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
Vvi18g2076 . . . . . Adu03g01045 . . . . Ahy13g1273 . Aip03g01392 . . . Amo13g1642 . . . . . . . . . Bva07g00225 . . . . . . . Dod03g2478 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g1109 . . . . . . . Mtr4g1024 . . . . . . . . . . . . . . . . . . Pvu11g0037 . . . . . . . . . . Tpr4g1156 . . . Tsu06g00887 . . Vian5g01873 . . . . . . . . . .
Vvi18g2077 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2078 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2079 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2080 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2081 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2082 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00227 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2083 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g2084 . . . . . . . . Aev04g3755 . Ahy13g1272 . Aip03g01391 . . . . . . . . . . . . . Bva07g00228 . . . . . . . Dod03g2479 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g1111 . . . . . . . Mtr4g1026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu06g00888 . . . . . . . . . . . . .
Vvi18g2085 . . . . . Adu03g01042 . . Aev04g2810 . Ahy13g1271 . Aip03g01390 . . . Amo13g1640 . . . . Arst3g01340 . . . . . Bva09g01874 . . . . . . Dod03g2480 . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu11g01127 . . . . . . . . . . . . Mal7g1112 . . . . . . . Mtr4g1027 . . . . Phco9g00076 . . . . . Pste1g00193 . . . . . Pumo11g02294 . Pvu11g0039 . Rops3g00054 . Seca6g00089 . Spst11g00323 . . . . Tpr4g1157 . . . Tsu06g00889 . . Vian5g01871 . . . Vimu5g02844 . Viun11g03021 . Vivi7g04973 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pste Pste1g00193 Chr1 706997 709180 +
Pste Pste1g00193 Chr1 706997 709180 +
Vvi Vvi18g2076 Chr18 28788286 28791205 -
Adu Adu03g01045 Chr03 11001068 11002633 +
Ahy Ahy13g1273 Chr13 15005180 15006756 +
Aip Aip03g01392 Chr03 14482716 14484301 +
Amo Amo13g1642 Chr13 22562830 22564360 +
Bva Bva07g00225 Chr07 3444009 3447729 -
Dod Dod03g2478 Chr03 56347199 56349774 -
Mal Mal7g1109 Chr7 33004538 33007553 -
Mtr Mtr4g1024 Chr4 12919999 12923276 -
Pvu Pvu11g0037 Chr11 273997 276175 -
Tpr Tpr4g1156 Chr4 11061945 11065245 -
Tsu Tsu06g00887 Chr06 7958603 7961950 -
Vian Vian5g01873 Chr5 40785019 40786832 +
Vvi Vvi18g2077 Chr18 28797526 28797918 -
Vvi Vvi18g2078 Chr18 28823586 28824407 -
Vvi Vvi18g2079 Chr18 28851987 28852224 -
Vvi Vvi18g2080 Chr18 28858729 28861355 -
Vvi Vvi18g2081 Chr18 28865934 28867784 -
Vvi Vvi18g2082 Chr18 28875254 28886307 -
Bva Bva07g00227 Chr07 3470413 3473677 +
Vvi Vvi18g2083 Chr18 28905474 28917298 +
Vvi Vvi18g2084 Chr18 28924147 28924671 +
Aev Aev04g3755 Chr04 34792082 34792796 -
Ahy Ahy13g1272 Chr13 14976704 14977643 -
Aip Aip03g01391 Chr03 14450820 14452031 -
Bva Bva07g00228 Chr07 3485405 3486169 +
Dod Dod03g2479 Chr03 56361601 56362803 +
Mal Mal7g1111 Chr7 33063579 33064259 +
Mtr Mtr4g1026 Chr4 12958596 12959511 +
Tsu Tsu06g00888 Chr06 7973551 7974426 +
Vvi Vvi18g2085 Chr18 28928371 28931032 +
Adu Adu03g01042 Chr03 10935446 10938373 -
Aev Aev04g2810 Chr04 27944610 27944951 -
Ahy Ahy13g1271 Chr13 14959269 14963781 -
Aip Aip03g01390 Chr03 14430725 14434512 -
Amo Amo13g1640 Chr13 22447809 22450990 -
Arst Arst3g01340 Chr3 11365734 11368661 -
Bva Bva09g01874 Chr09 13671574 13675141 +
Dod Dod03g2480 Chr03 56366560 56369815 +
Lapu Lapu11g01127 Chr11 13326149 13328267 -
Mal Mal7g1112 Chr7 33083706 33087716 +
Mtr Mtr4g1027 Chr4 12977422 12984005 +
Phco Phco9g00076 Chr9 506715 509792 +
Pste Pste1g00193 Chr1 706997 709180 +
Pumo Pumo11g02294 Chr11 55532789 55534861 -
Pvu Pvu11g0039 Chr11 283735 286471 +
Rops Rops3g00054 Chr3 758064 761320 +
Seca Seca6g00089 Chr6 2326850 2333185 +
Spst Spst11g00323 Chr11 11176367 11178225 +
Tpr Tpr4g1157 Chr4 11075337 11081560 +
Tsu Tsu06g00889 Chr06 7978539 7981847 +
Vian Vian5g01871 Chr5 40774621 40776377 -
Vimu Vimu5g02844 Chr5 37674920 37677052 -
Viun Viun11g03021 Chr11 41411200 41413423 -
Vivi Vivi7g04973 Chr7 131984561 131986922 +