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
Vvi18g1606 . . . . . . . . Aev09g2054 . Ahy19g2696 . Aip09g03148 . . . Amo19g3405 . . . . . . . . . . . . . . . . . Dod06g0975 . . . . . Gma10g02071 . . . Gso10g1941 . . . Lal13g0104 Lal12g0127 . . . Lal9g0957 Lan20g0119 Lan20g0119 . . . Lan20g0119 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4279 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1607 . . . . . . . . Aev09g2053 . Ahy19g2695 . Aip09g03147 . . . Amo19g3404 . . . . . . . . . . . . Car06g02995 . . . . Dod06g0984 . . . . . . Gma06g02832 . . . . . . . . Lal24g0102 . . . . . . . . . . . . . . . . . . . . . Lja5g0821 . . . . . . . . . . . . . . . . . Psa6g4278 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1608 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1609 . . . . Adu09g03165 . . . Aev09g2052 . Ahy19g2694 . Aip09g03146 . . . Amo19g3403 . . . Arst9g04240 . . . . . . . Car04g01041 . . . Dere01g0434 . Dod06g0985 . . . Glsi12g0904 . . . . . . . . . . . Lal24g0103 . . . . . . . . . Lapu7g01872 . . . . . . . . . . . . . Mal1g2903 . Mepo4g04054 . Mesa1g04399 . . . Mtr1g3547 . Phac7g01382 . Phco6g02253 . . . Psa6g4276 . Pste4g02262 . . . . . Pumo3g01230 . Pvu7g0920 . Rops6g02502 . Seca8g07167 . Spst10g00742 . . . . Sto8g2350 Tpr1g0948 . Trre1g05103 . Tsu01g04204 . Vian3g00803 . Vifa3g02670 . Vimu3g02818 . Viun7g02988 . Vivi1g04665 . . .
Vvi18g1610 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1611 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal1g0840 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1612 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1613 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1614 . . . . . . . . . . Ahy19g2689 . Aip09g03141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1615 . . . . . . . . Aev09g2050 . Ahy19g2685 . Aip09g03133 . . . Amo19g3391 . . . . . . . . . . . . . . . . . Dod06g0987 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa6g4274 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Car Car06g02995 Chr06 51185514 51189786 +
Lal Lal1g0840 Chr1 5822962 5828608 +
Vvi Vvi18g1606 Chr18 20571853 20583291 -
Aev Aev09g2054 Chr09 23754320 23756148 +
Ahy Ahy19g2696 Chr19 148030144 148032991 +
Aip Aip09g03148 Chr09 136731421 136734250 +
Amo Amo19g3405 Chr19 147186542 147189466 +
Dod Dod06g0975 Chr06 12400969 12403835 -
Gma Gma10g02071 Chr10 48243470 48246963 +
Gso Gso10g1941 Chr10 46371900 46375276 +
Lal Lal13g0104 Chr13 652086 655027 -
Lal Lal12g0127 Chr12 872144 875599 -
Lal Lal9g0957 Chr9 7335952 7339461 -
Lan Lan20g0119 Chr20 713832 717143 -
Lan Lan20g0119 Chr20 713832 717143 -
Lan Lan20g0119 Chr20 713832 717143 -
Psa Psa6g4279 Chr6 379048237 379052267 +
Vvi Vvi18g1607 Chr18 20598144 20599942 -
Aev Aev09g2053 Chr09 23747089 23750882 +
Ahy Ahy19g2695 Chr19 148020021 148024717 +
Aip Aip09g03147 Chr09 136721959 136726602 +
Amo Amo19g3404 Chr19 147177008 147180670 +
Car Car06g02995 Chr06 51185514 51189786 +
Dod Dod06g0984 Chr06 12524427 12529097 -
Gma Gma06g02832 Chr06 52158511 52167466 -
Lal Lal24g0102 Chr24 684101 692804 -
Lja Lja5g0821 Chr5 7794649 7797336 -
Psa Psa6g4278 Chr6 379011224 379014266 +
Vvi Vvi18g1608 Chr18 20616920 20617735 -
Vvi Vvi18g1609 Chr18 20620253 20633446 -
Adu Adu09g03165 Chr09 119562795 119566964 -
Aev Aev09g2052 Chr09 23730386 23735967 +
Ahy Ahy19g2694 Chr19 147995862 148001166 +
Aip Aip09g03146 Chr09 136692060 136697263 +
Amo Amo19g3403 Chr19 147150101 147154078 +
Arst Arst9g04240 Chr9 117445431 117450883 -
Car Car04g01041 Chr04 10553333 10560401 +
Dere Dere01g0434 Chr01 9479982 9490526 -
Dod Dod06g0985 Chr06 12539701 12545711 -
Glsi Glsi12g0904 Chr12 26706710 26720886 -
Lal Lal24g0103 Chr24 700521 706863 -
Lapu Lapu7g01872 Chr7 34693728 34700619 +
Mal Mal1g2903 Chr1 41503758 41512434 +
Mepo Mepo4g04054 Chr4 50152460 50161686 +
Mesa Mesa1g04399 Chr1 69443288 69451618 +
Mtr Mtr1g3547 Chr1 47072068 47080511 +
Phac Phac7g01382 Chr7 9303903 9313276 -
Phco Phco6g02253 Chr6 43685903 43695016 +
Psa Psa6g4276 Chr6 378899382 378909511 +
Pste Pste4g02262 Chr4 16313094 16320379 +
Pumo Pumo3g01230 Chr3 19888180 19895054 -
Pvu Pvu7g0920 Chr7 9102013 9111524 -
Rops Rops6g02502 Chr6 45400810 45410518 +
Seca Seca8g07167 Chr8 167893468 167910226 +
Spst Spst10g00742 Chr10 7761321 7766752 +
Sto Sto8g2350 Chr8 15848303 15857333 +
Tpr Tpr1g0948 Chr1 8195545 8203425 -
Trre Trre1g05103 Chr1 57219200 57227006 +
Tsu Tsu01g04204 Chr01 49879505 49884418 +
Vian Vian3g00803 Chr3 8453723 8463355 -
Vifa Vifa3g02670 Chr3 734641744 734663074 +
Vimu Vimu3g02818 Chr3 42426034 42433566 +
Viun Viun7g02988 Chr7 32841068 32851390 +
Vivi Vivi1g04665 Chr1 99835117 99844106 -
Vvi Vvi18g1610 Chr18 20663994 20665268 +
Vvi Vvi18g1611 Chr18 20701222 20703355 -
Lal Lal1g0840 Chr1 5822962 5828608 +
Vvi Vvi18g1612 Chr18 20713126 20713579 +
Vvi Vvi18g1613 Chr18 20718916 20719851 +
Vvi Vvi18g1614 Chr18 20720304 20720676 -
Ahy Ahy19g2689 Chr19 147901264 147901765 +
Aip Aip09g03141 Chr09 136634088 136636612 +
Vvi Vvi18g1615 Chr18 20729165 20732126 -
Aev Aev09g2050 Chr09 23721768 23725666 +
Ahy Ahy19g2685 Chr19 147872293 147874730 +
Aip Aip09g03133 Chr09 136568635 136574554 +
Amo Amo19g3391 Chr19 146960528 146963124 +
Dod Dod06g0987 Chr06 12567903 12571238 -
Psa Psa6g4274 Chr6 378853500 378855897 +