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
Vvi2g0082 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00092 . . . . . . . . . . . . . . . . . . . . . . . Lal23g0407 . . . . . . . . . . . . . . . . . . . . . Lja4g0369 Lja4g0369 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3163 . . . . . . . . . . . . . . . . . . .
Vvi2g0083 . . . . . . . . . . . . . . . . . . . Apr2g1250 . . . . . . Bva08g00091 Bva11g02182 . Car06g00476 . . . . . . . . . . . . Gma05g02085 Gma08g00188 . . . . . . . Lal15g1426 . . . . . . . . . . . . . . . . . . . . Lja4g0368 Lja4g0368 . Mal7g5001 . . . . . . . Mtr8g3519 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3162 . . Tpr3g0593 . . . Tsu02g00403 . . . . . . . . . . . .
Vvi2g0084 Acco11g1560 . Accr9g00878 . . . . . . . . . . . Alju09g1554 . . . . . . . . . Bisa11g0891 . . . . . . . Dere09g0156 . . . Enph13g1451 . Glsi05g2153 . . . . . . . . . . . . . . . . . . . . . Lapu3g03634 . Lasa7g04819 . Lele49g0705 Lele50g0742 Lele51g0725 Lele52g0729 . . . . . . . . Mepo2g04686 . Mesa13g00431 . Mibi12g1324 . . . . . Phco4g03352 . Prci10g1136 . . . Pste3g00895 . Pte14g01303 Pte12g00035 . . Pumo6g00445 . Pvu2g3034 . Rops2g00493 . Seca12g06555 . Spst3g01046 . . . Sto6g3161 . . . Trre7g05518 . . . Vian1g03879 . . . Vimu11g04480 . Viun3g00508 . Vivi5g06001 . . .
Vvi2g0085 Acco11g1557 . Accr9g00882 . . . . . . Aev03g3118 . Ahy13g2762 . Aip03g03096 Alju09g1552 . . Amo13g3364 Apr7g0551 . . . . . Bisa11g0889 . Bva08g00090 . . Car06g00475 . . Dere09g0151 . . Dod04g2785 Enph13g1454 . Glsi05g2154 . . . . Gma08g00189 . . . . . . . . . . . . . . . . Lapu3g03635 . Lasa7g04822 . . . . . . . . . Lja4g0366 Lja4g0366 . Mal7g5002 Mepo2g04688 . Mesa13g00430 . Mibi12g1322 . . Mtr8g3520 . . Phco4g03353 . Prci10g1139 . . . . . . Pte12g00034 . . Pumo6g00444 . Pvu2g3035 . Rops2g00491 . Seca12g06556 . . . . . . . . Tpr3g0592 Trre7g05519 . . Tsu02g00400 Vian1g03880 . Vifa6g03626 . Vimu11g04482 . Viun3g00507 . Vivi5g06002 . . .
Vvi2g0086 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0087 . . . . . . . . . . . . . . . . . . . . Arst3g05209 . Bach4g00078 . . . . Bva11g02183 . . . . . . . . . . . . . . . . . . . . . . Lal23g0409 . . . . . . . . . . . Lasa7g02845 . . . . . . . . . . . Mal6g0238 . Mepo5g00314 . . . . . Mtr5g0266 . Phac2g00372 . Phco4g00266 . . . . . Pste1g02000 . . . . . Pumo8g02375 . Pvu2g1664 . Rops1g02229 . . . Spst2g00265 . . . Sto6g3160 . . . . . Tsu05g00244 . Vian10g00222 . . . Vimu7g02410 . Viun2g02641 . . . . .
Vvi2g0088 . . . . . . Aed11g1756 . . . . . . . . . . . . . . . . . . . . . . . Cca06g01832 . . . . . . . . . Gma01g02236 . . . Gso1g1901 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g0239 . . . . . . . Mtr5g0265 . . . . . . . Psa2g4203 . . . . . . . . . . . . . . . . . Ssu2g2911 . Sto6g3159 . Tpr2g3898 . . . Tsu05g00243 . . . . . . . . . . . Vra11g0244 .
Vvi2g0089 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g02184 . . . . . . . . . . . . . . . . . . . . . . . . Lal16g1176 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0090 . . . . . . . . . . . . . . . . . . Apr7g0550 . . . . . . . . . Car08g00197 . . . . . . . . . . . . Gma11g00180 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr5g0264 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr2g3899 . . . . . . . . . . . . . . . . .
Vvi2g0091 . . . . . . . . . Aev03g3120 . Ahy13g2757 . Aip03g03088 . . . Amo13g3354 . . . . . . . . Bva08g00089 . . . . . . . . Dod04g2787 . . . . . . . . . . . . . . . . Lal16g1175 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lasa Lasa7g02845 Chr7 554581722 554582664 +
Arst Arst3g05209 Chr3 127420681 127423451 +
Vvi Vvi2g0082 Chr2 775165 775743 -
Bva Bva08g00092 Chr08 470607 471393 +
Lal Lal23g0407 Chr23 6534106 6534624 -
Lja Lja4g0369 Chr4 2950274 2960289 +
Lja Lja4g0369 Chr4 2950274 2960289 +
Sto Sto6g3163 Chr6 38289959 38290531 +
Vvi Vvi2g0083 Chr2 777751 778311 -
Apr Apr2g1250 Chr2 18762036 18762754 -
Bva Bva08g00091 Chr08 468418 469178 +
Bva Bva11g02182 Chr11 17813485 17814323 -
Car Car06g00476 Chr06 4787291 4788256 +
Gma Gma05g02085 Chr05 42130414 42131114 -
Gma Gma08g00188 Chr08 1668874 1669726 -
Lal Lal15g1426 Chr15 16389664 16390514 -
Lja Lja4g0368 Chr4 2943634 2944422 +
Lja Lja4g0368 Chr4 2943634 2944422 +
Mal Mal7g5001 Chr7 119107227 119107796 -
Mtr Mtr8g3519 Chr8 45790709 45791550 -
Sto Sto6g3162 Chr6 38276409 38277148 +
Tpr Tpr3g0593 Chr3 5817217 5818116 +
Tsu Tsu02g00403 Chr02 3331944 3332706 +
Vvi Vvi2g0084 Chr2 780924 781481 -
Acco Acco11g1560 Chr11 30077473 30078099 +
Accr Accr9g00878 Chr9 10382211 10382768 -
Alju Alju09g1554 Chr09 39525158 39525781 +
Bisa Bisa11g0891 Chr11 24764660 24766329 +
Dere Dere09g0156 Chr09 4354957 4355514 +
Enph Enph13g1451 Chr13 20085941 20087274 -
Glsi Glsi05g2153 Chr05 67981022 67983687 -
Lapu Lapu3g03634 Chr3 59825265 59826317 -
Lasa Lasa7g04819 Chr7 689606711 689607265 +
Lele Lele49g0705 Chr49 4289835 4290639 -
Lele Lele50g0742 Chr50 4569682 4572748 -
Lele Lele51g0725 Chr51 4382499 4383152 -
Lele Lele52g0729 Chr52 4619552 4620109 -
Mepo Mepo2g04686 Chr2 55232494 55233468 -
Mesa Mesa13g00431 Chr13 4995571 4996140 +
Mibi Mibi12g1324 Chr12 28840171 28840731 +
Phco Phco4g03352 Chr4 53980522 53981091 -
Prci Prci10g1136 Chr10 7608941 7609890 -
Pste Pste3g00895 Chr3 5591765 5601671 +
Pte Pte14g01303 Chr14 34190600 34191384 -
Pte Pte12g00035 Chr12 408203 408849 +
Pumo Pumo6g00445 Chr6 5527439 5528602 +
Pvu Pvu2g3034 Chr2 45829124 45829837 -
Rops Rops2g00493 Chr2 7144613 7145283 +
Seca Seca12g06555 Chr12 157659781 157660323 -
Spst Spst3g01046 Chr3 13791732 13792277 +
Sto Sto6g3161 Chr6 38267972 38272314 +
Trre Trre7g05518 Chr7 60934923 60935480 -
Vian Vian1g03879 Chr1 61937426 61937995 -
Vimu Vimu11g04480 Chr11 65839626 65840195 -
Viun Viun3g00508 Chr3 2993054 2994053 +
Vivi Vivi5g06001 Chr5 164579841 164580588 -
Vvi Vvi2g0085 Chr2 785156 785713 -
Acco Acco11g1557 Chr11 30047512 30048081 +
Accr Accr9g00882 Chr9 10446299 10446865 -
Aev Aev03g3118 Chr03 29830426 29830983 -
Ahy Ahy13g2762 Chr13 106042929 106043870 +
Aip Aip03g03096 Chr03 97486111 97487041 +
Alju Alju09g1552 Chr09 39466333 39472105 +
Amo Amo13g3364 Chr13 110788719 110789507 +
Apr Apr7g0551 Chr7 11952145 11952827 +
Bisa Bisa11g0889 Chr11 24676214 24676792 +
Bva Bva08g00090 Chr08 464356 464999 +
Car Car06g00475 Chr06 4782342 4783173 +
Dere Dere09g0151 Chr09 4312071 4312619 +
Dod Dod04g2785 Chr04 51886919 51888195 -
Enph Enph13g1454 Chr13 20099586 20100140 -
Glsi Glsi05g2154 Chr05 67985596 67986153 -
Gma Gma08g00189 Chr08 1675454 1675978 -
Lapu Lapu3g03635 Chr3 59829821 59830351 -
Lasa Lasa7g04822 Chr7 689656924 689657481 -
Lja Lja4g0366 Chr4 2908550 2909107 +
Lja Lja4g0366 Chr4 2908550 2909107 +
Mal Mal7g5002 Chr7 119123125 119123682 -
Mepo Mepo2g04688 Chr2 55250239 55251201 -
Mesa Mesa13g00430 Chr13 4988685 4989092 +
Mibi Mibi12g1322 Chr12 28827135 28827692 +
Mtr Mtr8g3520 Chr8 45811073 45811906 -
Phco Phco4g03353 Chr4 53987298 53987843 -
Prci Prci10g1139 Chr10 7631549 7637217 -
Pte Pte12g00034 Chr12 405775 406520 +
Pumo Pumo6g00444 Chr6 5516708 5518033 +
Pvu Pvu2g3035 Chr2 45836992 45837522 -
Rops Rops2g00491 Chr2 7040270 7041004 -
Seca Seca12g06556 Chr12 157675771 157676316 -
Tpr Tpr3g0592 Chr3 5810483 5811240 +
Trre Trre7g05519 Chr7 60954402 60954956 -
Tsu Tsu02g00400 Chr02 3299699 3305361 +
Vian Vian1g03880 Chr1 61941935 61942486 -
Vifa Vifa6g03626 Chr6 1195102378 1195102935 -
Vimu Vimu11g04482 Chr11 65843647 65844198 -
Viun Viun3g00507 Chr3 2989803 2990632 +
Vivi Vivi5g06002 Chr5 164593617 164594443 -
Vvi Vvi2g0086 Chr2 790197 790679 +
Vvi Vvi2g0087 Chr2 798757 802286 -
Arst Arst3g05209 Chr3 127420681 127423451 +
Bach Bach4g00078 Chr4 533931 536938 +
Bva Bva11g02183 Chr11 17815564 17824183 -
Lal Lal23g0409 Chr23 6636404 6652034 -
Lasa Lasa7g02845 Chr7 554581722 554582664 +
Mal Mal6g0238 Chr6 3371364 3373633 -
Mepo Mepo5g00314 Chr5 2765556 2769023 +
Mtr Mtr5g0266 Chr5 2472953 2476222 +
Phac Phac2g00372 Chr2 1860832 1865189 +
Phco Phco4g00266 Chr4 1687763 1691485 +
Pste Pste1g02000 Chr1 6254546 6258028 +
Pumo Pumo8g02375 Chr8 60942153 60946411 -
Pvu Pvu2g1664 Chr2 30363907 30368188 -
Rops Rops1g02229 Chr1 44164917 44168764 -
Spst Spst2g00265 Chr2 2018767 2021944 +
Sto Sto6g3160 Chr6 38260869 38263501 +
Tsu Tsu05g00244 Chr05 1794761 1797506 +
Vian Vian10g00222 Chr10 1956881 1960044 +
Vimu Vimu7g02410 Chr7 20650308 20654652 +
Viun Viun2g02641 Chr2 32115871 32119983 -
Vvi Vvi2g0088 Chr2 805560 806989 -
Aed Aed11g1756 Chr11 21045675 21049577 -
Cca Cca06g01832 Chr06 33717695 33721836 -
Gma Gma01g02236 Chr01 57556600 57560753 -
Gso Gso1g1901 Chr1 55725322 55729573 -
Mal Mal6g0239 Chr6 3377319 3380481 -
Mtr Mtr5g0265 Chr5 2461504 2465289 +
Psa Psa2g4203 Chr2 422593129 422597258 -
Ssu Ssu2g2911 Chr2 90434940 90436363 -
Sto Sto6g3159 Chr6 38248721 38253083 +
Tpr Tpr2g3898 Chr2 41716127 41720602 -
Tsu Tsu05g00243 Chr05 1788121 1792257 +
Vra Vra11g0244 Chr11 1661301 1665617 +
Vvi Vvi2g0089 Chr2 807300 808096 -
Bva Bva11g02184 Chr11 17824973 17829193 -
Lal Lal16g1176 Chr16 8055500 8059386 +
Vvi Vvi2g0090 Chr2 809312 812187 -
Apr Apr7g0550 Chr7 11944843 11949704 +
Car Car08g00197 Chr08 1546185 1550477 +
Gma Gma11g00180 Chr11 1407130 1411228 +
Mtr Mtr5g0264 Chr5 2455499 2460563 +
Tpr Tpr2g3899 Chr2 41722457 41726518 -
Vvi Vvi2g0091 Chr2 814775 818141 -
Aev Aev03g3120 Chr03 29846722 29849855 -
Ahy Ahy13g2757 Chr13 105240399 105246660 +
Aip Aip03g03088 Chr03 96799763 96802355 +
Amo Amo13g3354 Chr13 109977262 109983548 -
Bva Bva08g00089 Chr08 458749 463755 +
Dod Dod04g2787 Chr04 51908163 51916552 -
Lal Lal16g1175 Chr16 8046002 8050481 +