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
Vvi19g0630 . . . . Adu04g00408 . . . . . . . . . . . . . . . Arst4g00649 . Bach7g01220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01609 . Lasa1g01267 . . . . . . . . . . Lja6g2437 . . Mepo6g00936 . . . . . . . . . Phco11g00826 . . . . . . . Pte9g01130 Pte2g00437 . . Pumo2g00343 . Pvu6g1540 . Rops11g01076 . . . Spst6g01205 . . . . Sto10g0481 . . . . . . Vian6g01410 . Vifa1g09920 . Vimu2g01117 . Viun6g02268 . . . . .
Vvi19g0631 . . . . Adu04g00409 . . . . . . . . . . . . . . . Arst4g00650 . Bach7g01219 . . . Bva12g02725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu6g01610 . Lasa1g01266 . . . . . . . . . . Lja6g2438 . . Mepo6g00937 . Mesa5g03735 . . . . . Phac6g02112 . Phco11g00827 . . . . . Pste2g02575 . Pte9g01131 Pte2g00438 . . Pumo2g00342 . Pvu6g1539 . Rops11g01077 . Seca6g04438 . Spst6g01206 . . . . Sto10g0482 . . Trre3g01010 . . . Vian6g01409 . Vifa1g09918 . Vimu2g01118 . Viun6g02267 . Vivi1g00216 . . .
Vvi19g0632 . . . . Adu04g00410 . . . . . . . . . . . . . . . Arst1g03631 . Bach7g01218 . . . Bva12g02724 . . . . . . . . . . . . . . . . . . . . . . . Lal6g0068 . . . . . . . . . Lapu6g01611 . Lasa1g01264 . . . . . . . . . . Lja6g2439 . . Mepo6g00939 . Mesa5g03733 . . . . . Phac6g02111 . Phco11g00828 . . . Psa5g4053 . Pste2g02579 . Pte9g01296 Pte2g00439 . . Pumo2g00341 . Pvu6g1538 . Rops11g01078 . Seca6g04436 . Spst6g01208 . . . Sto9g1901 Sto10g0483 . . . . . . Vian6g01407 . Vifa1g09917 . Vimu2g01119 . Viun6g02266 . Vivi1g00215 . . .
Vvi19g0633 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02723 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1903 . . . . . . . . . . . . . . . . . .
Vvi19g0634 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal22g0070 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g1901 . . . . . . . . . . . . . . . . . .
Vvi19g0635 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0636 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva12g02722 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g1364 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0637 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0638 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja6g2444 . . . . . . . . . . . . . . . . Psa5g4016 . . . . . . . . . . . . . . . . . . . . Sto10g0484 . . . . . . . . . . . . . . . . . .
Vvi19g0639 . . . . . Adu07g00261 Aed3g2524 . . . Ahy17g0373 . Aip07g00281 . . . . . . . . Arst7g00417 . . . . Bva12g02721 . . . Cca05g01956 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g02260 . . . . . . . . . . . . . Mepo7g02812 . Mesa17g04399 . . . . . . . Phco3g00237 . . . Psa2g0326 . Pste8g00418 . . . Pte8g00045 . Pumo9g01872 . Pvu8g2788 . Rops9g00313 . Seca8g00302 . Spst8g00894 Ssu6g3493 . . . . . . Trre9g04997 . . . Vian7g01183 . Vifa1g03329 . Vimu1g00422 . Viun8g02841 . Vivi7g02713 Vra6g0223 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja6g2444 Chr6 53245163 53245564 +
Adu Adu04g00410 Chr04 4823085 4825100 -
Arst Arst1g03631 Chr1 97587734 97592114 -
Bach Bach7g01218 Chr7 22621165 22623635 +
Lapu Lapu6g01611 Chr6 15994632 15997428 -
Lasa Lasa1g01264 Chr1 105491797 105494076 +
Lja Lja6g2439 Chr6 53201051 53203714 -
Mepo Mepo6g00939 Chr6 9847089 9850046 -
Mesa Mesa5g03733 Chr5 65064895 65067418 +
Phac Phac6g02111 Chr6 20889026 20891733 +
Phco Phco11g00828 Chr11 6096068 6098421 -
Pste Pste2g02579 Chr2 26006548 26009086 -
Pte Pte9g01296 Chr9 34384053 34386670 +
Pte Pte2g00439 Chr2 3408636 3411450 -
Pumo Pumo2g00341 Chr2 5970661 5972138 +
Pvu Pvu6g1538 Chr6 26094790 26097688 +
Rops Rops11g01078 Chr11 15843862 15846403 -
Seca Seca6g04436 Chr6 111939956 111942417 +
Spst Spst6g01208 Chr6 11063700 11066049 -
Vian Vian6g01407 Chr6 31615687 31618035 +
Vifa Vifa1g09917 Chr1 1620734217 1620736433 +
Vimu Vimu2g01119 Chr2 7413230 7415576 -
Viun Viun6g02266 Chr6 28234010 28236735 +
Vivi Vivi1g00215 Chr1 4238772 4241429 +
Adu Adu04g00409 Chr04 4811300 4815002 -
Arst Arst4g00650 Chr4 4790420 4793847 -
Bach Bach7g01219 Chr7 22627656 22631591 +
Lapu Lapu6g01610 Chr6 15975839 15980615 -
Lasa Lasa1g01266 Chr1 105669451 105672503 +
Lja Lja6g2438 Chr6 53188636 53192715 -
Mepo Mepo6g00937 Chr6 9806927 9811784 -
Mesa Mesa5g03735 Chr5 65081199 65084690 +
Phac Phac6g02112 Chr6 20900698 20905428 +
Phco Phco11g00827 Chr11 6081064 6085084 -
Pste Pste2g02575 Chr2 25979720 25983974 -
Pte Pte9g01131 Chr9 33048137 33056187 -
Pte Pte2g00438 Chr2 3401424 3405610 -
Pte Pte2g00438 Chr2 3401424 3405610 -
Pumo Pumo2g00342 Chr2 5980292 5984978 +
Pvu Pvu6g1539 Chr6 26105551 26110829 +
Rops Rops11g01077 Chr11 15835159 15842311 -
Seca Seca6g04438 Chr6 111950216 111954853 +
Spst Spst6g01206 Chr6 11047765 11051837 -
Trre Trre3g01010 Chr3 7213023 7216346 -
Vian Vian6g01409 Chr6 31632251 31636241 +
Vifa Vifa1g09918 Chr1 1621438433 1621441340 +
Vimu Vimu2g01118 Chr2 7394485 7398630 -
Viun Viun6g02267 Chr6 28247245 28251899 +
Vivi Vivi1g00216 Chr1 4246983 4251556 +
Lja Lja6g2437 Chr6 53182211 53183628 -
Adu Adu04g00408 Chr04 4791855 4793552 -
Arst Arst4g00649 Chr4 4770905 4772445 -
Bach Bach7g01220 Chr7 22633884 22635170 +
Lapu Lapu6g01609 Chr6 15969105 15970469 -
Lasa Lasa1g01267 Chr1 105777472 105778791 -
Mepo Mepo6g00936 Chr6 9797325 9799162 -
Phco Phco11g00826 Chr11 6074939 6076267 -
Pte Pte9g01130 Chr9 33046537 33047334 -
Pte Pte2g00437 Chr2 3397240 3398751 -
Pumo Pumo2g00343 Chr2 5988630 5993930 +
Pvu Pvu6g1540 Chr6 26114743 26116104 +
Rops Rops11g01076 Chr11 15825269 15830478 -
Spst Spst6g01205 Chr6 11042786 11046969 -
Vian Vian6g01410 Chr6 31646099 31647911 +
Vifa Vifa1g09920 Chr1 1621788000 1621789376 -
Vimu Vimu2g01117 Chr2 7388189 7389821 -
Viun Viun6g02268 Chr6 28255759 28257230 +
Vvi Vvi19g0630 Chr19 6858649 6863702 -
Adu Adu04g00408 Chr04 4791855 4793552 -
Arst Arst4g00649 Chr4 4770905 4772445 -
Bach Bach7g01220 Chr7 22633884 22635170 +
Lapu Lapu6g01609 Chr6 15969105 15970469 -
Lasa Lasa1g01267 Chr1 105777472 105778791 -
Lja Lja6g2437 Chr6 53182211 53183628 -
Mepo Mepo6g00936 Chr6 9797325 9799162 -
Phco Phco11g00826 Chr11 6074939 6076267 -
Pte Pte9g01130 Chr9 33046537 33047334 -
Pte Pte2g00437 Chr2 3397240 3398751 -
Pumo Pumo2g00343 Chr2 5988630 5993930 +
Pvu Pvu6g1540 Chr6 26114743 26116104 +
Rops Rops11g01076 Chr11 15825269 15830478 -
Spst Spst6g01205 Chr6 11042786 11046969 -
Sto Sto10g0481 Chr10 3905384 3906545 -
Vian Vian6g01410 Chr6 31646099 31647911 +
Vifa Vifa1g09920 Chr1 1621788000 1621789376 -
Vimu Vimu2g01117 Chr2 7388189 7389821 -
Viun Viun6g02268 Chr6 28255759 28257230 +
Vvi Vvi19g0631 Chr19 6871397 6877229 -
Adu Adu04g00409 Chr04 4811300 4815002 -
Arst Arst4g00650 Chr4 4790420 4793847 -
Bach Bach7g01219 Chr7 22627656 22631591 +
Bva Bva12g02725 Chr12 19890745 19895382 +
Lapu Lapu6g01610 Chr6 15975839 15980615 -
Lasa Lasa1g01266 Chr1 105669451 105672503 +
Lja Lja6g2438 Chr6 53188636 53192715 -
Mepo Mepo6g00937 Chr6 9806927 9811784 -
Mesa Mesa5g03735 Chr5 65081199 65084690 +
Phac Phac6g02112 Chr6 20900698 20905428 +
Phco Phco11g00827 Chr11 6081064 6085084 -
Pste Pste2g02575 Chr2 25979720 25983974 -
Pte Pte9g01131 Chr9 33048137 33056187 -
Pte Pte2g00438 Chr2 3401424 3405610 -
Pumo Pumo2g00342 Chr2 5980292 5984978 +
Pvu Pvu6g1539 Chr6 26105551 26110829 +
Rops Rops11g01077 Chr11 15835159 15842311 -
Seca Seca6g04438 Chr6 111950216 111954853 +
Spst Spst6g01206 Chr6 11047765 11051837 -
Sto Sto10g0482 Chr10 3911535 3915866 -
Trre Trre3g01010 Chr3 7213023 7216346 -
Vian Vian6g01409 Chr6 31632251 31636241 +
Vifa Vifa1g09918 Chr1 1621438433 1621441340 +
Vimu Vimu2g01118 Chr2 7394485 7398630 -
Viun Viun6g02267 Chr6 28247245 28251899 +
Vivi Vivi1g00216 Chr1 4246983 4251556 +
Vvi Vvi19g0632 Chr19 6882629 6884897 -
Adu Adu04g00410 Chr04 4823085 4825100 -
Arst Arst1g03631 Chr1 97587734 97592114 -
Bach Bach7g01218 Chr7 22621165 22623635 +
Bva Bva12g02724 Chr12 19885875 19888701 +
Lal Lal6g0068 Chr6 405122 408042 -
Lapu Lapu6g01611 Chr6 15994632 15997428 -
Lasa Lasa1g01264 Chr1 105491797 105494076 +
Lja Lja6g2439 Chr6 53201051 53203714 -
Mepo Mepo6g00939 Chr6 9847089 9850046 -
Mesa Mesa5g03733 Chr5 65064895 65067418 +
Phac Phac6g02111 Chr6 20889026 20891733 +
Phco Phco11g00828 Chr11 6096068 6098421 -
Psa Psa5g4053 Chr5 320023329 320025148 -
Pste Pste2g02579 Chr2 26006548 26009086 -
Pte Pte9g01296 Chr9 34384053 34386670 +
Pte Pte2g00439 Chr2 3408636 3411450 -
Pumo Pumo2g00341 Chr2 5970661 5972138 +
Pvu Pvu6g1538 Chr6 26094790 26097688 +
Rops Rops11g01078 Chr11 15843862 15846403 -
Seca Seca6g04436 Chr6 111939956 111942417 +
Spst Spst6g01208 Chr6 11063700 11066049 -
Sto Sto9g1901 Chr9 23293450 23297134 -
Sto Sto10g0483 Chr10 3920785 3923429 -
Vian Vian6g01407 Chr6 31615687 31618035 +
Vifa Vifa1g09917 Chr1 1620734217 1620736433 +
Vimu Vimu2g01119 Chr2 7413230 7415576 -
Viun Viun6g02266 Chr6 28234010 28236735 +
Vivi Vivi1g00215 Chr1 4238772 4241429 +
Vvi Vvi19g0633 Chr19 6892953 6896019 -
Bva Bva12g02723 Chr12 19873919 19878655 +
Sto Sto5g1903 Chr5 14116331 14128395 +
Vvi Vvi19g0634 Chr19 6901880 6924618 -
Lal Lal22g0070 Chr22 410715 424516 -
Sto Sto5g1901 Chr5 14062805 14106967 +
Vvi Vvi19g0635 Chr19 6924771 6926278 -
Vvi Vvi19g0636 Chr19 6935311 6935772 +
Bva Bva12g02722 Chr12 19871827 19872318 -
Lja Lja6g1364 Chr6 38822802 38823308 +
Vvi Vvi19g0637 Chr19 6944288 6945236 -
Vvi Vvi19g0638 Chr19 6950631 6951107 -
Lja Lja6g2444 Chr6 53245163 53245564 +
Psa Psa5g4016 Chr5 317103238 317104162 -
Sto Sto10g0484 Chr10 3937059 3937316 -
Vvi Vvi19g0639 Chr19 6956978 6958495 +
Adu Adu07g00261 Chr07 2404786 2411897 +
Aed Aed3g2524 Chr3 27582448 27583805 -
Ahy Ahy17g0373 Chr17 3654927 3658322 +
Aip Aip07g00281 Chr07 2510583 2512675 +
Arst Arst7g00417 Chr7 2559479 2562921 +
Bva Bva12g02721 Chr12 19867772 19869854 -
Cca Cca05g01956 Chr05 39370611 39373033 -
Lasa Lasa2g02260 Chr2 497635877 497637308 -
Mepo Mepo7g02812 Chr7 39083036 39085496 -
Mesa Mesa17g04399 Chr17 74602662 74603390 -
Phco Phco3g00237 Chr3 1731548 1733841 +
Psa Psa2g0326 Chr2 12489836 12492237 -
Pste Pste8g00418 Chr8 2200086 2201805 +
Pte Pte8g00045 Chr8 1105162 1106693 -
Pumo Pumo9g01872 Chr9 47850235 47853102 +
Pvu Pvu8g2788 Chr8 58003268 58006732 -
Rops Rops9g00313 Chr9 3957813 3960820 +
Seca Seca8g00302 Chr8 3564576 3568147 +
Spst Spst8g00894 Chr8 7892810 7895311 -
Ssu Ssu6g3493 Chr6 77840076 77843483 -
Trre Trre9g04997 Chr9 55872954 55881947 -
Vian Vian7g01183 Chr7 20132055 20133466 +
Vifa Vifa1g03329 Chr1 518597839 518599484 -
Vimu Vimu1g00422 Chr1 2556980 2558968 +
Viun Viun8g02841 Chr8 36557777 36559383 -
Vivi Vivi7g02713 Chr7 91049507 91051440 +
Vra Vra6g0223 Chr6 1665446 1667298 +