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
Vvi3g0353 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0354 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0355 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0356 Acco10g1322 . Accr4g01431 . Adu08g00179 . . . . . . . . . Alju08g1491 . . . . . Arst8g00215 Arst3g05162 Bach12g00069 Bach4g01297 Bisa09g2086 . . . . . . . Dere04g0055 . . . Enph1g1032 . Glsi08g2066 . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02788 . . . . . . . . . . . . . Mepo2g02904 . . Mibi05g1383 . . . . . Phco7g00256 Phco4g01972 Prci8g0721 . . . . Pste3g00331 . Pte1g02667 . . . . Pvu9g0196 Pvu2g1752 Rops10g02494 . . . Spst9g00257 Spst3g02383 . . . . . . . . . . Vian4g02418 Vian10g01439 . Vifa1g05347 Vimu10g03515 Vimu11g02359 Viun9g03704 Viun2g00972 Vivi4g05953 Vivi5g03601 . .
Vvi3g0357 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0358 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0359 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g02430 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g3819 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0360 . . . . . Adu01g00884 . . . . Ahy20g0057 . Aip10g00052 . . . . . . . . Arst1g01198 . Bach10g00670 . Bisa01g3001 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g03565 . . . . . . . . . . . . . Mepo1g02273 . Mesa29g02414 . . . . . . . Phco8g00309 . . . Psa2g3333 . Pste7g02039 . . Pte14g00800 Pte12g00572 . . . Pvu3g2797 . . . . . Spst3g03697 . . . . . . . Trre15g02477 . . . . . . . Vimu7g03215 . . . Vivi1g03271 . .
Vvi3g0361 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0362 . . . . . Adu05g01214 . . . . . . . . . . . . . . . Arst5g01546 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02526 . . . . . . . . . . . . . . . . . . . . . . . Phco4g00161 . . . . . Pste1g01453 . . . . . Pumo8g02485 . Pvu2g0415 . Rops1g02340 . . . Spst2g02835 . . . . . . . . . . . Vian10g00128 . Vifa3g01078 . Vimu7g02313 . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst3g05162 Chr3 126969109 126970771 -
Bach Bach4g01297 Chr4 9103785 9105491 -
Lasa Lasa7g02788 Chr7 548583094 548584038 -
Mepo Mepo2g02904 Chr2 38841395 38843081 -
Phco Phco4g01972 Chr4 39075564 39078243 +
Pste Pste3g00331 Chr3 1632576 1634217 -
Pvu Pvu2g1752 Chr2 31496697 31498796 +
Spst Spst3g02383 Chr3 67795365 67799884 +
Vian Vian10g01439 Chr10 24581126 24582371 -
Vifa Vifa1g05347 Chr1 831276676 831281804 -
Vimu Vimu11g02359 Chr11 41119320 41122279 -
Viun Viun2g00972 Chr2 20378655 20380768 +
Vivi Vivi5g03601 Chr5 129018022 129019685 -
Vvi Vvi3g0353 Chr3 2921752 2923596 +
Vvi Vvi3g0354 Chr3 2924082 2927204 -
Vvi Vvi3g0355 Chr3 2930262 2933419 +
Vvi Vvi3g0356 Chr3 2934516 2935485 +
Acco Acco10g1322 Chr10 27091334 27092357 -
Accr Accr4g01431 Chr4 14428059 14429006 +
Adu Adu08g00179 Chr08 2760146 2761973 -
Alju Alju08g1491 Chr08 11599407 11600427 +
Arst Arst8g00215 Chr8 2772813 2774011 -
Arst Arst3g05162 Chr3 126969109 126970771 -
Bach Bach12g00069 Chr12 503312 504240 +
Bach Bach4g01297 Chr4 9103785 9105491 -
Bisa Bisa09g2086 Chr09 33413959 33416122 -
Dere Dere04g0055 Chr04 649433 652142 +
Enph Enph1g1032 Chr1 36541556 36542976 +
Glsi Glsi08g2066 Chr08 14498743 14499669 -
Lasa Lasa7g02788 Chr7 548583094 548584038 -
Mepo Mepo2g02904 Chr2 38841395 38843081 -
Mibi Mibi05g1383 Chr05 16435108 16436049 +
Phco Phco7g00256 Chr7 1786057 1787603 +
Phco Phco4g01972 Chr4 39075564 39078243 +
Prci Prci8g0721 Chr8 4620268 4621693 +
Pste Pste3g00331 Chr3 1632576 1634217 -
Pte Pte1g02667 Chr1 46845041 46845999 +
Pvu Pvu9g0196 Chr9 3497612 3499649 -
Pvu Pvu2g1752 Chr2 31496697 31498796 +
Rops Rops10g02494 Chr10 43517260 43517708 -
Spst Spst9g00257 Chr9 2378168 2379137 +
Spst Spst3g02383 Chr3 67795365 67799884 +
Vian Vian4g02418 Chr4 40820177 40821602 -
Vian Vian10g01439 Chr10 24581126 24582371 -
Vifa Vifa1g05347 Chr1 831276676 831281804 -
Vimu Vimu10g03515 Chr10 44774960 44776158 -
Vimu Vimu11g02359 Chr11 41119320 41122279 -
Viun Viun9g03704 Chr9 42216497 42218636 -
Viun Viun2g00972 Chr2 20378655 20380768 +
Vivi Vivi4g05953 Chr4 196740232 196741996 -
Vivi Vivi5g03601 Chr5 129018022 129019685 -
Vvi Vvi3g0357 Chr3 2936429 2937498 -
Vvi Vvi3g0358 Chr3 2937590 2942390 +
Vvi Vvi3g0359 Chr3 2947408 2962358 +
Bva Bva14g02430 Chr14 20748932 20761660 +
Psa Psa2g3819 Chr2 403624585 403631960 +
Vvi Vvi3g0360 Chr3 2970340 2972585 +
Adu Adu01g00884 Chr01 11693048 11696840 +
Ahy Ahy20g0057 Chr20 477728 481320 -
Aip Aip10g00052 Chr10 499667 503420 -
Arst Arst1g01198 Chr1 11690274 11693953 +
Bach Bach10g00670 Chr10 4716429 4719496 -
Bisa Bisa01g3001 Chr01 64565462 64567625 +
Lasa Lasa2g03565 Chr2 541802461 541805006 +
Mepo Mepo1g02273 Chr1 23383409 23387022 +
Mesa Mesa29g02414 Chr29 32925904 32929025 +
Phco Phco8g00309 Chr8 2824671 2828013 -
Psa Psa2g3333 Chr2 375231518 375233731 -
Pste Pste7g02039 Chr7 18716838 18720882 +
Pte Pte14g00800 Chr14 29507339 29512013 -
Pte Pte12g00572 Chr12 5135742 5139634 +
Pvu Pvu3g2797 Chr3 49798762 49802632 +
Spst Spst3g03697 Chr3 86970446 86974330 -
Trre Trre15g02477 Chr15 20656323 20659075 -
Vimu Vimu7g03215 Chr7 27250472 27251335 +
Vivi Vivi1g03271 Chr1 71064569 71068183 +
Vvi Vvi3g0361 Chr3 2980543 2981412 +
Vvi Vvi3g0362 Chr3 2985909 2990105 +
Adu Adu05g01214 Chr05 17399357 17404042 -
Arst Arst5g01546 Chr5 17449578 17454489 -
Lasa Lasa7g02526 Chr7 529918413 529922064 -
Phco Phco4g00161 Chr4 962221 966386 +
Pste Pste1g01453 Chr1 4582438 4587823 +
Pumo Pumo8g02485 Chr8 61992527 61998618 -
Pvu Pvu2g0415 Chr2 3841996 3847312 -
Rops Rops1g02340 Chr1 45678320 45683531 -
Spst Spst2g02835 Chr2 28227185 28232425 -
Vian Vian10g00128 Chr10 1085123 1088752 +
Vifa Vifa3g01078 Chr3 278257917 278260346 +
Vimu Vimu7g02313 Chr7 19955899 19959546 +
Lasa Lasa2g03565 Chr2 541802461 541805006 +
Pte Pte14g00800 Chr14 29507339 29512013 -
Pte Pte12g00572 Chr12 5135742 5139634 +
Spst Spst3g03697 Chr3 86970446 86974330 -
Lasa Lasa7g02526 Chr7 529918413 529922064 -
Spst Spst2g02835 Chr2 28227185 28232425 -
Adu Adu05g01214 Chr05 17399357 17404042 -
Arst Arst5g01546 Chr5 17449578 17454489 -
Lasa Lasa7g02526 Chr7 529918413 529922064 -
Lasa Lasa7g02526 Chr7 529918413 529922064 -
Phco Phco4g00161 Chr4 962221 966386 +
Pste Pste1g01453 Chr1 4582438 4587823 +
Pumo Pumo8g02485 Chr8 61992527 61998618 -
Pvu Pvu2g0415 Chr2 3841996 3847312 -
Rops Rops1g02340 Chr1 45678320 45683531 -
Spst Spst2g02835 Chr2 28227185 28232425 -
Spst Spst2g02835 Chr2 28227185 28232425 -
Vian Vian10g00128 Chr10 1085123 1088752 +
Vifa Vifa3g01078 Chr3 278257917 278260346 +
Vimu Vimu7g02313 Chr7 19955899 19959546 +
Acco Acco10g1322 Chr10 27091334 27092357 -
Accr Accr4g01431 Chr4 14428059 14429006 +
Adu Adu08g00179 Chr08 2760146 2761973 -
Alju Alju08g1491 Chr08 11599407 11600427 +
Arst Arst8g00215 Chr8 2772813 2774011 -
Bach Bach12g00069 Chr12 503312 504240 +
Bisa Bisa09g2086 Chr09 33413959 33416122 -
Dere Dere04g0055 Chr04 649433 652142 +
Enph Enph1g1032 Chr1 36541556 36542976 +
Glsi Glsi08g2066 Chr08 14498743 14499669 -
Mibi Mibi05g1383 Chr05 16435108 16436049 +
Phco Phco7g00256 Chr7 1786057 1787603 +
Prci Prci8g0721 Chr8 4620268 4621693 +
Pte Pte1g02667 Chr1 46845041 46845999 +
Pvu Pvu9g0196 Chr9 3497612 3499649 -
Rops Rops10g02494 Chr10 43517260 43517708 -
Spst Spst9g00257 Chr9 2378168 2379137 +
Vian Vian4g02418 Chr4 40820177 40821602 -
Vimu Vimu10g03515 Chr10 44774960 44776158 -
Viun Viun9g03704 Chr9 42216497 42218636 -
Vivi Vivi4g05953 Chr4 196740232 196741996 -
Vivi Vivi4g05953 Chr4 196740232 196741996 -