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
Pvu9g1988 . . . . . Ahy20g2442 Ahy10g1959 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr3g0609 . . . . . . . . . . . Tpr3g4347 . Tsu03g00568 . . . . . Vra3g1123
Pvu9g1989 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal4g1292 . . Lan3g0706 . . . . . . . . . . . . . Phco7g02316 . Psa1g0642 Pste2g00489 . . . . . . . . . . . Vimu10g00970 . Vivi4g01584 Vra3g1124
Pvu9g1990 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1991 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1992 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo5g02856 Mesa9g00732 . Mtr3g0604 . Phco7g02317 . . Pste2g00490 . . . . . . . . . . . Vimu10g00968 . . Vra3g1125
Pvu9g1993 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1994 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mepo5g02853 Mesa9g00729 . Mtr3g0602 . Phco7g02318 . . Pste2g00491 . . . . . . . Trre5g01757 Tsu03g00573 . . Vimu10g00964 . . Vra3g1126
Pvu9g1996 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lan14g0312 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu9g1997 . . . . . Ahy20g2443 Ahy10g1962 . . . . . . . . . . Cca03g00759 . . . . . . . . . . . . . . . . . . . . . . Mepo5g02850 . . Mtr3g0600 . Phco7g02319 . . Pste2g00496 . . . . . . . Trre5g01755 Tsu03g00575 . . . . . Vra3g1127
   
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Select Species Gene Chromosome Start End Strand
Tpr Tpr3g4347 Chr3 48514985 48518497 -
Lan Lan3g0706 Chr3 12528552 12535732 -
Pvu Pvu9g1988 Chr9 28477571 28482192 -
Ahy Ahy20g2442 Chr20 130200874 130206211 -
Ahy Ahy10g1959 Chr10 105741762 105746890 -
Mtr Mtr3g0609 Chr3 8151787 8156866 +
Tpr Tpr3g4347 Chr3 48514985 48518497 -
Tsu Tsu03g00568 Chr03 4875885 4880863 -
Vra Vra3g1123 Chr3 11730673 11734652 -
Pvu Pvu9g1989 Chr9 28503666 28507417 -
Lal Lal4g1292 Chr4 16979854 16990681 +
Lan Lan3g0706 Chr3 12528552 12535732 -
Phco Phco7g02316 Chr7 40728457 40733879 -
Psa Psa1g0642 Chr1 39822881 39825274 +
Pste Pste2g00489 Chr2 4503434 4508797 -
Vimu Vimu10g00970 Chr10 8729930 8733661 +
Vivi Vivi4g01584 Chr4 63283305 63286368 -
Vra Vra3g1124 Chr3 11755016 11759207 -
Pvu Pvu9g1990 Chr9 28551219 28553795 +
Pvu Pvu9g1991 Chr9 28576271 28578925 +
Pvu Pvu9g1992 Chr9 28581146 28586657 -
Mepo Mepo5g02856 Chr5 34641966 34649401 +
Mesa Mesa9g00732 Chr9 15686972 15693530 +
Mtr Mtr3g0604 Chr3 8025859 8033549 +
Phco Phco7g02317 Chr7 40736842 40741899 -
Pste Pste2g00490 Chr2 4518874 4527446 -
Vimu Vimu10g00968 Chr10 8720479 8724521 +
Vra Vra3g1125 Chr3 11765490 11770336 -
Pvu Pvu9g1993 Chr9 28592244 28592788 +
Pvu Pvu9g1994 Chr9 28595597 28596455 +
Pvu Pvu9g1995 Chr9 28598471 28609211 +
Mepo Mepo5g02853 Chr5 34587478 34594976 -
Mesa Mesa9g00729 Chr9 15497791 15504291 +
Mtr Mtr3g0602 Chr3 7991380 8002013 -
Phco Phco7g02318 Chr7 40752348 40765098 +
Pste Pste2g00491 Chr2 4537549 4550965 +
Trre Trre5g01757 Chr5 12914949 12921792 -
Tsu Tsu03g00573 Chr03 4915004 4926560 +
Vimu Vimu10g00964 Chr10 8696737 8703257 -
Vra Vra3g1126 Chr3 11784065 11804007 +
Pvu Pvu9g1996 Chr9 28642444 28646823 +
Lan Lan14g0312 Chr14 5980229 5981879 +
Pvu Pvu9g1997 Chr9 28668624 28671983 +
Ahy Ahy20g2443 Chr20 130274793 130277295 +
Ahy Ahy10g1962 Chr10 105811357 105813471 +
Cca Cca03g00759 Chr03 16335944 16336612 -
Mepo Mepo5g02850 Chr5 34546312 34550992 -
Mtr Mtr3g0600 Chr3 7935966 7938071 -
Phco Phco7g02319 Chr7 40780106 40783092 +
Pste Pste2g00496 Chr2 4568635 4574706 +
Trre Trre5g01755 Chr5 12896234 12899761 -
Tsu Tsu03g00575 Chr03 4929782 4932706 +
Vra Vra3g1127 Chr3 11807399 11810780 +