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
Vvi16g0599 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g00844 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g1157 . . . . . . . Mtr4g1051 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g2504 Tpr4g1183 . . . Tsu06g00922 . . . . . . . . . . . . .
Vvi16g0600 . . . . . . . . Aev04g3734 . Ahy13g1253 . Aip03g01372 . . . Amo13g1623 . . . . . . . . . . Bva07g00843 . Car06g03115 . . . . Dod03g2503 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g0050 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g2509 . . . . . . . . . . . . . . . . . .
Vvi16g0601 . . . . . . . . . . . . . . . . . . Apr5g0662 . . . . . . . . . . Car06g03116 . . . . . . . . . . Gma09g02123 . . . Gso9g1901 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g1155 . . . . . . . Mtr4g1050 . . . Phco9g00093 . . . . . Pste1g00511 . . . . . . . Pvu11g0057 . . . . . . . . . . . Tpr4g1182 . . . Tsu06g00921 . . . . . Vimu5g02822 . . . . . . .
Vvi16g0602 . . . . . . . . Aev04g3736 . Ahy13g1254 . Aip03g01373 . . . Amo13g1624 . . . Arst3g01318 . . . . . . Bva07g00841 . Car06g03117 . . . . Dod03g2502 . . . . . . . . . . . . . . . . . . . . . . . . . Lapu11g01111 . . . . . . . . . . . . . Mal7g1154 . . . . . . . Mtr4g1049 . . . Phco9g00092 . . . . . . . . . . . Pumo11g02273 . Pvu11g0056 . Rops3g00074 . . . Spst2g02968 . . . Sto7g2433 . Tpr4g1181 . . . Tsu06g00920 . Vian5g01854 . . . Vimu5g02826 . Viun11g03002 . . . . .
Vvi16g0603 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0604 . . . . Adu03g01025 . Aed5g0050 . . . . . . . . . . . Apr5g0663 . . . . . . . . . . Car06g03118 Cca04g00059 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g0049 . . . . . . . . . Mtr4g1048 . Phac11g00073 . . . . . . . Pste1g00272 . . . . . . . Pvu11g0055 . . . . . Spst2g02969 . Ssu3g3296 . . . Tpr4g1180 . . . Tsu06g00919 . . . . . Vimu5g02827 . . . . . Vra2g0060 .
Vvi16g0605 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0606 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0607 . . . . . . . . . . . . . . . . . . Apr5g0664 . . . . . . . . Bva07g00840 . Car06g03119 . . . . . . . . . . . . . . . . . . . . Lal9g0018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr4g1047 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g2434 . Tpr4g1179 . . . Tsu06g00918 . . . . . . . . . . . . .
Vvi16g0608 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Adu Adu03g01025 Chr03 10656146 10658713 +
Phac Phac11g00073 Chr11 510605 519286 -
Pste Pste1g00272 Chr1 943982 945976 -
Pvu Pvu11g0055 Chr11 396295 398045 -
Spst Spst2g02969 Chr2 29459586 29462750 +
Vimu Vimu5g02827 Chr5 37587151 37588426 +
Vvi Vvi16g0599 Chr16 12106596 12109136 -
Bva Bva07g00844 Chr07 10427987 10429882 +
Mal Mal7g1157 Chr7 36707346 36709613 -
Mtr Mtr4g1051 Chr4 13571589 13573683 -
Sto Sto4g2504 Chr4 26411055 26418547 -
Tpr Tpr4g1183 Chr4 11300862 11303233 -
Tsu Tsu06g00922 Chr06 8281349 8283535 -
Vvi Vvi16g0600 Chr16 12134008 12136218 -
Aev Aev04g3734 Chr04 34687195 34689488 -
Ahy Ahy13g1253 Chr13 14592735 14595203 -
Aip Aip03g01372 Chr03 14092487 14094800 -
Amo Amo13g1623 Chr13 22080750 22082948 -
Bva Bva07g00843 Chr07 10422322 10424681 +
Car Car06g03115 Chr06 56403638 56405781 +
Dod Dod03g2503 Chr03 56552220 56554551 +
Lja Lja3g0050 Chr3 569608 579229 +
Sto Sto4g2509 Chr4 26439022 26451511 -
Vvi Vvi16g0601 Chr16 12145022 12147069 +
Apr Apr5g0662 Chr5 9135473 9138485 +
Car Car06g03116 Chr06 56406736 56415042 +
Gma Gma09g02123 Chr09 46791417 46794340 +
Gso Gso9g1901 Chr9 43416344 43419305 +
Mal Mal7g1155 Chr7 36682324 36689033 -
Mtr Mtr4g1050 Chr4 13561932 13568572 -
Phco Phco9g00093 Chr9 613473 615996 -
Pste Pste1g00511 Chr1 1638200 1654665 +
Pvu Pvu11g0057 Chr11 406669 410157 -
Tpr Tpr4g1182 Chr4 11292817 11297791 -
Tsu Tsu06g00921 Chr06 8274914 8279233 -
Vimu Vimu5g02822 Chr5 37568785 37570649 +
Vvi Vvi16g0602 Chr16 12151101 12151388 +
Aev Aev04g3736 Chr04 34697230 34699854 +
Ahy Ahy13g1254 Chr13 14612075 14614937 +
Aip Aip03g01373 Chr03 14107928 14110136 +
Amo Amo13g1624 Chr13 22100653 22103709 +
Arst Arst3g01318 Chr3 11084823 11089001 +
Bva Bva07g00841 Chr07 10408141 10412578 -
Car Car06g03117 Chr06 56423469 56431109 +
Dod Dod03g2502 Chr03 56537140 56541494 -
Lapu Lapu11g01111 Chr11 13225314 13227025 +
Mal Mal7g1154 Chr7 36529819 36534945 -
Mtr Mtr4g1049 Chr4 13538298 13543216 -
Phco Phco9g00092 Chr9 609675 612159 -
Pumo Pumo11g02273 Chr11 55311243 55314634 +
Pvu Pvu11g0056 Chr11 401574 404036 -
Rops Rops3g00074 Chr3 929314 932204 -
Spst Spst2g02968 Chr2 29446377 29448136 +
Sto Sto7g2433 Chr7 29835686 29837882 +
Tpr Tpr4g1181 Chr4 11283190 11289399 -
Tsu Tsu06g00920 Chr06 8261288 8272383 -
Vian Vian5g01854 Chr5 40670002 40670999 +
Vimu Vimu5g02826 Chr5 37582281 37583002 +
Viun Viun11g03002 Chr11 41307032 41310056 +
Vvi Vvi16g0603 Chr16 12154929 12155520 -
Vvi Vvi16g0604 Chr16 12176866 12181868 +
Adu Adu03g01025 Chr03 10656146 10658713 +
Aed Aed5g0050 Chr5 384726 387046 -
Apr Apr5g0663 Chr5 9141471 9144688 +
Car Car06g03118 Chr06 56525808 56528355 +
Cca Cca04g00059 Chr04 532495 535612 -
Lja Lja3g0049 Chr3 548143 554065 -
Mtr Mtr4g1048 Chr4 13511641 13514791 -
Phac Phac11g00073 Chr11 510605 519286 -
Pste Pste1g00272 Chr1 943982 945976 -
Pvu Pvu11g0055 Chr11 396295 398045 -
Spst Spst2g02969 Chr2 29459586 29462750 +
Ssu Ssu3g3296 Chr3 89556047 89560740 +
Tpr Tpr4g1180 Chr4 11275767 11280677 -
Tsu Tsu06g00919 Chr06 8253575 8256718 -
Vimu Vimu5g02827 Chr5 37587151 37588426 +
Vra Vra2g0060 Chr2 504309 506432 -
Vvi Vvi16g0605 Chr16 12183938 12187223 -
Vvi Vvi16g0606 Chr16 12193949 12194176 +
Vvi Vvi16g0607 Chr16 12208897 12230837 +
Apr Apr5g0664 Chr5 9145582 9148332 +
Bva Bva07g00840 Chr07 10404192 10406950 -
Car Car06g03119 Chr06 56556704 56563832 +
Lal Lal9g0018 Chr9 96612 99344 -
Mtr Mtr4g1047 Chr4 13499014 13502827 -
Sto Sto7g2434 Chr7 29839284 29842774 +
Tpr Tpr4g1179 Chr4 11264976 11271390 -
Tsu Tsu06g00918 Chr06 8244014 8248158 -
Vvi Vvi16g0608 Chr16 12306986 12319898 +