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
Vvi16g0549 Acco08g1596 . Accr13g01553 . Adu03g01011 . Aed5g0062 . . . . . . . . . . . . . Arst3g01301 . . . Bisa02g2341 . . . . . Cca04g00070 . Dere07g1576 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu11g01099 . . . . . . . . . . . Lja3g0064 . . . . . . . Mibi07g1516 . . . . . . . . . . . . . . . . . Pumo11g02261 . Pvu11g0069 . Rops3g00092 . Seca6g00133 . Spst2g02956 . Ssu3g3286 . . . . . . . . . Vian5g01840 . . . Vimu5g02809 . Viun11g02988 . . . Vra2g0070 .
Vvi16g0550 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal9g0037 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr6g1046 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0551 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0552 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0553 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0554 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0555 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal7g1474 . . . . . . . Mtr4g1070 Mtr6g1045 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g1195 . . . Tsu06g00934 . . . . . . . . . . . . .
Vvi16g0556 . . . . Adu03g00902 . Aed5g0123 . Aev04g3663 . Ahy13g1130 . Aip03g01238 . . . Amo13g1448 . Apr5g0586 . Arst3g01169 . Bach9g01413 . . . . Bva07g00925 . . Cca04g00140 . . . Dod03g2589 . . . . . Gma09g02056 . . . Gso9g1840 . . . . . . . . . . . . . . . Lapu11g01035 . Lasa7g00949 . . . . . . . . . . . . . . . . . . . . . . . Phco9g00188 . . . . . Pste1g00600 . . . . . Pumo11g02187 . Pvu11g0158 . Rops3g00173 . Seca6g00278 . Spst2g02883 . Ssu3g3209 . Sto7g2389 . . . . . . . Vian5g01773 . Vifa6g00087 . Vimu5g02713 . Viun11g02855 . . . Vra2g0145 .
Vvi16g0557 . . . . . . . Aed11g1610 . Aev05g0867 . Ahy15g1009 . Aip05g01038 . . . . . . . . . . . . . . . Car06g03005 . Cca06g01683 . . . Dod02g0963 . . . . . . . . . . . . Lal1g0049 . . . . . Lan13g0063 . . . . . . . . . . . . . . . . . Lja3g0149 Lja2g0118 . Mal6g1564 . . . . . . . Mtr5g0429 . . . . . . Psa2g4031 . . . . . . . . . . . . . . . . . . Ssu2g2734 . . . Tpr2g5520 . . . Tsu05g00396 . . . . . . . . . . . Vra11g0383
Vvi16g0558 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal9g0037 Chr9 249510 260442 +
Vvi Vvi16g0549 Chr16 11016586 11018174 -
Acco Acco08g1596 Chr08 21640700 21645932 -
Accr Accr13g01553 Chr13 26325848 26330720 -
Adu Adu03g01011 Chr03 10402780 10406474 -
Aed Aed5g0062 Chr5 450247 452525 +
Arst Arst3g01301 Chr3 10833472 10837239 -
Bisa Bisa02g2341 Chr02 56369609 56387680 +
Cca Cca04g00070 Chr04 625800 628889 +
Dere Dere07g1576 Chr07 22601624 22605595 -
Lapu Lapu11g01099 Chr11 13128814 13132466 -
Lja Lja3g0064 Chr3 714091 718078 +
Mibi Mibi07g1516 Chr07 27702084 27708450 -
Pumo Pumo11g02261 Chr11 55184769 55188556 -
Pvu Pvu11g0069 Chr11 491217 495574 +
Rops Rops3g00092 Chr3 1109107 1112669 +
Seca Seca6g00133 Chr6 3477820 3482090 +
Spst Spst2g02956 Chr2 29330050 29332468 -
Ssu Ssu3g3286 Chr3 89375656 89379573 -
Vian Vian5g01840 Chr5 40582153 40585332 -
Vimu Vimu5g02809 Chr5 37496207 37497842 -
Viun Viun11g02988 Chr11 41231836 41235202 -
Vra Vra2g0070 Chr2 575494 580226 +
Vvi Vvi16g0550 Chr16 11038465 11040336 +
Lal Lal9g0037 Chr9 249510 260442 +
Mtr Mtr6g1046 Chr6 14262716 14266417 +
Vvi Vvi16g0551 Chr16 11063201 11063549 -
Vvi Vvi16g0552 Chr16 11081882 11083537 +
Vvi Vvi16g0553 Chr16 11163492 11164324 +
Vvi Vvi16g0554 Chr16 11166128 11166866 +
Vvi Vvi16g0555 Chr16 11176060 11179413 +
Mal Mal7g1474 Chr7 47135693 47139629 -
Mtr Mtr4g1070 Chr4 13913792 13917749 +
Mtr Mtr6g1045 Chr6 14250577 14253945 +
Tpr Tpr4g1195 Chr4 11455867 11459861 +
Tsu Tsu06g00934 Chr06 8444091 8447859 +
Vvi Vvi16g0556 Chr16 11185085 11218444 -
Adu Adu03g00902 Chr03 8954719 8958997 +
Aed Aed5g0123 Chr5 923515 928690 -
Aev Aev04g3663 Chr04 34186464 34190599 +
Ahy Ahy13g1130 Chr13 12730134 12734663 +
Aip Aip03g01238 Chr03 12283849 12288283 +
Amo Amo13g1448 Chr13 19422264 19426516 +
Apr Apr5g0586 Chr5 7977895 7983859 +
Arst Arst3g01169 Chr3 9037359 9041617 +
Bach Bach9g01413 Chr9 12400261 12405173 +
Bva Bva07g00925 Chr07 11365590 11370924 -
Cca Cca04g00140 Chr04 1302747 1308386 -
Dod Dod03g2589 Chr03 57535890 57541614 -
Gma Gma09g02056 Chr09 46203966 46209333 +
Gso Gso9g1840 Chr9 42822001 42827437 +
Lapu Lapu11g01035 Chr11 12645249 12650949 +
Lasa Lasa7g00949 Chr7 112935155 112943740 -
Phco Phco9g00188 Chr9 1227172 1232671 -
Pste Pste1g00600 Chr1 1954182 1960779 -
Pumo Pumo11g02187 Chr11 54290257 54296039 +
Pvu Pvu11g0158 Chr11 1209779 1215625 -
Rops Rops3g00173 Chr3 2359658 2365603 -
Seca Seca6g00278 Chr6 6965194 6966852 -
Spst Spst2g02883 Chr2 28636633 28647679 +
Ssu Ssu3g3209 Chr3 88199258 88204112 +
Sto Sto7g2389 Chr7 29440760 29447206 -
Vian Vian5g01773 Chr5 39993690 40002929 +
Vifa Vifa6g00087 Chr6 24316978 24327531 -
Vimu Vimu5g02713 Chr5 36910155 36916928 +
Viun Viun11g02855 Chr11 40536287 40541905 +
Vra Vra2g0145 Chr2 1131992 1138727 -
Vvi Vvi16g0557 Chr16 11248043 11248951 -
Aed Aed11g1610 Chr11 20119480 20123385 -
Aev Aev05g0867 Chr05 6068695 6070591 -
Ahy Ahy15g1009 Chr15 15469625 15471350 +
Aip Aip05g01038 Chr05 14941002 14942923 +
Car Car06g03005 Chr06 51463877 51465723 -
Cca Cca06g01683 Chr06 32100099 32102982 -
Dod Dod02g0963 Chr02 12214352 12217866 -
Lal Lal1g0049 Chr1 378568 380475 -
Lan Lan13g0063 Chr13 348312 350626 -
Lja Lja3g0149 Chr3 1565729 1567183 -
Lja Lja2g0118 Chr2 973979 975683 +
Mal Mal6g1564 Chr6 28794748 28795959 -
Mtr Mtr5g0429 Chr5 3934134 3935860 +
Psa Psa2g4031 Chr2 416640482 416642139 -
Ssu Ssu2g2734 Chr2 87793492 87795508 -
Tpr Tpr2g5520 Chr2 63982308 63984462 +
Tsu Tsu05g00396 Chr05 2970758 2972079 +
Vra Vra11g0383 Chr11 2795698 2798138 +
Vvi Vvi16g0558 Chr16 11280327 11280584 +