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
Vvi2g0012 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0013 . . . . . . . . . . . . . . . . . . Apr7g0717 . . . . . . . . Bva11g01941 . Car07g01272 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3429 . . . . . . . . . . . . . . . . . . .
Vvi2g0014 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0015 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0016 . . . . . . . . . Aev03g3084 . Ahy13g2813 . Aip03g03166 . . . Amo13g3431 . . . . . . . . Bva08g00139 Bva11g02142 . Car06g00508 . . . . . Dod04g2753 . . . . . . . . . . . . Lal15g0067 . . . . . Lan18g1112 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3221 . . . . . . . . . . . . . . . . . . .
Vvi2g0017 . . . . . . . . . . . . . . . . . . . Apr2g1216 . . . . . . . . . . . . . . . . . . . . . . Gma05g02051 Gma08g00155 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g0404 Lja4g0404 . Mal7g4948 . . . . . . . Mtr8g3482 . . . . . . . Psa7g0721 . . . . . . . . . . . . . . . . . . . . . Tpr3g0629 . . . Tsu02g00441 . . . . . . . . . . . .
Vvi2g0018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0019 Acco11g1614 . Accr7g00144 . Adu03g02769 . . . . . . . . . Alju09g1613 . . . . . Arst3g03664 . Bach4g00118 . Bisa11g0950 . . . . . . . Dere09g0221 . . . Enph13g1399 . Glsi05g2098 . . . . . . . . . . . . Lal15g1401 . . . . . . . . Lapu3g03601 . Lasa7g04757 . Lele49g0657 Lele50g0687 Lele51g0673 Lele52g0677 . . . . . . . . Mepo2g04643 . . . Mibi12g1381 . . . . . Phco4g03310 . Prci10g1062 . . . . . . Pte12g00060 . . Pumo6g00482 . Pvu2g2998 . Rops2g00534 . Seca12g06505 . Spst3g01083 . . . . . . . Trre7g05465 . . . Vian1g03843 . Vifa6g03555 . . . Viun3g00556 . Vivi5g05929 . . .
Vvi2g0020 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00138 Bva11g02143 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3218 . . . . . . . . . . . . . . . . . . .
Vvi2g0021 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva11g02144 . . . . . . . . . . . . . . . . . . . . . . . . . Lal23g1493 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3216 . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0012 Chr2 142428 175818 +
Vvi Vvi2g0013 Chr2 178039 178887 -
Apr Apr7g0717 Chr7 14086465 14088789 +
Bva Bva11g01941 Chr11 16653078 16654295 -
Car Car07g01272 Chr07 11591410 11592776 +
Sto Sto6g3429 Chr6 40083593 40084789 -
Vvi Vvi2g0014 Chr2 197417 197651 -
Vvi Vvi2g0015 Chr2 206886 209292 +
Vvi Vvi2g0016 Chr2 209926 211049 +
Aev Aev03g3084 Chr03 29580778 29582263 -
Ahy Ahy13g2813 Chr13 111224979 111227779 +
Aip Aip03g03166 Chr03 102153169 102155966 +
Amo Amo13g3431 Chr13 115451217 115454294 +
Bva Bva08g00139 Chr08 688568 691473 +
Bva Bva11g02142 Chr11 17628191 17631209 -
Car Car06g00508 Chr06 5149653 5153152 +
Dod Dod04g2753 Chr04 51443476 51446170 -
Lal Lal15g0067 Chr15 458714 461961 +
Lan Lan18g1112 Chr18 16133772 16136785 -
Sto Sto6g3221 Chr6 38730750 38731580 +
Vvi Vvi2g0017 Chr2 213709 224334 +
Apr Apr2g1216 Chr2 18351577 18360785 -
Gma Gma05g02051 Chr05 41762997 41770082 -
Gma Gma08g00155 Chr08 1310116 1316708 -
Lja Lja4g0404 Chr4 3241162 3246523 +
Lja Lja4g0404 Chr4 3241162 3246523 +
Mal Mal7g4948 Chr7 118249412 118250980 -
Mtr Mtr8g3482 Chr8 45294677 45298965 -
Psa Psa7g0721 Chr7 51562541 51566894 -
Tpr Tpr3g0629 Chr3 6173117 6178505 +
Tsu Tsu02g00441 Chr02 3720956 3722943 +
Vvi Vvi2g0018 Chr2 231634 234069 +
Vvi Vvi2g0019 Chr2 236566 239329 +
Acco Acco11g1614 Chr11 30630340 30633354 +
Accr Accr7g00144 Chr7 1690245 1692990 -
Adu Adu03g02769 Chr03 102888815 102891014 +
Alju Alju09g1613 Chr09 40122786 40127026 +
Arst Arst3g03664 Chr3 101616203 101618684 +
Bach Bach4g00118 Chr4 805035 807571 +
Bisa Bisa11g0950 Chr11 25886560 25889357 +
Dere Dere09g0221 Chr09 5013027 5015452 +
Enph Enph13g1399 Chr13 19637318 19640398 -
Glsi Glsi05g2098 Chr05 67600718 67603004 -
Lal Lal15g1401 Chr15 16173409 16176032 -
Lapu Lapu3g03601 Chr3 59419574 59422834 -
Lasa Lasa7g04757 Chr7 684855257 684856825 -
Lele Lele49g0657 Chr49 3985742 3988713 -
Lele Lele50g0687 Chr50 4244723 4248400 -
Lele Lele51g0673 Chr51 4086443 4089415 -
Lele Lele52g0677 Chr52 4292286 4294915 -
Mepo Mepo2g04643 Chr2 54729590 54733845 -
Mibi Mibi12g1381 Chr12 29488759 29490921 +
Phco Phco4g03310 Chr4 53596711 53599385 -
Prci Prci10g1062 Chr10 7127773 7130915 -
Pte Pte12g00060 Chr12 569646 572078 +
Pumo Pumo6g00482 Chr6 6034475 6037805 +
Pvu Pvu2g2998 Chr2 45427184 45430187 -
Rops Rops2g00534 Chr2 7782275 7785395 +
Seca Seca12g06505 Chr12 157066445 157069746 -
Spst Spst3g01083 Chr3 14258626 14261359 +
Trre Trre7g05465 Chr7 60440269 60444314 -
Vian Vian1g03843 Chr1 61482429 61484938 -
Vifa Vifa6g03555 Chr6 1168943754 1168946560 +
Viun Viun3g00556 Chr3 3427902 3430759 +
Vivi Vivi5g05929 Chr5 163562529 163586250 -
Vvi Vvi2g0020 Chr2 244210 246222 -
Bva Bva08g00138 Chr08 684319 687714 +
Bva Bva11g02143 Chr11 17630408 17637168 -
Sto Sto6g3218 Chr6 38725468 38727582 +
Vvi Vvi2g0021 Chr2 251462 252804 -
Bva Bva11g02144 Chr11 17638762 17643130 -
Lal Lal23g1493 Chr23 15186912 15200603 +
Sto Sto6g3216 Chr6 38719093 38722559 +
Lal Lal15g1401 Chr15 16173409 16176032 -