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
Vvi18g1536 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1537 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1538 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1539 . . . . . . . . . . . . . . . . . . . Apr6g1314 . . . . . . . . . . . . . . . . . . . . . . Gma16g01477 . . . . . . . . . . . . . . . . . . . Lasa1g02698 . . . . . . . . . . Lja2g2784 . . . . Mesa22g01435 . . . . . . . Phco5g01044 . . . . . Pste9g00988 . . Pte9g00444 . . Pumo6g02352 . Pvu4g0983 . Rops5g01109 . Seca10g03601 . Spst4g03392 . . . Sto10g1895 . . . Trre11g01036 . . . . . Vifa1g04697 . Vimu8g02665 . Viun4g01818 . Vivi2g05269 . . .
Vvi18g1540 . . . . . . . . Aev09g2120 . Ahy19g2791 . Aip09g03257 . . . Amo19g3562 . . . . . Bach1g00242 . . . . . Car04g01112 . . . . . Dod06g0904 . . . . . Gma10g02136 Gma20g01655 Gma16g01478 . Gso10g1999 Gso10g1999 Gso10g1999 . Lal13g0074 Lal12g0132 Lal24g0079 . . Lal9g0874 Lan20g0090 Lan20g0090 Lan20g0090 . . Lan20g0090 Lapu4g00862 . Lasa1g02699 . . . . . . . . . Lja5g0835 Lja2g2781 Mal1g2174 . . . . . . . Mtr1g3637 . . . Phco5g01043 . . . Psa6g4385 . Pste9g00990 . . Pte9g00443 . . Pumo6g02355 . Pvu4g0984 . Rops5g01108 . Seca10g03602 . Spst4g03391 . . . Sto10g1902 . Tpr1g0863 . . . Tsu01g04290 . . . Vifa1g04698 . Vimu8g02663 . Viun4g01819 . Vivi2g05268 . . .
Vvi18g1541 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1542 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1543 . . . . Adu09g03078 . . . . . Ahy19g2792 . Aip09g03259 . . . Amo19g3563 . . . Arst9g04133 . . . . . . . Car04g01113 . . . . . Dod06g0902 . . . . . Gma10g02137 Gma20g01577 . . Gso10g2001 Gso10g2001 . . Lal13g0073 Lal12g0094 . . . . Lan20g0088 Lan20g0088 . . . . Lapu7g01939 . Lasa6g03960 . . . . . . . . . Lja5g0734 . Mal1g2173 . Mepo4g04143 . Mesa1g04512 . . . Mtr1g3638 . Phac7g01246 . Phco6g02341 . . . Psa6g4387 . Pste4g02576 . Pte16g00364 Pte9g00442 . . Pumo3g01143 . Pvu7g0841 . Rops6g02581 . Seca8g07255 . Spst10g00841 . . . Sto10g1904 . Tpr1g0862 . Trre1g05233 . Tsu01g04291 . Vian3g00731 . Vifa3g02773 . Vimu3g02905 . Viun7g03101 . . . . .
Vvi18g1544 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1545 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Aev Aev09g2120 Chr09 24244783 24248944 -
Ahy Ahy19g2791 Chr19 149800068 149805545 -
Aip Aip09g03257 Chr09 138543227 138548885 -
Amo Amo19g3562 Chr19 149912984 149918094 -
Dod Dod06g0904 Chr06 11496645 11497800 +
Gma Gma10g02136 Chr10 48849575 48856597 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Lal Lal24g0079 Chr24 508069 514324 +
Lal Lal13g0074 Chr13 493045 499466 +
Lja Lja2g2781 Chr2 42444102 42486057 +
Mal Mal1g2174 Chr1 28677925 28683208 +
Mtr Mtr1g3637 Chr1 48002007 48008637 -
Psa Psa6g4385 Chr6 384552071 384556737 -
Tpr Tpr1g0863 Chr1 7343896 7349334 +
Tsu Tsu01g04290 Chr01 50676396 50682038 -
Gma Gma20g01655 Chr20 43647188 43648576 -
Lja Lja5g0835 Chr5 7935155 7937243 -
Vvi Vvi18g1536 Chr18 19462139 19463190 -
Vvi Vvi18g1537 Chr18 19468508 19471788 +
Vvi Vvi18g1538 Chr18 19471980 19472536 +
Vvi Vvi18g1539 Chr18 19476937 19480818 -
Apr Apr6g1314 Chr6 18598318 18612446 +
Gma Gma16g01477 Chr16 34039517 34046378 -
Lasa Lasa1g02698 Chr1 519820683 519824747 -
Lja Lja2g2784 Chr2 42562391 42567771 +
Mesa Mesa22g01435 Chr22 29036562 29040622 -
Phco Phco5g01044 Chr5 33307495 33318014 +
Pste Pste9g00988 Chr9 6403858 6408808 -
Pte Pte9g00444 Chr9 5379137 5382152 +
Pumo Pumo6g02352 Chr6 46498337 46503110 -
Pvu Pvu4g0983 Chr4 24579406 24583487 -
Rops Rops5g01109 Chr5 22758703 22763025 +
Seca Seca10g03601 Chr10 67656391 67665460 -
Spst Spst4g03392 Chr4 74153607 74157681 +
Sto Sto10g1895 Chr10 28648251 28655152 -
Trre Trre11g01036 Chr11 9484872 9489103 +
Vifa Vifa1g04697 Chr1 733030055 733032172 -
Vimu Vimu8g02665 Chr8 37090157 37093891 +
Viun Viun4g01818 Chr4 32379426 32383478 -
Vivi Vivi2g05269 Chr2 176296077 176300934 +
Vvi Vvi18g1540 Chr18 19481773 19490845 -
Aev Aev09g2120 Chr09 24244783 24248944 -
Ahy Ahy19g2791 Chr19 149800068 149805545 -
Aip Aip09g03257 Chr09 138543227 138548885 -
Amo Amo19g3562 Chr19 149912984 149918094 -
Bach Bach1g00242 Chr1 3056254 3063451 -
Car Car04g01112 Chr04 11225103 11231163 -
Dod Dod06g0904 Chr06 11496645 11497800 +
Gma Gma10g02136 Chr10 48849575 48856597 -
Gma Gma20g01655 Chr20 43647188 43648576 -
Gma Gma16g01478 Chr16 34048037 34056535 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Gso Gso10g1999 Chr10 46975134 46983421 -
Lal Lal13g0074 Chr13 493045 499466 +
Lal Lal12g0132 Chr12 922760 927683 +
Lal Lal24g0079 Chr24 508069 514324 +
Lal Lal9g0874 Chr9 6553234 6560923 +
Lan Lan20g0090 Chr20 526620 535056 +
Lan Lan20g0090 Chr20 526620 535056 +
Lan Lan20g0090 Chr20 526620 535056 +
Lan Lan20g0090 Chr20 526620 535056 +
Lapu Lapu4g00862 Chr4 22235968 22247247 -
Lasa Lasa1g02699 Chr1 519963783 519972330 -
Lja Lja5g0835 Chr5 7935155 7937243 -
Lja Lja2g2781 Chr2 42444102 42486057 +
Mal Mal1g2174 Chr1 28677925 28683208 +
Mtr Mtr1g3637 Chr1 48002007 48008637 -
Phco Phco5g01043 Chr5 33261023 33267708 +
Psa Psa6g4385 Chr6 384552071 384556737 -
Pste Pste9g00990 Chr9 6409976 6419413 -
Pte Pte9g00443 Chr9 5370724 5378114 +
Pumo Pumo6g02355 Chr6 46583299 46592751 +
Pvu Pvu4g0984 Chr4 24594918 24602151 -
Rops Rops5g01108 Chr5 22747406 22756485 +
Seca Seca10g03602 Chr10 67667000 67674050 -
Spst Spst4g03391 Chr4 74143198 74150166 +
Sto Sto10g1902 Chr10 28681448 28691284 -
Tpr Tpr1g0863 Chr1 7343896 7349334 +
Tsu Tsu01g04290 Chr01 50676396 50682038 -
Vifa Vifa1g04698 Chr1 733155325 733161050 -
Vimu Vimu8g02663 Chr8 37073854 37079142 +
Viun Viun4g01819 Chr4 32390488 32397210 -
Vivi Vivi2g05268 Chr2 176287065 176294195 +
Vvi Vvi18g1541 Chr18 19496010 19497154 -
Vvi Vvi18g1542 Chr18 19508635 19516475 +
Vvi Vvi18g1543 Chr18 19526695 19530962 -
Adu Adu09g03078 Chr09 118564045 118567229 +
Ahy Ahy19g2792 Chr19 149813425 149816537 -
Aip Aip09g03259 Chr09 138559757 138562975 -
Amo Amo19g3563 Chr19 149925804 149928997 -
Arst Arst9g04133 Chr9 116447855 116450854 +
Car Car04g01113 Chr04 11234796 11237958 -
Dod Dod06g0902 Chr06 11486255 11489542 +
Gma Gma10g02137 Chr10 48858904 48869951 -
Gma Gma20g01577 Chr20 42858019 42860509 +
Gso Gso10g2001 Chr10 46989732 46995999 -
Gso Gso10g2001 Chr10 46989732 46995999 -
Lal Lal13g0073 Chr13 468324 471397 +
Lal Lal12g0094 Chr12 633689 642166 +
Lan Lan20g0088 Chr20 518088 520846 +
Lan Lan20g0088 Chr20 518088 520846 +
Lapu Lapu7g01939 Chr7 35409601 35412154 -
Lasa Lasa6g03960 Chr6 606715898 606718256 -
Lja Lja5g0734 Chr5 6744427 6753615 +
Mal Mal1g2173 Chr1 28666734 28669552 +
Mepo Mepo4g04143 Chr4 51202159 51205321 -
Mesa Mesa1g04512 Chr1 70878382 70881326 -
Mtr Mtr1g3638 Chr1 48009968 48013479 -
Phac Phac7g01246 Chr7 8295084 8298374 +
Phco Phco6g02341 Chr6 44609681 44612719 -
Psa Psa6g4387 Chr6 384586248 384589073 -
Pste Pste4g02576 Chr4 18210855 18214286 -
Pte Pte16g00364 Chr16 4896695 4899094 +
Pte Pte9g00442 Chr9 5366495 5369496 +
Pumo Pumo3g01143 Chr3 18564647 18568047 +
Pvu Pvu7g0841 Chr7 8033419 8036591 +
Rops Rops6g02581 Chr6 46471453 46476598 -
Seca Seca8g07255 Chr8 168940464 168944589 -
Spst Spst10g00841 Chr10 8948217 8950758 -
Sto Sto10g1904 Chr10 28725180 28727168 -
Tpr Tpr1g0862 Chr1 7338256 7341557 +
Trre Trre1g05233 Chr1 58295374 58298307 -
Tsu Tsu01g04291 Chr01 50684315 50689965 -
Vian Vian3g00731 Chr3 7676203 7678854 +
Vifa Vifa3g02773 Chr3 769015867 769016826 -
Vimu Vimu3g02905 Chr3 43142706 43143149 -
Viun Viun7g03101 Chr7 33616728 33619706 -
Vvi Vvi18g1544 Chr18 19531179 19538650 -
Vvi Vvi18g1545 Chr18 19555483 19564675 +