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
Vvi19g0410 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0340 . . . . . . . . . . . . . . . . . . .
Vvi19g0411 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca04g01344 . . . . . . . . . Gma12g01324 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu3g1896 . . . . . . . . . . . . . . . . . . . .
Vvi19g0412 . . . . . . . . . . Ahy18g2632 Ahy13g1780 Aip08g03031 Aip03g01976 . . Amo18g1611 Amo13g2244 . . . . . . . . . . . . Cca10g01035 Cca04g01341 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1068 . . . . . . . . . . . . . . . . . . . . .
Vvi19g0413 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma06g02352 . . . Gso6g2141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0414 . . . . . Adu03g01637 . . . . Ahy18g1195 . Aip08g01264 . . . . . . . . . . . . . . . . . Cca10g01034 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02775 . . . . . . . . . . . . . . . . . . . . . . . Phco9g01708 . . . . . . . . . . . Pumo11g00766 . Pvu11g1566 . . . . . . . . Sto7g0341 . . . . . . . . . . . . Vimu5g00364 . . . . . .
Vvi19g0415 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca10g01032 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1064 . . . . . . . . . . . . . . . . . . . . .
Vvi19g0416 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cca10g01030 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0347 . . . . . . . . . . . . . . . . . . .
Vvi19g0417 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0418 . . . . . . . . . . . Ahy13g1777 . Aip03g01975 . . . Amo13g2243 . . . . . . . . . . . . . Cca04g01327 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0419 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma12g01311 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Cca Cca04g01341 Chr04 17299033 17312903 +
Cca Cca04g01344 Chr04 17354374 17358517 -
Ssu Ssu3g1896 Chr3 59100035 59107595 +
Vvi Vvi19g0410 Chr19 4516228 4525579 +
Sto Sto7g0340 Chr7 2445855 2451702 +
Vvi Vvi19g0411 Chr19 4533592 4534146 +
Cca Cca04g01344 Chr04 17354374 17358517 -
Gma Gma12g01324 Chr12 19493666 19497451 -
Ssu Ssu3g1896 Chr3 59100035 59107595 +
Vvi Vvi19g0412 Chr19 4538268 4547073 -
Ahy Ahy18g2632 Chr18 128963295 128967889 -
Ahy Ahy13g1780 Chr13 28808623 28812037 +
Aip Aip08g03031 Chr08 119480147 119493874 -
Aip Aip03g01976 Chr03 27699008 27702357 +
Amo Amo18g1611 Chr18 31577517 31582745 -
Amo Amo13g2244 Chr13 38296506 38300261 -
Cca Cca10g01035 Chr10 12649181 12652881 -
Cca Cca04g01341 Chr04 17299033 17312903 +
Ssu Ssu8g1068 Chr8 18632935 18634771 -
Vvi Vvi19g0413 Chr19 4548294 4553770 -
Gma Gma06g02352 Chr06 44832928 44873066 +
Gso Gso6g2141 Chr6 40853574 40857607 +
Vvi Vvi19g0414 Chr19 4554122 4555213 -
Adu Adu03g01637 Chr03 26815688 26820445 +
Ahy Ahy18g1195 Chr18 19712989 19714754 +
Aip Aip08g01264 Chr08 18800105 18801486 +
Cca Cca10g01034 Chr10 12641196 12644863 -
Lasa Lasa7g02775 Chr7 546559220 546561712 +
Phco Phco9g01708 Chr9 40256348 40258623 -
Pumo Pumo11g00766 Chr11 26243558 26262331 +
Pvu Pvu11g1566 Chr11 39603327 39606811 +
Sto Sto7g0341 Chr7 2453150 2456517 +
Vimu Vimu5g00364 Chr5 3280513 3282105 +
Vvi Vvi19g0415 Chr19 4555846 4559630 -
Cca Cca10g01032 Chr10 12625636 12630191 +
Ssu Ssu8g1064 Chr8 18490593 18497692 +
Vvi Vvi19g0416 Chr19 4580815 4583278 -
Cca Cca10g01030 Chr10 12590178 12603429 -
Sto Sto7g0347 Chr7 2493906 2497149 +
Vvi Vvi19g0417 Chr19 4582370 4582722 +
Vvi Vvi19g0418 Chr19 4584565 4596221 -
Ahy Ahy13g1777 Chr13 28790112 28795052 -
Aip Aip03g01975 Chr03 27621909 27682111 -
Amo Amo13g2243 Chr13 38290716 38294261 +
Cca Cca04g01327 Chr04 16936795 16941271 -
Vvi Vvi19g0419 Chr19 4603005 4603843 -
Gma Gma12g01311 Chr12 18999612 19003863 -