Hierarchical alignments with the P. vulgaris 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 Pvu Acco Accr Adu Aed Aev Ahy_1 Ahy_2 Aip Alju Amo_1 Amo_2 Apr Arst Bach Bisa Bva Car Cca Dere Dod Enph Glsi Gma_1 Gma_2 Gso_1 Gso_2 Lal_1 Lal_2 Lal_3 Lan_1 Lan_2 Lan_3 Lapu Lasa Lele_1 Lele_2 Lele_3 Lele_4 Lja Mal Mepo Mesa Mibi Mtr Phac Phco Prci Psa Pste Pumo Rops Seca Spst Ssu Sto Tpr Trre Tsu Vian Vifa Vimu Viun Vivi Vra
Pvu1g0721 . . . . . . . . . Amo16g3521 . . . . . . Car04g02991 Cca05g00704 . . . . . . . Gso13g0172 . . . . . . . . . . . . Lja1g5718 Mal1g5159 . . . Mtr1g0800 . . . Psa6g0859 . . . . . . . Tpr1g3143 . Tsu01g00913 . Vifa3g04129 . . . Vra6g1172
Pvu1g0722 . . Adu06g02671 . . . . . . . . . . . . . Car04g02992 . . . . . . . . . . . . . . . . . . . . . Lja1g5326 . . . . Mtr1g0799 . . . Psa6g0858 . . . . . . . Tpr1g3138 . Tsu01g00912 . . Vimu1g01869 . Vivi4g04690 Vra6g1399
Pvu1g0723 . . . . . . . . . . . . . . . . . . . . . . . . . Gso13g0171 . . . . . . . . . . . . Lja1g5717 Mal1g5158 . . . Mtr1g0794 . . . . . . . . . . . Tpr1g3130 . Tsu01g00909 . . . . . .
Pvu1g0724 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0726 Acco05g2754 Accr3g00282 . . . . . . Alju07g2710 . . Apr9g0791 . . Bisa05g0905 . . Cca05g00916 Dere05g2540 . Enph7g1319 Glsi10g1217 . Gma14g01428 Gso14g1222 Gso13g0170 . . . . . . . Lasa5g04354 Lele25g0239 Lele26g0248 Lele27g1848 Lele28g0261 Lja1g5825 . Mepo4g01033 Mesa1g01117 Mibi08g2414 Mtr1g0896 Phac1g03435 Phco2g00793 Prci2g0387 Psa6g0935 Pste8g01981 Pumo9g01156 Rops9g02508 Seca4g02381 Spst8g01397 . Sto5g0365 . Trre1g01088 Tsu01g01016 Vian7g00258 . Vimu1g02325 Viun8g01048 Vivi4g04604 Vra6g1398
Pvu1g0727 . . . . Aev07g1702 . . . . . . Apr9g0792 . . . . . Cca05g00917 . Dod08g1410 . . . . . . . . . . . . . Lasa6g00889 . . . . Lja1g5826 . Mepo4g01030 Mesa1g01114 . Mtr1g0893 Phac1g00949 Phco2g00794 . Psa6g0936 Pste8g01980 Pumo9g01157 . Seca8g02470 Spst8g01396 . . . Trre1g01080 Tsu01g01014 Vian7g00257 . Vimu1g02321 Viun8g01051 Vivi4g04607 Vra6g1397
Pvu1g0728 . . . . Aev07g1701 . . . . . . . . . . . . . . . . . . Gma14g01426 Gso14g1221 Gso13g0169 . . . . . . . Lasa6g00888 . . . . . . Mepo4g01029 Mesa1g01113 . Mtr1g0892 . . . . Pste8g01979 . . . . . . . Trre1g01079 Tsu01g01013 . . Vimu1g02316 . Vivi4g04608 Vra6g1396
Pvu1g0729 Acco05g2751 Accr3g00283 . . . . . . Alju07g2709 . . Apr9g0793 . . Bisa05g0906 . . . Dere05g2539 Dod08g1409 Enph7g1317 Glsi10g1216 . . . . . . . . . . . Lasa5g02839 Lele25g0240 Lele26g0249 Lele27g1847 Lele28g0262 Lja1g5827 . . . Mibi08g2413 . . Phco2g00796 Prci2g0388 . . . . . Spst8g01392 . Sto5g0366 . . . . . Vimu1g02313 . . .
Pvu1g0730 . . . . . . . . . . . Apr9g0794 . . . . . Cca05g00919 . . . . . Gma14g01425 Gso14g1220 Gso13g0168 . . . . . . . . . . . . . . . . . . . Phco2g00797 . . Pste8g01978 Pumo9g01159 Rops9g02514 Seca4g02378 Spst8g01391 . . . . . Vian7g00255 . Vimu1g02312 Viun8g01055 . Vra6g1395
   
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Select Species Gene Chromosome Start End Strand
Cca Cca05g00704 Chr05 18590824 18592825 -
Vifa Vifa3g04129 Chr3 1218433194 1218434105 +
Pvu Pvu1g0721 Chr1 9237903 9240134 -
Amo Amo16g3521 Chr16 144989460 144992362 -
Car Car04g02991 Chr04 57626235 57628421 -
Cca Cca05g00704 Chr05 18590824 18592825 -
Gso Gso13g0172 Chr13 10417596 10419891 +
Lja Lja1g5718 Chr1 101331722 101333765 +
Mal Mal1g5159 Chr1 123920639 123925232 +
Mtr Mtr1g0800 Chr1 9021417 9037501 +
Psa Psa6g0859 Chr6 30296019 30297993 +
Tpr Tpr1g3143 Chr1 35940676 35944376 +
Tsu Tsu01g00913 Chr01 8350068 8377027 +
Vifa Vifa3g04129 Chr3 1218433194 1218434105 +
Vra Vra6g1172 Chr6 19873085 19875222 +
Pvu Pvu1g0722 Chr1 9260542 9263330 +
Adu Adu06g02671 Chr06 102886709 102890353 +
Car Car04g02992 Chr04 57628741 57634355 +
Lja Lja1g5326 Chr1 85059616 85063815 +
Mtr Mtr1g0799 Chr1 9015553 9020510 -
Psa Psa6g0858 Chr6 30273936 30289816 -
Tpr Tpr1g3138 Chr1 35888075 35906262 +
Tsu Tsu01g00912 Chr01 8348796 8349257 -
Vimu Vimu1g01869 Chr1 23088115 23094561 -
Vivi Vivi4g04690 Chr4 175481959 175493442 +
Vra Vra6g1399 Chr6 27498915 27505336 -
Pvu Pvu1g0723 Chr1 9269486 9273705 +
Gso Gso13g0171 Chr13 10408902 10413573 -
Lja Lja1g5717 Chr1 101313134 101327605 -
Mal Mal1g5158 Chr1 123909491 123919053 -
Mtr Mtr1g0794 Chr1 8942031 8948837 +
Tpr Tpr1g3130 Chr1 35799035 35803692 -
Tsu Tsu01g00909 Chr01 8342413 8345535 -
Pvu Pvu1g0724 Chr1 9283773 9286047 -
Pvu Pvu1g0725 Chr1 9287492 9287818 +
Pvu Pvu1g0726 Chr1 9314478 9331840 +
Acco Acco05g2754 Chr05 42766723 42774662 -
Accr Accr3g00282 Chr3 3057885 3065976 +
Alju Alju07g2710 Chr07 52601305 52610677 -
Apr Apr9g0791 Chr9 15211758 15226952 +
Bisa Bisa05g0905 Chr05 15622219 15633242 +
Cca Cca05g00916 Chr05 24654103 24670080 +
Dere Dere05g2540 Chr05 35887552 35896953 -
Enph Enph7g1319 Chr7 18666380 18674943 -
Glsi Glsi10g1217 Chr10 8174504 8182634 -
Gma Gma14g01428 Chr14 30354344 30367390 -
Gso Gso14g1222 Chr14 28936689 28950349 -
Gso Gso13g0170 Chr13 10336253 10349607 -
Lasa Lasa5g04354 Chr5 654807993 654811930 -
Lele Lele25g0239 Chr25 1427143 1434801 +
Lele Lele26g0248 Chr26 1475767 1483113 +
Lele Lele27g1848 Chr27 23297066 23304932 -
Lele Lele28g0261 Chr28 1538842 1545477 +
Lja Lja1g5825 Chr1 104659716 104669204 +
Mepo Mepo4g01033 Chr4 13679356 13692619 +
Mesa Mesa1g01117 Chr1 15281445 15295929 +
Mibi Mibi08g2414 Chr08 41895350 41903492 -
Mtr Mtr1g0896 Chr1 10299687 10313178 +
Phac Phac1g03435 Chr1 40726803 40728084 +
Phco Phco2g00793 Chr2 8762683 8781899 +
Prci Prci2g0387 Chr2 2710476 2720032 +
Psa Psa6g0935 Chr6 35276177 35290564 -
Pste Pste8g01981 Chr8 15608313 15621620 -
Pumo Pumo9g01156 Chr9 34810123 34828375 +
Rops Rops9g02508 Chr9 47177884 47187262 +
Seca Seca4g02381 Chr4 40434329 40441648 -
Spst Spst8g01397 Chr8 13050976 13051486 -
Sto Sto5g0365 Chr5 2232259 2240072 +
Trre Trre1g01088 Chr1 8200716 8213055 +
Tsu Tsu01g01016 Chr01 9268138 9277535 +
Vian Vian7g00258 Chr7 7666633 7685752 -
Vimu Vimu1g02325 Chr1 33763936 33764804 -
Viun Viun8g01048 Chr8 12512381 12528753 +
Vivi Vivi4g04604 Chr4 173993092 174005917 -
Vra Vra6g1398 Chr6 27458227 27475961 -
Pvu Pvu1g0727 Chr1 9341353 9356410 +
Aev Aev07g1702 Chr07 17893352 17910144 -
Apr Apr9g0792 Chr9 15234153 15258456 +
Cca Cca05g00917 Chr05 24679824 24702360 +
Dod Dod08g1410 Chr08 23950240 23972137 -
Lasa Lasa6g00889 Chr6 35205250 35215969 -
Lja Lja1g5826 Chr1 104671670 104682904 +
Mepo Mepo4g01030 Chr4 13647725 13658594 -
Mesa Mesa1g01114 Chr1 15235323 15245513 -
Mtr Mtr1g0893 Chr1 10269975 10280807 -
Phac Phac1g00949 Chr1 8545390 8560758 +
Phco Phco2g00794 Chr2 8792179 8798767 +
Psa Psa6g0936 Chr6 35422263 35434040 +
Pste Pste8g01980 Chr8 15579911 15603247 -
Pumo Pumo9g01157 Chr9 34830236 34851764 +
Seca Seca8g02470 Chr8 53242925 53261712 -
Spst Spst8g01396 Chr8 13031570 13036293 -
Trre Trre1g01080 Chr1 8134215 8151494 -
Tsu Tsu01g01014 Chr01 9243590 9258287 -
Vian Vian7g00257 Chr7 7640548 7650849 -
Vimu Vimu1g02321 Chr1 33714669 33715062 -
Viun Viun8g01051 Chr8 12553139 12572939 +
Vivi Vivi4g04607 Chr4 174028443 174047168 +
Vra Vra6g1397 Chr6 27426346 27451243 -
Pvu Pvu1g0728 Chr1 9363102 9369873 +
Aev Aev07g1701 Chr07 17878131 17886904 -
Gma Gma14g01426 Chr14 30279517 30287376 -
Gso Gso14g1221 Chr14 28862376 28870327 -
Gso Gso13g0169 Chr13 10321904 10332528 -
Lasa Lasa6g00888 Chr6 35132315 35136701 -
Mepo Mepo4g01029 Chr4 13638201 13646343 -
Mesa Mesa1g01113 Chr1 15225825 15232978 -
Mtr Mtr1g0892 Chr1 10260926 10268739 -
Pste Pste8g01979 Chr8 15564861 15572753 -
Trre Trre1g01079 Chr1 8125038 8131493 -
Tsu Tsu01g01013 Chr01 9235772 9241926 -
Vimu Vimu1g02316 Chr1 33676204 33680042 -
Vivi Vivi4g04608 Chr4 174055543 174060598 +
Vra Vra6g1396 Chr6 27397222 27409798 -
Pvu Pvu1g0729 Chr1 9369892 9377743 +
Acco Acco05g2751 Chr05 42752528 42758637 -
Accr Accr3g00283 Chr3 3068546 3074590 +
Alju Alju07g2709 Chr07 52594070 52600458 -
Apr Apr9g0793 Chr9 15263111 15271499 +
Bisa Bisa05g0906 Chr05 15634945 15641719 +
Dere Dere05g2539 Chr05 35877946 35884780 -
Dod Dod08g1409 Chr08 23916370 23924161 -
Enph Enph7g1317 Chr7 18646648 18657604 -
Glsi Glsi10g1216 Chr10 8166501 8172300 -
Lasa Lasa5g02839 Chr5 512490935 512496591 -
Lele Lele25g0240 Chr25 1435822 1438012 +
Lele Lele26g0249 Chr26 1483917 1489295 +
Lele Lele27g1847 Chr27 23290079 23295848 -
Lele Lele28g0262 Chr28 1546283 1551643 +
Lja Lja1g5827 Chr1 104691654 104697873 +
Mibi Mibi08g2413 Chr08 41888783 41894785 -
Phco Phco2g00796 Chr2 8814437 8825089 +
Prci Prci2g0388 Chr2 2723317 2731045 +
Spst Spst8g01392 Chr8 12991443 12999476 -
Sto Sto5g0366 Chr5 2242920 2247037 +
Vimu Vimu1g02313 Chr1 33660964 33676080 -
Pvu Pvu1g0730 Chr1 9381777 9391336 +
Apr Apr9g0794 Chr9 15273348 15281771 +
Cca Cca05g00919 Chr05 24750902 24766739 +
Gma Gma14g01425 Chr14 30257925 30267541 -
Gso Gso14g1220 Chr14 28840739 28850582 -
Gso Gso13g0168 Chr13 10298914 10316986 -
Phco Phco2g00797 Chr2 8830076 8839758 +
Pste Pste8g01978 Chr8 15541733 15560006 -
Pumo Pumo9g01159 Chr9 34874634 34885210 +
Rops Rops9g02514 Chr9 47238974 47246431 +
Seca Seca4g02378 Chr4 40392861 40398479 -
Spst Spst8g01391 Chr8 12979001 12991292 -
Vian Vian7g00255 Chr7 7595713 7609048 -
Vimu Vimu1g02312 Chr1 33649744 33657761 -
Viun Viun8g01055 Chr8 12634094 12642698 +
Vra Vra6g1395 Chr6 27386931 27395439 -
Lasa Lasa5g04354 Chr5 654807993 654811930 -
Lasa Lasa5g02839 Chr5 512490935 512496591 -
Seca Seca4g02378 Chr4 40392861 40398479 -
Seca Seca4g02381 Chr4 40434329 40441648 -