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
Pvu11g1868 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01969 . Psa4g3122 . . . . . . . . . . . . Vimu5g00883 . . .
Pvu11g1869 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01970 . . . . . . . . . . . . . . Vimu5g00880 . . .
Pvu11g1870 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01971 . . . . . . . . . . . . . . . . . Vra2g1297
Pvu11g1871 . . . Aed4g1296 . . . . . . . Apr5g0729 . Bach9g01056 . Bva07g01389 Car07g02373 Cca04g01663 . Dod09g0790 . . Gma08g02147 . . Gso8g1943 . . Lal9g0607 . . . . Lasa4g01273 . . . . . Mal5g2107 Mepo1g03199 Mesa29g03628 . Mtr8g1440 . Phco9g01972 . . Pste1g01450 Pumo10g02538 . Seca4g09611 Spst11g00428 Ssu2g0461 . Tpr7g1455 Trre15g01677 Tsu08g01621 . . Vimu5g00872 . Vivi7g00077 .
Pvu11g1872 . . . . . . . . . . . . . . . . . Cca04g01661 . . . . Gma08g02146 . . Gso8g1942 . . . Lan7g0692 . . . . . . . . . . Mepo1g03200 Mesa29g03629 . Mtr8g1439 . Phco9g01973 . . Pste1g00180 Pumo10g02537 . Seca4g09612 Spst11g00427 Ssu2g0460 . . Trre15g01676 Tsu08g01620 Vian5g00466 Vifa4g00397 Vimu5g00869 . . .
Pvu11g1873 . . . Aed4g1311 . . . . . . . . . Bach9g01057 . Bva07g01388 . Cca04g01659 . Dod09g0791 . . Gma08g02144 Gma15g02077 . Gso8g1940 . . . . . . . Lasa4g01274 . . . . . Mal5g2106 . . . . . Phco9g01975 . . Pste1g00147 Pumo10g02536 Rops3g02305 Seca4g06832 Spst11g00425 Ssu2g0459 . Tpr7g1456 . . Vian5g00464 . Vimu5g00856 . Vivi7g00075 .
Pvu11g1874 . . . . . . . . . . . . . . . . . Cca04g01658 . . . . Gma08g02143 . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g00282 Pumo10g02535 . . . . . . . . . . . . . .
Pvu11g1875 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01976 . . . . . . . . . . . . . . . . . .
Pvu11g1876 . . . . Aev08g1503 . . . . . . Apr5g0774 . Bach9g01060 . Bva07g01385 . Cca04g01651 . . . . Gma08g02141 Gma15g02079 Gso15g1823 Gso8g1938 . . . . . . . Lasa4g01275 . . . . . Mal5g2105 Mepo1g03202 Mesa29g03630 . Mtr8g1438 . Phco9g01977 . . Pste1g00329 Pumo10g02533 Rops3g02306 Seca4g06847 . Ssu2g0457 . Tpr7g1458 Trre15g01674 Tsu08g01618 Vian5g00463 Vifa4g00400 Vimu5g00854 . Vivi7g00072 .
Pvu11g1877 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Seca Seca4g06847 Chr4 143219167 143221954 +
Seca Seca4g06832 Chr4 143047505 143050757 -
Pste Pste1g01450 Chr1 4571569 4581410 +
Pvu Pvu11g1868 Chr11 45521278 45527936 -
Phco Phco9g01969 Chr9 44571755 44578072 -
Psa Psa4g3122 Chr4 255915594 255924805 +
Vimu Vimu5g00883 Chr5 11771996 11772319 +
Pvu Pvu11g1869 Chr11 45531903 45535000 +
Phco Phco9g01970 Chr9 44578986 44583471 +
Vimu Vimu5g00880 Chr5 11656458 11660528 -
Pvu Pvu11g1870 Chr11 45552649 45555580 +
Phco Phco9g01971 Chr9 44590098 44592071 +
Vra Vra2g1297 Chr2 20092463 20096209 +
Pvu Pvu11g1871 Chr11 45566114 45585874 +
Aed Aed4g1296 Chr4 14816622 14840878 +
Apr Apr5g0729 Chr5 10041702 10080290 -
Bach Bach9g01056 Chr9 7946905 7959235 +
Bva Bva07g01389 Chr07 14256601 14269104 -
Car Car07g02373 Chr07 42395076 42420584 -
Cca Cca04g01663 Chr04 26466782 26467577 -
Dod Dod09g0790 Chr09 24595574 24667014 -
Gma Gma08g02147 Chr08 19802167 19859901 -
Gso Gso8g1943 Chr8 19476162 19550747 -
Lal Lal9g0607 Chr9 4097575 4119439 +
Lasa Lasa4g01273 Chr4 112557485 112580559 +
Mal Mal5g2107 Chr5 49686091 49708485 -
Mepo Mepo1g03199 Chr1 36663518 36687318 +
Mesa Mesa29g03628 Chr29 58905354 58924175 +
Mtr Mtr8g1440 Chr8 17905801 17926527 -
Phco Phco9g01972 Chr9 44602153 44627860 +
Pste Pste1g01450 Chr1 4571569 4581410 +
Pumo Pumo10g02538 Chr10 43630824 43656622 -
Seca Seca4g09611 Chr4 226541529 226578671 +
Spst Spst11g00428 Chr11 24967503 24988785 -
Ssu Ssu2g0461 Chr2 26496161 26534026 -
Tpr Tpr7g1455 Chr7 16094943 16116124 +
Trre Trre15g01677 Chr15 13455496 13473692 -
Tsu Tsu08g01621 Chr08 19225568 19244496 -
Vimu Vimu5g00872 Chr5 11514338 11540718 -
Vivi Vivi7g00077 Chr7 3980400 4015624 -
Pvu Pvu11g1872 Chr11 45585875 45588451 -
Cca Cca04g01661 Chr04 26385111 26386877 +
Gma Gma08g02146 Chr08 19730549 19734051 +
Gso Gso8g1942 Chr8 19437021 19440444 +
Lan Lan7g0692 Chr7 5796211 5798237 -
Mepo Mepo1g03200 Chr1 36685218 36687362 -
Mesa Mesa29g03629 Chr29 58924897 58926699 -
Mtr Mtr8g1439 Chr8 17903599 17905681 +
Phco Phco9g01973 Chr9 44628350 44630672 -
Pste Pste1g00180 Chr1 665371 669323 +
Pumo Pumo10g02537 Chr10 43614450 43616820 +
Seca Seca4g09612 Chr4 226578460 226580828 -
Spst Spst11g00427 Chr11 24965062 24967020 +
Ssu Ssu2g0460 Chr2 26493551 26495672 +
Trre Trre15g01676 Chr15 13452977 13454860 +
Tsu Tsu08g01620 Chr08 19223221 19225476 +
Vian Vian5g00466 Chr5 12629450 12631604 +
Vifa Vifa4g00397 Chr4 105599269 105600916 +
Vimu Vimu5g00869 Chr5 11451038 11453185 +
Pvu Pvu11g1873 Chr11 45594182 45597318 -
Aed Aed4g1311 Chr4 15483811 15487490 +
Bach Bach9g01057 Chr9 7959409 7961240 -
Bva Bva07g01388 Chr07 14254437 14256364 +
Cca Cca04g01659 Chr04 26376932 26380240 +
Dod Dod09g0791 Chr09 24595574 24597122 +
Gma Gma08g02144 Chr08 19701972 19704982 +
Gma Gma15g02077 Chr15 37796959 37802984 +
Gso Gso8g1940 Chr8 19416570 19419475 +
Lasa Lasa4g01274 Chr4 112581231 112584508 -
Mal Mal5g2106 Chr5 49682723 49684706 +
Phco Phco9g01975 Chr9 44633407 44638699 -
Pste Pste1g00147 Chr1 571903 576151 +
Pumo Pumo10g02536 Chr10 43601565 43605199 +
Rops Rops3g02305 Chr3 46361650 46364126 -
Seca Seca4g06832 Chr4 143047505 143050757 -
Spst Spst11g00425 Chr11 24960277 24963134 +
Ssu Ssu2g0459 Chr2 26471226 26474310 +
Tpr Tpr7g1456 Chr7 16116190 16118347 -
Vian Vian5g00464 Chr5 12578049 12580989 +
Vimu Vimu5g00856 Chr5 11234685 11239227 +
Vivi Vivi7g00075 Chr7 3978362 3980356 +
Pvu Pvu11g1874 Chr11 45618718 45634453 +
Cca Cca04g01658 Chr04 26300493 26313715 -
Gma Gma08g02143 Chr08 19686939 19697269 +
Pste Pste1g00282 Chr1 993143 998309 -
Pumo Pumo10g02535 Chr10 43550188 43565504 -
Pvu Pvu11g1875 Chr11 45635976 45636159 +
Phco Phco9g01976 Chr9 44649838 44657401 +
Pvu Pvu11g1876 Chr11 45648820 45651616 +
Aev Aev08g1503 Chr08 10610469 10614348 -
Apr Apr5g0774 Chr5 10987971 10991129 -
Bach Bach9g01060 Chr9 7973993 7976061 +
Bva Bva07g01385 Chr07 14240690 14243457 -
Cca Cca04g01651 Chr04 26074956 26077984 -
Gma Gma08g02141 Chr08 19632011 19635113 -
Gma Gma15g02079 Chr15 37821347 37824351 +
Gso Gso15g1823 Chr15 36716822 36720414 +
Gso Gso8g1938 Chr8 19356754 19360255 -
Lasa Lasa4g01275 Chr4 113099172 113100996 +
Mal Mal5g2105 Chr5 49586425 49589870 -
Mepo Mepo1g03202 Chr1 36738983 36742594 +
Mesa Mesa29g03630 Chr29 58972032 58974854 +
Mtr Mtr8g1438 Chr8 17866409 17869736 -
Phco Phco9g01977 Chr9 44670605 44673049 +
Pste Pste1g00329 Chr1 1162883 1166198 +
Pumo Pumo10g02533 Chr10 43450987 43453563 -
Rops Rops3g02306 Chr3 46378856 46381962 +
Seca Seca4g06847 Chr4 143219167 143221954 +
Ssu Ssu2g0457 Chr2 26408161 26410500 -
Tpr Tpr7g1458 Chr7 16150232 16153712 +
Trre Trre15g01674 Chr15 13436453 13439515 -
Tsu Tsu08g01618 Chr08 19192451 19195869 -
Vian Vian5g00463 Chr5 12501697 12504029 -
Vifa Vifa4g00400 Chr4 106670609 106672253 +
Vimu Vimu5g00854 Chr5 11172374 11174715 -
Vivi Vivi7g00072 Chr7 3829382 3831997 -
Pvu Pvu11g1877 Chr11 45654689 45654719 +