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
Vvi3g0863 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0864 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0865 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0866 . . . . . Adu05g01345 . Aed11g1941 . Aev05g1250 . Ahy15g1313 . Aip05g01385 . . . Amo15g0066 . . . Arst5g01718 . . . . Bva13g00415 Bva14g00506 Car06g01470 . . Cca06g02027 . . . Dod02g1394 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco4g00045 . . Psa7g2453 . . Pste1g00754 . . . Pte19g00451 . Pumo8g02593 . Pvu2g0523 . . . . . Spst2g00046 . Ssu2g3142 Sto2g0477 . . . . . . . . Vian10g00040 . . . Vimu7g02189 . Viun2g02926 . . . Vra11g0046
Vvi3g0867 . . . . Adu09g02574 . Aed1g2037 . Aev09g2442 . Ahy19g3354 . Aip09g03822 . . . Amo19g4245 . Apr8g2394 . Arst9g03405 . Bach11g00365 . . . Bva13g00416 Bva14g00507 Car04g01398 . Cca02g02473 . . . Dod06g0521 . . . . . . . . . . . . . . . . . Lal12g0369 . . . . . . . Lapu7g02251 . Lasa6g04398 . . . . . . . . . Lja5g0462 . . Mal1g0603 Mepo4g04503 . Mesa1g04930 . . . . Mtr1g4002 . . Phco6g02728 . . . . . Pste4g01289 . . . . . Pumo3g00698 . Pvu7g0481 . Rops6g03029 . Seca8g07660 . Spst10g01229 . Ssu7g0537 . . . . Tpr1g0505 Trre1g05745 . . Tsu01g04679 Vian3g00436 . Vifa3g03265 . . . Viun7g03552 . Vivi1g03995 . Vra8g2378 .
Vvi3g0868 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0869 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0870 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00417 . . . . Cca06g02026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g00486 . . . . . Pumo8g02591 . Pvu2g0522 . . . . . Spst2g00047 . Ssu2g3140 . Sto10g0389 . . . . . . . Vian10g00041 . . . . . Viun2g02924 . . . Vra11g0047
Vvi3g0871 . . . . Adu09g02573 . Aed1g2038 . Aev09g2441 . Ahy19g3355 . Aip09g03823 . . . Amo19g4244 . Apr8g2393 . Arst9g03404 . Bach11g00367 . . . Bva13g00418 Bva14g00509 Car04g01396 . Cca02g02472 . . . Dod06g0522 . . . . . . . . . . . . . Lal15g0576 . . . . . Lan18g0602 . . . . . Lapu7g02250 . Lasa6g04396 . . . . . . . . . Lja5g0463 . . Mal1g0605 Mepo4g04501 . . . . . . Mtr1g4001 . . Phco6g02726 . . . Psa6g4872 . Pste4g01295 . . . . . Pumo3g00699 . Pvu7g0482 . Rops6g03026 . Seca8g07659 . Spst10g01228 . Ssu7g0538 . . Sto10g0391 . Tpr1g0506 Trre1g05744 . . Tsu01g04678 Vian3g00437 . Vifa3g03264 . Vimu3g03326 . Viun7g03551 . Vivi1g03996 . Vra8g2377 .
Vvi3g0872 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pste Pste1g00486 Chr1 1581167 1583750 +
Vvi Vvi3g0863 Chr3 8315466 8315835 -
Vvi Vvi3g0864 Chr3 8321447 8322770 +
Vvi Vvi3g0865 Chr3 8330155 8335645 -
Vvi Vvi3g0866 Chr3 8343002 8347561 +
Adu Adu05g01345 Chr05 20272239 20274432 -
Aed Aed11g1941 Chr11 22191099 22192098 -
Aev Aev05g1250 Chr05 8799561 8802734 -
Ahy Ahy15g1313 Chr15 21478838 21481636 -
Aip Aip05g01385 Chr05 20701369 20703337 -
Amo Amo15g0066 Chr15 2283057 2285025 +
Arst Arst5g01718 Chr5 20320765 20322970 -
Bva Bva13g00415 Chr13 1917959 1921564 +
Bva Bva14g00506 Chr14 2419777 2423638 +
Car Car06g01470 Chr06 14217973 14221068 +
Cca Cca06g02027 Chr06 35516001 35522879 -
Dod Dod02g1394 Chr02 16799309 16802758 -
Phco Phco4g00045 Chr4 283625 287186 +
Psa Psa7g2453 Chr7 173482166 173483943 +
Pste Pste1g00754 Chr1 2357343 2361328 +
Pte Pte19g00451 Chr19 3631145 3634120 +
Pumo Pumo8g02593 Chr8 63142583 63144110 -
Pvu Pvu2g0523 Chr2 4709290 4713318 -
Spst Spst2g00046 Chr2 398803 402326 +
Ssu Ssu2g3142 Chr2 93571117 93572627 -
Sto Sto2g0477 Chr2 4154605 4159371 -
Vian Vian10g00040 Chr10 295319 298805 +
Vimu Vimu7g02189 Chr7 19261301 19266592 +
Viun Viun2g02926 Chr2 33526025 33529571 -
Vra Vra11g0046 Chr11 342457 346456 +
Vvi Vvi3g0867 Chr3 8350298 8351989 +
Adu Adu09g02574 Chr09 113316904 113318328 -
Aed Aed1g2037 Chr1 17149399 17150775 +
Aev Aev09g2442 Chr09 26384651 26386114 -
Ahy Ahy19g3354 Chr19 156466992 156468883 +
Aip Aip09g03822 Chr09 144827370 144828791 +
Amo Amo19g4245 Chr19 159187696 159189703 -
Apr Apr8g2394 Chr8 34205428 34207895 -
Arst Arst9g03405 Chr9 111213358 111215170 -
Bach Bach11g00365 Chr11 2469430 2470944 +
Bva Bva13g00416 Chr13 1928186 1929993 +
Bva Bva14g00507 Chr14 2424160 2426043 +
Car Car04g01398 Chr04 14297496 14299460 -
Cca Cca02g02473 Chr02 45869517 45871384 -
Dod Dod06g0521 Chr06 6308256 6310109 +
Lal Lal12g0369 Chr12 2628353 2629663 -
Lapu Lapu7g02251 Chr7 38837901 38840988 -
Lasa Lasa6g04398 Chr6 639568999 639570333 -
Lja Lja5g0462 Chr5 4081117 4082842 +
Mal Mal1g0603 Chr1 6967355 6968728 +
Mepo Mepo4g04503 Chr4 54761320 54763236 -
Mesa Mesa1g04930 Chr1 76192088 76193434 -
Mtr Mtr1g4002 Chr1 51640471 51642385 -
Phco Phco6g02728 Chr6 48744139 48745518 -
Pste Pste4g01289 Chr4 9463216 9464589 +
Pumo Pumo3g00698 Chr3 10351853 10355417 +
Pvu Pvu7g0481 Chr7 3808187 3810148 +
Rops Rops6g03029 Chr6 53341238 53343063 -
Seca Seca8g07660 Chr8 173916493 173917821 -
Spst Spst10g01229 Chr10 13070779 13072242 -
Ssu Ssu7g0537 Chr7 9870123 9871514 +
Tpr Tpr1g0505 Chr1 4250318 4252154 +
Trre Trre1g05745 Chr1 62384003 62387235 -
Tsu Tsu01g04679 Chr01 54139795 54141787 -
Vian Vian3g00436 Chr3 4108596 4109975 +
Vifa Vifa3g03265 Chr3 935037920 935039212 -
Viun Viun7g03552 Chr7 36933105 36935999 -
Vivi Vivi1g03995 Chr1 84143640 84145410 +
Vra Vra8g2378 Chr8 41962108 41965156 -
Vvi Vvi3g0868 Chr3 8371381 8372170 +
Vvi Vvi3g0869 Chr3 8375211 8376237 +
Vvi Vvi3g0870 Chr3 8403175 8407939 +
Bva Bva13g00417 Chr13 1931013 1933791 +
Cca Cca06g02026 Chr06 35513165 35515615 -
Pste Pste1g00486 Chr1 1581167 1583750 +
Pumo Pumo8g02591 Chr8 63135881 63137094 -
Pvu Pvu2g0522 Chr2 4706266 4708406 -
Spst Spst2g00047 Chr2 402661 405133 +
Ssu Ssu2g3140 Chr2 93559523 93561784 -
Sto Sto10g0389 Chr10 3138373 3141001 +
Vian Vian10g00041 Chr10 299193 300859 +
Viun Viun2g02924 Chr2 33523775 33525963 -
Vra Vra11g0047 Chr11 346326 348020 +
Vvi Vvi3g0871 Chr3 8412114 8414515 +
Adu Adu09g02573 Chr09 113305979 113308678 -
Aed Aed1g2038 Chr1 17155453 17157806 +
Aev Aev09g2441 Chr09 26380748 26382931 -
Ahy Ahy19g3355 Chr19 156470460 156472858 +
Aip Aip09g03823 Chr09 144830714 144833412 +
Amo Amo19g4244 Chr19 159183632 159186382 -
Apr Apr8g2393 Chr8 34200378 34203322 -
Arst Arst9g03404 Chr9 111202849 111205407 -
Bach Bach11g00367 Chr11 2476885 2479014 +
Bva Bva13g00418 Chr13 1934629 1937516 +
Bva Bva14g00509 Chr14 2430332 2433068 +
Car Car04g01396 Chr04 14287934 14290884 -
Cca Cca02g02472 Chr02 45855547 45859462 -
Dod Dod06g0522 Chr06 6322301 6324932 +
Lal Lal15g0576 Chr15 3972971 3977902 -
Lan Lan18g0602 Chr18 11052059 11057335 +
Lapu Lapu7g02250 Chr7 38832733 38836202 -
Lasa Lasa6g04396 Chr6 639472064 639474252 -
Lja Lja5g0463 Chr5 4086391 4090186 +
Mal Mal1g0605 Chr1 6983769 6986025 +
Mepo Mepo4g04501 Chr4 54751570 54754373 -
Mtr Mtr1g4001 Chr1 51624125 51626773 -
Phco Phco6g02726 Chr6 48739061 48741156 -
Psa Psa6g4872 Chr6 426169172 426172133 +
Pste Pste4g01295 Chr4 9491184 9493349 +
Pumo Pumo3g00699 Chr3 10358564 10361147 +
Pvu Pvu7g0482 Chr7 3813002 3815344 +
Rops Rops6g03026 Chr6 53307561 53309965 -
Seca Seca8g07659 Chr8 173906364 173908622 -
Spst Spst10g01228 Chr10 13065685 13067888 -
Ssu Ssu7g0538 Chr7 9881638 9883858 +
Sto Sto10g0391 Chr10 3147182 3147733 +
Tpr Tpr1g0506 Chr1 4259230 4261915 +
Trre Trre1g05744 Chr1 62377268 62379415 -
Tsu Tsu01g04678 Chr01 54130466 54133414 -
Vian Vian3g00437 Chr3 4113040 4115136 +
Vifa Vifa3g03264 Chr3 934976194 934978314 -
Vimu Vimu3g03326 Chr3 46700937 46702370 -
Viun Viun7g03551 Chr7 36925786 36928168 -
Vivi Vivi1g03996 Chr1 84152610 84155048 +
Vra Vra8g2377 Chr8 41956011 41958385 -
Vvi Vvi3g0872 Chr3 8416287 8420924 -