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
Vvi3g1313 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1314 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1315 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1316 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1317 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu6g0043 . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1318 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g1319 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0001 . . . . . . Aed10g0056 . . . Ahy16g3395 . Aip06g03647 . . . Amo16g4107 . Apr5g1088 Apr9g0032 . . . . . . Bva10g00165 . Car05g03118 Car04g03344 Cca03g01390 Cca05g00868 . . . . . . . . . . . Gma06g00773 . . . . . . Lal17g0327 . . . . . . . . . Lapu9g01723 . Lasa5g04321 . . . . . . . . . Lja1g3684 Lja5g3037 Mal2g0660 Mal1g5652 . . . . . . Mtr3g4100 Mtr1g0416 Phac9g02278 . Phco7g00955 Phco2g00895 . . Psa5g0920 . . Pste8g02119 Pte3g01012 . . . Pumo10g00969 . Pvu9g1139 Pvu1g0808 Rops10g01598 . Seca8g02751 . Spst9g00985 . . . Sto5g0669 Sto9g3161 Tpr7g0396 Tpr1g3585 . . Tsu07g00431 Tsu01g00497 Vian4g01795 . Vifa2g04258 . Vimu10g02709 . Viun9g02790 . Vivi3g00237 . Vra5g1013 .
Vvi4g0002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g1313 Chr3 19131286 19132932 +
Vvi Vvi3g1314 Chr3 19133930 19138456 -
Vvi Vvi3g1315 Chr3 19139401 19146141 -
Vvi Vvi3g1316 Chr3 19173710 19192428 +
Vvi Vvi3g1317 Chr3 19194826 19201508 -
Pvu Pvu6g0043 Chr6 1539118 1558251 +
Vvi Vvi3g1318 Chr3 19264109 19268337 -
Vvi Vvi3g1319 Chr3 19283809 19321588 -
Vvi Vvi4g0001 Chr4 11788 12294 -
Aed Aed10g0056 Chr10 383270 383776 -
Ahy Ahy16g3395 Chr16 150981939 150985420 +
Aip Aip06g03647 Chr06 133909361 133912166 +
Amo Amo16g4107 Chr16 153584563 153587904 +
Apr Apr5g1088 Chr5 15519179 15519945 +
Apr Apr9g0032 Chr9 434130 434681 +
Bva Bva10g00165 Chr10 3121316 3121819 +
Car Car05g03118 Chr05 75980059 75980784 -
Car Car04g03344 Chr04 61911738 61917647 +
Cca Cca03g01390 Chr03 32158497 32159298 +
Cca Cca05g00868 Chr05 23530312 23532958 +
Gma Gma06g00773 Chr06 7014041 7017112 -
Lal Lal17g0327 Chr17 2072200 2074036 -
Lapu Lapu9g01723 Chr9 32056071 32056553 +
Lasa Lasa5g04321 Chr5 651416619 651417119 -
Lja Lja1g3684 Chr1 46047111 46047614 +
Lja Lja5g3037 Chr5 59424079 59430098 +
Mal Mal2g0660 Chr2 7726385 7726900 +
Mal Mal1g5652 Chr1 132676972 132681937 +
Mtr Mtr3g4100 Chr3 54793979 54794730 -
Mtr Mtr1g0416 Chr1 4717767 4723785 +
Phac Phac9g02278 Chr9 21691374 21694280 +
Phco Phco7g00955 Chr7 7721665 7722147 -
Phco Phco2g00895 Chr2 10835388 10853559 +
Psa Psa5g0920 Chr5 70807166 70809468 +
Pste Pste8g02119 Chr8 18478563 18484219 -
Pte Pte3g01012 Chr3 8641109 8642363 +
Pumo Pumo10g00969 Chr10 12589466 12590906 -
Pvu Pvu9g1139 Chr9 16678533 16681194 -
Pvu Pvu1g0808 Chr1 11665940 11675364 +
Rops Rops10g01598 Chr10 29531533 29532291 -
Seca Seca8g02751 Chr8 73924780 73925274 -
Spst Spst9g00985 Chr9 8733223 8743347 -
Sto Sto5g0669 Chr5 4505594 4506058 +
Sto Sto9g3161 Chr9 32146090 32147535 +
Tpr Tpr7g0396 Chr7 3267611 3268315 +
Tpr Tpr1g3585 Chr1 40001820 40008852 +
Tsu Tsu07g00431 Chr07 3316052 3316564 +
Tsu Tsu01g00497 Chr01 4321668 4327854 -
Vian Vian4g01795 Chr4 34242770 34243267 +
Vifa Vifa2g04258 Chr2 1250784817 1250785338 -
Vimu Vimu10g02709 Chr10 38502095 38502592 +
Viun Viun9g02790 Chr9 36559902 36562863 +
Vivi Vivi3g00237 Chr3 4373930 4374739 -
Vra Vra5g1013 Chr5 16546892 16547446 +
Vvi Vvi4g0002 Chr4 16220 16770 +
Vvi Vvi4g0003 Chr4 17229 17540 +
Aed Aed10g0056 Chr10 383270 383776 -
Cca Cca03g01390 Chr03 32158497 32159298 +
Gma Gma06g00773 Chr06 7014041 7017112 -
Lal Lal17g0327 Chr17 2072200 2074036 -
Lapu Lapu9g01723 Chr9 32056071 32056553 +
Lasa Lasa5g04321 Chr5 651416619 651417119 -
Lja Lja1g3684 Chr1 46047111 46047614 +
Mal Mal2g0660 Chr2 7726385 7726900 +
Mtr Mtr3g4100 Chr3 54793979 54794730 -
Phac Phac9g02278 Chr9 21691374 21694280 +
Phco Phco7g00955 Chr7 7721665 7722147 -
Pte Pte3g01012 Chr3 8641109 8642363 +
Pumo Pumo10g00969 Chr10 12589466 12590906 -
Pvu Pvu9g1139 Chr9 16678533 16681194 -
Rops Rops10g01598 Chr10 29531533 29532291 -
Seca Seca8g02751 Chr8 73924780 73925274 -
Spst Spst9g00985 Chr9 8733223 8743347 -
Tpr Tpr7g0396 Chr7 3267611 3268315 +
Tsu Tsu07g00431 Chr07 3316052 3316564 +
Vian Vian4g01795 Chr4 34242770 34243267 +
Vifa Vifa2g04258 Chr2 1250784817 1250785338 -
Vimu Vimu10g02709 Chr10 38502095 38502592 +
Viun Viun9g02790 Chr9 36559902 36562863 +
Vivi Vivi3g00237 Chr3 4373930 4374739 -
Vra Vra5g1013 Chr5 16546892 16547446 +
Apr Apr5g1088 Chr5 15519179 15519945 +
Apr Apr9g0032 Chr9 434130 434681 +
Car Car05g03118 Chr05 75980059 75980784 -
Sto Sto5g0669 Chr5 4505594 4506058 +
Sto Sto9g3161 Chr9 32146090 32147535 +
Car Car04g03344 Chr04 61911738 61917647 +
Lja Lja5g3037 Chr5 59424079 59430098 +
Mal Mal1g5652 Chr1 132676972 132681937 +
Mtr Mtr1g0416 Chr1 4717767 4723785 +
Tpr Tpr1g3585 Chr1 40001820 40008852 +
Tsu Tsu01g00497 Chr01 4321668 4327854 -