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
Vvi18g1516 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1517 . . . . . . . . Aev09g2110 . Ahy19g2779 . Aip09g03245 . . . Amo19g3548 . . Apr6g1327 . . . . . . . . . . . . . . Dod06g0919 . . . . . Gma10g02124 Gma20g01590 Gma16g01467 . Gso10g1987 Gso10g1987 Gso10g1987 . Lal13g0080 Lal12g0097 . . . . Lan20g0096 Lan20g0096 . . . . . . . . . . . . . . . . Lja5g0748 . Mal1g2191 . . . . . . . Mtr1g3621 . . . Phco5g01051 . . . Psa6g4354 . Pste9g00968 . . . . . . . Pvu4g0971 . . . . . . . . . . . Tpr1g0875 . . . Tsu01g04276 . . . . . Vimu8g02694 . . . . . . .
Vvi18g1518 . . . . Adu05g03524 . . . . . . . . . . . . . . Apr6g1326 Arst5g04521 . Bach1g00231 . . . . . Car04g01099 . . . . . . . . . . . Gma10g02125 Gma20g01589 Gma16g01468 . . . . . Lal13g0079 . Lal24g0081 . . . . . . . . . . . . . . . . . . . . . Lja5g0747 Lja2g2801 Mal1g2190 . . . . . . . Mtr1g3622 . . . . . . . Psa6g4355 . Pste9g00970 . . Pte9g00449 . . Pumo6g02337 . Pvu4g0972 . Rops5g01128 . . . Spst4g03404 . . . Sto10g1791 . Tpr1g0874 . . . Tsu01g04277 . . . . . Vimu8g02692 . . . . . . .
Vvi18g1519 . . . . . . . . . . . . . . . . . . . . Arst5g04520 . Bach1g00232 . . . . . Car04g01100 . . . . . . . . . . . Gma10g02126 Gma20g01588 Gma16g01469 . Gso10g1988 Gso10g1988 Gso10g1988 . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0746 Lja2g2800 Mal1g2189 . . . . . . . Mtr1g3623 . . . . . . . Psa6g4356 . Pste9g00972 . Pte16g00373 . . . Pumo6g02338 . Pvu4g0973 . Rops5g01127 . Seca10g03568 . Spst4g03403 . . . Sto10g1812 . Tpr1g0873 . . . Tsu01g04278 . . . . . Vimu8g02690 . Viun4g01797 . . . . .
Vvi18g1520 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1521 . . . . . . . . Aev09g2112 . Ahy19g2782 . Aip09g03246 . . . . . . . . . . . . . . . Car04g01101 . . . . . Dod06g0916 . . . . . Gma10g02127 Gma20g01587 . . Gso10g1989 Gso10g1989 . . Lal13g0078 . . . . . Lan20g0094 . . . . . . . . . . . . . . . . . Lja5g0745 . Mal1g2188 . . . . . . . Mtr1g3624 . . . . . . . Psa6g4357 . . . . . . . . . . . . . . . . . . . Sto10g1819 . Tpr1g0872 . . . Tsu01g04279 . . . . . . . . . . . . .
Vvi18g1522 . . . . Adu05g03523 . . . Aev09g2113 . . . Aip09g03247 . . . . . . Apr6g1325 Arst5g04519 . Bach1g00233 . . . . . Car04g01102 . . . . . Dod06g0915 . . . . . Gma10g02128 Gma20g01586 Gma16g01470 . Gso10g1990 Gso10g1990 Gso10g1990 . . Lal12g0096 . . . . . . . . . . . . . . . . . . . . . . Lja5g0744 Lja2g2799 Mal1g2187 . . . . . . . Mtr1g3625 . . . . . . . . . Pste9g00974 . Pte16g00369 . . . Pumo6g02339 . Pvu4g0974 . Rops5g01126 . Seca10g03569 . Spst4g03402 . . . Sto10g1820 . . . . . Tsu01g04280 . . . . . . . . . . . . .
Vvi18g1523 . . . . . . . . . . . . . . . . . . . Apr6g1324 . . . . . . . . Car04g01103 . . . . . . . . . . . Gma10g02129 Gma20g01585 Gma16g01471 . Gso10g1992 Gso10g1992 Gso10g1992 . . . . . Lal2g0995 Lal9g0879 . . . . . . . . . . . . . . . . . . Lja5g0743 Lja2g2794 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto8g2887 . . . . . . . . . . . . . . . . . .
Vvi18g1524 . . . . . . . . . . Ahy19g2784 . Aip09g03249 . . . . . . . . . . . . . . . Car04g01105 . . . . . Dod06g0913 . . . . . Gma10g02130 Gma20g01583 . . Gso10g1993 Gso10g1993 . . Lal13g0077 . . . . . Lan20g0093 . . . . . . . . . . . . . . . . . Lja5g0740 . Mal1g2182 . . . . . . . Mtr1g3629 . . . . . . . Psa6g4362 . . . . . . . . . . . . . . . . . . . . . Tpr1g0870 . . . Tsu01g04282 . . . . . . . . . . . . .
Vvi18g1525 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g1826 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g1516 Chr18 19097992 19098045 -
Vvi Vvi18g1517 Chr18 19128954 19136369 +
Aev Aev09g2110 Chr09 24166600 24168651 +
Ahy Ahy19g2779 Chr19 149504137 149507517 +
Aip Aip09g03245 Chr09 138268556 138274843 +
Amo Amo19g3548 Chr19 149640331 149644241 -
Apr Apr6g1327 Chr6 18917357 18921686 -
Dod Dod06g0919 Chr06 11623296 11627687 -
Gma Gma10g02124 Chr10 48746083 48748495 +
Gma Gma20g01590 Chr20 42987067 42992758 -
Gma Gma16g01467 Chr16 33908108 33910845 +
Gso Gso10g1987 Chr10 46873843 46876250 +
Gso Gso10g1987 Chr10 46873843 46876250 +
Gso Gso10g1987 Chr10 46873843 46876250 +
Lal Lal13g0080 Chr13 524935 528347 -
Lal Lal12g0097 Chr12 651438 654855 -
Lan Lan20g0096 Chr20 561485 564932 -
Lan Lan20g0096 Chr20 561485 564932 -
Lja Lja5g0748 Chr5 6870773 6874004 -
Mal Mal1g2191 Chr1 28867247 28870280 -
Mtr Mtr1g3621 Chr1 47860107 47863960 +
Phco Phco5g01051 Chr5 35288319 35298670 -
Psa Psa6g4354 Chr6 383210661 383214675 +
Pste Pste9g00968 Chr9 6212523 6216436 +
Pvu Pvu4g0971 Chr4 23164933 23167587 +
Tpr Tpr1g0875 Chr1 7433411 7437151 -
Tsu Tsu01g04276 Chr01 50557491 50560563 +
Vimu Vimu8g02694 Chr8 37714040 37714881 -
Vvi Vvi18g1518 Chr18 19145291 19150072 +
Adu Adu05g03524 Chr05 107816306 107819086 -
Apr Apr6g1326 Chr6 18897951 18905402 -
Arst Arst5g04521 Chr5 106496224 106498547 -
Bach Bach1g00231 Chr1 2757880 2761290 +
Car Car04g01099 Chr04 11139926 11144862 +
Gma Gma10g02125 Chr10 48755936 48762014 +
Gma Gma20g01589 Chr20 42971653 42977113 -
Gma Gma16g01468 Chr16 33912674 33918069 +
Lal Lal13g0079 Chr13 518258 520388 -
Lal Lal24g0081 Chr24 520875 529268 -
Lja Lja5g0747 Chr5 6862075 6866851 -
Lja Lja2g2801 Chr2 43404640 43406509 -
Mal Mal1g2190 Chr1 28851311 28854839 -
Mtr Mtr1g3622 Chr1 47868774 47874574 +
Psa Psa6g4355 Chr6 383275689 383281320 +
Pste Pste9g00970 Chr9 6218951 6223654 +
Pte Pte9g00449 Chr9 5422880 5427020 -
Pumo Pumo6g02337 Chr6 46130597 46135135 +
Pvu Pvu4g0972 Chr4 23432045 23432786 +
Rops Rops5g01128 Chr5 23297013 23298579 -
Spst Spst4g03404 Chr4 74345001 74348764 -
Sto Sto10g1791 Chr10 27622665 27627769 -
Tpr Tpr1g0874 Chr1 7420127 7424970 -
Tsu Tsu01g04277 Chr01 50564742 50566790 +
Vimu Vimu8g02692 Chr8 37665457 37670440 -
Vvi Vvi18g1519 Chr18 19153209 19156341 +
Arst Arst5g04520 Chr5 106494556 106496214 -
Bach Bach1g00232 Chr1 2764296 2766315 +
Car Car04g01100 Chr04 11145874 11148712 +
Gma Gma10g02126 Chr10 48763309 48765798 +
Gma Gma20g01588 Chr20 42969135 42970257 -
Gma Gma16g01469 Chr16 33919215 33920915 +
Gso Gso10g1988 Chr10 46891044 46893432 +
Gso Gso10g1988 Chr10 46891044 46893432 +
Gso Gso10g1988 Chr10 46891044 46893432 +
Lja Lja5g0746 Chr5 6857905 6860550 -
Lja Lja2g2800 Chr2 43386772 43389691 -
Mal Mal1g2189 Chr1 28847322 28849292 -
Mtr Mtr1g3623 Chr1 47879336 47881536 +
Psa Psa6g4356 Chr6 383286382 383289235 +
Pste Pste9g00972 Chr9 6224724 6226337 +
Pte Pte16g00373 Chr16 5060020 5065040 +
Pumo Pumo6g02338 Chr6 46139399 46140897 +
Pvu Pvu4g0973 Chr4 23488267 23489727 +
Rops Rops5g01127 Chr5 23277792 23286464 -
Seca Seca10g03568 Chr10 66687156 66690655 +
Spst Spst4g03403 Chr4 74341770 74343020 -
Sto Sto10g1812 Chr10 27867084 27871683 -
Tpr Tpr1g0873 Chr1 7416965 7419162 -
Tsu Tsu01g04278 Chr01 50570721 50573130 +
Vimu Vimu8g02690 Chr8 37662577 37663822 -
Viun Viun4g01797 Chr4 32116631 32118164 +
Vvi Vvi18g1520 Chr18 19156722 19156958 -
Vvi Vvi18g1521 Chr18 19179444 19182071 +
Aev Aev09g2112 Chr09 24176177 24183143 +
Ahy Ahy19g2782 Chr19 149531332 149534983 +
Aip Aip09g03246 Chr09 138288539 138292091 +
Car Car04g01101 Chr04 11149995 11154748 +
Dod Dod06g0916 Chr06 11591701 11596259 -
Gma Gma10g02127 Chr10 48768310 48772816 +
Gma Gma20g01587 Chr20 42955428 42962951 -
Gso Gso10g1989 Chr10 46895616 46900736 +
Gso Gso10g1989 Chr10 46895616 46900736 +
Lal Lal13g0078 Chr13 510534 514623 -
Lan Lan20g0094 Chr20 545712 549781 -
Lja Lja5g0745 Chr5 6851289 6856103 -
Mal Mal1g2188 Chr1 28830615 28834118 -
Mtr Mtr1g3624 Chr1 47890299 47894267 +
Psa Psa6g4357 Chr6 383303383 383308738 +
Sto Sto10g1819 Chr10 27931502 27938323 +
Tpr Tpr1g0872 Chr1 7412029 7415740 -
Tsu Tsu01g04279 Chr01 50576106 50579269 +
Vvi Vvi18g1522 Chr18 19184685 19184948 -
Adu Adu05g03523 Chr05 107814885 107815463 +
Aev Aev09g2113 Chr09 24184392 24184784 -
Aip Aip09g03247 Chr09 138294048 138294685 -
Apr Apr6g1325 Chr6 18888517 18889117 +
Arst Arst5g04519 Chr5 106493276 106493895 +
Bach Bach1g00233 Chr1 2774195 2774458 -
Car Car04g01102 Chr04 11154130 11156343 -
Dod Dod06g0915 Chr06 11589787 11591531 +
Gma Gma10g02128 Chr10 48775154 48775414 -
Gma Gma20g01586 Chr20 42952496 42953421 +
Gma Gma16g01470 Chr16 33923978 33924729 -
Gso Gso10g1990 Chr10 46902524 46903319 -
Gso Gso10g1990 Chr10 46902524 46903319 -
Gso Gso10g1990 Chr10 46902524 46903319 -
Lal Lal12g0096 Chr12 650492 650740 +
Lja Lja5g0744 Chr5 6847834 6848528 +
Lja Lja2g2799 Chr2 43352070 43352487 +
Mal Mal1g2187 Chr1 28826578 28826838 +
Mtr Mtr1g3625 Chr1 47895577 47896355 -
Pste Pste9g00974 Chr9 6238453 6238719 -
Pte Pte16g00369 Chr16 5009174 5010208 +
Pumo Pumo6g02339 Chr6 46149661 46150382 -
Pvu Pvu4g0974 Chr4 23726743 23727212 -
Rops Rops5g01126 Chr5 23270786 23271195 +
Seca Seca10g03569 Chr10 66696296 66696559 -
Spst Spst4g03402 Chr4 74338895 74339143 +
Sto Sto10g1820 Chr10 27941731 27941988 -
Tsu Tsu01g04280 Chr01 50581046 50581547 -
Vvi Vvi18g1523 Chr18 19199721 19202326 -
Apr Apr6g1324 Chr6 18840276 18843886 +
Car Car04g01103 Chr04 11163893 11165574 -
Gma Gma10g02129 Chr10 48783363 48793691 -
Gma Gma20g01585 Chr20 42941462 42943580 +
Gma Gma16g01471 Chr16 33944268 33949003 -
Gso Gso10g1992 Chr10 46918190 46920861 -
Gso Gso10g1992 Chr10 46918190 46920861 -
Gso Gso10g1992 Chr10 46918190 46920861 -
Lal Lal2g0995 Chr2 6803727 6806000 +
Lal Lal9g0879 Chr9 6593445 6595893 +
Lja Lja5g0743 Chr5 6837939 6840807 +
Lja Lja2g2794 Chr2 43080847 43085007 +
Sto Sto8g2887 Chr8 21124783 21131125 -
Vvi Vvi18g1524 Chr18 19224023 19225117 -
Ahy Ahy19g2784 Chr19 149565673 149568284 -
Aip Aip09g03249 Chr09 138325461 138327695 -
Car Car04g01105 Chr04 11168458 11170002 -
Dod Dod06g0913 Chr06 11570488 11573419 +
Gma Gma10g02130 Chr10 48796110 48797587 -
Gma Gma20g01583 Chr20 42929706 42933540 +
Gso Gso10g1993 Chr10 46923382 46924924 -
Gso Gso10g1993 Chr10 46923382 46924924 -
Lal Lal13g0077 Chr13 507975 509093 +
Lan Lan20g0093 Chr20 543158 544741 +
Lja Lja5g0740 Chr5 6815278 6816767 +
Mal Mal1g2182 Chr1 28774740 28775891 +
Mtr Mtr1g3629 Chr1 47922282 47923760 -
Psa Psa6g4362 Chr6 383386573 383387715 -
Tpr Tpr1g0870 Chr1 7394692 7395600 +
Tsu Tsu01g04282 Chr01 50598360 50599685 -
Vvi Vvi18g1525 Chr18 19242756 19260558 -
Sto Sto10g1826 Chr10 27981675 27984375 -