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
Vvi19g0460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0461 . . . . Adu08g01877 Adu03g01617 . . Aev10g2333 Aev04g2465 Ahy18g1123 Ahy13g1750 Aip08g01182 Aip03g01953 . . Amo18g1281 . Apr2g0321 Apr5g0023 Arst8g02588 Arst3g02157 . Bach9g00645 . . . Bva07g01855 . . Cca10g01016 Cca04g01292 . . Dod10g1100 Dod03g1941 . . Glsi14g1156 . Gma06g02418 Gma12g01263 Gma12g02040 Gma13g02518 Gso6g2200 Gso6g2200 Gso6g2200 Gso6g2200 . . . . . . . . . . . . Lapu5g00910 . Lasa1g05110 Lasa7g02765 . . . . . . . . . . Mal4g0990 . Mepo6g03228 Mepo2g02887 Mesa5g01324 Mesa13g02168 . . Mtr2g2728 . . . . Phco9g01647 . . . . Pste3g02558 Pste1g03778 . . . . . . Pvu5g0928 Pvu11g1509 . Rops3g01676 . Seca4g04653 Spst5g01011 Spst11g00729 . . Sto7g0372 . . . Trre11g03552 Trre7g02198 Tsu02g04522 . . Vian5g00573 . Vifa6g01739 . Vimu5g01068 Viun5g02750 . Vivi2g06740 Vivi7g00253 . .
Vvi19g0462 . . . . . . . . . . Ahy18g2614 . Aip08g03010 . . . Amo18g3376 . . Apr5g0022 . . . . . . . . . . . . . . . . . . . . . Gma12g01259 . . . . . . . . . . . . . . . . . . . . . Lasa7g02761 . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g5719 . . Pste1g03768 . . . . . . . Pvu11g1492 . . . . . . . . Sto7g0377 . . . . . . . . . . . . Vimu5g01074 . . . Vivi7g01267 . .
Vvi19g0463 . . Accr1g02109 . Adu08g01865 . . . . . Ahy18g2612 . Aip08g03008 . Alju02g1609 . Amo18g3374 . . Apr5g0020 Arst8g02567 . . . . . . Bva07g01856 . . Cca10g01012 . Dere08g0551 . . . Enph3g1044 . . . . Gma12g01252 . Gma13g02519 . . . . . . . . . . . . . . . . Lapu5g00909 . Lasa1g05114 . . . . . . . . . . . . . Mepo6g03231 . Mesa5g01320 . . . . . Phac5g01311 . . . . . . . . Pste1g03760 Pte19g01037 Pte15g01946 . . . . Pvu5g0930 Pvu11g1489 . . . . Spst5g01009 Spst11g00738 . . Sto7g0378 . . . . . . . Vian11g00928 . . . . Vimu5g01075 Viun5g02754 . Vivi2g06741 Vivi7g01274 . .
Vvi19g0464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0465 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0466 . . . . . . . . . . . . . . . . . . . Apr5g0019 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu11g1486 . . . . . Spst11g00741 . . Sto7g0379 . . . . . . . . . . . . Vimu5g01077 . . . . . .
Vvi19g0467 . . . . . . . . . . Ahy18g1100 . Aip08g01152 . . . Amo18g1251 . . Apr5g0018 . . . . . . . . . . Cca10g01011 . . . . . . . . . . Gma12g01251 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Phco9g01635 . . . . . . . . . . . . . Pvu11g1485 . . . . . Spst11g00747 . . Sto7g0382 . . . . . . . . . . . . . . . . . . .
Vvi19g0468 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0469 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto7g0379 Chr7 2763904 2766629 -
Sto Sto7g0378 Chr7 2753552 2756110 -
Sto Sto7g0377 Chr7 2707291 2748574 -
Vvi Vvi19g0460 Chr19 5083799 5084257 +
Vvi Vvi19g0461 Chr19 5086044 5088911 -
Adu Adu08g01877 Chr08 31068964 31072943 +
Adu Adu03g01617 Chr03 26085731 26089554 +
Aev Aev10g2333 Chr10 23170358 23174482 +
Aev Aev04g2465 Chr04 24240980 24248050 +
Ahy Ahy18g1123 Chr18 17384432 17389194 +
Ahy Ahy13g1750 Chr13 27793696 27801266 +
Aip Aip08g01182 Chr08 16658334 16662704 +
Aip Aip03g01953 Chr03 26733540 26738539 +
Amo Amo18g1281 Chr18 22826246 22831035 +
Apr Apr2g0321 Chr2 3802672 3806905 +
Apr Apr5g0023 Chr5 166795 170067 +
Arst Arst8g02588 Chr8 35419932 35424071 +
Arst Arst3g02157 Chr3 26424785 26428614 +
Bach Bach9g00645 Chr9 4473913 4476847 +
Bva Bva07g01855 Chr07 16760090 16763502 -
Cca Cca10g01016 Chr10 12329068 12329436 -
Cca Cca04g01292 Chr04 16114296 16118742 -
Dod Dod10g1100 Chr10 29981004 29988224 -
Dod Dod03g1941 Chr03 43188707 43192235 -
Glsi Glsi14g1156 Chr14 12555497 12556993 -
Gma Gma06g02418 Chr06 46280211 46283548 -
Gma Gma12g01263 Chr12 17228254 17233687 +
Gma Gma12g02040 Chr12 41010032 41014338 +
Gma Gma13g02518 Chr13 40090299 40094811 -
Gso Gso6g2200 Chr6 42129811 42133142 -
Gso Gso6g2200 Chr6 42129811 42133142 -
Gso Gso6g2200 Chr6 42129811 42133142 -
Gso Gso6g2200 Chr6 42129811 42133142 -
Lapu Lapu5g00910 Chr5 14652453 14657825 +
Lasa Lasa1g05110 Chr1 826823095 826854754 -
Lasa Lasa7g02765 Chr7 545913982 545920868 +
Mal Mal4g0990 Chr4 13301264 13304927 +
Mepo Mepo6g03228 Chr6 44166634 44171601 -
Mepo Mepo2g02887 Chr2 38629880 38630200 +
Mesa Mesa5g01324 Chr5 18664636 18671145 +
Mesa Mesa13g02168 Chr13 25476060 25479921 -
Mtr Mtr2g2728 Chr2 40519762 40524620 -
Phco Phco9g01647 Chr9 38907780 38911662 +
Pste Pste3g02558 Chr3 18472891 18478927 -
Pste Pste1g03778 Chr1 18614990 18620948 +
Pvu Pvu5g0928 Chr5 25154111 25158678 -
Pvu Pvu11g1509 Chr11 37450662 37454675 +
Rops Rops3g01676 Chr3 27242071 27246988 +
Seca Seca4g04653 Chr4 86290567 86296858 -
Spst Spst5g01011 Chr5 9982748 9985739 +
Spst Spst11g00729 Chr11 30461736 30463904 -
Sto Sto7g0372 Chr7 2678114 2680418 -
Trre Trre11g03552 Chr11 48588601 48594144 -
Trre Trre7g02198 Chr7 17525011 17528058 +
Tsu Tsu02g04522 Chr02 54265865 54271550 -
Vian Vian5g00573 Chr5 20530021 20538926 -
Vifa Vifa6g01739 Chr6 651198411 651205749 -
Vimu Vimu5g01068 Chr5 17339181 17348932 -
Viun Viun5g02750 Chr5 39018793 39022889 -
Vivi Vivi2g06740 Chr2 205606030 205620035 -
Vivi Vivi7g00253 Chr7 14974396 14975594 -
Vvi Vvi19g0462 Chr19 5138070 5153191 -
Ahy Ahy18g2614 Chr18 128648154 128653414 +
Aip Aip08g03010 Chr08 119182577 119211121 +
Amo Amo18g3376 Chr18 135738642 135744103 -
Apr Apr5g0022 Chr5 158762 164026 +
Gma Gma12g01259 Chr12 17003554 17011884 +
Lasa Lasa7g02761 Chr7 545474289 545476731 +
Psa Psa5g5719 Chr5 497741288 497743691 -
Pste Pste1g03768 Chr1 18517705 18521000 -
Pvu Pvu11g1492 Chr11 36428614 36431382 +
Sto Sto7g0377 Chr7 2707291 2748574 -
Vimu Vimu5g01074 Chr5 17611270 17615434 +
Vivi Vivi7g01267 Chr7 65217529 65220224 -
Vvi Vvi19g0463 Chr19 5156208 5159103 -
Accr Accr1g02109 Chr1 54912094 54915794 -
Adu Adu08g01865 Chr08 30675992 30683788 +
Ahy Ahy18g2612 Chr18 128590892 128598394 +
Aip Aip08g03008 Chr08 119132925 119167461 +
Alju Alju02g1609 Chr02 14479654 14482044 +
Amo Amo18g3374 Chr18 135695372 135714782 -
Apr Apr5g0020 Chr5 143753 152374 +
Arst Arst8g02567 Chr8 35026773 35029814 +
Bva Bva07g01856 Chr07 16766074 16771795 -
Cca Cca10g01012 Chr10 12153455 12156549 +
Dere Dere08g0551 Chr08 8529141 8532410 -
Enph Enph3g1044 Chr3 31632646 31635469 -
Gma Gma12g01252 Chr12 16768368 16776509 +
Gma Gma13g02519 Chr13 40101590 40104423 -
Lapu Lapu5g00909 Chr5 14619647 14628804 +
Lasa Lasa1g05114 Chr1 827066614 827069587 -
Mepo Mepo6g03231 Chr6 44226443 44227192 -
Mesa Mesa5g01320 Chr5 18617621 18619816 +
Phac Phac5g01311 Chr5 31401823 31405665 -
Pste Pste1g03760 Chr1 18453467 18457749 -
Pte Pte19g01037 Chr19 10005893 10006456 +
Pte Pte15g01946 Chr15 25654082 25656305 +
Pvu Pvu5g0930 Chr5 25570657 25573726 +
Pvu Pvu11g1489 Chr11 35468495 35473572 +
Spst Spst5g01009 Chr5 9824349 9827026 +
Spst Spst11g00738 Chr11 30500924 30504810 +
Sto Sto7g0378 Chr7 2753552 2756110 -
Vian Vian11g00928 Chr11 10894879 10897060 +
Vimu Vimu5g01075 Chr5 17661413 17666082 -
Viun Viun5g02754 Chr5 39080966 39084939 -
Vivi Vivi2g06741 Chr2 205677522 205679710 -
Vivi Vivi7g01274 Chr7 65412250 65413017 -
Vvi Vvi19g0464 Chr19 5166359 5166994 +
Vvi Vvi19g0465 Chr19 5167089 5169708 +
Vvi Vvi19g0466 Chr19 5188377 5188831 +
Apr Apr5g0019 Chr5 138305 143017 +
Pvu Pvu11g1486 Chr11 35148747 35153770 +
Spst Spst11g00741 Chr11 30607924 30611542 -
Sto Sto7g0379 Chr7 2763904 2766629 -
Vimu Vimu5g01077 Chr5 17734572 17739375 -
Vvi Vvi19g0467 Chr19 5188869 5189447 +
Ahy Ahy18g1100 Chr18 16670086 16675265 +
Aip Aip08g01152 Chr08 15791144 15796130 +
Amo Amo18g1251 Chr18 22179763 22187484 +
Apr Apr5g0018 Chr5 132885 137708 +
Cca Cca10g01011 Chr10 12131193 12131886 +
Gma Gma12g01251 Chr12 16753909 16755415 +
Phco Phco9g01635 Chr9 38502788 38508201 +
Pvu Pvu11g1485 Chr11 35073774 35078721 +
Spst Spst11g00747 Chr11 30754509 30757546 -
Sto Sto7g0382 Chr7 2784260 2787095 -
Vvi Vvi19g0468 Chr19 5198427 5199853 -
Vvi Vvi19g0469 Chr19 5207733 5208911 -