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
Pvu11g1558 . . . . . . Ahy13g1780 Aip03g01971 . Amo13g2231 Amo03g0251 Apr5g0035 . . . Bva07g01826 . Cca04g01338 . . . . Gma12g01306 Gma06g02356 Gso12g1188 . . . . . . . . . . . . . . Mal5g2442 . Mesa29g03228 . Mtr8g1725 . . . . . Pumo11g00768 . . . . . . . . . . . . . .
Pvu11g1559 . . . . . . Ahy13g1781 . . Amo13g2243 . Apr5g0041 . . . . . Cca04g01341 . . . . . Gma06g02353 Gso12g1200 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1560 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1561 . . . . . . Ahy13g1782 Aip03g01975 . Amo13g2244 . Apr5g0043 . . . . . Cca04g01344 . . . . . Gma06g02351 Gso12g1204 . . . . . . . . . . . . . . Mal5g2438 . Mesa29g03241 . Mtr8g1723 . . . . . . . . . Ssu3g1934 . Tpr7g1999 . . . . . . . .
Pvu11g1562 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1563 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1564 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01698 . . . . . . . . . . . . . . . . . .
Pvu11g1566 . . Adu03g01637 . . . Ahy3g1510 Aip03g01976 . . Amo03g0249 . . . . . . Cca04g01345 . Dod03g1913 . . Gma12g01308 Gma06g02349 Gso12g1205 . . . . . . . . Lasa7g02775 . . . . . Mal5g2437 . . . . . Phco9g01708 . . . Pumo11g00766 . . . . . Tpr7g1997 . . . . Vimu5g00364 . . .
Pvu11g1567 . . . . . . Ahy3g1512 Aip03g01977 . Amo13g2246 . Apr5g0044 . . . . . Cca04g01351 . . . . Gma12g01320 . Gso12g1209 . . . . . . . . . . . . . . . . Mesa29g03242 . Mtr8g1722 . . . . . . . . . Ssu3g1930 . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Pvu Pvu11g1558 Chr11 39455311 39458490 +
Ahy Ahy13g1780 Chr13 28808623 28812037 +
Aip Aip03g01971 Chr03 27497495 27502857 +
Amo Amo13g2231 Chr13 38034910 38063816 -
Amo Amo03g0251 Chr03 4564125 4567339 -
Apr Apr5g0035 Chr5 288208 302805 +
Bva Bva07g01826 Chr07 16561483 16565269 -
Cca Cca04g01338 Chr04 17225630 17229261 +
Gma Gma12g01306 Chr12 18908192 18911496 +
Gma Gma06g02356 Chr06 44997403 45000991 +
Gso Gso12g1188 Chr12 19071768 19075373 -
Mal Mal5g2442 Chr5 67365173 67368360 +
Mesa Mesa29g03228 Chr29 47497717 47501092 -
Mtr Mtr8g1725 Chr8 25629300 25632169 +
Pumo Pumo11g00768 Chr11 26576683 26581545 +
Pvu Pvu11g1559 Chr11 39468875 39472334 +
Ahy Ahy13g1781 Chr13 28814452 28818422 -
Amo Amo13g2243 Chr13 38290716 38294261 +
Apr Apr5g0041 Chr5 385676 389448 -
Cca Cca04g01341 Chr04 17299033 17312903 +
Gma Gma06g02353 Chr06 44876203 44879560 +
Gso Gso12g1200 Chr12 19787546 19791262 -
Pvu Pvu11g1560 Chr11 39475685 39482289 +
Pvu Pvu11g1561 Chr11 39484380 39487942 +
Ahy Ahy13g1782 Chr13 28865985 28870374 -
Aip Aip03g01975 Chr03 27621909 27682111 -
Amo Amo13g2244 Chr13 38296506 38300261 -
Apr Apr5g0043 Chr5 404545 407761 +
Cca Cca04g01344 Chr04 17354374 17358517 -
Gma Gma06g02351 Chr06 44778583 44781888 +
Gso Gso12g1204 Chr12 19868178 19871896 -
Mal Mal5g2438 Chr5 67264615 67268096 +
Mesa Mesa29g03241 Chr29 47904071 47907400 -
Mtr Mtr8g1723 Chr8 25570977 25574647 -
Ssu Ssu3g1934 Chr3 61609878 61612877 +
Tpr Tpr7g1999 Chr7 24516214 24520403 -
Pvu Pvu11g1562 Chr11 39513961 39514143 -
Pvu Pvu11g1563 Chr11 39530459 39530641 -
Pvu Pvu11g1564 Chr11 39549378 39549734 -
Pvu Pvu11g1565 Chr11 39553917 39555854 +
Phco Phco9g01698 Chr9 40107404 40109216 +
Pvu Pvu11g1566 Chr11 39603327 39606811 +
Adu Adu03g01637 Chr03 26815688 26820445 +
Ahy Ahy3g1510 Chr3 27056041 27060295 -
Aip Aip03g01976 Chr03 27699008 27702357 +
Amo Amo03g0249 Chr03 4552993 4557236 +
Cca Cca04g01345 Chr04 17360250 17363979 -
Dod Dod03g1913 Chr03 41182853 41186244 -
Gma Gma12g01308 Chr12 18931783 18935789 -
Gma Gma06g02349 Chr06 44681057 44715282 +
Gso Gso12g1205 Chr12 19970790 19974751 -
Lasa Lasa7g02775 Chr7 546559220 546561712 +
Mal Mal5g2437 Chr5 67135986 67139280 +
Phco Phco9g01708 Chr9 40256348 40258623 -
Pumo Pumo11g00766 Chr11 26243558 26262331 +
Tpr Tpr7g1997 Chr7 24490823 24505564 -
Vimu Vimu5g00364 Chr5 3280513 3282105 +
Pvu Pvu11g1567 Chr11 39616915 39618990 +
Ahy Ahy3g1512 Chr3 27107029 27110341 +
Aip Aip03g01977 Chr03 27704826 27708667 -
Amo Amo13g2246 Chr13 38358673 38362787 -
Apr Apr5g0044 Chr5 427946 431463 -
Cca Cca04g01351 Chr04 17446460 17450198 +
Gma Gma12g01320 Chr12 19382385 19441663 -
Gso Gso12g1209 Chr12 20252489 20316894 +
Mesa Mesa29g03242 Chr29 47952861 47986876 -
Mtr Mtr8g1722 Chr8 25533921 25538085 -
Ssu Ssu3g1930 Chr3 61449064 61451287 -
Tpr Tpr7g1999 Chr7 24516214 24520403 -