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
Vvi16g0659 . . . . . . . . . . . . . . . . . . Apr5g0680 . . . . . . . . Bva07g00257 . . . . . . . . . . . . . . . . . . . . . . Lal9g0016 . . . . . . . . . . . . . . . . . . . . . . . Mal7g1136 . . . . . . . Mtr4g1036 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g2479 Sto4g2517 . . . . . . . . . . . . . . . . . .
Vvi16g0660 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0661 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0662 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0663 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0664 . . . . . . . Aed7g0440 . . Ahy15g3339 . Aip05g03654 . . . . . . Apr6g0836 Arst5g02688 . . . . . . Bva04g01037 . . Cca02g01685 Cca08g00480 . . Dod02g3197 . . . . . Gma16g01696 . . . Gso16g1664 . . . . Lal2g0805 . . . . . . . . . . . . Lasa1g02292 . . . . . . . . . Lja2g2510 . . Mal6g3197 Mepo7g01018 . Mesa22g02628 . . . . Mtr6g1725 Phac4g01717 . . . . . Psa6g4657 . Pste9g01302 . . Pte9g00245 . . Pumo6g02775 . Pvu4g1398 . Rops5g00652 . Seca10g04331 . Spst4g03019 . Ssu7g1467 . . . . Tpr2g4525 Trre11g01609 . . Tsu06g03389 Vian8g01224 . Vifa1g03879 . Vimu8g01857 . Viun4g02428 . Vivi2g05713 . . Vra1g0862
Vvi16g0665 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0666 . . . . . . . . . . . . . . . . . . Apr5g0681 . . . . . . . . Bva07g00252 . . . . . . . . . . . . Gma09g02138 . . . Gso9g1914 . . . . . . . . . . . . . . . Lapu11g01122 . Lasa7g00892 . . . . . . . . . Lja3g0040 . Mal7g1129 . . . . . . . Mtr4g1034 . . . Phco9g00080 . . . . . Pste1g00219 . . . . . . . Pvu11g0044 . . . . . Spst11g00329 . . . . Sto4g2518 Tpr4g1167 . . . Tsu06g00905 . . . . . Vimu5g02838 . . . Vivi7g04991 . . .
Vvi16g0667 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi16g0668 . . . . Adu10g02768 . . . . . . . . . . . . . . . Arst10g03581 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu4g01114 . . . . . . . . . . . . . . . . . . . . . . . . . Phco5g01220 . . . . . Pste9g00459 . . . . . . . Pvu4g0819 . . . . . Spst4g00620 . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi16g0659 Chr16 13472365 13474195 -
Apr Apr5g0680 Chr5 9288522 9290986 -
Bva Bva07g00257 Chr07 3762428 3764887 +
Lal Lal9g0016 Chr9 90638 92352 +
Mal Mal7g1136 Chr7 34422502 34424724 +
Mtr Mtr4g1036 Chr4 13305325 13308268 +
Sto Sto7g2479 Chr7 30240324 30241940 +
Sto Sto4g2517 Chr4 26538203 26540026 -
Vvi Vvi16g0660 Chr16 13497462 13517043 +
Vvi Vvi16g0661 Chr16 13520041 13520644 -
Vvi Vvi16g0662 Chr16 13531881 13534050 -
Vvi Vvi16g0663 Chr16 13549389 13582228 -
Vvi Vvi16g0664 Chr16 13606221 13606881 -
Aed Aed7g0440 Chr7 3196056 3199371 +
Ahy Ahy15g3339 Chr15 155679444 155681539 -
Aip Aip05g03654 Chr05 144328042 144330353 -
Apr Apr6g0836 Chr6 12814953 12818431 -
Arst Arst5g02688 Chr5 81344448 81346167 -
Bva Bva04g01037 Chr04 6838744 6840261 +
Cca Cca02g01685 Chr02 35809289 35812261 +
Cca Cca08g00480 Chr08 7860040 7876306 +
Dod Dod02g3197 Chr02 66958970 66961737 -
Gma Gma16g01696 Chr16 37911348 37915275 -
Gso Gso16g1664 Chr16 37266300 37269646 -
Lal Lal2g0805 Chr2 5202184 5209644 -
Lasa Lasa1g02292 Chr1 256270630 256272032 +
Lja Lja2g2510 Chr2 32489018 32552416 -
Mal Mal6g3197 Chr6 93912830 93915447 -
Mepo Mepo7g01018 Chr7 15648764 15652682 +
Mesa Mesa22g02628 Chr22 69579370 69581205 -
Mtr Mtr6g1725 Chr6 31899746 31903432 -
Phac Phac4g01717 Chr4 44295152 44298667 -
Psa Psa6g4657 Chr6 404704669 404708825 +
Pste Pste9g01302 Chr9 11503599 11515311 -
Pte Pte9g00245 Chr9 2792103 2796072 +
Pumo Pumo6g02775 Chr6 66160031 66161373 -
Pvu Pvu4g1398 Chr4 40934588 40938515 -
Rops Rops5g00652 Chr5 11140704 11144838 +
Seca Seca10g04331 Chr10 97976489 97981647 -
Spst Spst4g03019 Chr4 69656476 69658290 +
Ssu Ssu7g1467 Chr7 31163535 31165116 -
Tpr Tpr2g4525 Chr2 49932559 49935575 -
Trre Trre11g01609 Chr11 15712234 15715032 -
Tsu Tsu06g03389 Chr06 44814606 44817271 -
Vian Vian8g01224 Chr8 30917034 30919336 -
Vifa Vifa1g03879 Chr1 597685663 597686694 +
Vimu Vimu8g01857 Chr8 24339007 24340607 +
Viun Viun4g02428 Chr4 39457545 39460824 -
Vivi Vivi2g05713 Chr2 185936118 185938539 -
Vra Vra1g0862 Chr1 10116011 10117951 +
Vvi Vvi16g0665 Chr16 13618889 13620575 -
Vvi Vvi16g0666 Chr16 13642308 13646780 -
Apr Apr5g0681 Chr5 9292341 9294911 -
Bva Bva07g00252 Chr07 3719407 3723251 +
Gma Gma09g02138 Chr09 46885741 46888454 -
Gso Gso9g1914 Chr9 43502596 43505284 -
Lapu Lapu11g01122 Chr11 13285627 13290045 -
Lasa Lasa7g00892 Chr7 92174228 92177982 +
Lja Lja3g0040 Chr3 456597 458713 +
Mal Mal7g1129 Chr7 33694637 33700387 +
Mtr Mtr4g1034 Chr4 13251544 13258788 +
Phco Phco9g00080 Chr9 541607 543481 +
Pste Pste1g00219 Chr1 776362 784870 +
Pvu Pvu11g0044 Chr11 321282 324909 +
Spst Spst11g00329 Chr11 11420305 11422149 +
Sto Sto4g2518 Chr4 26542284 26545575 -
Tpr Tpr4g1167 Chr4 11162359 11166826 +
Tsu Tsu06g00905 Chr06 8121584 8126000 +
Vimu Vimu5g02838 Chr5 37643501 37645384 -
Vivi Vivi7g04991 Chr7 133157650 133161849 +
Vvi Vvi16g0667 Chr16 13649610 13651094 -
Vvi Vvi16g0668 Chr16 13660779 13662826 -
Adu Adu10g02768 Chr10 104247724 104253343 -
Arst Arst10g03581 Chr10 103665149 103670573 -
Lapu Lapu4g01114 Chr4 27631783 27636194 -
Phco Phco5g01220 Chr5 46101081 46106259 +
Pste Pste9g00459 Chr9 2293085 2301177 -
Pvu Pvu4g0819 Chr4 12676541 12681887 -
Spst Spst4g00620 Chr4 14107515 14111617 +