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
Pvu11g1608 . . . . . . . . . . . . . . . . . . . . . . . . Gso12g1221 . . . . . . . . . . . . . . . . . . . . Phco9g01740 . . . . . . . . . . . . . . Vimu5g00388 . Vivi7g00189 .
Pvu11g1609 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g2437 . . . . . . Phco9g01741 . . Pste1g03923 . . . . . . . . Tsu08g02042 . . Vimu5g00389 . Vivi7g00219 Vra2g1307
Pvu11g1610 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g2436 . . . . . . Phco9g01743 . . Pste1g03922 . . . . . . . . Tsu08g02029 . . Vimu5g00390 . . Vra2g1306
Pvu11g1611 . . . . . . . . . Amo13g2271 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g2430 . . . . . . Phco9g01744 . . Pste1g03920 . . . . . . . . Tsu08g02024 . . Vimu5g00391 . Vivi7g00204 Vra2g1304
Pvu11g1612 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01745 . . . . . . . . . . . . . . Vimu5g00392 . . Vra2g1303
Pvu11g1613 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01746 . . . . . . . . . . . . . . . . . .
Pvu11g1614 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra2g1262
Pvu11g1615 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g2426 . . . . . . Phco9g01748 . . Pste1g03917 . . . . . . . . . . . Vimu5g00523 . . Vra2g1261
Pvu11g1616 . . Adu03g01687 . . . Ahy13g1816 Aip03g02012 . . Amo03g0184 . Arst3g02249 . . . . . . . . . . . . . . . . . . . . Lasa4g01545 . . . . Lja3g2418 . . . . . . Phco9g01749 . . Pste1g03916 . . . . . . Tpr7g2016 . Tsu08g02004 . . Vimu5g00524 . . Vra2g1260
Pvu11g1617 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja3g2426 Chr3 29809152 29811346 +
Pvu Pvu11g1608 Chr11 40936824 40939793 +
Gso Gso12g1221 Chr12 21543843 21550368 -
Phco Phco9g01740 Chr9 41151240 41164322 +
Vimu Vimu5g00388 Chr5 3589994 3593080 +
Vivi Vivi7g00189 Chr7 10941174 10949217 +
Pvu Pvu11g1609 Chr11 40939940 40944994 -
Lja Lja3g2437 Chr3 30103320 30108361 +
Phco Phco9g01741 Chr9 41165152 41169863 -
Pste Pste1g03923 Chr1 20210540 20215434 +
Tsu Tsu08g02042 Chr08 26909808 26915931 +
Vimu Vimu5g00389 Chr5 3597425 3601110 -
Vivi Vivi7g00219 Chr7 12591606 12595415 +
Vra Vra2g1307 Chr2 20744676 20751104 +
Pvu Pvu11g1610 Chr11 40961809 40970542 -
Lja Lja3g2436 Chr3 30096592 30102257 +
Phco Phco9g01743 Chr9 41200665 41210237 -
Pste Pste1g03922 Chr1 20202429 20207686 +
Tsu Tsu08g02029 Chr08 26561101 26568378 +
Vimu Vimu5g00390 Chr5 3616539 3622859 -
Vra Vra2g1306 Chr2 20728325 20734757 +
Pvu Pvu11g1611 Chr11 41014856 41029550 +
Amo Amo13g2271 Chr13 38777213 38781977 -
Lja Lja3g2430 Chr3 29818400 29829904 -
Phco Phco9g01744 Chr9 41232911 41248152 +
Pste Pste1g03920 Chr1 20179066 20182167 -
Tsu Tsu08g02024 Chr08 26491575 26505926 -
Vimu Vimu5g00391 Chr5 3652928 3667560 +
Vivi Vivi7g00204 Chr7 11750098 11779002 +
Vra Vra2g1304 Chr2 20678803 20703741 -
Pvu Pvu11g1612 Chr11 41049466 41052652 -
Phco Phco9g01745 Chr9 41260666 41263235 -
Vimu Vimu5g00392 Chr5 3680980 3683506 -
Vra Vra2g1303 Chr2 20671821 20674629 +
Pvu Pvu11g1613 Chr11 41073051 41075529 +
Phco Phco9g01746 Chr9 41270907 41273140 +
Pvu Pvu11g1614 Chr11 41086946 41089750 +
Vra Vra2g1262 Chr2 18262606 18266316 +
Pvu Pvu11g1615 Chr11 41091969 41094161 -
Lja Lja3g2426 Chr3 29809152 29811346 +
Phco Phco9g01748 Chr9 41283141 41284896 -
Pste Pste1g03917 Chr1 20157832 20160804 +
Vimu Vimu5g00523 Chr5 5464433 5466571 -
Vra Vra2g1261 Chr2 18256426 18258568 +
Pvu Pvu11g1616 Chr11 41097508 41105418 -
Adu Adu03g01687 Chr03 27988255 27998074 +
Ahy Ahy13g1816 Chr13 29686780 29721145 +
Aip Aip03g02012 Chr03 28562474 28588318 +
Amo Amo03g0184 Chr03 3611025 3632707 -
Arst Arst3g02249 Chr3 28326112 28348497 +
Lasa Lasa4g01545 Chr4 221799124 221803005 -
Lja Lja3g2418 Chr3 29614845 29621395 +
Phco Phco9g01749 Chr9 41306758 41314220 -
Pste Pste1g03916 Chr1 20142912 20150736 +
Tpr Tpr7g2016 Chr7 24830746 24837503 +
Tsu Tsu08g02004 Chr08 26246237 26252153 +
Vimu Vimu5g00524 Chr5 5470185 5477195 -
Vra Vra2g1260 Chr2 18238325 18245587 +
Pvu Pvu11g1617 Chr11 41121571 41121880 +
Vimu Vimu5g00523 Chr5 5464433 5466571 -