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
Vvi3g0753 . . . . Adu09g02616 . Aed1g1991 . . . . . . . . . . . . . Arst9g03476 . Bach11g00319 . . . Bva13g00360 Bva14g00445 Car04g01437 . Cca02g02515 . . . . . . . . . . . . . . . . . . . . . . Lal24g0304 . . . . . . Lapu7g02293 . . . . . . . . . . . Lja5g0421 . . Mal1g0545 Mepo4g04547 . Mesa1g04977 . . . . Mtr1g4050 . . Phco6g02783 . . . . . Pste4g01141 . . . . . Pumo3g00656 . Pvu7g0433 . Rops6g03095 . Seca8g07721 . . . Ssu7g0490 . . . . . Trre1g05796 . . . . . . . Vimu3g03377 . Viun7g03621 . Vivi1g03906 . Vra8g2419 .
Vvi3g0754 . . . . Adu09g02615 . Aed1g1992 . Aev09g2485 . Ahy19g3315 . Aip09g03779 . . . . . Apr8g2433 . Arst9g03475 . . . . . . Bva14g00446 Car04g01436 . Cca02g02514 . . . Dod06g0471 . . . . . . . . . . . . . . . . Lal13g0388 . . . . . . . . Lapu7g02292 . Lasa6g04455 . . . . . . . . . Lja5g0422 . . Mal1g0546 Mepo4g04546 . Mesa1g04976 . . . . Mtr1g4049 . . Phco6g02782 . . . . . Pste4g01143 . . . . . Pumo3g00657 . Pvu7g0434 . Rops6g03094 . Seca8g07720 . Spst10g01280 . Ssu7g0491 . . Sto10g0338 . Tpr1g0465 Trre1g05794 . . Tsu01g04721 Vian3g00396 . Vifa3g03329 . Vimu3g03376 . Viun7g03620 . Vivi1g03908 . Vra8g2418 .
Vvi3g0755 . . . . Adu09g02614 . Aed1g1993 . Aev09g2484 . Ahy19g3316 . Aip09g03780 . . . Amo19g4280 . Apr8g2432 . Arst9g03474 . Bach11g00320 . . . Bva13g00361 Bva14g00447 Car04g01435 . Cca02g02513 . . . Dod06g0472 . . . . . . . . . . . . . . . . Lal13g0387 Lal12g0394 Lal24g0303 . . . . . . Lapu7g02291 . Lasa6g04454 . . . . . . . . . Lja5g0423 . . Mal1g0548 Mepo4g04544 . Mesa1g04973 . . . . Mtr1g4046 . . Phco6g02781 . . . . . Pste4g01149 . . Pte9g01364 . . Pumo3g00658 . Pvu7g0435 . Rops6g03093 . Seca8g07719 . Spst10g01279 . Ssu7g0492 . Sto2g0520 Sto10g0340 . Tpr1g0466 Trre1g05791 . . Tsu01g04720 Vian3g00397 . Vifa3g03327 . Vimu3g03375 . Viun7g03618 . Vivi1g03911 . Vra8g2417 .
Vvi3g0756 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0757 . . . . . Adu05g01364 . Aed11g1953 . Aev05g1271 . Ahy15g1334 . Aip05g01402 . . . . . Apr7g0013 . Arst5g01745 . . . . Bva13g00362 Bva14g00448 . Car08g00022 . Cca06g02049 . . . Dod02g1421 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo5g00026 . Mesa17g00022 . . . . . . . Phco4g00026 . . . . . Pste1g00639 . . . . . Pumo8g02617 . Pvu2g0543 . Rops1g02474 . . . Spst2g00025 . Ssu2g3170 Sto2g0518 Sto10g0343 . . . Trre9g00022 . . . Vian10g00022 . Vifa1g04062 . Vimu7g02163 . Viun2g02960 . Vivi2g04319 . Vra11g0025
Vvi3g0758 . . . . . . . . . . . . . . . . . . . . Arst9g03470 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco6g02780 . . . . . . . . . . . . . Pvu7g0436 . . . . . Spst10g01277 . . . . . . . . . . . . . . . Vimu3g03374 . . . . . . .
Vvi3g0759 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0760 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g00450 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0344 . . . . . . . . . . . . . . . . . .
Vvi3g0761 . . . . Adu09g02610 . Aed1g1995 . Aev09g2480 . Ahy19g3320 . Aip09g03784 . . . Amo19g4275 . Apr8g2430 . Arst9g03469 . Bach11g00323 . . . Bva13g00363 Bva14g00451 Car04g01432 . Cca02g02511 . . . Dod06g0476 . . . . . . . . . . . . . . . . Lal13g0385 Lal12g0393 Lal24g0300 . . . . . . Lapu7g02289 . Lasa6g04453 . . . . . . . . . Lja5g0425 . . Mal1g0549 Mepo4g04543 . Mesa1g04972 . . . . Mtr1g4045 Phac7g00661 . Phco6g02779 . . . . . Pste4g01151 . . Pte9g01360 . . Pumo3g00659 . Pvu7g0437 . . . Seca8g07716 . Spst10g01276 . Ssu7g0496 . Sto2g0517 Sto10g0345 . Tpr1g0467 Trre1g05790 . . Tsu01g04719 Vian3g00399 . Vifa3g03322 . Vimu3g03373 . Viun7g03616 . Vivi1g03912 . Vra8g2415 .
Vvi3g0762 . . . . . . Aed1g1997 . . . . . . . . . . . Apr8g2429 . Arst9g03468 . Bach11g00324 . . . Bva13g00365 Bva14g00452 Car04g01431 . Cca02g02510 . . . . . . . . . . . . . . . . . . . . Lal13g0384 . . . . . . . . Lapu7g02288 . Lasa6g04451 . . . . . . . . . Lja5g0426 . . . Mepo4g04542 . Mesa1g04971 . . . . . . . Phco6g02778 . . . Psa6g4935 . Pste4g01159 . . Pte9g01359 . . . . Pvu7g0438 . . . . . . . Ssu7g0498 . . Sto10g0347 . . Trre1g05788 . . . . . . . Vimu3g03372 . . . Vivi1g03913 . Vra8g2413 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0753 Chr3 6715650 6716170 -
Adu Adu09g02616 Chr09 113617015 113617683 +
Aed Aed1g1991 Chr1 16844191 16844816 -
Arst Arst9g03476 Chr9 111513385 111514083 +
Bach Bach11g00319 Chr11 2171143 2171512 -
Bva Bva13g00360 Chr13 1685680 1686044 -
Bva Bva14g00445 Chr14 2166870 2167210 -
Car Car04g01437 Chr04 14646396 14647916 +
Cca Cca02g02515 Chr02 46354344 46355255 +
Lal Lal24g0304 Chr24 2177292 2177885 +
Lapu Lapu7g02293 Chr7 39224264 39224638 +
Lja Lja5g0421 Chr5 3718399 3719073 -
Mal Mal1g0545 Chr1 6245141 6245526 -
Mepo Mepo4g04547 Chr4 55193375 55194146 +
Mesa Mesa1g04977 Chr1 76678587 76678976 +
Mtr Mtr1g4050 Chr1 52090924 52091658 +
Phco Phco6g02783 Chr6 49166535 49166911 +
Pste Pste4g01141 Chr4 8547422 8548002 -
Pumo Pumo3g00656 Chr3 9844712 9845439 -
Pvu Pvu7g0433 Chr7 3383311 3383997 -
Rops Rops6g03095 Chr6 54135949 54136320 +
Seca Seca8g07721 Chr8 174485404 174486922 +
Ssu Ssu7g0490 Chr7 9141528 9141920 -
Trre Trre1g05796 Chr1 62791082 62791427 +
Vimu Vimu3g03377 Chr3 47068020 47068693 +
Viun Viun7g03621 Chr7 37314400 37315185 +
Vivi Vivi1g03906 Chr1 82525726 82526436 -
Vra Vra8g2419 Chr8 42310733 42311351 +
Vvi Vvi3g0754 Chr3 6743758 6752380 -
Adu Adu09g02615 Chr09 113607964 113614262 +
Aed Aed1g1992 Chr1 16845512 16854385 -
Aev Aev09g2485 Chr09 26631835 26637486 +
Ahy Ahy19g3315 Chr19 156190249 156198411 -
Aip Aip09g03779 Chr09 144557627 144563650 -
Apr Apr8g2433 Chr8 34463312 34474338 +
Arst Arst9g03475 Chr9 111504337 111510885 +
Bva Bva14g00446 Chr14 2168092 2173918 -
Car Car04g01436 Chr04 14637372 14645595 +
Cca Cca02g02514 Chr02 46345186 46353355 +
Dod Dod06g0471 Chr06 5803995 5811858 -
Lal Lal13g0388 Chr13 2436954 2445608 +
Lapu Lapu7g02292 Chr7 39214094 39222235 +
Lasa Lasa6g04455 Chr6 643487058 643495597 +
Lja Lja5g0422 Chr5 3719941 3725909 -
Mal Mal1g0546 Chr1 6246783 6254906 -
Mepo Mepo4g04546 Chr4 55189895 55192099 +
Mesa Mesa1g04976 Chr1 76666886 76676255 +
Mtr Mtr1g4049 Chr1 52081851 52089583 +
Phco Phco6g02782 Chr6 49153099 49160623 +
Pste Pste4g01143 Chr4 8554084 8563025 -
Pumo Pumo3g00657 Chr3 9847702 9855119 -
Pvu Pvu7g0434 Chr7 3389083 3397604 -
Rops Rops6g03094 Chr6 54125989 54132198 +
Seca Seca8g07720 Chr8 174474766 174483034 +
Spst Spst10g01280 Chr10 13489404 13496581 +
Ssu Ssu7g0491 Chr7 9144454 9152006 -
Sto Sto10g0338 Chr10 2704451 2711527 -
Tpr Tpr1g0465 Chr1 3901223 3909480 -
Trre Trre1g05794 Chr1 62782551 62789733 +
Tsu Tsu01g04721 Chr01 54487546 54495472 +
Vian Vian3g00396 Chr3 3741218 3749476 -
Vifa Vifa3g03329 Chr3 956300948 956309405 +
Vimu Vimu3g03376 Chr3 47058247 47065537 +
Viun Viun7g03620 Chr7 37304156 37311254 +
Vivi Vivi1g03908 Chr1 82526774 82533978 -
Vra Vra8g2418 Chr8 42300600 42308538 +
Vvi Vvi3g0755 Chr3 6773340 6775606 +
Adu Adu09g02614 Chr09 113593014 113596117 -
Aed Aed1g1993 Chr1 16863059 16866622 +
Aev Aev09g2484 Chr09 26620984 26623205 -
Ahy Ahy19g3316 Chr19 156213129 156216236 +
Aip Aip09g03780 Chr09 144575582 144578442 +
Amo Amo19g4280 Chr19 159479044 159482222 -
Apr Apr8g2432 Chr8 34452239 34455256 -
Arst Arst9g03474 Chr9 111489472 111492533 -
Bach Bach11g00320 Chr11 2178878 2181987 +
Bva Bva13g00361 Chr13 1691491 1694708 +
Bva Bva14g00447 Chr14 2177796 2180870 +
Car Car04g01435 Chr04 14607722 14610991 -
Cca Cca02g02513 Chr02 46319259 46322311 -
Dod Dod06g0472 Chr06 5832125 5834832 +
Lal Lal13g0387 Chr13 2427713 2431676 -
Lal Lal12g0394 Chr12 2793023 2795825 -
Lal Lal24g0303 Chr24 2170150 2173033 -
Lapu Lapu7g02291 Chr7 39198514 39202179 -
Lasa Lasa6g04454 Chr6 643360896 643362651 -
Lja Lja5g0423 Chr5 3735205 3738172 +
Mal Mal1g0548 Chr1 6278306 6280432 +
Mepo Mepo4g04544 Chr4 55149813 55152547 -
Mesa Mesa1g04973 Chr1 76636324 76638272 -
Mtr Mtr1g4046 Chr1 52059150 52061697 -
Phco Phco6g02781 Chr6 49136876 49138986 -
Pste Pste4g01149 Chr4 8600696 8603832 +
Pte Pte9g01364 Chr9 34998774 35001904 -
Pumo Pumo3g00658 Chr3 9871682 9874533 +
Pvu Pvu7g0435 Chr7 3410312 3413429 +
Rops Rops6g03093 Chr6 54094877 54097703 -
Seca Seca8g07719 Chr8 174457489 174460840 -
Spst Spst10g01279 Chr10 13473084 13475180 -
Ssu Ssu7g0492 Chr7 9174732 9176920 +
Sto Sto2g0520 Chr2 4476425 4478632 -
Sto Sto10g0340 Chr10 2726314 2728408 +
Tpr Tpr1g0466 Chr1 3919909 3922756 +
Trre Trre1g05791 Chr1 62751561 62753606 -
Tsu Tsu01g04720 Chr01 54474245 54477204 -
Vian Vian3g00397 Chr3 3762996 3765127 +
Vifa Vifa3g03327 Chr3 954703480 954705240 -
Vimu Vimu3g03375 Chr3 47046786 47048910 -
Viun Viun7g03618 Chr7 37286794 37289849 -
Vivi Vivi1g03911 Chr1 82584586 82587127 +
Vra Vra8g2417 Chr8 42288371 42291422 -
Vvi Vvi3g0756 Chr3 6785686 6787059 -
Vvi Vvi3g0757 Chr3 6798260 6801869 +
Adu Adu05g01364 Chr05 20664023 20665809 -
Aed Aed11g1953 Chr11 22245655 22247530 -
Aev Aev05g1271 Chr05 8923335 8925272 -
Ahy Ahy15g1334 Chr15 21991610 21993371 -
Aip Aip05g01402 Chr05 21166082 21167859 -
Apr Apr7g0013 Chr7 853587 855668 -
Arst Arst5g01745 Chr5 20712562 20714335 -
Bva Bva13g00362 Chr13 1697937 1699978 +
Bva Bva14g00448 Chr14 2185471 2187680 +
Car Car08g00022 Chr08 243192 245077 +
Cca Cca06g02049 Chr06 35697281 35698826 -
Dod Dod02g1421 Chr02 17012788 17015541 -
Mepo Mepo5g00026 Chr5 321695 323205 +
Mesa Mesa17g00022 Chr17 252489 253753 +
Phco Phco4g00026 Chr4 195152 199837 +
Pste Pste1g00639 Chr1 2043953 2045824 +
Pumo Pumo8g02617 Chr8 63343126 63345100 -
Pvu Pvu2g0543 Chr2 4820531 4821625 -
Rops Rops1g02474 Chr1 47801878 47804330 -
Spst Spst2g00025 Chr2 307365 308448 +
Ssu Ssu2g3170 Chr2 93970335 93972449 -
Sto Sto2g0518 Chr2 4454001 4456400 -
Sto Sto10g0343 Chr10 2749323 2750768 +
Trre Trre9g00022 Chr9 358714 359939 +
Vian Vian10g00022 Chr10 205029 208994 +
Vifa Vifa1g04062 Chr1 624062152 624062775 -
Vimu Vimu7g02163 Chr7 19156590 19157387 +
Viun Viun2g02960 Chr2 33683113 33684153 -
Vivi Vivi2g04319 Chr2 157123371 157124629 -
Vra Vra11g0025 Chr11 238779 239860 +
Vvi Vvi3g0758 Chr3 6804577 6807012 +
Arst Arst9g03470 Chr9 111465352 111468492 -
Phco Phco6g02780 Chr6 49128214 49130613 -
Pvu Pvu7g0436 Chr7 3419734 3422546 +
Spst Spst10g01277 Chr10 13465066 13467450 -
Vimu Vimu3g03374 Chr3 47037816 47041297 -
Vvi Vvi3g0759 Chr3 6811829 6813183 +
Vvi Vvi3g0760 Chr3 6817139 6818528 -
Bva Bva14g00450 Chr14 2191280 2192768 -
Sto Sto10g0344 Chr10 2751624 2752865 -
Vvi Vvi3g0761 Chr3 6846825 6849732 -
Adu Adu09g02610 Chr09 113565727 113568029 +
Aed Aed1g1995 Chr1 16874601 16877989 -
Aev Aev09g2480 Chr09 26601109 26603056 +
Ahy Ahy19g3320 Chr19 156250604 156252836 -
Aip Aip09g03784 Chr09 144612021 144614345 -
Amo Amo19g4275 Chr19 159442870 159444708 +
Apr Apr8g2430 Chr8 34439387 34442183 +
Arst Arst9g03469 Chr9 111462094 111464400 +
Bach Bach11g00323 Chr11 2192924 2195479 -
Bva Bva13g00363 Chr13 1701511 1703861 -
Bva Bva14g00451 Chr14 2193250 2195465 -
Car Car04g01432 Chr04 14581969 14584714 +
Cca Cca02g02511 Chr02 46301104 46304453 +
Dod Dod06g0476 Chr06 5862092 5864193 -
Lal Lal13g0385 Chr13 2414474 2418026 +
Lal Lal12g0393 Chr12 2785172 2788303 +
Lal Lal24g0300 Chr24 2152038 2157175 +
Lapu Lapu7g02289 Chr7 39183291 39186789 +
Lasa Lasa6g04453 Chr6 643188034 643190083 +
Lja Lja5g0425 Chr5 3747363 3750549 -
Mal Mal1g0549 Chr1 6294743 6296906 -
Mepo Mepo4g04543 Chr4 55139078 55141850 +
Mesa Mesa1g04972 Chr1 76621114 76623178 +
Mtr Mtr1g4045 Chr1 52044358 52047119 +
Phac Phac7g00661 Chr7 3652215 3655235 -
Phco Phco6g02779 Chr6 49122151 49124529 +
Pste Pste4g01151 Chr4 8624584 8627405 -
Pte Pte9g01360 Chr9 34967855 34969415 +
Pumo Pumo3g00659 Chr3 9882150 9885492 -
Pvu Pvu7g0437 Chr7 3425463 3428670 -
Seca Seca8g07716 Chr8 174431272 174434461 +
Spst Spst10g01276 Chr10 13458196 13460685 +
Ssu Ssu7g0496 Chr7 9234217 9236688 -
Sto Sto2g0517 Chr2 4447811 4449708 +
Sto Sto10g0345 Chr10 2752965 2756877 -
Tpr Tpr1g0467 Chr1 3941689 3944036 -
Trre Trre1g05790 Chr1 62736789 62738864 +
Tsu Tsu01g04719 Chr01 54459075 54461900 +
Vian Vian3g00399 Chr3 3778054 3780478 -
Vifa Vifa3g03322 Chr3 953776141 953778329 +
Vimu Vimu3g03373 Chr3 47032936 47035382 +
Viun Viun7g03616 Chr7 37271529 37274390 +
Vivi Vivi1g03912 Chr1 82609532 82612052 -
Vra Vra8g2415 Chr8 42273775 42276966 +
Vvi Vvi3g0762 Chr3 6851853 6854724 -
Aed Aed1g1997 Chr1 16890936 16891895 -
Apr Apr8g2429 Chr8 34432855 34435344 +
Arst Arst9g03468 Chr9 111459739 111460917 +
Bach Bach11g00324 Chr11 2198078 2200485 -
Bva Bva13g00365 Chr13 1705060 1708396 -
Bva Bva14g00452 Chr14 2197524 2200063 -
Car Car04g01431 Chr04 14573494 14576383 +
Cca Cca02g02510 Chr02 46284606 46296251 +
Lal Lal13g0384 Chr13 2410216 2412796 +
Lapu Lapu7g02288 Chr7 39172783 39176008 +
Lasa Lasa6g04451 Chr6 643083930 643086277 +
Lja Lja5g0426 Chr5 3753575 3756174 -
Mepo Mepo4g04542 Chr4 55131421 55134120 +
Mesa Mesa1g04971 Chr1 76613558 76615984 +
Phco Phco6g02778 Chr6 49112493 49114366 +
Psa Psa6g4935 Chr6 430387700 430390716 -
Pste Pste4g01159 Chr4 8656512 8658751 -
Pte Pte9g01359 Chr9 34963538 34966787 +
Pvu Pvu7g0438 Chr7 3438168 3440577 -
Ssu Ssu7g0498 Chr7 9271122 9271679 -
Sto Sto10g0347 Chr10 2761814 2764592 -
Trre Trre1g05788 Chr1 62714839 62718106 +
Vimu Vimu3g03372 Chr3 47017677 47024859 +
Vivi Vivi1g03913 Chr1 82667539 82670556 -
Vra Vra8g2413 Chr8 42259876 42261078 +
Aev Aev09g2480 Chr09 26601109 26603056 +
Ahy Ahy19g3320 Chr19 156250604 156252836 -
Aip Aip09g03784 Chr09 144612021 144614345 -
Amo Amo19g4275 Chr19 159442870 159444708 +
Dod Dod06g0476 Chr06 5862092 5864193 -