chr3 9280725 9282461 +
Trre Trre7g04902 Chr7 56195538 56196716 -
Tsu Tsu02g00883 Chr02 7416717 7418393 +
Vian Vian1g03484 Chr1 57394736 57395746 -
Vifa Vifa6g02969 Chr6 982203622 982204734 -
Vimu Vimu11g03956 Chr11 61445910 61447180 -
Viun Viun3g01073 Chr3 6729028 6730458 +
Vivi Vivi5g05179 Chr5 152997808 152999242 +
Vra Vra7g2057 Chr7 40086190 40087932 -
Vvi Vvi1g0707 Chr1 7085350 7086909 -
Aed Aed5g1942 Chr5 22422364 22425788 -
Aev Aev03g2760 Chr03 27448248 27449819 -
Ahy Ahy13g4066 Chr13 140085853 140088972 -
Aip Aip03g04512 Chr03 129376489 129378100 -
Car Car06g00846 Chr06 8317519 8319069 +
Cca Cca09g02081 Chr09 45853389 45854966 -
Dod Dod04g2346 Chr04 47301321 47305912 -
Gma Gma08g01209 Chr08 10279036 10280870 -
Lja Lja4g0775 Chr4 6447028 6448608 +
Mal Mal7g4510 Chr7 112997492 112999042 -
Mtr Mtr8g3084 Chr8 41419427 41422324 -
Psa Psa7g1354 Chr7 98913082 98914632 +
Ssu Ssu5g2655 Chr5 71450833 71452416 -
Tpr Tpr3g1016 Chr3 9276510 9279459 +
Tsu Tsu02g00882 Chr02 7413063 7415117 +
Vra Vra7g2058 Chr7 40089118 40093797 -
Vvi Vvi1g0708 Chr1 7095328 7100092 +
Adu Adu03g04120 Chr03 130326543 130328573 +
Aed Aed7g1916 Chr7 22222566 22224617 +
Aev Aev03g2761 Chr03 27453827 27455944 +
Ahy Ahy13g4069 Chr13 140143559 140146069 +
Aip Aip03g04516 Chr03 129431505 129434658 +
Amo Amo13g5137 Chr13 151105259 151108073 +
Arst Arst3g05437 Chr3 129090832 129092905 +
Car Car06g00845 Chr06 8309073 8311323 -
Cca Cca01g00157 Chr01 1536688 1539659 +
Dod Dod04g0518 Chr04 7402091 7404829 -
Gma Gma08g01210 Chr08 10284415 10286790 +
Gma Gma18g00119 Chr18 945978 947480 +
Lapu Lapu3g03271 Chr3 55970363 55971565 +
Lasa Lasa7g04280 Chr7 650833056 650834918 +
Lja Lja4g0774 Chr4 6440089 6442668 -
Mal Mal7g4511 Chr7 113003848 113005950 +
Mepo Mepo2g04190 Chr2 50729686 50732098 +
Mesa Mesa13g00922 Chr13 10949489 10951549 -
Mtr Mtr8g3085 Chr8 41428215 41430900 +
Phco Phco4g02896 Chr4 50147235 50148503 +
Pumo Pumo6g00869 Chr6 10858656 10861383 -
Pvu Pvu2g2665 Chr2 42508833 42510463 +
Rops Rops2g00978 Chr2 13725264 13727951 -
Seca Seca12g06086 Chr12 152724712 152726835 +
Spst Spst3g01505 Chr3 18506826 18508511 -
Ssu Ssu9g1747 Chr9 54748840 54751676 -
Tpr Tpr3g1015 Chr3 9271194 9273862 -
Trre Trre7g04904 Chr7 56204690 56208315 +
Tsu Tsu02g00881 Chr02 7405839 7408865 -
Vian Vian1g03486 Chr1 57406121 57407770 +
Vifa Vifa2g02521 Chr2 666836725 666839964 +
Vimu Vimu11g03960 Chr11 61463962 61466001 +
Viun Viun3g01071 Chr3 6714549 6716817 -
Vivi Vivi5g05177 Chr5 152914436 152916751 -
Vvi Vvi1g0709 Chr1 7102923 7113509 -
Adu Adu10g00802 Chr10 10885990 10891053 -
Aed Aed7g1917 Chr7 22225187 22230556 -
Arst Arst10g01047 Chr10 10532271 10537660 -
Cca Cca01g00158 Chr01 1541150 1548400 -
Gma Gma18g00120 Chr18 947682 953862 -
Lasa Lasa5g02690 Chr5 498222289 498228714 -
Mesa Mesa9g03772 Chr9 69449026 69455541 -
Phco Phco2g02916 Chr2 58185815 58195551 +
Pste Pste7g02344 Chr7 22096281 22104860 +
Pumo Pumo1g00394 Chr1 5635103 5640994 +
Pvu Pvu1g2640 Chr1 51228273 51235830 +
Rops Rops11g03792 Chr11 71564339 71570240 -
Seca Seca6g01836 Chr6 74987353 74994149 -
Spst Spst1g01950 Chr1 27681759 27693550 -
Ssu Ssu9g1746 Chr9 54742289 54748627 +
Trre Trre5g03235 Chr5 28473918 28480702 -
Vian Vian2g03128 Chr2 51853370 51859379 +
Vifa Vifa2g02523 Chr2 666840153 666845678 -
Vimu Vimu6g01579 Chr6 14661719 14667855 -
Viun Viun1g03384 Chr1 41109415 41115976 +
Vivi Vivi3g03250 Chr3 55144927 55151167 +
Vra Vra2g1454 Chr2 22581007 22587555 -
Vvi Vvi1g0710 Chr1 7122124 7137221 +
Adu Adu10g00803 Chr10 10970581 10975693 +
Aed Aed6g0238 Chr6 2085636 2090828 -
Aed Aed7g1921 Chr7 22278688 22284497 +
Apr Apr7g1695 Chr7 24210569 24216422 +
Arst Arst10g01050 Chr10 10616986 10622136 +
Bva Bva08g01212 Chr08 6287214 6292144 -
Bva Bva11g01220 Chr11 12960463 12965135 +
Car Car05g02083 Chr05 66068136 66075463 +
Cca Cca06g00889 Chr06 22351772 22356147 +
Cca Cca01g00159 Chr01 1556524 1563214 +
Gma Gma01g00216 Chr01 2386160 2391058 -
Gma Gma18g00121 Chr18 959545 966021 +
Lal Lal16g0494 Chr16 3126147 3133772 +
Lal Lal15g0436 Chr15 2992446 2997195 -
Lapu Lapu6g00133 Chr6 1022758 1028742 +
Lasa Lasa5g02692 Chr5 498297094 498304468 +
Lja Lja2g0910 Chr2 8506488 8511860 -
Mal Mal6g0044 Chr6 552352 557076 -
Mepo Mepo3g06287 Chr3 77008779 77016188 +
Mesa Mesa9g03774 Chr9 69481388 69487996 +
Mtr Mtr5g1322 Chr5 13689462 13694316 -
Phco Phco2g02915 Chr2 58180503 58185185 -
Pste Pste7g02343 Chr7 22080678 22087185 -
Pumo Pumo1g00393 Chr1 5619418 5626635 -
Pvu Pvu1g2639 Chr1 51219731 51225214 -
Rops Rops11g03793 Chr11 71575949 71580846 +
Ssu Ssu2g1869 Chr2 70421902 70426151 +
Ssu Ssu9g1745 Chr9 54726173 54732241 -
Sto Sto11g1212 Chr11 12050799 12059591 +
Sto Sto6g4256 Chr6 45539463 45543391 -
Tpr Tpr2g1581 Chr2 18615865 18621152 -
Tsu Tsu05g01355 Chr05 12415871 12420903 -
Vian Vian2g03127 Chr2 51844657 51849435 -
Vifa Vifa2g02525 Chr2 666891744 666898005 +
Vimu Vimu6g01581 Chr6 14673672 14678478 +
Viun Viun1g03383 Chr1 41102401 41107606 -
Vra Vra11g1133 Chr11 11064142 11068784 -
Vra Vra2g1455 Chr2 22590688 22596171 +