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
Vvi2g0152 . . . . . . Aed11g1780 . . Aev03g3144 . Ahy13g2709 . Aip03g03043 . . . Amo13g3286 Apr7g0528 Apr2g1273 Arst5g01416 . Bach4g00051 . . . Bva08g00052 Bva11g02215 Car08g00180 Car06g00450 Cca06g01853 . . . . Dod04g2814 . . . . Gma01g02254 Gma11g00162 Gma05g02110 . Gso1g1917 Gso1g1917 Gso1g1917 . . . . . . Lal23g1554 . . . . . . . . Lasa2g02728 . . . . . . . . . Lja4g0341 Lja4g0341 . Mal7g5032 Mepo5g00282 . . . . . Mtr5g0243 Mtr8g3546 Phac2g04484 . Phco4g00241 . . . Psa2g4226 . Pste1g01876 . . . . . Pumo8g02397 . Pvu2g1688 . Rops1g02254 . Seca12g06590 . Spst2g00238 . Ssu2g2941 . Sto6g3116 . Tpr2g3918 Tpr3g0566 . . Tsu05g00223 Tsu02g00373 Vian10g00203 . . . Vimu7g02389 . Viun2g02668 . Vivi2g03955 . Vra11g0227 .
Vvi2g0153 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0154 . . . . . . . . . . . . . . . . . . . Apr2g1276 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal16g0073 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car08g00178 . . . . . . . . . . . . . . . . . . . Lal15g0056 . . . . . Lan18g1123 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0156 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0157 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0158 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g02219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0159 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0160 Acco11g1513 . Accr9g00929 . Adu03g02651 . Aed11g1782 . . Aev03g3147 . Ahy13g2705 . Aip03g03039 Alju09g1514 . . Amo13g3281 Apr7g0526 . Arst3g03519 . . . Bisa11g0848 . Bva08g00049 . . Car06g00447 Cca06g01854 . Dere09g0091 . . Dod04g2816 Enph13g1486 . Glsi05g2192 . . Gma11g00161 Gma05g02112 Gma08g00215 . . . . . . Lal23g0458 . . . . . . . . . Lapu3g03662 . Lasa7g04875 . Lele49g0738 Lele50g0779 Lele51g0759 Lele52g0766 . . . . Lja4g0339 Lja4g0339 Mal6g0269 Mal7g5041 Mepo2g04724 . Mesa13g00392 . Mibi12g1282 . Mtr5g0241 Mtr8g3551 Phac2g00338 . Phco4g03386 . Prci10g1185 . Psa2g4227 . Pste3g00828 . Pte14g01310 . . . Pumo6g00411 . Pvu2g3067 . Rops2g00455 . Seca12g06591 . Spst3g01009 . Ssu2g2943 . Sto6g3114 . Tpr2g3920 Tpr3g0563 Trre7g05555 . Tsu05g00221 Tsu02g00371 Vian1g03906 . Vifa6g03682 . Vimu11g04519 . Viun3g00466 . Vivi5g06056 . Vra11g0226 .
Vvi2g0161 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0152 Chr2 1350077 1359034 -
Aed Aed11g1780 Chr11 21184801 21194611 -
Aev Aev03g3144 Chr03 29994196 29998444 -
Ahy Ahy13g2709 Chr13 101445896 101455168 +
Aip Aip03g03043 Chr03 93518938 93527450 +
Amo Amo13g3286 Chr13 104981109 104986173 +
Apr Apr7g0528 Chr7 11718022 11727464 +
Apr Apr2g1273 Chr2 18976692 18983772 -
Arst Arst5g01416 Chr5 15626363 15632768 -
Bach Bach4g00051 Chr4 344413 352089 +
Bva Bva08g00052 Chr08 291078 298560 +
Bva Bva11g02215 Chr11 17981272 17989250 -
Car Car08g00180 Chr08 1400168 1410607 +
Car Car06g00450 Chr06 4567192 4578550 +
Cca Cca06g01853 Chr06 33939883 33947992 -
Dod Dod04g2814 Chr04 52170294 52178838 -
Gma Gma01g02254 Chr01 57719964 57729222 -
Gma Gma11g00162 Chr11 1251371 1258493 +
Gma Gma05g02110 Chr05 42324654 42332661 -
Gso Gso1g1917 Chr1 55887784 55896469 -
Gso Gso1g1917 Chr1 55887784 55896469 -
Gso Gso1g1917 Chr1 55887784 55896469 -
Lal Lal23g1554 Chr23 15618546 15626651 -
Lasa Lasa2g02728 Chr2 508870283 508878466 +
Lja Lja4g0341 Chr4 2725057 2732095 +
Lja Lja4g0341 Chr4 2725057 2732095 +
Mal Mal7g5032 Chr7 119475958 119481788 -
Mepo Mepo5g00282 Chr5 2467245 2476751 +
Mtr Mtr5g0243 Chr5 2212186 2221430 +
Mtr Mtr8g3546 Chr8 46061420 46068194 -
Phac Phac2g04484 Chr2 42696353 42702489 -
Phco Phco4g00241 Chr4 1504727 1513566 +
Psa Psa2g4226 Chr2 423374982 423383867 -
Pste Pste1g01876 Chr1 5787339 5797984 +
Pumo Pumo8g02397 Chr8 61195134 61204521 -
Pvu Pvu2g1688 Chr2 30564893 30574380 -
Rops Rops1g02254 Chr1 44572690 44583816 -
Seca Seca12g06590 Chr12 158005672 158013124 -
Spst Spst2g00238 Chr2 1836711 1844936 +
Ssu Ssu2g2941 Chr2 90849246 90858668 -
Sto Sto6g3116 Chr6 38037410 38041577 +
Tpr Tpr2g3918 Chr2 41878386 41886308 -
Tpr Tpr3g0566 Chr3 5591832 5598350 +
Tsu Tsu05g00223 Chr05 1615599 1623774 +
Tsu Tsu02g00373 Chr02 3127582 3133722 +
Vian Vian10g00203 Chr10 1785168 1796646 +
Vimu Vimu7g02389 Chr7 20505567 20513861 +
Viun Viun2g02668 Chr2 32252453 32261976 -
Vivi Vivi2g03955 Chr2 152076903 152085484 -
Vra Vra11g0227 Chr11 1508395 1517807 +
Vvi Vvi2g0153 Chr2 1370599 1377919 -
Vvi Vvi2g0154 Chr2 1379564 1382859 -
Apr Apr2g1276 Chr2 19021604 19023768 +
Lal Lal16g0073 Chr16 437871 439252 -
Vvi Vvi2g0155 Chr2 1390580 1397034 +
Car Car08g00178 Chr08 1375340 1379737 +
Lal Lal15g0056 Chr15 399999 406449 +
Lan Lan18g1123 Chr18 16194919 16201413 -
Vvi Vvi2g0156 Chr2 1404313 1404627 +
Vvi Vvi2g0157 Chr2 1420863 1422187 +
Vvi Vvi2g0158 Chr2 1423646 1424341 -
Bva Bva11g02219 Chr11 18004796 18005688 +
Vvi Vvi2g0159 Chr2 1431045 1436018 +
Vvi Vvi2g0160 Chr2 1440319 1444378 +
Acco Acco11g1513 Chr11 29600504 29602781 +
Accr Accr9g00929 Chr9 10872134 10874790 -
Adu Adu03g02651 Chr03 94625965 94629749 +
Aed Aed11g1782 Chr11 21200187 21201214 -
Aev Aev03g3147 Chr03 30007411 30012467 -
Ahy Ahy13g2705 Chr13 101187643 101191786 +
Aip Aip03g03039 Chr03 93278062 93281821 +
Alju Alju09g1514 Chr09 39116977 39126371 +
Amo Amo13g3281 Chr13 104747567 104751382 +
Apr Apr7g0526 Chr7 11703595 11707560 +
Arst Arst3g03519 Chr3 93475725 93479862 +
Bisa Bisa11g0848 Chr11 23767380 23770610 +
Bva Bva08g00049 Chr08 276310 279239 +
Car Car06g00447 Chr06 4547888 4551242 +
Cca Cca06g01854 Chr06 33969069 33983761 -
Dere Dere09g0091 Chr09 3808076 3811537 +
Dod Dod04g2816 Chr04 52194327 52203680 -
Enph Enph13g1486 Chr13 20392930 20401787 -
Glsi Glsi05g2192 Chr05 68223122 68227006 -
Gma Gma11g00161 Chr11 1241048 1249266 +
Gma Gma05g02112 Chr05 42339342 42343873 -
Gma Gma08g00215 Chr08 1854310 1859289 -
Lal Lal23g0458 Chr23 7312328 7318154 -
Lapu Lapu3g03662 Chr3 60082346 60091719 -
Lasa Lasa7g04875 Chr7 692335971 692338492 -
Lele Lele49g0738 Chr49 4492554 4493928 -
Lele Lele50g0779 Chr50 4804880 4811361 -
Lele Lele51g0759 Chr51 4601084 4603464 -
Lele Lele52g0766 Chr52 4855300 4857757 -
Lja Lja4g0339 Chr4 2709731 2717464 +
Lja Lja4g0339 Chr4 2709731 2717464 +
Mal Mal6g0269 Chr6 3702927 3707628 -
Mal Mal7g5041 Chr7 119582003 119585212 -
Mepo Mepo2g04724 Chr2 55549306 55552595 -
Mesa Mesa13g00392 Chr13 4607300 4610502 +
Mibi Mibi12g1282 Chr12 28408035 28410332 +
Mtr Mtr5g0241 Chr5 2197465 2200693 +
Mtr Mtr8g3551 Chr8 46084921 46097388 -
Phac Phac2g00338 Chr2 1662769 1665878 +
Phco Phco4g03386 Chr4 54214114 54226485 -
Prci Prci10g1185 Chr10 7933859 7942021 -
Psa Psa2g4227 Chr2 423523533 423526474 -
Pste Pste3g00828 Chr3 5102656 5106903 +
Pte Pte14g01310 Chr14 34256810 34260357 -
Pumo Pumo6g00411 Chr6 5228261 5232513 +
Pvu Pvu2g3067 Chr2 46091423 46094799 -
Rops Rops2g00455 Chr2 6514719 6520533 +
Seca Seca12g06591 Chr12 158016008 158026722 -
Spst Spst3g01009 Chr3 13486487 13489980 +
Ssu Ssu2g2943 Chr2 90895213 90897764 -
Sto Sto6g3114 Chr6 38021970 38029058 +
Tpr Tpr2g3920 Chr2 41901173 41903735 -
Tpr Tpr3g0563 Chr3 5577085 5580296 +
Trre Trre7g05555 Chr7 61203925 61206324 -
Tsu Tsu05g00221 Chr05 1610305 1613165 +
Tsu Tsu02g00371 Chr02 3109938 3112726 +
Vian Vian1g03906 Chr1 62179158 62188592 -
Vifa Vifa6g03682 Chr6 1210012878 1210016626 -
Vimu Vimu11g04519 Chr11 66106057 66110917 -
Viun Viun3g00466 Chr3 2783946 2788462 +
Vivi Vivi5g06056 Chr5 165600440 165604169 -
Vra Vra11g0226 Chr11 1496988 1500875 +
Vvi Vvi2g0161 Chr2 1446671 1451258 +