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
Vvi19g1440 . . . . . . . . . . . . . . . . . . . . . . . Bach9g01072 . . Bva09g01203 Bva07g01373 . . . . . . . . . . . . Gma08g02138 Gma15g02081 . . Gso8g1933 Gso8g1933 . . . Lal1g1535 . Lal20g0539 . . . . . . . . . . . Lasa4g01277 . . . . . . . . Lja3g4011 . Mal4g2094 Mal5g2070 . Mepo1g03207 . Mesa29g03638 . . Mtr2g2152 Mtr8g1431 . . . Phco9g01981 . . . . . Pste1g00357 . . Pte1g01104 . . Pumo10g02529 . Pvu11g1881 . Rops3g02313 . Seca4g06886 . Spst11g00421 . . Sto4g2005 Sto7g1978 Tpr7g3094 Tpr7g1461 . Trre15g01671 Tsu06g01485 Tsu08g01613 . Vian5g00460 . Vifa4g00404 . Vimu5g00842 . . . Vivi7g00069 . .
Vvi19g1441 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01204 Bva07g01372 . . . . . . . . . . . . . . . . . . . . . Lal1g1536 . Lal20g0544 . . . . . . . . . . . . . . . . . . . . Lja3g4014 . Mal4g2095 . . . . . . . Mtr2g2150 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g1983 Tpr7g3088 . . . Tsu06g01488 . . . . . . . . . . . . .
Vvi19g1442 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1443 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1440 Chr19 23921993 23930985 +
Bach Bach9g01072 Chr9 8190655 8198182 -
Bva Bva09g01203 Chr09 6475243 6483494 -
Bva Bva07g01373 Chr07 14154491 14161240 +
Gma Gma08g02138 Chr08 19556385 19562871 +
Gma Gma15g02081 Chr15 38287665 38294737 -
Gso Gso8g1933 Chr8 19281260 19288735 +
Gso Gso8g1933 Chr8 19281260 19288735 +
Lal Lal1g1535 Chr1 17529505 17536617 -
Lal Lal20g0539 Chr20 4720042 4727866 -
Lasa Lasa4g01277 Chr4 114237367 114241845 -
Lja Lja3g4011 Chr3 79006786 79013416 -
Mal Mal4g2094 Chr4 47121014 47124309 -
Mal Mal5g2070 Chr5 47321330 47327884 +
Mepo Mepo1g03207 Chr1 36814251 36822746 -
Mesa Mesa29g03638 Chr29 59061404 59067751 -
Mtr Mtr2g2152 Chr2 32111169 32118156 +
Mtr Mtr8g1431 Chr8 17806427 17814497 +
Phco Phco9g01981 Chr9 44735579 44741543 -
Pste Pste1g00357 Chr1 1259821 1272447 -
Pte Pte1g01104 Chr1 29747302 29753923 -
Pumo Pumo10g02529 Chr10 43379171 43388287 +
Pvu Pvu11g1881 Chr11 45693470 45700128 -
Rops Rops3g02313 Chr3 46571568 46586138 -
Seca Seca4g06886 Chr4 144825002 144831503 -
Spst Spst11g00421 Chr11 24833241 24841328 +
Sto Sto4g2005 Chr4 21165187 21171058 -
Sto Sto7g1978 Chr7 25276959 25284980 -
Tpr Tpr7g3094 Chr7 38270476 38276854 +
Tpr Tpr7g1461 Chr7 16191267 16199038 -
Trre Trre15g01671 Chr15 13410435 13416525 +
Tsu Tsu06g01485 Chr06 15221758 15228525 -
Tsu Tsu08g01613 Chr08 19154751 19161673 +
Vian Vian5g00460 Chr5 12388200 12394073 +
Vifa Vifa4g00404 Chr4 108877588 108882364 -
Vimu Vimu5g00842 Chr5 10907662 10913631 +
Vivi Vivi7g00069 Chr7 3662175 3668433 +
Vvi Vvi19g1441 Chr19 23954168 23955930 -
Bva Bva09g01204 Chr09 6496224 6497959 -
Bva Bva07g01372 Chr07 14141945 14143471 +
Lal Lal1g1536 Chr1 17569558 17573854 -
Lal Lal20g0544 Chr20 4763500 4767332 -
Lja Lja3g4014 Chr3 79180312 79183288 -
Mal Mal4g2095 Chr4 47167824 47169787 -
Mtr Mtr2g2150 Chr2 32088147 32091757 +
Sto Sto7g1983 Chr7 25329457 25332321 -
Tpr Tpr7g3088 Chr7 38159786 38165032 +
Tsu Tsu06g01488 Chr06 15334593 15337038 -
Vvi Vvi19g1442 Chr19 23998556 23998852 +
Vvi Vvi19g1443 Chr19 24013271 24013675 +