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
Vvi17g1133 . . . . Adu05g02902 . Aed7g0350 . . . . . . . . . . . Apr6g0933 . Arst5g03680 . . . . . . . . . Cca08g00367 . . . . . . . . . . . . Gma09g01582 . . . . . . Lal25g0502 . . . . . . . . . Lapu4g00324 . Lasa1g02165 . . . . . . . . . Lja2g2291 . . Mal6g3506 . . . . . . . Mtr6g1965 . . . . . . . . . . . . . . . . Pvu4g1522 . Rops5g00468 . Seca10g04591 . Spst4g02917 . . . . . . . . . . Tsu06g03572 Vian8g01330 . . . Vimu8g01729 . Viun4g00506 . . . Vra1g0749 .
Vvi17g1134 . . . . Adu05g02895 . Aed7g0349 . . . . . . . . . . . Apr6g0934 . Arst5g03676 . Bach1g01392 . . . . . . . Cca08g00366 . . . . . . . . . . . . Gma09g01583 . . . . . . . . . . . . . . . . Lapu4g00323 . Lasa1g02164 . . . . . . . . . Lja2g2290 . . . Mepo7g00783 . Mesa22g02857 . . . . Mtr6g1953 . . . . . . . . Pste9g01378 . . . . . Pumo6g02865 . Pvu4g1523 . Rops5g00466 . Seca10g04592 . Spst4g02916 . . . Sto8g4317 . . . Trre11g01836 . . . Vian8g01331 . Vifa1g03611 . Vimu8g01727 . . . . . Vra1g0748 .
Vvi17g1135 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1136 . . . . Adu05g02893 . Aed7g0348 . . . . . . . . . . . Apr6g0935 . Arst5g03674 . . . . . . . . . Cca08g00365 . . . . . . . . . . . . Gma09g01584 . . . . . . . . . . . . . . . . Lapu4g00322 . Lasa1g02162 . . . . . . . . . Lja2g2289 . . . Mepo7g00787 . . . . . . Mtr6g1952 . . . . . . . . . . . . . . . . Pvu4g1524 . Rops5g00464 . Seca10g04593 . Spst4g02915 . . . . . . Tpr2g5192 Trre11g01840 . . . Vian8g01332 . . . Vimu8g01725 . . . . . Vra1g0747 .
Vvi17g1137 . . . . . . . . . . . . . . . . . . Apr6g0936 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1138 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1139 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1140 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1141 . . . . . . Aed7g0347 . . . . . . . . . . . . . Arst5g03665 . . . . . . . . . Cca08g00364 . . . . . . . . . . . . Gma09g01585 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2287 . . . Mepo7g00790 . Mesa22g02848 . . . . Mtr6g1951 . . . . . . . . Pste9g01379 . . . . . Pumo6g02867 . Pvu4g1525 . Rops5g00460 . . . Spst4g02914 . . . . . . . Trre11g01843 . . . Vian8g01333 . . . . . . . . . Vra1g0746 .
Vvi17g1142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal25g0502 Chr25 3536044 3548347 +
Vvi Vvi17g1133 Chr17 16330339 16349069 -
Adu Adu05g02902 Chr05 97957845 97963753 +
Aed Aed7g0350 Chr7 2576707 2581345 +
Apr Apr6g0933 Chr6 13851611 13864398 -
Arst Arst5g03680 Chr5 96602758 96610353 +
Cca Cca08g00367 Chr08 5570455 5581571 +
Gma Gma09g01582 Chr09 41051725 41067580 -
Lal Lal25g0502 Chr25 3536044 3548347 +
Lapu Lapu4g00324 Chr4 3306212 3329252 +
Lasa Lasa1g02165 Chr1 235279336 235284585 +
Lja Lja2g2291 Chr2 27065805 27085510 +
Mal Mal6g3506 Chr6 103268858 103292419 +
Mtr Mtr6g1965 Chr6 35867092 35872982 +
Pvu Pvu4g1522 Chr4 42362607 42371317 -
Rops Rops5g00468 Chr5 8126522 8128337 +
Seca Seca10g04591 Chr10 104566619 104587948 -
Spst Spst4g02917 Chr4 68805965 68814859 +
Tsu Tsu06g03572 Chr06 47067482 47074966 -
Vian Vian8g01330 Chr8 32358637 32365677 -
Vimu Vimu8g01729 Chr8 23103056 23105517 +
Viun Viun4g00506 Chr4 3303508 3318288 +
Vra Vra1g0749 Chr1 8812391 8822036 +
Vvi Vvi17g1134 Chr17 16376008 16453979 -
Adu Adu05g02895 Chr05 97705522 97714081 +
Aed Aed7g0349 Chr7 2549017 2558823 +
Apr Apr6g0934 Chr6 13865139 13893345 -
Arst Arst5g03676 Chr5 96372838 96378517 -
Bach Bach1g01392 Chr1 27357098 27367487 -
Cca Cca08g00366 Chr08 5554985 5567265 +
Gma Gma09g01583 Chr09 41070442 41079269 -
Lapu Lapu4g00323 Chr4 3305279 3329252 +
Lasa Lasa1g02164 Chr1 235024089 235028042 +
Lja Lja2g2290 Chr2 27053466 27063591 +
Mepo Mepo7g00783 Chr7 12356128 12361735 -
Mesa Mesa22g02857 Chr22 75911073 75917331 +
Mtr Mtr6g1953 Chr6 35599414 35607752 +
Pste Pste9g01378 Chr9 12709432 12741168 -
Pumo Pumo6g02865 Chr6 68552451 68559771 -
Pvu Pvu4g1523 Chr4 42375048 42385334 -
Rops Rops5g00466 Chr5 8055713 8056953 +
Seca Seca10g04592 Chr10 104625016 104632734 -
Spst Spst4g02916 Chr4 68795621 68804644 +
Sto Sto8g4317 Chr8 45979129 45992376 -
Trre Trre11g01836 Chr11 18061286 18062363 -
Vian Vian8g01331 Chr8 32370802 32380034 -
Vifa Vifa1g03611 Chr1 558470342 558474912 -
Vimu Vimu8g01727 Chr8 23096552 23099721 +
Vra Vra1g0748 Chr1 8799964 8810505 +
Vvi Vvi17g1135 Chr17 16520744 16521511 +
Vvi Vvi17g1136 Chr17 16525112 16539980 -
Adu Adu05g02893 Chr05 97650082 97673141 +
Aed Aed7g0348 Chr7 2529734 2547729 +
Apr Apr6g0935 Chr6 13880723 13891609 -
Arst Arst5g03674 Chr5 96363624 96372354 +
Cca Cca08g00365 Chr08 5516306 5550142 +
Gma Gma09g01584 Chr09 41087987 41094891 -
Lapu Lapu4g00322 Chr4 3295972 3301566 +
Lasa Lasa1g02162 Chr1 234916869 234938611 +
Lja Lja2g2289 Chr2 26995064 27004643 +
Mepo Mepo7g00787 Chr7 12446796 12447236 -
Mtr Mtr6g1952 Chr6 35587171 35592139 +
Pvu Pvu4g1524 Chr4 42389875 42397414 -
Rops Rops5g00464 Chr5 8047654 8049070 +
Seca Seca10g04593 Chr10 104651011 104678451 -
Spst Spst4g02915 Chr4 68784119 68789780 +
Tpr Tpr2g5192 Chr2 58215742 58239279 -
Trre Trre11g01840 Chr11 18100726 18101803 -
Vian Vian8g01332 Chr8 32392787 32398427 -
Vimu Vimu8g01725 Chr8 23058820 23094082 +
Vra Vra1g0747 Chr1 8776318 8787052 +
Vvi Vvi17g1137 Chr17 16576894 16582635 -
Apr Apr6g0936 Chr6 13946035 13964040 -
Vvi Vvi17g1138 Chr17 16584450 16589369 +
Vvi Vvi17g1139 Chr17 16591694 16601380 -
Vvi Vvi17g1140 Chr17 16606226 16612913 +
Vvi Vvi17g1141 Chr17 16614152 16681587 -
Aed Aed7g0347 Chr7 2522867 2529001 +
Arst Arst5g03665 Chr5 96308173 96317663 +
Cca Cca08g00364 Chr08 5503262 5512317 +
Gma Gma09g01585 Chr09 41098132 41111984 -
Lja Lja2g2287 Chr2 26958541 26978845 +
Mepo Mepo7g00790 Chr7 12497584 12505489 -
Mesa Mesa22g02848 Chr22 75599235 75602005 +
Mtr Mtr6g1951 Chr6 35569543 35577227 +
Pste Pste9g01379 Chr9 12749557 12809358 -
Pumo Pumo6g02867 Chr6 68599133 68608680 -
Pvu Pvu4g1525 Chr4 42400031 42411875 -
Rops Rops5g00460 Chr5 7888127 7913894 +
Spst Spst4g02914 Chr4 68759677 68773023 +
Trre Trre11g01843 Chr11 18137574 18138651 -
Vian Vian8g01333 Chr8 32400880 32410687 -
Vra Vra1g0746 Chr1 8764898 8772203 +
Vvi Vvi17g1142 Chr17 16699944 16705592 -