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
Vvi19g0100 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0101 . . . . . . . Aed5g1276 . . . . . . . . . . . . . . . . . . . Bva07g01645 . Car07g02265 . Cca04g01517 . . . . . . . . Gma06g02069 . . . Gso6g1920 . . . . . . . Lal1g0608 . . . . . . . . . . . . . . . . . . . . Lja3g4888 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0161 . . . . . . . . . . . . . . . . . . .
Vvi19g0102 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0103 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g3768 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0104 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0105 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0107 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0108 . . . . Adu07g02354 . Aed1g0519 . Aev10g1284 . Ahy18g1497 . Aip08g01604 . Alju02g0824 . . . Apr2g0469 Apr5g0166 . . . . . . Bva09g00938 Bva07g01647 Car01g01963 . Cca10g01182 . . . Dod10g0896 . Enph3g0909 . . . . . Gma12g02164 Gma13g02383 . . . . . . Lal2g0636 Lal20g0385 Lal1g0605 . . . . . . . . . . . . . . . . . . . . Lja3g4887 Mal4g1587 . . . Mesa5g01612 . . . Mtr2g2507 . . . . . Prci7g1784 . . . Pste3g02234 . Pte17g00451 Pte15g01631 . . . . Pvu5g0841 . . . . . Spst5g01393 . Ssu8g1237 . Sto7g0163 Sto4g2776 Tpr7g3424 . . . Tsu02g04241 . . . . . Vimu4g01879 . . . . . . .
Vvi19g0109 . Acco08g1168 . Accr13g01125 . . . Aed5g1274 . . . . . . . Alju10g1145 . . . . . . . Bach9g00818 . Bisa02g2845 Bva09g00937 Bva07g01648 . . . Cca04g01515 . Dere07g1275 . . . Enph8g0299 . Glsi04g1273 Gma06g02081 . . . Gso6g1927 . . . . . Lal2g0635 . . . . . . . . . . . . . . . . . Lele29g0835 Lele30g0564 Lele31g0696 Lele32g0814 . Lja3g4886 . . . . . . . Mibi07g1105 . . . . . Phco9g01844 . Prci6g1355 . . . Pste1g04072 . . . . . Pumo11g00545 . Pvu11g1716 . . . Seca4g08209 . Spst11g00533 . . . Sto4g2777 . . . . . . . Vian5g00273 . Vifa4g00248 . Vimu5g00483 . . . Vivi7g00465 . .
   
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Select Species Gene Chromosome Start End Strand
Pte Pte17g00451 Chr17 5890848 5892887 -
Vvi Vvi19g0100 Chr19 1244366 1245948 +
Vvi Vvi19g0101 Chr19 1247635 1250651 -
Aed Aed5g1276 Chr5 11932014 11933399 +
Bva Bva07g01645 Chr07 15679162 15681009 -
Car Car07g02265 Chr07 34709215 34711520 -
Cca Cca04g01517 Chr04 21675579 21677319 +
Gma Gma06g02069 Chr06 34549353 34550750 -
Gso Gso6g1920 Chr6 31079917 31084477 -
Lal Lal1g0608 Chr1 3877101 3879888 +
Lja Lja3g4888 Chr3 90928398 90930113 +
Sto Sto7g0161 Chr7 1238196 1239572 -
Vvi Vvi19g0102 Chr19 1252117 1252419 -
Vvi Vvi19g0103 Chr19 1257905 1258381 -
Lja Lja3g3768 Chr3 74337624 74339511 +
Vvi Vvi19g0104 Chr19 1267651 1268519 -
Vvi Vvi19g0105 Chr19 1272343 1273425 -
Vvi Vvi19g0106 Chr19 1280211 1282206 +
Vvi Vvi19g0107 Chr19 1285498 1286832 +
Vvi Vvi19g0108 Chr19 1293523 1301174 +
Adu Adu07g02354 Chr07 77311104 77314260 +
Aed Aed1g0519 Chr1 6824294 6828114 +
Aev Aev10g1284 Chr10 16450458 16453333 +
Ahy Ahy18g1497 Chr18 30616812 30619926 -
Aip Aip08g01604 Chr08 29110458 29113572 -
Alju Alju02g0824 Chr02 6089802 6092317 -
Apr Apr2g0469 Chr2 5380094 5383370 -
Apr Apr5g0166 Chr5 1520864 1522836 -
Bva Bva09g00938 Chr09 4829546 4832540 -
Bva Bva07g01647 Chr07 15684520 15687547 +
Car Car01g01963 Chr01 44549000 44554775 +
Cca Cca10g01182 Chr10 15183929 15187532 -
Dod Dod10g0896 Chr10 26694240 26699264 +
Enph Enph3g0909 Chr3 30478432 30481358 +
Gma Gma12g02164 Chr12 42516939 42520350 -
Gma Gma13g02383 Chr13 38603613 38608296 +
Lal Lal2g0636 Chr2 3800993 3803203 -
Lal Lal20g0385 Chr20 3061572 3064563 -
Lal Lal1g0605 Chr1 3869810 3873774 -
Lja Lja3g4887 Chr3 90917259 90919496 -
Mal Mal4g1587 Chr4 26025492 26029579 -
Mesa Mesa5g01612 Chr5 23686133 23687155 -
Mtr Mtr2g2507 Chr2 37805635 37809484 +
Prci Prci7g1784 Chr7 32891793 32894780 +
Pste Pste3g02234 Chr3 15691959 15695403 +
Pte Pte17g00451 Chr17 5890848 5892887 -
Pte Pte15g01631 Chr15 14379742 14382669 +
Pvu Pvu5g0841 Chr5 19313920 19317839 +
Spst Spst5g01393 Chr5 38120093 38123085 -
Ssu Ssu8g1237 Chr8 21966465 21969900 -
Sto Sto7g0163 Chr7 1244700 1247543 +
Sto Sto4g2776 Chr4 28667362 28670507 +
Tpr Tpr7g3424 Chr7 42465877 42469945 +
Tsu Tsu02g04241 Chr02 50332859 50336340 +
Vimu Vimu4g01879 Chr4 20604565 20605044 -
Vvi Vvi19g0109 Chr19 1302636 1319687 +
Acco Acco08g1168 Chr08 12036666 12045331 -
Accr Accr13g01125 Chr13 13936472 13946324 -
Aed Aed5g1274 Chr5 11891487 11904000 -
Alju Alju10g1145 Chr10 11649277 11658530 -
Bach Bach9g00818 Chr9 5773365 5783404 -
Bisa Bisa02g2845 Chr02 71960555 71974811 +
Bva Bva09g00937 Chr09 4822038 4828973 -
Bva Bva07g01648 Chr07 15688138 15695756 +
Cca Cca04g01515 Chr04 21624901 21656708 -
Dere Dere07g1275 Chr07 16437068 16448835 -
Enph Enph8g0299 Chr8 11652014 11664204 +
Glsi Glsi04g1273 Chr04 13181314 13191685 -
Gma Gma06g02081 Chr06 34819249 34830225 +
Gso Gso6g1927 Chr6 31275833 31286815 +
Lal Lal2g0635 Chr2 3792002 3800566 -
Lele Lele29g0835 Chr29 5580256 5588909 -
Lele Lele30g0564 Chr30 10440352 10451560 +
Lele Lele31g0696 Chr31 14814390 14822967 +
Lele Lele32g0814 Chr32 5400221 5408874 -
Lja Lja3g4886 Chr3 90906204 90915266 -
Mibi Mibi07g1105 Chr07 15387302 15396711 -
Phco Phco9g01844 Chr9 42858277 42867786 -
Prci Prci6g1355 Chr6 9901815 9912638 -
Pste Pste1g04072 Chr1 23200014 23210767 -
Pumo Pumo11g00545 Chr11 19409090 19420660 +
Pvu Pvu11g1716 Chr11 43444253 43454952 -
Seca Seca4g08209 Chr4 194709233 194721629 -
Spst Spst11g00533 Chr11 27268954 27278034 +
Sto Sto4g2777 Chr4 28671903 28676936 +
Vian Vian5g00273 Chr5 5889769 5898845 +
Vifa Vifa4g00248 Chr4 49279728 49288977 +
Vimu Vimu5g00483 Chr5 4968183 4972595 +
Vivi Vivi7g00465 Chr7 26736785 26756159 -