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
Vvi4g0804 . . . . Adu07g01109 . . Aed3g1977 . Aev07g2238 . Ahy17g1256 . Aip07g01190 . . . Amo17g0628 . . Arst7g01499 . Bach3g01040 . . . Bva13g01413 . . . . Cca05g01388 . . . Dod08g0902 . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g01411 . . . . . . . . . . . . . Mepo7g02016 . Mesa17g03331 . . . . . Phac8g03224 . Phco3g00509 . . . . . Pste8g01557 . . . . . Pumo9g02549 . Pvu8g2511 . Rops9g01099 . Seca8g01263 . Spst8g00272 . . Ssu6g2807 Sto5g1754 . . . . . . . Vian7g01749 . Vifa1g01583 . Vimu1g01201 . Viun8g02059 . Vivi7g01697 . . Vra6g0787
Vvi4g0805 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0806 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0807 Acco05g1229 . Accr3g01720 . Adu07g01105 . . Aed3g1979 . Aev07g2239 . Ahy17g1255 . Aip07g01188 Alju07g1175 . . Amo17g0625 . . Arst7g01497 . Bach3g01042 . . . . . . . . Cca05g01389 Dere05g1151 . . Dod08g0901 Enph7g0219 . Glsi10g1816 . . . . . . . . . . . . . . . . . . . . . . . Lasa2g01413 . Lele25g1384 Lele26g1403 Lele27g0706 Lele28g1388 . . . . . . . . Mepo7g02017 . Mesa17g03332 . Mibi08g1013 . . . . . Phco3g00510 . Prci2g2254 . . . Pste8g01556 . Pte16g00725 . . . Pumo9g02546 . Pvu8g2510 . . . Seca8g01258 . Spst8g00273 . . Ssu6g2808 . . . . . . . . . . Vifa1g01585 . Vimu1g01199 . Viun8g02060 . Vivi7g01698 . . .
Vvi4g0808 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0809 Acco05g1247 . Accr3g01707 . Adu07g01101 . . Aed3g1981 . Aev07g2240 . Ahy17g1252 . Aip07g01184 Alju07g1185 . . Amo17g0620 . . Arst7g01490 . . . Bisa05g1384 . Bva13g01407 . . . . Cca05g01390 Dere05g1145 . . . Enph7g0222 . Glsi10g1808 . . . . . . . . . . . . . . . . . . . . . . . Lasa2g01414 . Lele25g1378 Lele26g1396 Lele27g0710 Lele28g1381 . . . . . . . . Mepo7g02018 . Mesa17g03333 . Mibi08g1022 . . . . . Phco3g00511 . . . . . Pste8g01554 . Pte16g00728 Pte8g00555 . . Pumo9g02543 . Pvu8g2509 . Rops9g01098 . Seca6g02428 . Spst8g00274 . . Ssu6g2809 Sto5g1747 Sto9g2336 . . . . . . Vian7g01748 . Vifa1g01588 . Vimu1g01197 . Viun8g02061 . Vivi7g01699 . . Vra6g0786
Vvi4g0810 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0811 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g01402 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0812 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g01401 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1741 . . . . . . . . . . . . . . . . . . .
Vvi4g0813 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0804 Chr4 9767135 9767557 -
Adu Adu07g01109 Chr07 15939777 15942647 -
Aed Aed3g1977 Chr3 23908847 23910535 -
Aev Aev07g2238 Chr07 23359365 23361656 -
Ahy Ahy17g1256 Chr17 19193177 19196853 -
Aip Aip07g01190 Chr07 17496988 17500337 -
Amo Amo17g0628 Chr17 13485586 13488843 -
Arst Arst7g01499 Chr7 16049378 16051901 -
Bach Bach3g01040 Chr3 20852652 20854313 -
Bva Bva13g01413 Chr13 7420110 7422631 +
Cca Cca05g01388 Chr05 32164728 32166971 -
Dod Dod08g0902 Chr08 11030007 11032204 +
Lasa Lasa2g01411 Chr2 454504373 454506064 -
Mepo Mepo7g02016 Chr7 30384940 30386628 +
Mesa Mesa17g03331 Chr17 58728918 58731207 +
Phac Phac8g03224 Chr8 40597967 40599616 +
Phco Phco3g00509 Chr3 3943225 3944874 -
Pste Pste8g01557 Chr8 8871046 8872743 +
Pumo Pumo9g02549 Chr9 60451005 60459689 +
Pvu Pvu8g2511 Chr8 55691088 55693390 +
Rops Rops9g01099 Chr9 18039706 18041711 +
Seca Seca8g01263 Chr8 19551059 19552702 -
Spst Spst8g00272 Chr8 2380581 2382224 -
Ssu Ssu6g2807 Chr6 65149297 65150955 -
Sto Sto5g1754 Chr5 12682342 12684030 +
Vian Vian7g01749 Chr7 27427689 27429344 +
Vifa Vifa1g01583 Chr1 260863879 260865528 +
Vimu Vimu1g01201 Chr1 9385893 9387548 +
Viun Viun8g02059 Chr8 31099578 31101771 -
Vivi Vivi7g01697 Chr7 74982229 74984086 -
Vra Vra6g0787 Chr6 7700588 7702862 +
Vvi Vvi4g0805 Chr4 9772532 9772785 -
Vvi Vvi4g0806 Chr4 9819454 9820188 -
Vvi Vvi4g0807 Chr4 9836538 9838304 +
Acco Acco05g1229 Chr05 25406708 25409701 +
Accr Accr3g01720 Chr3 22209933 22211588 -
Adu Adu07g01105 Chr07 15846514 15848390 +
Aed Aed3g1979 Chr3 23933886 23935544 -
Aev Aev07g2239 Chr07 23367708 23369363 -
Ahy Ahy17g1255 Chr17 19146427 19148486 +
Aip Aip07g01188 Chr07 17452573 17454222 +
Alju Alju07g1175 Chr07 35353027 35355408 +
Amo Amo17g0625 Chr17 13438174 13440366 +
Arst Arst7g01497 Chr7 15955758 15957725 +
Bach Bach3g01042 Chr3 20857630 20859288 -
Cca Cca05g01389 Chr05 32197549 32199369 +
Dere Dere05g1151 Chr05 18544904 18546562 +
Dod Dod08g0901 Chr08 11010312 11012894 +
Enph Enph7g0219 Chr7 7969210 7970856 -
Glsi Glsi10g1816 Chr10 12599674 12601268 +
Lasa Lasa2g01413 Chr2 455123576 455125225 -
Lele Lele25g1384 Chr25 9904519 9912651 -
Lele Lele26g1403 Chr26 9856690 9858336 -
Lele Lele27g0706 Chr27 15079493 15082945 -
Lele Lele28g1388 Chr28 10016053 10025354 -
Mepo Mepo7g02017 Chr7 30396009 30398306 -
Mesa Mesa17g03332 Chr17 58744080 58745774 -
Mibi Mibi08g1013 Chr08 23676629 23679233 +
Phco Phco3g00510 Chr3 3953155 3954816 -
Prci Prci2g2254 Chr2 17608187 17610336 -
Pste Pste8g01556 Chr8 8856933 8858594 +
Pte Pte16g00725 Chr16 24131137 24133583 -
Pumo Pumo9g02546 Chr9 60408228 60409850 +
Pvu Pvu8g2510 Chr8 55681687 55683768 +
Seca Seca8g01258 Chr8 19455971 19457614 +
Spst Spst8g00273 Chr8 2420811 2422466 -
Ssu Ssu6g2808 Chr6 65167429 65170991 -
Vifa Vifa1g01585 Chr1 261087374 261089065 -
Vimu Vimu1g01199 Chr1 9340949 9345885 +
Viun Viun8g02060 Chr8 31115405 31117363 -
Vivi Vivi7g01698 Chr7 75064457 75066462 -
Vvi Vvi4g0808 Chr4 9842300 9842587 +
Vvi Vvi4g0809 Chr4 10021696 10031221 +
Acco Acco05g1247 Chr05 25634302 25636795 -
Accr Accr3g01707 Chr3 21941915 21944518 +
Adu Adu07g01101 Chr07 15764196 15766858 +
Aed Aed3g1981 Chr3 23937757 23941034 -
Aev Aev07g2240 Chr07 23374027 23374830 -
Ahy Ahy17g1252 Chr17 19001766 19004481 +
Aip Aip07g01184 Chr07 17279139 17281842 +
Alju Alju07g1185 Chr07 35602622 35604840 -
Amo Amo17g0620 Chr17 13291788 13294527 +
Arst Arst7g01490 Chr7 15873504 15876118 +
Bisa Bisa05g1384 Chr05 24411726 24417887 -
Bva Bva13g01407 Chr13 7399215 7400768 +
Cca Cca05g01390 Chr05 32200940 32207184 -
Dere Dere05g1145 Chr05 18447042 18449835 +
Enph Enph7g0222 Chr7 7992156 7996231 -
Glsi Glsi10g1808 Chr10 12542622 12545761 +
Lasa Lasa2g01414 Chr2 455199421 455201944 +
Lele Lele25g1378 Chr25 9846236 9846962 +
Lele Lele26g1396 Chr26 9791482 9795098 +
Lele Lele27g0710 Chr27 15108535 15111104 -
Lele Lele28g1381 Chr28 9948994 9951696 +
Mepo Mepo7g02018 Chr7 30414949 30419695 +
Mesa Mesa17g03333 Chr17 58750484 58754634 +
Mibi Mibi08g1022 Chr08 23912315 23915316 -
Phco Phco3g00511 Chr3 3961520 3964318 -
Pste Pste8g01554 Chr8 8844806 8849084 +
Pte Pte16g00728 Chr16 24168670 24171534 -
Pte Pte8g00555 Chr8 27186014 27186823 -
Pumo Pumo9g02543 Chr9 60376188 60379383 +
Pvu Pvu8g2509 Chr8 55673702 55676549 +
Rops Rops9g01098 Chr9 18009074 18012063 -
Seca Seca6g02428 Chr6 87036647 87038096 +
Spst Spst8g00274 Chr8 2430108 2432815 -
Ssu Ssu6g2809 Chr6 65210914 65255782 -
Sto Sto5g1747 Chr5 12633471 12636144 +
Sto Sto9g2336 Chr9 26609982 26610911 -
Vian Vian7g01748 Chr7 27378543 27381086 +
Vifa Vifa1g01588 Chr1 261937089 261938632 +
Vimu Vimu1g01197 Chr1 9317935 9321338 +
Viun Viun8g02061 Chr8 31127794 31130719 -
Vivi Vivi7g01699 Chr7 75077589 75080677 +
Vra Vra6g0786 Chr6 7676475 7680457 +
Vvi Vvi4g0810 Chr4 10048691 10052546 +
Vvi Vvi4g0811 Chr4 10077284 10086081 -
Bva Bva13g01402 Chr13 7364180 7369620 -
Vvi Vvi4g0812 Chr4 10121389 10126073 -
Bva Bva13g01401 Chr13 7353913 7359787 -
Sto Sto5g1741 Chr5 12589367 12594339 -
Vvi Vvi4g0813 Chr4 10148036 10148398 +