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
Pvu11g1728 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1729 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1730 . . . Aed5g1283 . . . . . . . . . . . . . Cca04g01534 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g04085 Pumo11g00524 . . Spst11g00523 Ssu3g1677 . . . . Vian5g00260 . Vimu5g00465 . . Vra2g1369
Pvu11g1731 . . . Aed5g1286 . . . . . . . . . . . . . Cca04g01535 . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01859 . . Pste1g04087 Pumo11g00522 . . Spst11g00516 . . . . . Vian5g00259 . Vimu5g00464 . . Vra2g1367
Pvu11g1732 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1733 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1734 . . . Aed5g1287 . . . . . . . . . . . . . Cca04g01537 . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01860 . . Pste1g04089 Pumo11g00484 . . Spst11g00513 . . . . . . . Vimu5g00457 . . Vra2g1365
Pvu11g1735 . . . Aed5g1289 . . . . . . . . . . . . . Cca04g01538 . . . . . . . . . . . . . . . Lasa4g01434 . . . . . Mal5g2293 Mepo1g03033 Mesa29g03409 . Mtr8g1609 . Phco9g01861 . . Pste1g04091 . . . Spst11g00510 Ssu3g1668 . Tpr7g1329 Trre15g02406 . Vian5g00256 Vifa4g00250 Vimu5g00456 . . Vra2g1359
Pvu11g1736 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Spst11g00509 . . . . . . . Vimu5g00454 . . Vra2g1358
Pvu11g1737 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu11g1728 Chr11 43624361 43624546 -
Pvu Pvu11g1729 Chr11 43635995 43638209 +
Pvu Pvu11g1730 Chr11 43645622 43646833 +
Aed Aed5g1283 Chr5 12233893 12235762 -
Cca Cca04g01534 Chr04 22116729 22118365 -
Pste Pste1g04085 Chr1 23866748 23870171 -
Pumo Pumo11g00524 Chr11 18799417 18800863 +
Spst Spst11g00523 Chr11 27194557 27197909 -
Ssu Ssu3g1677 Chr3 49554067 49555764 -
Vian Vian5g00260 Chr5 5483966 5497271 -
Vimu Vimu5g00465 Chr5 4594316 4595419 -
Vra Vra2g1369 Chr2 21900052 21901316 -
Pvu Pvu11g1731 Chr11 43676866 43678126 +
Aed Aed5g1286 Chr5 12299850 12300749 +
Cca Cca04g01535 Chr04 22138328 22140033 -
Phco Phco9g01859 Chr9 43093030 43094190 -
Pste Pste1g04087 Chr1 23903339 23905511 +
Pumo Pumo11g00522 Chr11 18696105 18697144 -
Spst Spst11g00516 Chr11 26977147 26978167 +
Vian Vian5g00259 Chr5 5423050 5424124 -
Vimu Vimu5g00464 Chr5 4569284 4570845 -
Vra Vra2g1367 Chr2 21817638 21818857 -
Pvu Pvu11g1732 Chr11 43703449 43703691 +
Pvu Pvu11g1733 Chr11 43704372 43705475 -
Pvu Pvu11g1734 Chr11 43710467 43711598 -
Aed Aed5g1287 Chr5 12306121 12307032 -
Cca Cca04g01537 Chr04 22208224 22210184 -
Phco Phco9g01860 Chr9 43114798 43115682 -
Pste Pste1g04089 Chr1 23932515 23935078 -
Pumo Pumo11g00484 Chr11 17696207 17698718 -
Spst Spst11g00513 Chr11 26931233 26932392 -
Vimu Vimu5g00457 Chr5 4495713 4496597 +
Vra Vra2g1365 Chr2 21750013 21751229 -
Pvu Pvu11g1735 Chr11 43722880 43726750 -
Aed Aed5g1289 Chr5 12342268 12345710 -
Cca Cca04g01538 Chr04 22219799 22223562 -
Lasa Lasa4g01434 Chr4 157435275 157438649 -
Mal Mal5g2293 Chr5 58782015 58785357 +
Mepo Mepo1g03033 Chr1 33713723 33717336 -
Mesa Mesa29g03409 Chr29 53316668 53320033 -
Mtr Mtr8g1609 Chr8 23496969 23500828 +
Phco Phco9g01861 Chr9 43145525 43149028 -
Pste Pste1g04091 Chr1 23979286 23983116 -
Spst Spst11g00510 Chr11 26892200 26895654 +
Ssu Ssu3g1668 Chr3 48861870 48862771 -
Tpr Tpr7g1329 Chr7 14093140 14096996 +
Trre Trre15g02406 Chr15 19914400 19917768 -
Vian Vian5g00256 Chr5 5333885 5337243 +
Vifa Vifa4g00250 Chr4 50099448 50102808 -
Vimu Vimu5g00456 Chr5 4476468 4479827 +
Vra Vra2g1359 Chr2 21654429 21658092 +
Pvu Pvu11g1736 Chr11 43730624 43743321 -
Spst Spst11g00509 Chr11 26873106 26890202 +
Vimu Vimu5g00454 Chr5 4437527 4465486 +
Vra Vra2g1358 Chr2 21596091 21643890 +
Pvu Pvu11g1737 Chr11 43746211 43746279 -