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
Vvi17g0203 . . . . . . . Aed5g2653 . . . . . . . . . . . Apr2g1587 . . . . . . . . . . . Cca09g02835 . . . . . . . . . Gma08g00525 Gma05g02388 . . . . . . Lal16g0935 . . . . . . . . . . . . . Lasa7g05302 . . . . . . . . . Lja4g0014 . . . Mepo2g05114 . Mesa13g00017 . . Mtr8g3890 . . . . Phco4g03734 . . . . . . . . . . . Pumo6g02943 . Pvu2g3401 . Rops2g00051 . Seca12g06997 . Spst3g00654 . Ssu5g3504 . . . . . Trre7g05982 Tsu02g00018 . . Vian1g04219 . Vifa1g07343 . Vimu11g04935 . Viun3g00051 . Vivi5g06483 . .
Vvi17g0204 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva03g00755 . . . . . . . . . . . . Gma07g00916 . . . Gso7g0862 . . . . . . Lal8g0466 . Lal25g0477 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g4515 . . . . . . . . . . . . . . . . . .
Vvi17g0205 . . . . Adu05g02753 . Aed7g0280 . . . Ahy15g2652 . Aip05g02965 . . . . . Apr6g0996 . Arst5g03487 . . . . . Bva04g00885 Bva03g00753 Car08g01624 . Cca08g00301 . . . . . . . . . . . . Gma09g01640 . . . . . . . Lal8g0480 . . . . . . . . Lapu4g00252 . Lasa1g04148 . . . . . . . . . Lja2g2187 . . Mal6g3303 Mepo7g00924 . Mesa22g02736 . . . . Mtr6g1811 . . . . . . . . Pste9g01437 . . . . . Pumo6g02948 . Pvu4g1598 . Rops5g00358 . Seca10g04760 . Spst4g02831 . . . . . . . Trre11g02078 . . Tsu06g03732 Vian8g01406 . Vifa1g07331 . Vimu8g01636 . Viun4g00382 . Vivi4g00355 . Vra1g0674 .
Vvi17g0206 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0207 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0208 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0209 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0210 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0211 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0212 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0203 Chr17 1971810 1992794 -
Aed Aed5g2653 Chr5 27104984 27108846 +
Apr Apr2g1587 Chr2 21660256 21665878 +
Cca Cca09g02835 Chr09 53924540 53944010 +
Gma Gma08g00525 Chr08 4316741 4322076 +
Gma Gma05g02388 Chr05 44691150 44695009 +
Lal Lal16g0935 Chr16 6205513 6210222 -
Lasa Lasa7g05302 Chr7 721400497 721404030 +
Lja Lja4g0014 Chr4 113350 124570 -
Mepo Mepo2g05114 Chr2 58981962 58985282 +
Mesa Mesa13g00017 Chr13 209149 211858 -
Mtr Mtr8g3890 Chr8 49513687 49516802 +
Phco Phco4g03734 Chr4 56776168 56781146 +
Pumo Pumo6g02943 Chr6 69820704 69826975 -
Pvu Pvu2g3401 Chr2 48842934 48847483 +
Rops Rops2g00051 Chr2 912850 919154 -
Seca Seca12g06997 Chr12 161934144 161939237 +
Spst Spst3g00654 Chr3 10006126 10010168 -
Ssu Ssu5g3504 Chr5 85977113 85979196 +
Trre Trre7g05982 Chr7 64109898 64113669 +
Tsu Tsu02g00018 Chr02 121327 124386 -
Vian Vian1g04219 Chr1 65120316 65123230 +
Vifa Vifa1g07343 Chr1 1132449250 1132459809 +
Vimu Vimu11g04935 Chr11 68819731 68825662 +
Viun Viun3g00051 Chr3 231702 236330 -
Vivi Vivi5g06483 Chr5 171469036 171472530 -
Vvi Vvi17g0204 Chr17 1993769 2012308 -
Bva Bva03g00755 Chr03 4521540 4525340 +
Gma Gma07g00916 Chr07 10044622 10050025 -
Gso Gso7g0862 Chr7 9817589 9823084 -
Lal Lal8g0466 Chr8 3115561 3121383 -
Lal Lal25g0477 Chr25 3290075 3295287 -
Sto Sto8g4515 Chr8 47852336 47853807 -
Vvi Vvi17g0205 Chr17 2017731 2033537 +
Adu Adu05g02753 Chr05 95138474 95142878 +
Aed Aed7g0280 Chr7 1986390 1990369 +
Ahy Ahy15g2652 Chr15 142438966 142443529 -
Aip Aip05g02965 Chr05 131558667 131573982 -
Apr Apr6g0996 Chr6 14603197 14608895 -
Arst Arst5g03487 Chr5 93796401 93800949 +
Bva Bva04g00885 Chr04 5836940 5841499 -
Bva Bva03g00753 Chr03 4514242 4518542 -
Car Car08g01624 Chr08 25835320 25840284 -
Cca Cca08g00301 Chr08 4401268 4407080 +
Gma Gma09g01640 Chr09 41876606 41884737 -
Lal Lal8g0480 Chr8 3240346 3245445 -
Lapu Lapu4g00252 Chr4 2526329 2531697 +
Lasa Lasa1g04148 Chr1 710097726 710102728 +
Lja Lja2g2187 Chr2 24879714 24884596 +
Mal Mal6g3303 Chr6 95962089 95968850 +
Mepo Mepo7g00924 Chr7 14445648 14451800 -
Mesa Mesa22g02736 Chr22 72563951 72570837 +
Mtr Mtr6g1811 Chr6 32981481 32987851 +
Pste Pste9g01437 Chr9 13778305 13785160 -
Pumo Pumo6g02948 Chr6 69908769 69913566 -
Pvu Pvu4g1598 Chr4 43189964 43196091 -
Rops Rops5g00358 Chr5 6274923 6279943 +
Seca Seca10g04760 Chr10 109367940 109373013 -
Spst Spst4g02831 Chr4 67984603 67988636 +
Trre Trre11g02078 Chr11 23507003 23513498 -
Tsu Tsu06g03732 Chr06 49388101 49394482 -
Vian Vian8g01406 Chr8 33319817 33325270 -
Vifa Vifa1g07331 Chr1 1128403538 1128408558 +
Vimu Vimu8g01636 Chr8 22212398 22215354 +
Viun Viun4g00382 Chr4 2505293 2511092 +
Vivi Vivi4g00355 Chr4 7904519 7909745 +
Vra Vra1g0674 Chr1 7952880 7956765 +
Vvi Vvi17g0206 Chr17 2042323 2043706 -
Vvi Vvi17g0207 Chr17 2044198 2044493 +
Vvi Vvi17g0208 Chr17 2047663 2049008 -
Vvi Vvi17g0209 Chr17 2055968 2088910 -
Vvi Vvi17g0210 Chr17 2091068 2094257 -
Vvi Vvi17g0211 Chr17 2094445 2099288 +
Vvi Vvi17g0212 Chr17 2103373 2106562 -