Hierarchical alignments with the V. vinifera 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 Vvi Acco_1 Acco_2 Accr_1 Accr_2 Adu_1 Adu_2 Aed_1 Aed_2 Aev_1 Aev_2 Ahy_1 Ahy_2 Aip_1 Aip_2 Alju_1 Alju_2 Amo_1 Amo_2 Apr_1 Apr_2 Arst_1 Arst_2 Bach_1 Bach_2 Bisa_1 Bisa_2 Bva_1 Bva_2 Car_1 Car_2 Cca_1 Cca_2 Dere_1 Dere_2 Dod_1 Dod_2 Enph_1 Enph_2 Glsi_1 Glsi_2 Gma_1 Gma_2 Gma_3 Gma_4 Gso_1 Gso_2 Gso_3 Gso_4 Lal_1 Lal_2 Lal_3 Lal_4 Lal_5 Lal_6 Lan_1 Lan_2 Lan_3 Lan_4 Lan_5 Lan_6 Lapu_1 Lapu_2 Lasa_1 Lasa_2 Lele_1 Lele_2 Lele_3 Lele_4 Lele_5 Lele_6 Lele_7 Lele_8 Lja_1 Lja_2 Mal_1 Mal_2 Mepo_1 Mepo_2 Mesa_1 Mesa_2 Mibi_1 Mibi_2 Mtr_1 Mtr_2 Phac_1 Phac_2 Phco_1 Phco_2 Prci_1 Prci_2 Psa_1 Psa_2 Pste_1 Pste_2 Pte_1 Pte_2 Pte_3 Pte_4 Pumo_1 Pumo_2 Pvu_1 Pvu_2 Rops_1 Rops_2 Seca_1 Seca_2 Spst_1 Spst_2 Ssu_1 Ssu_2 Sto_1 Sto_2 Tpr_1 Tpr_2 Trre_1 Trre_2 Tsu_1 Tsu_2 Vian_1 Vian_2 Vifa_1 Vifa_2 Vimu_1 Vimu_2 Viun_1 Viun_2 Vivi_1 Vivi_2 Vra_1 Vra_2
Vvi16g0909 . . . . . . Aed1g2266 . . . . . . . . . . . . . . . . . . . Bva03g01395 . . . Cca02g02254 . . . . . . . . . Gma10g02230 . . . Gso10g2100 . . . . . . . Lal12g0051 . . . . . . . . . . . . . . . . . . . . . Mal1g2057 . . . . . . . Mtr1g3751 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu7g0787 . . . Tpr1g0752 . . . Tsu01g04412 . . . . . . . . . . . Vra8g2234 .
Vvi16g0910 Acco01g0278 . Accr1g00089 . Adu05g03382 . Aed1g2267 Aed7g0586 Aev05g2913 . Ahy15g3544 . Aip05g03858 . Alju02g3616 . . . . Apr6g0699 Arst5g04300 . Bach1g01173 . Bisa01g0751 . Bva03g01394 Bva04g01154 . . Cca02g02253 Cca08g00658 Dere06g1353 . Dod02g3032 . Enph12g0905 . Glsi01g1535 . Gma20g01490 . . . Gso20g1278 . . . . Lal2g0920 Lal9g0811 . . . . . . . . . Lapu4g00595 . . . Lele45g0186 Lele46g0205 . Lele48g1257 . . . . Lja2g2619 . . . Mepo5g02337 . Mesa22g02018 . Mibi01g3366 . . Mtr6g1447 . . Phco5g00698 Phco6g02475 Prci14g2126 . . . Pste9g01174 Pste4g02959 . . . . . Pumo3g00950 Pvu4g1217 Pvu7g0725 . Rops6g02734 . Seca10g03983 Spst4g03196 Spst10g00966 Ssu7g0788 . Sto10g2474 . . Tpr2g4398 Trre11g01389 . . . . Vian3g00634 . . Vimu8g02102 Vimu3g03054 . Viun7g03254 Vivi2g05442 . Vra8g2232 .
Vvi16g0911 . . . . . . . Aed7g0587 . . . . . . . . . . . . . . . . . . Bva03g01393 . . . . Cca08g00662 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g0633 . . . . . . . . . . . . . . . . Psa6g4517 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Vra1g1838
Vvi16g0912 Acco01g0277 . Accr1g00088 . Adu05g03385 . Aed1g2268 . . . Ahy15g3546 . Aip05g03860 . Alju02g3617 . . . . Apr6g0698 Arst5g04301 . Bach1g01172 . Bisa01g0755 . Bva03g01392 Bva04g01155 . . Cca02g02252 . Dere06g1351 . Dod02g3031 . Enph12g0904 . Glsi01g1533 . Gma10g02229 . . . Gso10g2099 . . . . . Lal9g0812 . . . . . . . . . . Lapu7g02041 . Lasa6g04089 Lele45g0185 Lele46g0204 . Lele48g1258 . . . . . . Mal1g2058 . . Mepo4g04237 . Mesa1g04643 Mibi01g3367 . Mtr1g3750 Mtr6g1451 . . . Phco6g02474 Prci14g2127 . Psa6g4516 . Pste9g01173 Pste4g02958 Pte16g00274 Pte9g00343 Pte16g00274 Pte9g00343 . Pumo3g00952 Pvu4g1215 Pvu7g0726 Rops5g00888 Rops6g02733 Seca10g03980 Seca10g03982 Spst4g03197 Spst10g00965 Ssu7g0789 . Sto10g2472 . Tpr1g0753 Tpr2g4413 . Trre1g05397 Tsu01g04411 . Vian8g01067 Vian3g00635 Vifa1g04346 Vifa3g02916 Vimu8g02104 Vimu3g03045 Viun4g02165 Viun7g03253 Vivi2g05440 Vivi1g04387 Vra8g2231 .
Vvi16g0913 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4515 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0914 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0915 . . . . . . Aed1g2269 . . . . . . . . . . . . . . . . . . . Bva03g01389 . . . Cca02g02251 . . . . . . . . . Gma10g02228 . . . Gso10g2098 . . . . . . . Lal12g0052 . . . . . . . . Lapu7g02040 . Lasa6g04087 . . . . . . . . . Lja5g0634 Mal1g2059 . . Mepo4g04236 . Mesa1g04642 . . Mtr1g3749 . . Phac7g01075 . Phco6g02473 . . . . . . . . . Pte9g00344 . Pumo3g00954 . Pvu7g0728 . Rops6g02730 . Seca8g07385 . Spst10g00962 Ssu7g0790 . . . Tpr1g0754 . . Trre1g05394 Tsu01g04410 . . Vian3g00636 . Vifa3g02914 . Vimu3g03041 . Viun7g03252 . Vivi1g04389 Vra8g2230 .
Vvi16g0916 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0917 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0918 . . . . . . . . . Aev05g0034 . Ahy15g1373 . Aip05g01444 . . . . . . . . . . . . . . . . . . . . . Dod02g0021 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev05g0034 Chr05 261660 265081 +
Ahy Ahy15g1373 Chr15 23409803 23414586 -
Aip Aip05g01444 Chr05 22505084 22509246 -
Dod Dod02g0021 Chr02 566520 570928 +
Vvi Vvi16g0909 Chr16 17206765 17208570 +
Aed Aed1g2266 Chr1 18804410 18808525 +
Bva Bva03g01395 Chr03 13383214 13385869 -
Cca Cca02g02254 Chr02 43110415 43112636 -
Gma Gma10g02230 Chr10 49892500 49894909 -
Gso Gso10g2100 Chr10 48005986 48008384 -
Lal Lal12g0051 Chr12 345464 347354 +
Mal Mal1g2057 Chr1 27026663 27029249 +
Mtr Mtr1g3751 Chr1 49096987 49099910 -
Ssu Ssu7g0787 Chr7 15746809 15748770 +
Tpr Tpr1g0752 Chr1 6354064 6356822 +
Tsu Tsu01g04412 Chr01 51917450 51920523 -
Vra Vra8g2234 Chr8 40659730 40662057 -
Vvi Vvi16g0910 Chr16 17209486 17213151 -
Acco Acco01g0278 Chr01 3156558 3162813 +
Accr Accr1g00089 Chr1 1865934 1871004 +
Adu Adu05g03382 Chr05 106238050 106242066 -
Aed Aed1g2267 Chr1 18808929 18812302 -
Aed Aed7g0586 Chr7 4285457 4290410 -
Aev Aev05g2913 Chr05 29959874 29963783 +
Ahy Ahy15g3544 Chr15 158188912 158192654 -
Aip Aip05g03858 Chr05 146780327 146783154 -
Alju Alju02g3616 Chr02 54852034 54859200 -
Apr Apr6g0699 Chr6 10754381 10758271 +
Arst Arst5g04300 Chr5 104913966 104917739 -
Bach Bach1g01173 Chr1 24972422 24975538 +
Bisa Bisa01g0751 Chr01 11722263 11726851 -
Bva Bva03g01394 Chr03 13379809 13383213 +
Bva Bva04g01154 Chr04 7767813 7771622 -
Cca Cca02g02253 Chr02 43102715 43107479 +
Cca Cca08g00658 Chr08 12049466 12053686 -
Dere Dere06g1353 Chr06 26074822 26080817 +
Dod Dod02g3032 Chr02 64008203 64012649 +
Enph Enph12g0905 Chr12 15732749 15738228 +
Glsi Glsi01g1535 Chr01 75862629 75868021 +
Gma Gma20g01490 Chr20 42001690 42005345 -
Gso Gso20g1278 Chr20 42825004 42828892 -
Lal Lal2g0920 Chr2 6150275 6159119 -
Lal Lal9g0811 Chr9 5850397 5856834 -
Lapu Lapu4g00595 Chr4 6210259 6214887 -
Lele Lele45g0186 Chr45 1563257 1566272 +
Lele Lele46g0205 Chr46 1279685 1284694 +
Lele Lele48g1257 Chr48 16945861 16949177 -
Lja Lja2g2619 Chr2 35772709 35777191 -
Mepo Mepo5g02337 Chr5 27992222 27999807 -
Mesa Mesa22g02018 Chr22 46688970 46699315 +
Mibi Mibi01g3366 Chr01 59010430 59016115 -
Mtr Mtr6g1447 Chr6 23324410 23332434 -
Phco Phco5g00698 Chr5 7320476 7324376 -
Phco Phco6g02475 Chr6 46193493 46197633 +
Prci Prci14g2126 Chr14 28535321 28540688 -
Pste Pste9g01174 Chr9 9499054 9503419 +
Pste Pste4g02959 Chr4 21073916 21077710 +
Pumo Pumo3g00950 Chr3 14592150 14595657 -
Pvu Pvu4g1217 Chr4 37669820 37673449 +
Pvu Pvu7g0725 Chr7 6400671 6404997 -
Rops Rops6g02734 Chr6 49132317 49135556 +
Seca Seca10g03983 Chr10 85989192 85993545 +
Spst Spst4g03196 Chr4 71563816 71567397 -
Spst Spst10g00966 Chr10 10370238 10373624 +
Ssu Ssu7g0788 Chr7 15760666 15764557 -
Sto Sto10g2474 Chr10 35055051 35060339 +
Tpr Tpr2g4398 Chr2 47968554 47974415 -
Trre Trre11g01389 Chr11 13611843 13617666 -
Vian Vian3g00634 Chr3 6390614 6393268 -
Vimu Vimu8g02102 Chr8 27152771 27160715 -
Vimu Vimu3g03054 Chr3 44388283 44390345 +
Viun Viun7g03254 Chr7 34790975 34794375 +
Vivi Vivi2g05442 Chr2 179613672 179616620 +
Vra Vra8g2232 Chr8 40646756 40648813 +
Vvi Vvi16g0911 Chr16 17218944 17219782 -
Aed Aed7g0587 Chr7 4297240 4299112 +
Bva Bva03g01393 Chr03 13371466 13373373 +
Cca Cca08g00662 Chr08 12228745 12230369 +
Lja Lja5g0633 Chr5 5642535 5644443 -
Psa Psa6g4517 Chr6 394289526 394290412 +
Vra Vra1g1838 Chr1 35186676 35188218 -
Vvi Vvi16g0912 Chr16 17226792 17228284 -
Acco Acco01g0277 Chr01 3145885 3146899 +
Accr Accr1g00088 Chr1 1841704 1842735 +
Adu Adu05g03385 Chr05 106257714 106259735 -
Aed Aed1g2268 Chr1 18814297 18815627 -
Ahy Ahy15g3546 Chr15 158222876 158224658 -
Aip Aip05g03860 Chr05 146801905 146803485 -
Alju Alju02g3617 Chr02 54897392 54898477 -
Apr Apr6g0698 Chr6 10722445 10723742 -
Arst Arst5g04301 Chr5 104934295 104935588 -
Bach Bach1g01172 Chr1 24967990 24969758 +
Bisa Bisa01g0755 Chr01 11822806 11823641 -
Bva Bva03g01392 Chr03 13363426 13364404 +
Bva Bva04g01155 Chr04 7798116 7799163 -
Cca Cca02g02252 Chr02 43096440 43097532 +
Dere Dere06g1351 Chr06 25982107 25984293 +
Dod Dod02g3031 Chr02 63973714 63975494 +
Enph Enph12g0904 Chr12 15722204 15724053 +
Glsi Glsi01g1533 Chr01 75728131 75729763 +
Gma Gma10g02229 Chr10 49880711 49882040 +
Gso Gso10g2099 Chr10 47993961 47995387 +
Lal Lal9g0812 Chr9 5858639 5860478 -
Lapu Lapu7g02041 Chr7 36656788 36657916 +
Lasa Lasa6g04089 Chr6 616952641 616953437 +
Lele Lele45g0185 Chr45 1554131 1557494 +
Lele Lele46g0204 Chr46 1267675 1268551 +
Lele Lele48g1258 Chr48 16955520 16956414 -
Mal Mal1g2058 Chr1 27030373 27031168 -
Mepo Mepo4g04237 Chr4 52213443 52215081 +
Mesa Mesa1g04643 Chr1 72334681 72335847 +
Mibi Mibi01g3367 Chr01 59033382 59035109 -
Mtr Mtr1g3750 Chr1 49094965 49096410 +
Mtr Mtr6g1451 Chr6 23530498 23533553 -
Phco Phco6g02474 Chr6 46187016 46187820 +
Prci Prci14g2127 Chr14 28555768 28557039 -
Psa Psa6g4516 Chr6 394260689 394261869 -
Pste Pste9g01173 Chr9 9454621 9456758 -
Pste Pste4g02958 Chr4 21057742 21058896 +
Pte Pte16g00274 Chr16 3651898 3653527 -
Pte Pte9g00343 Chr9 4054971 4056300 -
Pte Pte16g00274 Chr16 3651898 3653527 -
Pte Pte9g00343 Chr9 4054971 4056300 -
Pumo Pumo3g00952 Chr3 14608524 14610490 -
Pvu Pvu4g1215 Chr4 37627420 37628831 -
Pvu Pvu7g0726 Chr7 6408764 6409930 -
Rops Rops5g00888 Chr5 17116214 17118228 -
Rops Rops6g02733 Chr6 49120945 49122412 +
Seca Seca10g03980 Chr10 85813490 85815687 +
Seca Seca10g03982 Chr10 85892956 85895379 +
Spst Spst4g03197 Chr4 71590714 71592139 +
Spst Spst10g00965 Chr10 10366930 10367684 +
Ssu Ssu7g0789 Chr7 15781825 15783005 -
Sto Sto10g2472 Chr10 35034278 35035975 +
Tpr Tpr1g0753 Chr1 6357060 6358273 -
Tpr Tpr2g4413 Chr2 48241279 48242916 +
Trre Trre1g05397 Chr1 59650099 59651356 +
Tsu Tsu01g04411 Chr01 51915939 51917088 +
Vian Vian8g01067 Chr8 28175724 28176865 -
Vian Vian3g00635 Chr3 6397549 6398282 -
Vifa Vifa1g04346 Chr1 675232390 675233052 -
Vifa Vifa3g02916 Chr3 820171028 820171689 -
Vimu Vimu8g02104 Chr8 27207991 27209537 +
Vimu Vimu3g03045 Chr3 44334344 44335615 +
Viun Viun4g02165 Chr4 37206812 37208423 -
Viun Viun7g03253 Chr7 34788260 34789375 +
Vivi Vivi2g05440 Chr2 179536173 179537209 +
Vivi Vivi1g04387 Chr1 93597563 93598554 -
Vra Vra8g2231 Chr8 40643026 40644084 +
Vvi Vvi16g0913 Chr16 17239051 17239898 -
Psa Psa6g4515 Chr6 394181286 394182109 +
Vvi Vvi16g0914 Chr16 17245685 17247214 -
Vvi Vvi16g0915 Chr16 17263969 17271370 +
Aed Aed1g2269 Chr1 18824342 18830795 +
Bva Bva03g01389 Chr03 13322063 13331020 -
Cca Cca02g02251 Chr02 43073107 43080641 -
Gma Gma10g02228 Chr10 49855223 49864242 -
Gso Gso10g2098 Chr10 47969300 47977749 -
Lal Lal12g0052 Chr12 348475 354320 +
Lapu Lapu7g02040 Chr7 36625688 36641630 -
Lasa Lasa6g04087 Chr6 616862374 616871293 -
Lja Lja5g0634 Chr5 5657328 5664409 +
Mal Mal1g2059 Chr1 27037694 27046224 +
Mepo Mepo4g04236 Chr4 52201554 52210301 -
Mesa Mesa1g04642 Chr1 72317733 72326046 -
Mtr Mtr1g3749 Chr1 49084877 49092497 -
Phac Phac7g01075 Chr7 6768004 6779699 +
Phco Phco6g02473 Chr6 46148400 46165271 -
Pte Pte9g00344 Chr9 4092123 4104587 +
Pumo Pumo3g00954 Chr3 14633950 14640191 +
Pvu Pvu7g0728 Chr7 6443304 6454806 +
Rops Rops6g02730 Chr6 49070827 49078807 -
Seca Seca8g07385 Chr8 170731392 170734302 -
Spst Spst10g00962 Chr10 10349658 10356264 -
Ssu Ssu7g0790 Chr7 15816226 15826651 +
Tpr Tpr1g0754 Chr1 6360262 6367597 +
Trre Trre1g05394 Chr1 59632311 59640347 -
Tsu Tsu01g04410 Chr01 51905110 51914280 -
Vian Vian3g00636 Chr3 6419640 6426835 +
Vifa Vifa3g02914 Chr3 819742159 819748071 -
Vimu Vimu3g03041 Chr3 44274503 44277535 -
Viun Viun7g03252 Chr7 34761959 34769798 -
Vivi Vivi1g04389 Chr1 93672133 93686275 +
Vra Vra8g2230 Chr8 40605132 40613438 -
Vvi Vvi16g0916 Chr16 17272929 17277383 +
Vvi Vvi16g0917 Chr16 17278298 17280237 -
Vvi Vvi16g0918 Chr16 17298944 17309401 -
Aev Aev05g0034 Chr05 261660 265081 +
Ahy Ahy15g1373 Chr15 23409803 23414586 -
Aip Aip05g01444 Chr05 22505084 22509246 -
Dod Dod02g0021 Chr02 566520 570928 +