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
Vvi3g0853 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva14g01167 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0854 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0855 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0856 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0857 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0858 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0859 . . . . . Adu03g03300 . . . Aev05g1254 . Ahy15g1316 . Aip05g01388 . . . . . Apr1g1324 . Arst3g04288 . . . . Bva13g00994 . . . . Cca06g02033 . . . Dod02g1398 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pumo6g01766 . Pvu2g2243 . . . . . . . Ssu2g3151 . . . . . . . . . . . Vifa1g10621 . . . . . . . .
Vvi3g0860 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0861 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0382 . . . . . . . . . . . . . . . . . .
Vvi3g0862 . . . . Adu09g02576 Adu05g01347 Aed1g2034 Aed11g1942 Aev09g2447 Aev05g1253 Ahy19g3352 Ahy15g1315 Aip09g03819 Aip05g01387 . . Amo19g4248 . Apr8g2396 . Arst9g03410 Arst5g01719 . . . . . Bva14g00502 Car04g01401 Car08g00039 Cca02g02475 Cca06g02030 . . Dod06g0515 Dod02g1397 . . . . . . . . . . . . . . . . Lal12g0372 Lal11g0123 . . . . . . . . Lasa6g04403 . . . . . . . . . . . . Mal1g0596 Mepo4g04507 . . . . . . Mtr1g4006 Phac7g00717 . Phco6g02731 Phco4g00043 . . Psa6g4899 . Pste4g01278 Pste1g00746 . . . Pte19g00449 Pumo3g00694 . Pvu7g0478 Pvu2g0525 Rops6g03034 . Seca8g07666 Seca10g00064 . Spst2g00456 Ssu7g0534 . . Sto10g0383 . Tpr1g0502 Trre1g05748 . . Tsu01g04682 Vian3g00433 Vian10g00038 . Vifa1g04028 Vimu3g03331 Vimu7g02607 Viun7g03558 . Vivi1g03988 Vivi2g04255 Vra8g2381 Vra11g0043
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0853 Chr3 8229351 8232273 -
Bva Bva14g01167 Chr14 5676957 5679167 +
Vvi Vvi3g0854 Chr3 8233232 8239298 +
Vvi Vvi3g0855 Chr3 8240508 8241018 -
Vvi Vvi3g0856 Chr3 8241138 8242075 -
Vvi Vvi3g0857 Chr3 8242802 8244718 -
Vvi Vvi3g0858 Chr3 8244780 8251952 -
Vvi Vvi3g0859 Chr3 8252700 8257070 -
Adu Adu03g03300 Chr03 119468222 119473192 -
Aev Aev05g1254 Chr05 8824941 8828565 +
Ahy Ahy15g1316 Chr15 21571940 21575194 +
Aip Aip05g01388 Chr05 20775165 20779127 +
Apr Apr1g1324 Chr1 22173229 22176129 +
Arst Arst3g04288 Chr3 118218570 118223567 -
Bva Bva13g00994 Chr13 4781191 4788636 +
Cca Cca06g02033 Chr06 35591283 35593110 +
Dod Dod02g1398 Chr02 16819547 16823524 +
Pumo Pumo6g01766 Chr6 26993642 27000699 -
Pvu Pvu2g2243 Chr2 38080033 38085890 -
Ssu Ssu2g3151 Chr2 93743993 93756292 +
Vifa Vifa1g10621 Chr1 1788757862 1788763572 +
Vvi Vvi3g0860 Chr3 8260080 8260535 -
Vvi Vvi3g0861 Chr3 8267480 8267674 -
Sto Sto10g0382 Chr10 3077768 3084515 -
Vvi Vvi3g0862 Chr3 8281360 8302826 -
Adu Adu09g02576 Chr09 113344779 113347318 +
Adu Adu05g01347 Chr05 20309497 20310058 +
Aed Aed1g2034 Chr1 17125115 17127707 -
Aed Aed11g1942 Chr11 22193592 22194029 +
Aev Aev09g2447 Chr09 26408381 26410231 +
Aev Aev05g1253 Chr05 8823435 8823875 +
Ahy Ahy19g3352 Chr19 156445647 156448233 -
Ahy Ahy15g1315 Chr15 21568341 21569147 +
Aip Aip09g03819 Chr09 144801996 144804544 -
Aip Aip05g01387 Chr05 20771444 20772025 +
Amo Amo19g4248 Chr19 159209483 159212307 +
Apr Apr8g2396 Chr8 34236474 34239279 +
Arst Arst9g03410 Chr9 111241566 111244133 +
Arst Arst5g01719 Chr5 20357906 20358702 +
Bva Bva14g00502 Chr14 2395382 2396294 -
Car Car04g01401 Chr04 14323690 14327080 +
Car Car08g00039 Chr08 336661 337348 -
Cca Cca02g02475 Chr02 45901681 45904681 +
Cca Cca06g02030 Chr06 35546023 35553355 -
Dod Dod06g0515 Chr06 6181769 6184892 -
Dod Dod02g1397 Chr02 16817147 16818027 +
Lal Lal12g0372 Chr12 2653678 2656669 +
Lal Lal11g0123 Chr11 821733 825634 +
Lasa Lasa6g04403 Chr6 640031497 640038217 +
Mal Mal1g0596 Chr1 6851870 6855385 -
Mepo Mepo4g04507 Chr4 54820221 54823891 +
Mtr Mtr1g4006 Chr1 51687122 51691561 +
Phac Phac7g00717 Chr7 3989258 3992727 -
Phco Phco6g02731 Chr6 48777155 48779918 +
Phco Phco4g00043 Chr4 278007 280654 -
Psa Psa6g4899 Chr6 427909094 427912186 +
Pste Pste4g01278 Chr4 9402966 9407517 -
Pste Pste1g00746 Chr1 2326715 2328980 -
Pte Pte19g00449 Chr19 3612619 3613287 -
Pumo Pumo3g00694 Chr3 10319223 10320944 -
Pvu Pvu7g0478 Chr7 3768996 3772161 -
Pvu Pvu2g0525 Chr2 4720388 4721129 +
Rops Rops6g03034 Chr6 53390953 53395567 +
Seca Seca8g07666 Chr8 173953961 173957362 +
Seca Seca10g00064 Chr10 573468 573929 -
Spst Spst2g00456 Chr2 3607359 3609413 -
Ssu Ssu7g0534 Chr7 9807937 9810548 -
Sto Sto10g0383 Chr10 3093202 3098514 -
Tpr Tpr1g0502 Chr1 4219691 4223406 -
Trre Trre1g05748 Chr1 62412433 62415183 +
Tsu Tsu01g04682 Chr01 54166904 54169935 +
Vian Vian3g00433 Chr3 4067596 4070524 -
Vian Vian10g00038 Chr10 282442 282939 -
Vifa Vifa1g04028 Chr1 618499104 618499553 +
Vimu Vimu3g03331 Chr3 46745025 46748651 +
Vimu Vimu7g02607 Chr7 22041255 22043918 -
Viun Viun7g03558 Chr7 36968625 36972039 +
Vivi Vivi1g03988 Chr1 84049631 84052438 -
Vivi Vivi2g04255 Chr2 156136275 156136797 +
Vra Vra8g2381 Chr8 41997062 42000224 +
Vra Vra11g0043 Chr11 330200 330788 -
Vifa Vifa1g10621 Chr1 1788757862 1788763572 +