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
Pvu11g1988 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1989 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1990 . . . Aed4g1431 . . . . . . . Apr5g0880 . . Bisa02g2463 Bva07g01061 Car07g02457 Cca04g01758 . . . . Gma13g01660 Gma15g02165 Gso15g1898 Gso11g2213 Lal1g0663 Lal2g0738 . . . Lan13g0664 . . . . . . . Mal5g1899 . . . Mtr8g1319 . . . . . Pumo10g02777 . . . . Sto4g2418 Tpr7g1545 . Tsu08g01497 . Vifa4g00517 . . . .
Pvu11g1991 . . . . . Ahy20g2985 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g00376 . . . . . . . . . . . . . . .
Pvu11g1992 . . . . . . . . . . . . . . . . . . . . . . . . Gso15g1899 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1993 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1994 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g00364 . . . . Ssu2g0331 . . . . . . . . . .
Pvu11g1995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1996 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pste1g00350 . . . . . . . . . . . . . . .
Pvu11g1997 . . Adu10g02807 Aed4g1432 . . Ahy10g2543 Aip10g03512 . . . . . . . Bva07g01062 Car07g02458 Cca04g01759 . . . . Gma13g01661 . . Gso11g2214 . . . . . . . . . . . . . . Mepo1g03347 . . Mtr8g1318 . . Prci6g2117 . . . . . . . Sto4g2417 Tpr7g1546 . Tsu08g01496 . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Adu Adu10g02807 Chr10 104651268 104657661 -
Aip Aip10g03512 Chr10 133564411 133574686 -
Pvu Pvu11g1988 Chr11 46775773 46775939 -
Pvu Pvu11g1989 Chr11 46783251 46783436 -
Pvu Pvu11g1990 Chr11 46789437 46794291 +
Aed Aed4g1431 Chr4 18824092 18828621 +
Apr Apr5g0880 Chr5 12911487 12915971 +
Bisa Bisa02g2463 Chr02 61737438 61750029 +
Bva Bva07g01061 Chr07 12181423 12185952 +
Car Car07g02457 Chr07 45855059 45860268 +
Cca Cca04g01758 Chr04 31380991 31384571 +
Gma Gma13g01660 Chr13 31464941 31475364 +
Gma Gma15g02165 Chr15 44222205 44224929 +
Gso Gso15g1898 Chr15 41633537 41638651 +
Gso Gso11g2213 Chr11 37793088 37798465 +
Lal Lal1g0663 Chr1 4338016 4342850 -
Lal Lal2g0738 Chr2 4661260 4666069 +
Lan Lan13g0664 Chr13 5659504 5664622 -
Mal Mal5g1899 Chr5 40338374 40341164 -
Mtr Mtr8g1319 Chr8 16243272 16247657 -
Pumo Pumo10g02777 Chr10 53140087 53145430 +
Sto Sto4g2418 Chr4 25589366 25592857 -
Tpr Tpr7g1545 Chr7 17382031 17386316 +
Tsu Tsu08g01497 Chr08 17315278 17318322 -
Vifa Vifa4g00517 Chr4 143184355 143187250 -
Pvu Pvu11g1991 Chr11 46799010 46804327 +
Ahy Ahy20g2985 Chr20 140575077 140579238 +
Pste Pste1g00376 Chr1 1311590 1312372 -
Pvu Pvu11g1992 Chr11 46805742 46809156 +
Gso Gso15g1899 Chr15 41717604 41726910 +
Pvu Pvu11g1993 Chr11 46812604 46813295 +
Pvu Pvu11g1994 Chr11 46813458 46817406 +
Pste Pste1g00364 Chr1 1282381 1283226 +
Ssu Ssu2g0331 Chr2 21637067 21640153 -
Pvu Pvu11g1995 Chr11 46837203 46838649 +
Pvu Pvu11g1996 Chr11 46856940 46861684 +
Pste Pste1g00350 Chr1 1238959 1239450 +
Pvu Pvu11g1997 Chr11 46862516 46868576 -
Adu Adu10g02807 Chr10 104651268 104657661 -
Aed Aed4g1432 Chr4 18829429 18835772 -
Ahy Ahy10g2543 Chr10 114928318 114934537 -
Aip Aip10g03512 Chr10 133564411 133574686 -
Bva Bva07g01062 Chr07 12186362 12189260 -
Car Car07g02458 Chr07 45970598 45976270 -
Cca Cca04g01759 Chr04 31419598 31425403 -
Gma Gma13g01661 Chr13 31476319 31485238 -
Gso Gso11g2214 Chr11 37799156 37804789 -
Mepo Mepo1g03347 Chr1 38547648 38552320 -
Mtr Mtr8g1318 Chr8 16238149 16242852 +
Prci Prci6g2117 Chr6 28126689 28131259 +
Sto Sto4g2417 Chr4 25579812 25590173 +
Tpr Tpr7g1546 Chr7 17386551 17391727 -
Tsu Tsu08g01496 Chr08 17309137 17314549 +
Pste Pste1g00376 Chr1 1311590 1312372 -