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
Vvi4g0464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal8g1557 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0465 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0466 . Acco06g3099 . Accr5g00080 . Adu03g04358 . . . . . . . . . Alju03g0091 . . . . . Arst3g05762 . . . . Bva10g00334 Bva06g02430 . . . . . Dere02g3139 . . . Enph4g0051 . . . . Gma04g00644 . . . . . Lal21g0353 . . . . . Lan3g1052 . . . . . . Lapu3g02714 . Lasa7g03758 . . . . . . . . . Lja5g2137 Mal2g0841 . . Mepo2g03668 . Mesa13g01505 . Mibi06g0084 Mtr3g3951 . . . . Phco4g02200 . Prci3g1320 Psa5g0630 . . Pste3g02349 . . . . . Pumo6g01427 . Pvu2g1954 . Rops2g01553 . Seca12g05438 . Spst3g00180 . . . . Tpr7g0575 . . Trre7g04274 Tsu07g00611 . . Vian1g02841 . Vifa6g01963 . Vimu11g01574 . Viun3g02005 . Vivi5g04740 . .
Vvi4g0467 . . . . . . . . . . Ahy16g3077 . Aip06g03308 . . . . . . Apr9g0153 . . . . . . . . . . . . . . Dod08g1652 . . . . . . Gma17g01956 Gma04g00643 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g0842 Mal1g5489 . . . . . . Mtr3g3950 Mtr1g0192 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g0576 Tpr1g3371 . . . Tsu01g00715 . . . . . . . . . . . .
Vvi4g0468 . . . . . . . Aed6g1122 . . Ahy16g3078 . Aip06g03309 . . . . . . Apr9g0154 . . . . . . . Bva06g02428 . . . Cca05g00556 . . Dod08g1653 . . . . . . Gma17g01960 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal1g5490 . . . . . . . Mtr1g0193 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0603 . . . Tpr1g3372 . . . Tsu01g00713 . . . . . . . . . . . Vra6g1544
Vvi4g0469 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0470 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0471 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0472 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0473 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Acco Acco06g3099 Chr06 40756949 40763327 -
Accr Accr5g00080 Chr5 2410395 2416832 +
Adu Adu03g04358 Chr03 132547465 132553786 +
Alju Alju03g0091 Chr03 2200258 2209198 +
Arst Arst3g05762 Chr3 131311924 131317880 +
Dere Dere02g3139 Chr02 37861548 37867839 +
Enph Enph4g0051 Chr4 1499431 1505259 -
Lapu Lapu3g02714 Chr3 49773745 49779855 -
Lasa Lasa7g03758 Chr7 613134574 613139892 +
Mepo Mepo2g03668 Chr2 46025249 46031583 +
Mesa Mesa13g01505 Chr13 17977990 17983750 -
Mibi Mibi06g0084 Chr06 1590103 1596278 +
Phco Phco4g02200 Chr4 42699606 42705224 -
Prci Prci3g1320 Chr3 21212086 21218980 -
Pste Pste3g02349 Chr3 16671819 16677262 +
Pumo Pumo6g01427 Chr6 19519147 19525101 -
Pvu Pvu2g1954 Chr2 34600086 34606020 -
Rops Rops2g01553 Chr2 23061868 23067451 -
Seca Seca12g05438 Chr12 145062107 145068036 +
Spst Spst3g00180 Chr3 3285009 3290539 -
Trre Trre7g04274 Chr7 50701392 50706809 +
Vian Vian1g02841 Chr1 44573200 44578205 -
Vifa Vifa6g01963 Chr6 727569838 727571543 -
Vimu Vimu11g01574 Chr11 19038318 19043348 +
Viun Viun3g02005 Chr3 15952743 15958028 +
Vivi Vivi5g04740 Chr5 146151638 146157118 -
Vvi Vvi4g0464 Chr4 4193813 4196188 -
Lal Lal8g1557 Chr8 19899953 19902954 +
Vvi Vvi4g0465 Chr4 4206514 4208718 -
Vvi Vvi4g0466 Chr4 4215230 4224727 +
Acco Acco06g3099 Chr06 40756949 40763327 -
Accr Accr5g00080 Chr5 2410395 2416832 +
Adu Adu03g04358 Chr03 132547465 132553786 +
Alju Alju03g0091 Chr03 2200258 2209198 +
Arst Arst3g05762 Chr3 131311924 131317880 +
Bva Bva10g00334 Chr10 4031782 4035931 +
Bva Bva06g02430 Chr06 15555466 15559002 -
Dere Dere02g3139 Chr02 37861548 37867839 +
Enph Enph4g0051 Chr4 1499431 1505259 -
Gma Gma04g00644 Chr04 5924835 5927985 -
Lal Lal21g0353 Chr21 2407192 2410491 -
Lan Lan3g1052 Chr3 22828953 22832479 +
Lapu Lapu3g02714 Chr3 49773745 49779855 -
Lasa Lasa7g03758 Chr7 613134574 613139892 +
Lja Lja5g2137 Chr5 30415131 30442134 -
Mal Mal2g0841 Chr2 9728212 9730562 +
Mepo Mepo2g03668 Chr2 46025249 46031583 +
Mesa Mesa13g01505 Chr13 17977990 17983750 -
Mibi Mibi06g0084 Chr06 1590103 1596278 +
Mtr Mtr3g3951 Chr3 53230747 53233610 -
Phco Phco4g02200 Chr4 42699606 42705224 -
Prci Prci3g1320 Chr3 21212086 21218980 -
Psa Psa5g0630 Chr5 50248584 50251374 +
Pste Pste3g02349 Chr3 16671819 16677262 +
Pumo Pumo6g01427 Chr6 19519147 19525101 -
Pvu Pvu2g1954 Chr2 34600086 34606020 -
Rops Rops2g01553 Chr2 23061868 23067451 -
Seca Seca12g05438 Chr12 145062107 145068036 +
Spst Spst3g00180 Chr3 3285009 3290539 -
Tpr Tpr7g0575 Chr7 4841775 4844914 +
Trre Trre7g04274 Chr7 50701392 50706809 +
Tsu Tsu07g00611 Chr07 4868030 4870997 +
Vian Vian1g02841 Chr1 44573200 44578205 -
Vifa Vifa6g01963 Chr6 727569838 727571543 -
Vimu Vimu11g01574 Chr11 19038318 19043348 +
Viun Viun3g02005 Chr3 15952743 15958028 +
Vivi Vivi5g04740 Chr5 146151638 146157118 -
Vvi Vvi4g0467 Chr4 4227123 4234518 -
Ahy Ahy16g3077 Chr16 146394478 146403413 -
Aip Aip06g03308 Chr06 129587995 129596119 -
Apr Apr9g0153 Chr9 2039565 2048201 -
Dod Dod08g1652 Chr08 39141118 39151471 -
Gma Gma17g01956 Chr17 34918304 34926620 -
Gma Gma04g00643 Chr04 5915348 5922812 +
Mal Mal2g0842 Chr2 9730921 9738402 -
Mal Mal1g5489 Chr1 129918111 129927784 -
Mtr Mtr3g3950 Chr3 53223044 53230706 +
Mtr Mtr1g0192 Chr1 2199677 2209270 -
Tpr Tpr7g0576 Chr7 4844947 4852902 -
Tpr Tpr1g3371 Chr1 38102238 38112524 -
Tsu Tsu01g00715 Chr01 6261081 6270102 +
Vvi Vvi4g0468 Chr4 4241393 4244043 -
Aed Aed6g1122 Chr6 15827239 15828695 -
Ahy Ahy16g3078 Chr16 146415616 146419240 -
Aip Aip06g03309 Chr06 129608852 129612054 -
Apr Apr9g0154 Chr9 2060734 2062343 -
Bva Bva06g02428 Chr06 15544041 15545437 +
Cca Cca05g00556 Chr05 12481151 12483701 +
Dod Dod08g1653 Chr08 39217823 39220412 -
Gma Gma17g01960 Chr17 35040742 35042934 -
Mal Mal1g5490 Chr1 129932863 129936132 -
Mtr Mtr1g0193 Chr1 2214252 2216284 -
Ssu Ssu5g0603 Chr5 13605755 13606949 +
Tpr Tpr1g3372 Chr1 38120358 38123522 -
Tsu Tsu01g00713 Chr01 6248627 6251403 +
Vra Vra6g1544 Chr6 30583495 30585046 -
Vvi Vvi4g0469 Chr4 4248280 4248846 +
Vvi Vvi4g0470 Chr4 4259429 4265236 +
Vvi Vvi4g0471 Chr4 4282427 4286094 +
Vvi Vvi4g0472 Chr4 4286954 4295628 +
Vvi Vvi4g0473 Chr4 4303780 4304499 -
Ahy Ahy16g3077 Chr16 146394478 146403413 -
Aip Aip06g03308 Chr06 129587995 129596119 -
Dod Dod08g1652 Chr08 39141118 39151471 -