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
Vvi17g0433 . . . . . . Aed10g1173 . . Aev08g1626 . Ahy20g2373 . Aip10g02797 . . . . . . . . . . . . Bva06g01096 Bva05g00605 . . Cca03g00713 . . . . Dod09g0526 . . . . Gma06g01878 Gma04g01356 . . Gso6g1764 Gso6g1764 . . . . . . . Lal21g0837 . . . . . . . . . . . . . . . . . . Lja1g5425 . . . . . . . . . . . . . . . . . Psa1g0646 . . . . . . . . . . . . . . . . . Ssu1g1983 . Sto3g1672 . . . . . . . . . . . . . . . . . . .
Vvi17g0434 . . . . . . Aed10g1172 . . Aev08g1627 . Ahy20g2374 . Aip10g02798 . . . . . . . . . . . . . Bva05g00604 . . Cca03g00712 . . . . Dod09g0525 . . . . Gma06g01877 . . . Gso6g1763 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g5426 . . . . . . . . . . . . . . . . . Psa1g0647 . . . . . . . . . . . . . . . . . Ssu1g1984 . . Sto12g1016 . . . . . . . . . . . . . . . . . .
Vvi17g0435 Acco04g2870 . . . Adu01g03148 . . Aed6g1673 . . . . . . Alju06g2825 . . . . . . . Bach5g00507 . . . . Bva05g00603 Car07g00846 . . Cca11g02070 Dere03g1065 . . . . . Glsi02g0988 . . . Gma05g00153 Gma17g00789 . . . . . Lal7g1325 . . . . . . . . . . . . Lasa4g03391 . Lele21g1992 Lele22g1959 Lele23g0020 Lele24g1911 . . . . . . Mal5g4384 . Mepo1g01154 . Mesa29g01187 . Mibi09g0016 . Mtr4g4019 . . . Phco8g01456 . . . Psa4g1036 . Pste6g02761 . . . . . Pumo4g01170 . Pvu3g1867 . Rops2g03769 . Seca12g01248 . Spst3g04810 . . Ssu6g1142 Sto3g1671 . Tpr4g3775 . Trre15g04346 . Tsu04g03804 . Vian1g00872 . . . Vimu7g00908 . Viun3g04711 . Vivi1g01771 . . Vra7g1979
Vvi17g0436 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0437 . . . . . . . . . . . . . . . . . . . Apr9g2912 . . . . . . . . . . . . . . . . . . . . . Gma04g01500 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g4383 . . . . . . . Mtr4g4018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g3776 . . . Tsu04g03803 . . . . . . . . . . . . .
Vvi17g0438 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01097 . Car07g00847 . . . . . . . . . . . . . . . . . . . . Lal7g1326 . . . . . . . . . . . . . . . . . . . . . . Lja1g5428 Lja4g2037 . . . . . . . . . . . . . . . . Psa4g1037 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0439 . . . . . . . . . . . . . . . . . . . Apr9g2914 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g4382 . . . . . . . Mtr4g4017 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tpr4g3777 . . . Tsu04g03802 . . . . . . . . . . . . .
Vvi17g0440 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2040 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0441 . . . . . . . . Aev01g2227 . Ahy11g2081 . Aip01g02290 . . . Amo11g2460 . . Apr9g2915 . . . . . . . . . . . . . . Dod05g1841 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr4g4016 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1670 Sto12g1015 Tpr4g3779 . . . Tsu04g03801 . . . . . . . . . . . . .
Vvi17g0442 . . . . . . . Aed6g1672 . . . . . . . . . . . . . . . . . . . . . . . Cca11g02069 . . . . . . . . Gma06g01876 . Gma05g00155 Gma17g00787 Gso6g1762 . Gso6g1762 Gso6g1762 . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2042 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1144 . . . . . . . . . . . . . . . . . . . Vra7g1978
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal7g1326 Chr7 18520140 18521846 -
Vvi Vvi17g0433 Chr17 4778795 4783822 +
Aed Aed10g1173 Chr10 11143118 11147593 -
Aev Aev08g1626 Chr08 12200361 12204396 +
Ahy Ahy20g2373 Chr20 127994474 127998389 +
Aip Aip10g02797 Chr10 120057348 120061283 +
Bva Bva06g01096 Chr06 8792852 8796095 +
Bva Bva05g00605 Chr05 2998671 3001980 -
Cca Cca03g00713 Chr03 13771240 13775742 -
Dod Dod09g0526 Chr09 8186558 8190171 -
Gma Gma06g01878 Chr06 20604628 20608672 -
Gma Gma04g01356 Chr04 26280629 26285364 -
Gso Gso6g1764 Chr6 20248803 20253182 -
Gso Gso6g1764 Chr6 20248803 20253182 -
Lal Lal21g0837 Chr21 7614513 7619594 -
Lja Lja1g5425 Chr1 91767944 91771883 +
Psa Psa1g0646 Chr1 40177190 40180523 +
Ssu Ssu1g1983 Chr1 55703739 55706935 +
Sto Sto3g1672 Chr3 12780817 12784140 -
Vvi Vvi17g0434 Chr17 4785036 4791463 -
Aed Aed10g1172 Chr10 11137824 11142758 +
Aev Aev08g1627 Chr08 12205707 12210847 -
Ahy Ahy20g2374 Chr20 127998625 128003242 -
Aip Aip10g02798 Chr10 120061696 120065885 -
Bva Bva05g00604 Chr05 2995078 2998491 +
Cca Cca03g00712 Chr03 13766612 13770517 +
Dod Dod09g0525 Chr09 8181486 8184859 +
Gma Gma06g01877 Chr06 20597054 20602103 +
Gso Gso6g1763 Chr6 20241612 20247399 +
Lja Lja1g5426 Chr1 91778269 91782049 -
Psa Psa1g0647 Chr1 40193166 40200293 -
Ssu Ssu1g1984 Chr1 55708931 55712888 -
Sto Sto12g1016 Chr12 6312333 6315650 +
Vvi Vvi17g0435 Chr17 4792732 4798540 +
Acco Acco04g2870 Chr04 45284127 45287674 -
Adu Adu01g03148 Chr01 103227229 103228986 +
Aed Aed6g1673 Chr6 20507368 20509830 -
Alju Alju06g2825 Chr06 55208352 55212047 -
Bach Bach5g00507 Chr5 3464154 3466526 -
Bva Bva05g00603 Chr05 2992350 2994785 -
Car Car07g00846 Chr07 7510459 7512541 +
Cca Cca11g02070 Chr11 46277196 46279645 -
Dere Dere03g1065 Chr03 16910063 16912846 -
Glsi Glsi02g0988 Chr02 6563767 6566635 -
Gma Gma05g00153 Chr05 1489766 1493694 +
Gma Gma17g00789 Chr17 6641581 6646818 -
Lal Lal7g1325 Chr7 18517446 18519318 +
Lasa Lasa4g03391 Chr4 590770333 590772088 -
Lele Lele21g1992 Chr21 26852666 26855267 -
Lele Lele22g1959 Chr22 24227548 24229664 -
Lele Lele23g0020 Chr23 116118 119013 +
Lele Lele24g1911 Chr24 23803140 23807294 -
Mal Mal5g4384 Chr5 115245636 115248007 -
Mepo Mepo1g01154 Chr1 11298227 11300581 +
Mesa Mesa29g01187 Chr29 15501035 15503177 +
Mibi Mibi09g0016 Chr09 359260 362611 +
Mtr Mtr4g4019 Chr4 54009845 54012606 -
Phco Phco8g01456 Chr8 15032999 15033869 -
Psa Psa4g1036 Chr4 76789474 76791972 -
Pste Pste6g02761 Chr6 15298833 15305544 -
Pumo Pumo4g01170 Chr4 14940492 14945423 +
Pvu Pvu3g1867 Chr3 39195725 39197804 +
Rops Rops2g03769 Chr2 69552854 69554666 +
Seca Seca12g01248 Chr12 12223720 12229420 +
Spst Spst3g04810 Chr3 99835986 99840574 -
Ssu Ssu6g1142 Chr6 18620104 18624804 +
Sto Sto3g1671 Chr3 12773504 12777742 -
Tpr Tpr4g3775 Chr4 43663552 43665864 +
Trre Trre15g04346 Chr15 54042837 54045145 -
Tsu Tsu04g03804 Chr04 46942641 46944850 -
Vian Vian1g00872 Chr1 9111107 9113154 -
Vimu Vimu7g00908 Chr7 8868064 8870039 -
Viun Viun3g04711 Chr3 54497681 54499962 -
Vivi Vivi1g01771 Chr1 38041933 38043487 +
Vra Vra7g1979 Chr7 39328278 39330516 -
Vvi Vvi17g0436 Chr17 4799076 4799682 -
Vvi Vvi17g0437 Chr17 4802273 4803138 -
Apr Apr9g2912 Chr9 35988992 35990412 -
Gma Gma04g01500 Chr04 39114281 39115771 +
Mal Mal5g4383 Chr5 115243563 115244762 +
Mtr Mtr4g4018 Chr4 54001638 54003223 +
Tpr Tpr4g3776 Chr4 43666357 43667997 -
Tsu Tsu04g03803 Chr04 46940253 46941778 +
Vvi Vvi17g0438 Chr17 4806535 4807901 -
Bva Bva06g01097 Chr06 8799063 8800236 -
Car Car07g00847 Chr07 7513973 7515590 -
Lal Lal7g1326 Chr7 18520140 18521846 -
Lja Lja1g5428 Chr1 92001558 92004261 -
Lja Lja4g2037 Chr4 21514649 21516103 -
Psa Psa4g1037 Chr4 76826097 76828080 +
Vvi Vvi17g0439 Chr17 4808549 4814566 -
Apr Apr9g2914 Chr9 35999157 36000732 -
Mal Mal5g4382 Chr5 115232761 115233954 +
Mtr Mtr4g4017 Chr4 53992632 53994862 +
Tpr Tpr4g3777 Chr4 43670321 43671604 -
Tsu Tsu04g03802 Chr04 46936222 46937480 +
Vvi Vvi17g0440 Chr17 4815733 4817448 -
Lja Lja4g2040 Chr4 21717136 21718570 -
Vvi Vvi17g0441 Chr17 4820279 4821543 +
Aev Aev01g2227 Chr01 26533952 26535278 +
Ahy Ahy11g2081 Chr11 131815375 131816655 +
Aip Aip01g02290 Chr01 120732225 120733309 +
Amo Amo11g2460 Chr11 130063887 130064958 +
Apr Apr9g2915 Chr9 36004100 36005682 -
Dod Dod05g1841 Chr05 43956673 43958081 +
Mtr Mtr4g4016 Chr4 53985874 53987348 +
Sto Sto3g1670 Chr3 12768008 12770169 +
Sto Sto12g1015 Chr12 6309222 6310393 +
Tpr Tpr4g3779 Chr4 43681776 43683132 -
Tsu Tsu04g03801 Chr04 46931501 46932719 -
Vvi Vvi17g0442 Chr17 4822168 4826194 +
Aed Aed6g1672 Chr6 20498039 20507083 +
Cca Cca11g02069 Chr11 46262053 46274719 +
Gma Gma06g01876 Chr06 20579549 20581898 +
Gma Gma05g00155 Chr05 1504907 1506426 -
Gma Gma17g00787 Chr17 6627274 6628730 +
Gso Gso6g1762 Chr6 20224120 20226640 +
Gso Gso6g1762 Chr6 20224120 20226640 +
Gso Gso6g1762 Chr6 20224120 20226640 +
Lja Lja4g2042 Chr4 21734664 21736117 -
Ssu Ssu6g1144 Chr6 18630806 18640402 -
Vra Vra7g1978 Chr7 39299773 39308490 +