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
Pvu1g0001 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0002 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu1g0005 . . Adu06g01341 Aed11g0001 . Ahy16g0001 Ahy6g1346 Aip06g00001 . . Amo06g0992 Apr9g0701 Arst6g01770 Bach3g02521 Bisa05g0476 Bva10g01041 Car04g03627 Cca05g00439 . Dod08g2339 . Glsi10g0004 Gma17g02504 Gma14g02189 Gso14g1899 Gso17g2228 . . . . . . Lapu8g01075 Lasa6g00347 . . . . Lja5g3367 Mal1g6164 Mepo4g01954 Mesa1g00002 . Mtr1g0772 . Phco2g00006 . Psa6g0015 Pste8g01500 . Rops9g02522 Seca8g04176 Spst8g02096 Ssu5g0002 Sto5g0002 Tpr1g3927 . Tsu01g00149 Vian7g00965 . . . Vivi4g06004 Vra6g1981
Pvu1g0006 Acco05g3055 Accr3g00002 Adu06g01338 Aed11g0002 . Ahy16g0003 Ahy6g1343 Aip06g00004 Alju07g3014 . Amo06g0989 Apr9g0700 Arst6g01767 Bach3g02514 Bisa05g0483 Bva10g01035 Car04g03626 . Dere05g2945 Dod08g2337 . Glsi10g0011 Gma17g02503 . . Gso17g2227 . . . . . Lan3g1315 Lapu8g01074 Lasa5g04627 . . Lele27g2087 Lele28g0001 Lja5g3366 Mal1g6163 Mepo4g01953 Mesa1g00004 Mibi08g2669 Mtr1g0771 . Phco2g00007 . Psa6g0016 Pste8g01498 . . . Spst8g02095 Ssu5g0003 Sto5g0009 . Trre1g00008 Tsu01g00151 . . . . Vivi4g06002 Vra6g1982
Pvu1g0007 . . Adu06g01336 . . Ahy16g0005 Ahy6g1339 Aip06g00005 . . Amo06g0987 Apr9g0699 . . . Bva10g01033 Car04g03625 Cca05g00437 . Dod08g2336 . . Gma17g02502 Gma14g02187 Gso14g1898 Gso17g2226 . . . . Lan5g0473 . . . . . . . Lja5g3365 . . . . . . . . . . . . . . Ssu5g0004 . . . . . . . . . Vra6g1983
Pvu1g0008 Acco05g3038 Accr3g00021 . Aed11g0004 . . . . Alju07g2998 . Amo06g0824 . . . Bisa05g0505 . . . Dere05g2921 . Enph7g1534 Glsi10g0040 Gma17g02500 . . . . . Lal10g0887 . . . . . Lele25g0012 . Lele27g2073 Lele28g0019 . Mal1g6159 Mepo4g01950 Mesa1g00008 Mibi08g2660 Mtr1g0768 . Phco2g00009 Prci2g0020 . . . . . . Ssu5g0007 Sto5g0035 Tpr1g3925 . Tsu01g00153 . . . . . Vra6g1984
Pvu1g0009 . . Adu06g01334 . . Ahy16g0007 Ahy6g1337 Aip06g00007 . . Amo06g0985 Apr9g0698 Arst6g01764 Bach3g02506 . Bva10g01027 Car04g03624 Cca05g00435 . Dod08g2335 . . . Gma14g02186 Gso14g1897 Gso17g2225 . . . . . . . Lasa6g00345 . . . . Lja5g3364 . . . . . . Phco2g00010 . . . Pumo9g00006 Rops9g02532 Seca4g01147 Spst8g02092 . . Tpr1g3924 . . . . . Viun8g00023 Vivi4g06000 Vra6g1985
Pvu1g0010 . . . . . . . . . . . Apr9g0696 . . . . . Cca05g00433 . Dod08g2331 . . . Gma14g02184 Gso14g1895 . . . . . . . . Lasa5g04620 . . . . . Mal1g6157 . . . . . Phco2g00011 . . . . Rops9g02536 . Spst8g02088 Ssu5g0009 . . . Tsu01g00154 . . . . Vivi4g05993 Vra6g1986
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pvu Pvu1g0001 Chr1 3852 4760 -
Pvu Pvu1g0002 Chr1 6100 6354 -
Pvu Pvu1g0003 Chr1 99177 99363 -
Pvu Pvu1g0004 Chr1 104201 104451 -
Pvu Pvu1g0005 Chr1 125452 132387 +
Adu Adu06g01341 Chr06 18627835 18632279 +
Aed Aed11g0001 Chr11 8571 14549 +
Ahy Ahy16g0001 Chr16 14387 18970 -
Ahy Ahy6g1346 Chr6 20557619 20562192 +
Aip Aip06g00001 Chr06 10217 14708 -
Amo Amo06g0992 Chr06 13604381 13608701 +
Apr Apr9g0701 Chr9 11721112 11726448 -
Arst Arst6g01770 Chr6 18660722 18665123 +
Bach Bach3g02521 Chr3 31117413 31120249 +
Bisa Bisa05g0476 Chr05 7728837 7733759 +
Bva Bva10g01041 Chr10 7571655 7575838 +
Car Car04g03627 Chr04 65739569 65746258 -
Cca Cca05g00439 Chr05 9593074 9600271 +
Dod Dod08g2339 Chr08 51575675 51582827 -
Glsi Glsi10g0004 Chr10 66812 72915 +
Gma Gma17g02504 Chr17 43038198 43042322 -
Gma Gma14g02189 Chr14 53026889 53032132 -
Gso Gso14g1899 Chr14 51440745 51445920 -
Gso Gso17g2228 Chr17 41947374 41952001 -
Lapu Lapu8g01075 Chr8 28716629 28725178 +
Lasa Lasa6g00347 Chr6 9883736 9887434 -
Lja Lja5g3367 Chr5 65780025 65786267 -
Mal Mal1g6164 Chr1 140791785 140796788 -
Mepo Mepo4g01954 Chr4 24766891 24771126 -
Mesa Mesa1g00002 Chr1 51038 52807 +
Mtr Mtr1g0772 Chr1 8681814 8686114 -
Phco Phco2g00006 Chr2 95947 102544 +
Psa Psa6g0015 Chr6 763778 768249 +
Pste Pste8g01500 Chr8 8235365 8243011 -
Rops Rops9g02522 Chr9 47471560 47478001 -
Seca Seca8g04176 Chr8 118966681 118966887 -
Spst Spst8g02096 Chr8 29216396 29218805 -
Ssu Ssu5g0002 Chr5 16015 17492 +
Sto Sto5g0002 Chr5 23549 24966 +
Tpr Tpr1g3927 Chr1 43459640 43464455 -
Tsu Tsu01g00149 Chr01 1145378 1156473 +
Vian Vian7g00965 Chr7 17855918 17856472 +
Vivi Vivi4g06004 Chr4 197262430 197266378 -
Vra Vra6g1981 Chr6 36440209 36447937 +
Pvu Pvu1g0006 Chr1 134609 140566 -
Acco Acco05g3055 Chr05 44999745 45002650 -
Accr Accr3g00002 Chr3 47149 49939 +
Adu Adu06g01338 Chr06 18583352 18586414 +
Aed Aed11g0002 Chr11 12950 16575 -
Ahy Ahy16g0003 Chr16 38593 42112 -
Ahy Ahy6g1343 Chr6 20510057 20515102 +
Aip Aip06g00004 Chr06 33491 36599 -
Alju Alju07g3014 Chr07 55125653 55129949 -
Amo Amo06g0989 Chr06 13569948 13574609 +
Apr Apr9g0700 Chr9 11673498 11695404 +
Arst Arst6g01767 Chr6 18616181 18619591 +
Bach Bach3g02514 Chr3 31047934 31053767 +
Bisa Bisa05g0483 Chr05 7849261 7861563 -
Bva Bva10g01035 Chr10 7525355 7528602 +
Car Car04g03626 Chr04 65716331 65720536 +
Dere Dere05g2945 Chr05 39865522 39870903 +
Dod Dod08g2337 Chr08 51520305 51524631 +
Glsi Glsi10g0011 Chr10 175258 187529 -
Gma Gma17g02503 Chr17 43026272 43035740 +
Gso Gso17g2227 Chr17 41936143 41945165 +
Lan Lan3g1315 Chr3 25052837 25057071 +
Lapu Lapu8g01074 Chr8 28700919 28714524 +
Lasa Lasa5g04627 Chr5 681497323 681499625 -
Lele Lele27g2087 Chr27 24727370 24730889 -
Lele Lele28g0001 Chr28 4526 7958 +
Lja Lja5g3366 Chr5 65765992 65776111 +
Mal Mal1g6163 Chr1 140772276 140782956 +
Mepo Mepo4g01953 Chr4 24745860 24749060 +
Mesa Mesa1g00004 Chr1 56806 59651 -
Mibi Mibi08g2669 Chr08 44614990 44618388 -
Mtr Mtr1g0771 Chr1 8675876 8679383 +
Phco Phco2g00007 Chr2 105235 113862 -
Psa Psa6g0016 Chr6 771491 775991 -
Pste Pste8g01498 Chr8 8220403 8227489 +
Spst Spst8g02095 Chr8 29204415 29211356 +
Ssu Ssu5g0003 Chr5 22458 29495 -
Sto Sto5g0009 Chr5 103648 109694 -
Trre Trre1g00008 Chr1 120098 125163 -
Tsu Tsu01g00151 Chr01 1163383 1169785 -
Vivi Vivi4g06002 Chr4 197231806 197235450 +
Vra Vra6g1982 Chr6 36449033 36459418 -
Pvu Pvu1g0007 Chr1 144309 146169 +
Adu Adu06g01336 Chr06 18513601 18515677 -
Ahy Ahy16g0005 Chr16 50460 52358 +
Ahy Ahy6g1339 Chr6 20451369 20453346 -
Aip Aip06g00005 Chr06 44875 46486 +
Amo Amo06g0987 Chr06 13511533 13513147 -
Apr Apr9g0699 Chr9 11661838 11663485 -
Bva Bva10g01033 Chr10 7513282 7515236 -
Car Car04g03625 Chr04 65702339 65704974 -
Cca Cca05g00437 Chr05 9566022 9568034 -
Dod Dod08g2336 Chr08 51488789 51491028 -
Gma Gma17g02502 Chr17 43023675 43025199 -
Gma Gma14g02187 Chr14 53016015 53018205 -
Gso Gso14g1898 Chr14 51429660 51432001 -
Gso Gso17g2226 Chr17 41933575 41935090 -
Lan Lan5g0473 Chr5 10112285 10116588 +
Lja Lja5g3365 Chr5 65758058 65760375 -
Ssu Ssu5g0004 Chr5 53107 54634 -
Vra Vra6g1983 Chr6 36544295 36546177 +
Pvu Pvu1g0008 Chr1 149887 162657 +
Acco Acco05g3038 Chr05 44840600 44855140 -
Accr Accr3g00021 Chr3 251855 266186 +
Aed Aed11g0004 Chr11 27441 28336 -
Alju Alju07g2998 Chr07 54985651 55005594 -
Amo Amo06g0824 Chr06 11555860 11565440 -
Bisa Bisa05g0505 Chr05 8196479 8209786 +
Dere Dere05g2921 Chr05 39686645 39704026 -
Enph Enph7g1534 Chr7 20472478 20486111 -
Glsi Glsi10g0040 Chr10 365220 380275 +
Gma Gma17g02500 Chr17 43005128 43011643 -
Lal Lal10g0887 Chr10 16373019 16375674 +
Lele Lele25g0012 Chr25 61266 73237 +
Lele Lele27g2073 Chr27 24627074 24648093 -
Lele Lele28g0019 Chr28 90324 92093 +
Mal Mal1g6159 Chr1 140656009 140669943 -
Mepo Mepo4g01950 Chr4 24706439 24720915 -
Mesa Mesa1g00008 Chr1 105906 119933 +
Mibi Mibi08g2660 Chr08 44487726 44511114 -
Mtr Mtr1g0768 Chr1 8633454 8647929 -
Phco Phco2g00009 Chr2 126251 139671 +
Prci Prci2g0020 Chr2 208472 227623 +
Ssu Ssu5g0007 Chr5 112089 128028 +
Sto Sto5g0035 Chr5 216651 227838 +
Tpr Tpr1g3925 Chr1 43376576 43396601 +
Tsu Tsu01g00153 Chr01 1178546 1194394 +
Vra Vra6g1984 Chr6 36554088 36568873 -
Pvu Pvu1g0009 Chr1 165085 167549 -
Adu Adu06g01334 Chr06 18471775 18473942 +
Ahy Ahy16g0007 Chr16 63078 65355 -
Ahy Ahy6g1337 Chr6 20408890 20410977 +
Aip Aip06g00007 Chr06 58012 60230 -
Amo Amo06g0985 Chr06 13468778 13470867 +
Apr Apr9g0698 Chr9 11644378 11646477 +
Arst Arst6g01764 Chr6 18504701 18506751 +
Bach Bach3g02506 Chr3 30989650 30992372 +
Bva Bva10g01027 Chr10 7483870 7486530 +
Car Car04g03624 Chr04 65691694 65693582 +
Cca Cca05g00435 Chr05 9556200 9558799 +
Dod Dod08g2335 Chr08 51485008 51487701 +
Gma Gma14g02186 Chr14 53011023 53013397 +
Gso Gso14g1897 Chr14 51424792 51427152 +
Gso Gso17g2225 Chr17 41921883 41924343 +
Lasa Lasa6g00345 Chr6 9870940 9873672 +
Lja Lja5g3364 Chr5 65754368 65756877 +
Phco Phco2g00010 Chr2 143249 145135 -
Pumo Pumo9g00006 Chr9 170114 172492 -
Rops Rops9g02532 Chr9 47551994 47554391 -
Seca Seca4g01147 Chr4 18361364 18368463 +
Spst Spst8g02092 Chr8 29090190 29092046 +
Tpr Tpr1g3924 Chr1 43363129 43366758 -
Viun Viun8g00023 Chr8 132448 134399 +
Vivi Vivi4g06000 Chr4 197224722 197227304 +
Vra Vra6g1985 Chr6 36550656 36552797 +
Pvu Pvu1g0010 Chr1 169087 171622 +
Apr Apr9g0696 Chr9 11571389 11576668 -
Cca Cca05g00433 Chr05 9505073 9506175 -
Dod Dod08g2331 Chr08 51385230 51388770 -
Gma Gma14g02184 Chr14 52981181 52983872 -
Gso Gso14g1895 Chr14 51395970 51398249 -
Lasa Lasa5g04620 Chr5 680813842 680815220 -
Mal Mal1g6157 Chr1 140623367 140628768 -
Phco Phco2g00011 Chr2 146307 149886 +
Rops Rops9g02536 Chr9 47595738 47603692 +
Spst Spst8g02088 Chr8 29015294 29021412 -
Ssu Ssu5g0009 Chr5 138331 144897 +
Tsu Tsu01g00154 Chr01 1201620 1208080 +
Vivi Vivi4g05993 Chr4 197182224 197185330 -
Vra Vra6g1986 Chr6 36574337 36576590 +
Bva Bva10g01033 Chr10 7513282 7515236 -
Vivi Vivi4g06002 Chr4 197231806 197235450 +
Tpr Tpr1g3927 Chr1 43459640 43464455 -
Lan Lan3g1315 Chr3 25052837 25057071 +
Seca Seca4g01147 Chr4 18361364 18368463 +