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
Vvi18g1366 . . . . Adu08g00480 . . . . . Ahy17g2662 . Aip07g02889 . . . Amo17g2568 . . . Arst8g00612 . Bach12g00937 . . . Bva06g02937 . . . . Cca03g01014 . . . . . . . . Gma04g02290 Gma06g01111 . . Gso4g2006 Gso4g2006 . . Lal4g0462 Lal17g0531 . . . . Lan14g0559 Lan14g0559 . . . . Lapu9g01391 . Lasa5g02952 Lasa5g02952 . . . . . . . . Lja1g4903 . . Mal2g1843 Mepo3g06496 . . . . . . Mtr3g3070 Phac9g01069 . Phco7g01373 . . . . Psa5g1882 . . . . . . Pumo10g01357 . Pvu9g1410 Pvu1g0638 Rops10g02042 . Seca4g02494 . Spst9g01414 Spst8g01807 . Ssu1g2868 Sto5g1212 . . Tpr2g5378 Trre5g03766 . . . Vian4g01427 . Vifa2g02773 . . . Viun9g02258 . Vivi3g02911 Vivi3g02911 . .
Vvi18g1367 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1368 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1369 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1370 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal1g0900 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1371 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1372 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1373 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1374 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1375 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi18g1366 Chr18 13865580 13866425 -
Adu Adu08g00480 Chr08 8658947 8660081 -
Ahy Ahy17g2662 Chr17 123769667 123770871 -
Aip Aip07g02889 Chr07 114952899 114954040 -
Amo Amo17g2568 Chr17 124524997 124526222 -
Arst Arst8g00612 Chr8 8630777 8631881 -
Bach Bach12g00937 Chr12 6643607 6644515 -
Bva Bva06g02937 Chr06 18303025 18304164 -
Cca Cca03g01014 Chr03 24907894 24909244 +
Gma Gma04g02290 Chr04 53356819 53357688 +
Gma Gma06g01111 Chr06 10398639 10399786 -
Gso Gso4g2006 Chr4 50415134 50416430 +
Gso Gso4g2006 Chr4 50415134 50416430 +
Lal Lal4g0462 Chr4 3253907 3254749 -
Lal Lal17g0531 Chr17 3710204 3711112 -
Lan Lan14g0559 Chr14 11806776 11807730 +
Lan Lan14g0559 Chr14 11806776 11807730 +
Lapu Lapu9g01391 Chr9 28171356 28172657 +
Lasa Lasa5g02952 Chr5 520073861 520074841 -
Lasa Lasa5g02952 Chr5 520073861 520074841 -
Lja Lja1g4903 Chr1 67491914 67492852 -
Mal Mal2g1843 Chr2 22246271 22247263 +
Mepo Mepo3g06496 Chr3 78939976 78941241 -
Mtr Mtr3g3070 Chr3 44539960 44541343 -
Phac Phac9g01069 Chr9 8140449 8141799 -
Phco Phco7g01373 Chr7 12451148 12452056 -
Psa Psa5g1882 Chr5 144952730 144954814 +
Pumo Pumo10g01357 Chr10 18022293 18023458 -
Pvu Pvu9g1410 Chr9 20017224 20018880 -
Pvu Pvu1g0638 Chr1 7655746 7657228 +
Rops Rops10g02042 Chr10 37041041 37041907 -
Seca Seca4g02494 Chr4 42510580 42511488 -
Spst Spst9g01414 Chr9 14090492 14091403 -
Spst Spst8g01807 Chr8 21868489 21869412 -
Ssu Ssu1g2868 Chr1 75842368 75843261 +
Sto Sto5g1212 Chr5 8176690 8178345 -
Tpr Tpr2g5378 Chr2 60607355 60608581 +
Trre Trre5g03766 Chr5 37710009 37711010 -
Vian Vian4g01427 Chr4 28773575 28774477 +
Vifa Vifa2g02773 Chr2 770660849 770661823 +
Viun Viun9g02258 Chr9 31986704 31988386 +
Vivi Vivi3g02911 Chr3 48611916 48613202 +
Vivi Vivi3g02911 Chr3 48611916 48613202 +
Vvi Vvi18g1367 Chr18 13869407 13877879 -
Vvi Vvi18g1368 Chr18 13901947 13916358 -
Vvi Vvi18g1369 Chr18 13920416 13920706 -
Vvi Vvi18g1370 Chr18 13930846 13931145 -
Lal Lal1g0900 Chr1 6471208 6475856 +
Vvi Vvi18g1371 Chr18 13945801 13947522 -
Vvi Vvi18g1372 Chr18 13966684 13967049 +
Vvi Vvi18g1373 Chr18 13981658 13985444 -
Vvi Vvi18g1374 Chr18 13989688 13993683 -
Vvi Vvi18g1375 Chr18 13997480 14000593 -