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
Vvi19g0890 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car05g01191 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g2077 . . . . . . . . . . . . . . . . . . .
Vvi19g0891 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal2g3438 . . . . . . . Mtr3g1567 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr3g3831 . . . Tsu03g01014 . . . . . . . . . . . . .
Vvi19g0892 . Acco05g1120 . Accr3g01824 . Adu07g00125 Aed3g2616 . . Aev01g0838 . Ahy11g0503 . Aip01g00501 . Alju07g1097 . Amo11g0304 . Apr9g1864 . Arst7g00215 . Bach3g00985 . Bisa05g2072 Bva12g02579 . Car02g02169 Car05g01189 Cca05g02052 . . Dere05g1212 . Dod05g0646 . Enph7g0167 . Glsi10g1872 . . . Gma14g00103 . . . . . . . Lal3g0756 . . . . . . . . . Lapu6g02459 . Lasa2g02385 . . . . Lele25g1430 Lele26g1460 Lele27g0652 . Lja6g1212 . . . . Mepo7g02977 . . . Mibi08g0929 . Mtr8g1316 . . . Phco3g00120 . Prci2g2374 Psa5g3840 Psa2g0133 . Pste8g00230 . . . . . Pumo9g01759 . Pvu8g2910 . Rops9g00166 . Seca6g02867 . Spst8g01009 Ssu6g3610 . Sto9g2073 . . . . Trre9g05257 . . . Vian7g01081 . Vifa1g03625 . Vimu1g00266 . Viun8g03016 . Vivi7g02512 Vra6g0108 .
Vvi19g0893 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car01g01908 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0104 . . . . . . . . . . . . . . . . . .
Vvi19g0894 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0895 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0896 . . . Accr13g01131 . . Aed3g2615 . . . . . . . . Alju10g1150 . . . Apr9g1863 . Arst7g03015 . Bach9g00822 . Bisa02g2840 Bva12g02580 Bva07g01552 Car02g02168 . Cca05g02051 . . Dere07g1281 . . . Enph8g0294 . Glsi04g1281 . . . Gma14g00104 . . . . . . . . . . . . . . . . . . . . . . . . Lele29g0839 . Lele31g0691 . . . . Mal8g0177 . Mepo1g03031 . Mesa29g03407 . . . Mtr5g3462 . . . Phco9g01849 . . . Psa2g0134 . Pste1g04079 . . Pte1g01219 Pte17g00294 . Pumo11g00534 . Pvu11g1723 . . . Seca4g06303 . Spst11g00527 Ssu6g3609 . Sto9g2072 . . . . . . Tsu05g04102 . Vian5g00267 . Vifa4g00249 . Vimu5g00475 . . . Vivi7g00464 Vra6g0109 .
Vvi19g0897 . Acco05g1118 . Accr3g01825 . Adu07g00127 . . . Aev01g0839 . Ahy11g0504 . Aip01g00502 . Alju07g1096 . Amo11g0305 . Apr9g1862 . Arst7g00217 . Bach3g00983 . Bisa05g2071 Bva12g02581 . Car02g02167 Car05g01188 Cca05g02050 . . Dere05g1214 . Dod05g0647 . Enph7g0166 . Glsi10g1874 . . . Gma14g00105 . . . . . . . Lal3g0757 . . . . . . . . . Lapu6g02460 . Lasa2g02380 . . . . Lele25g1432 Lele26g1461 Lele27g0650 Lele28g1446 Lja6g1214 . Mal2g3441 Mal8g0178 . Mepo7g02975 . Mesa17g04574 . Mibi08g0928 Mtr3g1566 Mtr5g3461 . Phac8g03781 . Phco3g00122 . Prci2g2376 . Psa2g0137 . Pste8g00233 . . . . . Pumo9g01762 . Pvu8g2908 . Rops9g00168 . Seca6g02868 . Spst8g01007 Ssu6g3608 . Sto9g2071 . . . . Trre9g05253 . Tsu05g04099 . Vian7g01083 . Vifa1g03617 . Vimu1g00268 . Viun8g03014 . Vivi7g02516 Vra6g0110 .
Vvi19g0898 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca10g01984 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa5g00174 . . . . . . . . . . . . . Mepo5g02531 . Mesa9g00245 . . . . . . . Phco10g00043 . . . Psa5g5320 . Pste3g01295 . . . . . . . Pvu5g0039 . Rops7g02015 . Seca4g07818 . Spst5g01895 . Ssu8g1938 . . Sto5g1781 . . Trre5g00163 . . . Vian11g01226 . Vifa2g00054 . Vimu4g02312 . Viun1g00054 . Vivi3g07702 . Vra5g2696 .
Vvi19g0899 . . . . Adu04g00571 . . . . . . . . . . . . . . . Arst4g00871 . Bach7g01095 . . . . . . . Cca10g01983 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01729 . Lasa1g01113 . . . . . . . . . . Lja6g2580 . . Mepo6g01098 . Mesa5g03564 . . . . . . . Phco11g00978 . . . . . . . Pte19g00574 Pte2g00522 . . . . Pvu6g1401 . Rops11g01216 . Seca6g04293 . Spst6g01344 . Ssu8g1937 . . . . . Trre3g01285 . . . Vian6g01273 . Vifa1g09742 . Vimu2g01279 . . . Vivi4g03098 . Vra5g2695 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Accr Accr13g01131 Chr13 14011909 14013104 +
Alju Alju10g1150 Chr10 11706137 11707118 +
Arst Arst7g03015 Chr7 75956474 75960342 +
Arst Arst7g03015 Chr7 75956474 75960342 +
Bach Bach9g00822 Chr9 5820489 5824070 -
Bisa Bisa02g2840 Chr02 71855378 71858806 -
Dere Dere07g1281 Chr07 16514367 16518228 +
Enph Enph8g0294 Chr8 11615648 11620271 -
Glsi Glsi04g1281 Chr04 13331143 13334466 +
Lele Lele29g0839 Chr29 5617267 5620001 +
Lele Lele31g0691 Chr31 14785377 14788035 -
Mepo Mepo1g03031 Chr1 33694069 33697682 -
Mesa Mesa29g03407 Chr29 53302290 53304790 -
Phco Phco9g01849 Chr9 42954418 42956893 -
Pste Pste1g04079 Chr1 23799175 23802044 -
Pte Pte17g00294 Chr17 3999884 4003212 +
Pte Pte1g01219 Chr1 33284201 33287836 +
Pte Pte17g00294 Chr17 3999884 4003212 +
Pumo Pumo11g00534 Chr11 19127093 19127323 +
Pvu Pvu11g1723 Chr11 43548478 43552809 -
Seca Seca4g06303 Chr4 124855068 124858778 -
Seca Seca4g06303 Chr4 124855068 124858778 -
Spst Spst11g00527 Chr11 27227981 27231532 +
Vian Vian5g00267 Chr5 5734995 5737606 +
Vifa Vifa4g00249 Chr4 49770149 49772263 -
Vimu Vimu5g00475 Chr5 4795366 4797950 +
Vivi Vivi7g00464 Chr7 26700899 26704296 +
Vvi Vvi19g0890 Chr19 10302482 10304464 -
Car Car05g01191 Chr05 54778434 54781074 +
Sto Sto9g2077 Chr9 24670879 24680574 +
Vvi Vvi19g0891 Chr19 10312758 10314766 -
Mal Mal2g3438 Chr2 52113666 52116603 -
Mtr Mtr3g1567 Chr3 27480860 27483824 +
Tpr Tpr3g3831 Chr3 42764299 42767770 -
Tsu Tsu03g01014 Chr03 9393845 9396523 -
Vvi Vvi19g0892 Chr19 10331314 10331967 +
Acco Acco05g1120 Chr05 23165570 23166325 -
Accr Accr3g01824 Chr3 24486783 24487541 +
Adu Adu07g00125 Chr07 1153330 1153981 +
Aed Aed3g2616 Chr3 28106155 28106847 -
Aev Aev01g0838 Chr01 8211055 8211810 +
Ahy Ahy11g0503 Chr11 7363668 7365038 +
Aip Aip01g00501 Chr01 6974744 6975758 +
Alju Alju07g1097 Chr07 33967901 33968659 -
Amo Amo11g0304 Chr11 4615628 4620298 +
Apr Apr9g1864 Chr9 27354802 27355527 -
Arst Arst7g00215 Chr7 1304922 1306028 +
Bach Bach3g00985 Chr3 20291067 20291843 -
Bisa Bisa05g2072 Chr05 45468325 45469080 -
Bva Bva12g02579 Chr12 19162818 19163585 +
Car Car02g02169 Chr02 51877368 51878280 -
Car Car05g01189 Chr05 54703321 54706704 -
Cca Cca05g02052 Chr05 40283119 40284237 -
Dere Dere05g1212 Chr05 19470192 19470947 +
Dod Dod05g0646 Chr05 9669972 9670903 +
Enph Enph7g0167 Chr7 7301518 7302273 -
Glsi Glsi10g1872 Chr10 13067076 13067867 +
Gma Gma14g00103 Chr14 852672 853364 +
Lal Lal3g0756 Chr3 6514791 6515555 +
Lapu Lapu6g02459 Chr6 24488277 24489219 +
Lasa Lasa2g02385 Chr2 500456103 500456837 -
Lele Lele25g1430 Chr25 10485389 10486144 +
Lele Lele26g1460 Chr26 10366235 10366990 +
Lele Lele27g0652 Chr27 14475898 14476656 -
Lja Lja6g1212 Chr6 35696510 35697304 +
Mepo Mepo7g02977 Chr7 40722000 40722968 -
Mibi Mibi08g0929 Chr08 22190345 22191103 -
Mtr Mtr8g1316 Chr8 16213572 16219514 -
Phco Phco3g00120 Chr3 780151 780846 +
Prci Prci2g2374 Chr2 18825408 18826632 +
Psa Psa5g3840 Chr5 301969610 301970329 +
Psa Psa2g0133 Chr2 5085234 5086631 +
Pste Pste8g00230 Chr8 1264782 1265990 +
Pumo Pumo9g01759 Chr9 46741881 46742948 +
Pvu Pvu8g2910 Chr8 58814593 58815839 -
Rops Rops9g00166 Chr9 2148214 2149234 +
Seca Seca6g02867 Chr6 93952638 93953402 +
Spst Spst8g01009 Chr8 8760933 8761622 -
Ssu Ssu6g3610 Chr6 79776503 79777192 -
Sto Sto9g2073 Chr9 24639391 24640125 -
Trre Trre9g05257 Chr9 57577335 57578048 -
Vian Vian7g01081 Chr7 19040498 19041193 +
Vifa Vifa1g03625 Chr1 559854083 559854811 -
Vimu Vimu1g00266 Chr1 1550784 1551479 +
Viun Viun8g03016 Chr8 37429855 37431273 -
Vivi Vivi7g02512 Chr7 89083660 89084612 +
Vra Vra6g0108 Chr6 766101 767275 +
Vvi Vvi19g0893 Chr19 10332463 10337348 -
Car Car01g01908 Chr01 43601729 43605570 -
Sto Sto7g0104 Chr7 775212 777548 -
Vvi Vvi19g0894 Chr19 10385173 10387248 +
Vvi Vvi19g0895 Chr19 10387374 10388450 -
Vvi Vvi19g0896 Chr19 10399854 10401696 -
Accr Accr13g01131 Chr13 14011909 14013104 +
Aed Aed3g2615 Chr3 28095464 28105655 +
Alju Alju10g1150 Chr10 11706137 11707118 +
Apr Apr9g1863 Chr9 27351723 27353725 +
Arst Arst7g03015 Chr7 75956474 75960342 +
Bach Bach9g00822 Chr9 5820489 5824070 -
Bisa Bisa02g2840 Chr02 71855378 71858806 -
Bva Bva12g02580 Chr12 19166559 19168817 -
Bva Bva07g01552 Chr07 15128255 15131051 -
Car Car02g02168 Chr02 51873740 51876068 +
Cca Cca05g02051 Chr05 40280715 40282479 +
Dere Dere07g1281 Chr07 16514367 16518228 +
Enph Enph8g0294 Chr8 11615648 11620271 -
Glsi Glsi04g1281 Chr04 13331143 13334466 +
Gma Gma14g00104 Chr14 855929 857859 -
Lele Lele29g0839 Chr29 5617267 5620001 +
Lele Lele31g0691 Chr31 14785377 14788035 -
Mal Mal8g0177 Chr8 2866622 2868538 -
Mepo Mepo1g03031 Chr1 33694069 33697682 -
Mesa Mesa29g03407 Chr29 53302290 53304790 -
Mtr Mtr5g3462 Chr5 43471690 43473812 +
Phco Phco9g01849 Chr9 42954418 42956893 -
Psa Psa2g0134 Chr2 5094592 5098976 -
Pste Pste1g04079 Chr1 23799175 23802044 -
Pte Pte1g01219 Chr1 33284201 33287836 +
Pte Pte17g00294 Chr17 3999884 4003212 +
Pumo Pumo11g00534 Chr11 19127093 19127323 +
Pvu Pvu11g1723 Chr11 43548478 43552809 -
Seca Seca4g06303 Chr4 124855068 124858778 -
Spst Spst11g00527 Chr11 27227981 27231532 +
Ssu Ssu6g3609 Chr6 79773456 79775267 +
Sto Sto9g2072 Chr9 24636316 24637536 +
Tsu Tsu05g04102 Chr05 51748000 51750067 +
Vian Vian5g00267 Chr5 5734995 5737606 +
Vifa Vifa4g00249 Chr4 49770149 49772263 -
Vimu Vimu5g00475 Chr5 4795366 4797950 +
Vivi Vivi7g00464 Chr7 26700899 26704296 +
Vra Vra6g0109 Chr6 767794 770002 -
Vvi Vvi19g0897 Chr19 10402691 10418518 -
Acco Acco05g1118 Chr05 23148902 23158319 +
Accr Accr3g01825 Chr3 24509158 24518098 -
Adu Adu07g00127 Chr07 1158070 1162095 -
Aev Aev01g0839 Chr01 8214164 8227576 -
Ahy Ahy11g0504 Chr11 7366462 7372389 -
Aip Aip01g00502 Chr01 6977126 6981787 -
Alju Alju07g1096 Chr07 33951544 33960384 +
Amo Amo11g0305 Chr11 4621874 4627907 -
Apr Apr9g1862 Chr9 27344028 27351145 +
Arst Arst7g00217 Chr7 1309434 1315195 -
Bach Bach3g00983 Chr3 20280612 20286737 +
Bisa Bisa05g2071 Chr05 45411554 45418601 +
Bva Bva12g02581 Chr12 19169368 19175906 -
Car Car02g02167 Chr02 51866867 51873374 +
Car Car05g01188 Chr05 54696182 54701895 +
Cca Cca05g02050 Chr05 40272548 40278968 +
Dere Dere05g1214 Chr05 19476344 19485451 -
Dod Dod05g0647 Chr05 9676070 9684082 -
Enph Enph7g0166 Chr7 7289294 7296744 +
Glsi Glsi10g1874 Chr10 13083096 13092836 -
Gma Gma14g00105 Chr14 858693 865796 -
Lal Lal3g0757 Chr3 6519851 6526868 -
Lapu Lapu6g02460 Chr6 24490786 24498689 -
Lasa Lasa2g02380 Chr2 500394102 500394905 +
Lele Lele25g1432 Chr25 10530172 10538425 -
Lele Lele26g1461 Chr26 10370562 10379590 -
Lele Lele27g0650 Chr27 14436877 14445064 +
Lele Lele28g1446 Chr28 10617288 10619549 -
Lja Lja6g1214 Chr6 35720035 35727070 -
Mal Mal2g3441 Chr2 52149048 52154063 -
Mal Mal8g0178 Chr8 2869406 2875131 -
Mepo Mepo7g02975 Chr7 40710658 40716544 +
Mesa Mesa17g04574 Chr17 77001388 77007300 +
Mibi Mibi08g0928 Chr08 22164993 22175209 +
Mtr Mtr3g1566 Chr3 27465633 27472486 +
Mtr Mtr5g3461 Chr5 43463528 43471244 +
Phac Phac8g03781 Chr8 44003968 44010938 +
Phco Phco3g00122 Chr3 785644 792916 -
Prci Prci2g2376 Chr2 18853610 18862362 -
Psa Psa2g0137 Chr2 5135706 5141991 -
Pste Pste8g00233 Chr8 1275256 1283358 -
Pumo Pumo9g01762 Chr9 46746945 46754755 -
Pvu Pvu8g2908 Chr8 58803475 58810202 +
Rops Rops9g00168 Chr9 2154368 2161483 -
Seca Seca6g02868 Chr6 93959836 93964142 -
Spst Spst8g01007 Chr8 8748902 8755687 +
Ssu Ssu6g3608 Chr6 79765305 79772512 +
Sto Sto9g2071 Chr9 24626377 24633707 +
Trre Trre9g05253 Chr9 57550873 57556138 +
Tsu Tsu05g04099 Chr05 51734515 51739442 +
Vian Vian7g01083 Chr7 19045733 19052488 -
Vifa Vifa1g03617 Chr1 559568744 559573766 +
Vimu Vimu1g00268 Chr1 1555982 1562852 -
Viun Viun8g03014 Chr8 37417760 37425607 +
Vivi Vivi7g02516 Chr7 89097441 89104243 -
Vra Vra6g0110 Chr6 771464 779127 -
Vvi Vvi19g0898 Chr19 10434616 10443946 -
Cca Cca10g01984 Chr10 37819097 37829276 +
Lasa Lasa5g00174 Chr5 7953952 7958161 -
Mepo Mepo5g02531 Chr5 30677559 30685138 +
Mesa Mesa9g00245 Chr9 5226665 5234807 +
Phco Phco10g00043 Chr10 308838 316003 -
Psa Psa5g5320 Chr5 464333812 464338432 -
Pste Pste3g01295 Chr3 8141806 8150166 +
Pvu Pvu5g0039 Chr5 285677 294372 -
Rops Rops7g02015 Chr7 33598670 33610243 -
Seca Seca4g07818 Chr4 180312493 180314479 +
Spst Spst5g01895 Chr5 54640002 54650472 -
Ssu Ssu8g1938 Chr8 50353222 50362435 +
Sto Sto5g1781 Chr5 12936768 12945773 +
Trre Trre5g00163 Chr5 956736 962279 +
Vian Vian11g01226 Chr11 20028979 20036920 +
Vifa Vifa2g00054 Chr2 4493562 4497472 -
Vimu Vimu4g02312 Chr4 24972912 24979324 +
Viun Viun1g00054 Chr1 447812 456416 -
Vivi Vivi3g07702 Chr3 213914029 213918637 +
Vra Vra5g2696 Chr5 33625182 33632683 +
Vvi Vvi19g0899 Chr19 10456601 10463224 +
Adu Adu04g00571 Chr04 7111528 7114605 +
Arst Arst4g00871 Chr4 7089670 7093356 +
Bach Bach7g01095 Chr7 21828405 21832429 -
Cca Cca10g01983 Chr10 37797677 37802686 -
Lapu Lapu6g01729 Chr6 17127479 17132901 +
Lasa Lasa1g01113 Chr1 91107896 91112800 -
Lja Lja6g2580 Chr6 54541906 54547537 +
Mepo Mepo6g01098 Chr6 11726911 11735219 +
Mesa Mesa5g03564 Chr5 62726317 62731665 -
Phco Phco11g00978 Chr11 7193598 7199183 +
Pte Pte19g00574 Chr19 4546843 4552106 +
Pte Pte2g00522 Chr2 3992807 3993235 +
Pvu Pvu6g1401 Chr6 24899269 24904081 -
Rops Rops11g01216 Chr11 17989328 18005413 +
Seca Seca6g04293 Chr6 110670231 110673736 +
Spst Spst6g01344 Chr6 12365181 12369225 +
Ssu Ssu8g1937 Chr8 50322406 50326004 -
Trre Trre3g01285 Chr3 9759045 9761670 +
Vian Vian6g01273 Chr6 30342876 30346944 -
Vifa Vifa1g09742 Chr1 1576962527 1576966822 -
Vimu Vimu2g01279 Chr2 8547982 8552171 +
Vivi Vivi4g03098 Chr4 142790860 142795823 -
Vra Vra5g2695 Chr5 33618010 33622410 -