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
Pvu11g1948 . . . Aed4g1390 Aev08g1325 . . . . . . Apr5g0862 . . . . . Cca04g01724 . . . . . . . . Lal1g0672 . Lal9g0653 Lan7g0735 Lan8g1288 Lan13g0671 . . . . . . Lja3g2713 . . . . . . Phco9g02040 . . Pste1g01151 . . . . . . . . . . . . . . .
Pvu11g1949 . . . Aed4g1391 Aev08g1324 . . . . . . Apr5g0861 . . . . . Cca04g01725 . . . . . . . . . . Lal9g0654 . Lan8g1289 . . . . . . . . . . . . . . Phco9g02041 . . Pste1g01135 . . . . . . . . . . . . . . .
Pvu11g1950 . . . Aed4g1393 . . . . . . . Apr5g0860 . . . . . Cca04g01726 . . . . . . . . . Lal2g0726 Lal9g0656 Lan7g0737 Lan8g1290 . . . . . . . Lja3g2589 . . . . . . Phco9g02042 . . Pste1g01126 Pumo10g02556 Rops3g02407 Seca4g09676 . Ssu2g0392 . . . . . Vifa4g00481 . . . .
Pvu11g1951 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1952 . . . Aed4g1394 Aev08g1320 . . . . . . Apr5g0859 . . . . . Cca04g01593 . . . . . . . . . . Lal9g0657 . Lan8g1291 . . . . . . . . . . . . . . Phco9g02043 . . . Pumo10g02486 Rops3g02406 Seca4g09675 . Ssu2g0391 . . . . Vian5g00404 Vifa4g00480 . . . .
Pvu11g1953 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1954 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1955 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Pvu11g1957 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Pvu Pvu11g1948 Chr11 46403162 46408304 -
Aed Aed4g1390 Chr4 18129886 18132914 -
Aev Aev08g1325 Chr08 8517678 8521656 +
Apr Apr5g0862 Chr5 12670630 12675190 +
Cca Cca04g01724 Chr04 29586951 29593354 -
Lal Lal1g0672 Chr1 4384292 4388369 -
Lal Lal9g0653 Chr9 4495661 4499414 -
Lan Lan7g0735 Chr7 6278274 6282581 -
Lan Lan8g1288 Chr8 19380127 19385406 -
Lan Lan13g0671 Chr13 5742170 5746812 -
Lja Lja3g2713 Chr3 39619427 39622241 +
Phco Phco9g02040 Chr9 45392378 45397352 -
Pste Pste1g01151 Chr1 3700499 3705638 +
Pvu Pvu11g1949 Chr11 46418919 46424449 -
Aed Aed4g1391 Chr4 18137644 18144878 -
Aev Aev08g1324 Chr08 8508989 8512498 +
Apr Apr5g0861 Chr5 12643360 12659427 +
Cca Cca04g01725 Chr04 29617643 29641415 -
Lal Lal9g0654 Chr9 4505733 4511418 -
Lan Lan8g1289 Chr8 19399489 19404758 -
Phco Phco9g02041 Chr9 45418157 45424386 -
Pste Pste1g01135 Chr1 3658113 3666662 +
Pvu Pvu11g1950 Chr11 46435115 46443168 +
Aed Aed4g1393 Chr4 18206397 18213338 +
Apr Apr5g0860 Chr5 12620761 12629578 -
Cca Cca04g01726 Chr04 29653832 29690246 +
Lal Lal2g0726 Chr2 4541172 4550617 -
Lal Lal9g0656 Chr9 4515360 4519996 +
Lan Lan7g0737 Chr7 6309708 6314756 +
Lan Lan8g1290 Chr8 19411130 19414997 +
Lja Lja3g2589 Chr3 35109413 35114937 +
Phco Phco9g02042 Chr9 45428888 45439891 +
Pste Pste1g01126 Chr1 3626270 3633718 -
Pumo Pumo10g02556 Chr10 44456291 44471347 +
Rops Rops3g02407 Chr3 49158367 49164975 -
Seca Seca4g09676 Chr4 227509742 227516057 -
Ssu Ssu2g0392 Chr2 23624443 23634339 +
Vifa Vifa4g00481 Chr4 134194066 134200204 -
Pvu Pvu11g1951 Chr11 46441419 46441799 -
Pvu Pvu11g1952 Chr11 46444696 46451231 -
Aed Aed4g1394 Chr4 18212462 18221138 -
Aev Aev08g1320 Chr08 8468321 8478558 +
Apr Apr5g0859 Chr5 12609640 12616079 +
Cca Cca04g01593 Chr04 23941204 23946525 -
Lal Lal9g0657 Chr9 4516945 4522438 -
Lan Lan8g1291 Chr8 19416099 19420575 -
Phco Phco9g02043 Chr9 45440595 45453781 -
Pumo Pumo10g02486 Chr10 41644392 41651177 -
Rops Rops3g02406 Chr3 49139231 49143997 +
Seca Seca4g09675 Chr4 227500038 227508460 +
Ssu Ssu2g0391 Chr2 23546027 23555084 -
Vian Vian5g00404 Chr5 10018195 10023979 -
Vifa Vifa4g00480 Chr4 134191749 134193684 +
Pvu Pvu11g1953 Chr11 46462406 46462760 -
Pvu Pvu11g1954 Chr11 46464680 46465099 -
Pvu Pvu11g1955 Chr11 46471206 46471560 -
Pvu Pvu11g1956 Chr11 46484707 46485060 -
Pvu Pvu11g1957 Chr11 46487516 46487870 -