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
Vvi19g1020 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car01g01893 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1767 . . . . . . . Mtr2g2411 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr7g3386 . . . Tsu02g04093 . . . . . . . . . . . . .
Vvi19g1021 . . . . Adu07g02226 . . . . . . . . . . . . . . . Arst7g02843 . . . . . . Bva07g01535 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa1g04770 . . . . . . . . . . . . . Mepo6g02828 . Mesa5g01750 . . . . . . . Phco10g00639 . . . . . . . Pte17g00268 . . . Pumo4g03054 . Pvu5g0644 . Rops7g01559 . Seca4g06514 . . . . . . . . . Trre11g02821 . . . Vian11g01455 . Vifa1g08383 . . . Viun5g02301 . . . . .
Vvi19g1022 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal20g0406 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1023 Acco01g3140 . Accr1g02786 . . . . . . . . . . . Alju02g0903 . . . . . . . Bach13g00674 . Bisa12g0397 . . . . . . . Dere08g0250 . . . Enph3g0846 . Glsi14g0866 . . . . . . . . . . Lal1g1579 . . . . . . . . . . . . Lasa1g04768 . Lele09g0555 Lele10g0511 Lele11g0562 Lele12g0769 . . . . . . . . Mepo6g02829 . Mesa5g01748 . Mibi01g0800 . . . . . Phco10g00641 . Prci7g1656 . . . Pste3g02069 . . Pte15g01602 . . Pumo4g03056 . Pvu5g0645 . Rops7g01557 . Seca4g06511 . . . . . . Sto7g0094 . . Trre11g02817 . . . Vian11g01454 . Vifa1g08385 . . . Viun5g02305 . . . . .
Vvi19g1024 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1025 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1027 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma15g02318 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1028 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1029 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1020 Chr19 13989275 13992321 +
Car Car01g01893 Chr01 43227369 43248520 +
Mal Mal4g1767 Chr4 32196296 32211051 -
Mtr Mtr2g2411 Chr2 36292290 36305524 +
Tpr Tpr7g3386 Chr7 42094400 42112707 -
Tsu Tsu02g04093 Chr02 47590688 47604958 +
Vvi Vvi19g1021 Chr19 13993002 14016811 +
Adu Adu07g02226 Chr07 73763090 73777406 +
Arst Arst7g02843 Chr7 72626957 72629416 +
Bva Bva07g01535 Chr07 15026718 15038256 +
Lasa Lasa1g04770 Chr1 779995623 780011598 -
Mepo Mepo6g02828 Chr6 39115280 39124811 +
Mesa Mesa5g01750 Chr5 26823659 26837464 -
Phco Phco10g00639 Chr10 7357139 7373503 +
Pte Pte17g00268 Chr17 3585979 3598503 +
Pumo Pumo4g03054 Chr4 59473527 59490585 +
Pvu Pvu5g0644 Chr5 8844353 8859937 +
Rops Rops7g01559 Chr7 23303826 23324528 -
Seca Seca4g06514 Chr4 131365711 131384729 -
Trre Trre11g02821 Chr11 37265910 37278864 -
Vian Vian11g01455 Chr11 24451403 24463718 -
Vifa Vifa1g08383 Chr1 1308970037 1308989970 +
Viun Viun5g02301 Chr5 30733492 30749172 +
Vvi Vvi19g1022 Chr19 14064618 14065799 +
Lal Lal20g0406 Chr20 3267422 3268699 +
Vvi Vvi19g1023 Chr19 14066648 14073910 -
Acco Acco01g3140 Chr01 48888115 48894107 -
Accr Accr1g02786 Chr1 64780453 64786174 -
Alju Alju02g0903 Chr02 6747372 6752964 +
Bach Bach13g00674 Chr13 12238147 12242942 -
Bisa Bisa12g0397 Chr12 5614827 5621475 -
Dere Dere08g0250 Chr08 4543399 4553785 -
Enph Enph3g0846 Chr3 29757556 29764409 -
Glsi Glsi14g0866 Chr14 10199153 10217010 -
Lal Lal1g1579 Chr1 18180800 18188260 -
Lasa Lasa1g04768 Chr1 779812491 779819803 +
Lele Lele09g0555 Chr09 4195593 4201133 -
Lele Lele10g0511 Chr10 3701692 3707502 -
Lele Lele11g0562 Chr11 5584690 5590233 -
Lele Lele12g0769 Chr12 15737048 15751529 +
Mepo Mepo6g02829 Chr6 39131469 39138621 -
Mesa Mesa5g01748 Chr5 26811615 26818128 +
Mibi Mibi01g0800 Chr01 7849799 7855373 +
Phco Phco10g00641 Chr10 7378567 7384271 -
Prci Prci7g1656 Chr7 32147568 32154875 -
Pste Pste3g02069 Chr3 14257559 14264301 -
Pte Pte15g01602 Chr15 13677171 13682784 -
Pumo Pumo4g03056 Chr4 59499758 59505790 -
Pvu Pvu5g0645 Chr5 8892890 8899371 -
Rops Rops7g01557 Chr7 23291768 23298021 +
Seca Seca4g06511 Chr4 131307866 131314766 +
Sto Sto7g0094 Chr7 703573 709199 -
Trre Trre11g02817 Chr11 37232982 37241106 +
Vian Vian11g01454 Chr11 24443270 24448961 +
Vifa Vifa1g08385 Chr1 1309002093 1309007188 -
Viun Viun5g02305 Chr5 30846747 30852979 -
Vvi Vvi19g1024 Chr19 14478833 14479012 +
Vvi Vvi19g1025 Chr19 14503177 14503440 +
Vvi Vvi19g1026 Chr19 14506377 14506697 +
Vvi Vvi19g1027 Chr19 14523870 14525428 +
Gma Gma15g02318 Chr15 49041563 49045768 +
Vvi Vvi19g1028 Chr19 14534040 14537532 +
Vvi Vvi19g1029 Chr19 14539198 14539470 -