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
Vvi3g0943 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0944 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0945 . . . . Adu10g00449 . . . Aev04g0730 . Ahy20g0650 . Aip10g00655 . . . . . . Apr1g1290 Arst10g00577 . Bach7g00802 . . . Bva13g00970 Bva14g01142 . Car01g00198 . . . . Dod03g0262 . . . . . Gma15g00580 Gma13g02257 . . Gso15g0525 Gso15g0525 . . . . . . Lal5g1790 . . . . . . . Lapu6g01135 . Lasa1g00273 . . . . . . . . . Lja6g3209 . . . Mepo6g00271 . Mesa5g04388 . . . . . Phac6g02859 . Phco11g00267 . . . . Psa1g4860 Pste2g01805 . Pte19g00856 . . . Pumo2g00989 . Pvu6g2057 . Rops11g00363 . Seca6g05051 . Spst6g00635 . . . Sto2g2824 . . . Trre3g00295 . . . Vian6g01902 . Vifa1g10674 . Vimu2g00506 . Viun6g02966 . Vivi1g08511 . . .
Vvi3g0946 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0947 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0948 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca09g01400 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra7g1556 .
Vvi3g0949 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0950 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0951 . . . . . . Aed10g2034 . . . . . . . . . . . . . . . . . . . . . . . Cca09g01402 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3980 . . . . . . . . Mtr4g3129 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu02g01682 . . . . . . . . . . . Vra7g1554 .
Vvi3g0952 . . . . . Adu03g03260 Aed10g2035 . . . . . . . . . . . . . . Arst3g04241 . . . . . . Car06g01434 . Cca09g01403 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3982 Mal7g3758 . . . . . . . Mtr4g3130 . . Phac2g03257 . Phco4g02457 . . . . . . . . . . . . Pvu6g2080 Pvu2g2211 . . . . . Spst3g00436 Ssu5g1863 . . . Tpr3g1712 . . . Tsu02g01681 . . . . Vifa6g02263 . Vimu11g03374 . . . . Vra7g1553 .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0943 Chr3 9672111 9672900 -
Vvi Vvi3g0944 Chr3 9675335 9678357 -
Vvi Vvi3g0945 Chr3 9698601 9706730 +
Adu Adu10g00449 Chr10 5195834 5198643 +
Aev Aev04g0730 Chr04 4491848 4494377 +
Ahy Ahy20g0650 Chr20 7086605 7089279 +
Aip Aip10g00655 Chr10 6856825 6859654 +
Apr Apr1g1290 Chr1 21826025 21829381 -
Arst Arst10g00577 Chr10 4845589 4848258 +
Bach Bach7g00802 Chr7 19235131 19239194 +
Bva Bva13g00970 Chr13 4668504 4671730 -
Bva Bva14g01142 Chr14 5550149 5554555 -
Car Car01g00198 Chr01 1526987 1530072 -
Dod Dod03g0262 Chr03 2773350 2776814 -
Gma Gma15g00580 Chr15 4804421 4807868 -
Gma Gma13g02257 Chr13 37426708 37429817 +
Gso Gso15g0525 Chr15 4722932 4726206 -
Gso Gso15g0525 Chr15 4722932 4726206 -
Lal Lal5g1790 Chr5 19815117 19818894 +
Lapu Lapu6g01135 Chr6 11310632 11313690 -
Lasa Lasa1g00273 Chr1 17652142 17654538 -
Lja Lja6g3209 Chr6 60488723 60491554 +
Mepo Mepo6g00271 Chr6 2616561 2619374 -
Mesa Mesa5g04388 Chr5 73077531 73080026 +
Phac Phac6g02859 Chr6 25395264 25398461 +
Phco Phco11g00267 Chr11 1743341 1745985 -
Psa Psa1g4860 Chr1 362273992 362276116 +
Pste Pste2g01805 Chr2 18451162 18454697 -
Pte Pte19g00856 Chr19 7072885 7076199 -
Pumo Pumo2g00989 Chr2 14986497 14989892 +
Pvu Pvu6g2057 Chr6 30367396 30370474 +
Rops Rops11g00363 Chr11 4960331 4963502 -
Seca Seca6g05051 Chr6 117761847 117765641 +
Spst Spst6g00635 Chr6 5757623 5760490 -
Sto Sto2g2824 Chr2 41774189 41776990 -
Trre Trre3g00295 Chr3 1956544 1959264 -
Vian Vian6g01902 Chr6 36268915 36271644 +
Vifa Vifa1g10674 Chr1 1793737794 1793740118 -
Vimu Vimu2g00506 Chr2 2888594 2891428 -
Viun Viun6g02966 Chr6 32595332 32598569 +
Vivi Vivi1g08511 Chr1 243514722 243517207 +
Vvi Vvi3g0946 Chr3 9707576 9708876 -
Vvi Vvi3g0947 Chr3 9711240 9711365 +
Vvi Vvi3g0948 Chr3 9739486 9741324 -
Cca Cca09g01400 Chr09 37303826 37305844 +
Vra Vra7g1556 Chr7 33661734 33663953 -
Vvi Vvi3g0949 Chr3 9743749 9744665 -
Vvi Vvi3g0950 Chr3 9755433 9755741 +
Vvi Vvi3g0951 Chr3 9757026 9757757 -
Aed Aed10g2034 Chr10 24278415 24280561 +
Cca Cca09g01402 Chr09 37329311 37331302 +
Lja Lja4g3980 Chr4 72914349 72916355 +
Mtr Mtr4g3129 Chr4 44850596 44853179 +
Tsu Tsu02g01682 Chr02 14813107 14821301 -
Vra Vra7g1554 Chr7 33590306 33592240 -
Vvi Vvi3g0952 Chr3 9762424 9767619 -
Adu Adu03g03260 Chr03 118961411 118968345 -
Aed Aed10g2035 Chr10 24284438 24286395 +
Arst Arst3g04241 Chr3 117692809 117699588 -
Car Car06g01434 Chr06 13931411 13933390 -
Cca Cca09g01403 Chr09 37334497 37338562 +
Lja Lja4g3982 Chr4 72919395 72921437 +
Mal Mal7g3758 Chr7 103254338 103256338 +
Mtr Mtr4g3130 Chr4 44854288 44856546 +
Phac Phac2g03257 Chr2 34118079 34120067 -
Phco Phco4g02457 Chr4 45714568 45718046 -
Pvu Pvu6g2080 Chr6 30532961 30535141 +
Pvu Pvu2g2211 Chr2 37699568 37700799 -
Spst Spst3g00436 Chr3 7468826 7469911 -
Ssu Ssu5g1863 Chr5 55239121 55240272 +
Tpr Tpr3g1712 Chr3 15196073 15198783 -
Tsu Tsu02g01681 Chr02 14810109 14812124 -
Vifa Vifa6g02263 Chr6 793358446 793360452 -
Vimu Vimu11g03374 Chr11 54517206 54517685 -
Vra Vra7g1553 Chr7 33574757 33576703 -