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
Vvi18g2116 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0001 . . . . . . . . . . . . . . . . . . Apr2g0523 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0002 . . . . . . . . Aev10g1206 . Ahy18g1649 . Aip08g01823 . . . Amo18g2024 . . . . . . . . . . . . Car07g02304 . . . . Dod10g0813 . . . . . . Gma18g00968 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa1g0203 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g4915 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0005 . . . . . . Aed1g0441 . . . Ahy17g0498 . Aip07g00440 . . . . . Apr2g0522 . . . . . . . Bva09g01011 Bva07g01553 Car01g01909 . Cca10g01254 . . . . . . . . . . Gma15g02342 . Gma13g02327 . . . . . Lal1g1584 . . Lal1g0663 . . . . . . . . . . . . . . . . . . . . . Mal4g1729 . . . . . . . Mtr2g2425 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1319 . Sto7g0105 Sto4g2733 Tpr7g3374 . . . Tsu02g04120 . . . . . . . . . . . Vra5g2370 .
Vvi19g0006 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0007 . . . . . . Aed1g0442 . Aev10g1208 . Ahy18g1643 . Aip08g01819 . . . Amo18g2020 . Apr2g0521 . . . . . . . Bva09g01010 Bva07g01554 Car01g01910 . Cca10g01253 Cca04g01583 . . Dod10g0826 . . . . . . Gma15g02341 . Gma13g02328 . . . . Lal9g0563 . Lal2g0655 Lal20g0405 . . Lan8g1331 . Lan8g1331 Lan8g1331 . . . . . . . . . . . . . . . . Mal4g1728 . . . . . . . Mtr2g2427 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1318 . Sto7g0106 . Tpr7g3373 . . . Tsu02g04121 . . . . . . . . . . . Vra5g2371 .
Vvi19g0008 . . . . . . Aed1g0443 . Aev10g1209 . Ahy18g1642 . Aip08g01818 . . . Amo18g2019 . Apr2g0520 . . . . . . . Bva09g01009 Bva09g01009 Car01g01911 . Cca10g01252 . . . Dod10g0827 . . . . . . Gma15g02340 . Gma13g02329 . . . . . Lal1g1586 . . . . . . . . . . . . . . . . . . . . . . . . Mal4g1727 . . . . . . . Mtr2g2428 . . . . . . . . Psa1g0200 . . . . . . . . . . . . . . . . Ssu8g1317 . . Sto4g2734 Tpr7g3372 . . . Tsu02g04122 . . . . . . . . . . . Vra5g2372 .
Vvi19g0009 . . . . . . . . Aev10g1210 . Ahy18g1641 . Aip08g01817 . . . Amo18g2018 . Apr2g0519 . . . . . . . Bva09g01008 Bva07g01555 Car01g01912 . Cca10g01251 . . . Dod10g0828 . . . . . . Gma15g02339 . Gma13g02330 . . . . . . . Lal20g0404 . . . . . . . . . . . . . . . . . . . . . . Mal4g1726 . . . . . . . Mtr2g2429 . . . . . . . . Psa1g0199 . . . . . . . . . . . . . . . . . . . . Tpr7g3371 . . . Tsu02g04123 . . . . . . . . . . . Vra5g2373 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g2116 Chr18 29341793 29342811 +
Vvi Vvi19g0001 Chr19 2635 19300 +
Apr Apr2g0523 Chr2 6007162 6011253 +
Vvi Vvi19g0002 Chr19 20819 28226 +
Aev Aev10g1206 Chr10 15756650 15760020 -
Ahy Ahy18g1649 Chr18 40972609 40977249 +
Aip Aip08g01823 Chr08 41016391 41021013 +
Amo Amo18g2024 Chr18 49420442 49422916 +
Car Car07g02304 Chr07 36527071 36534611 +
Dod Dod10g0813 Chr10 23684913 23688763 -
Gma Gma18g00968 Chr18 12093249 12119003 +
Psa Psa1g0203 Chr1 11685848 11688284 -
Vvi Vvi19g0003 Chr19 33097 45410 +
Lja Lja3g4915 Chr3 91206484 91209597 -
Vvi Vvi19g0004 Chr19 38675 39146 +
Vvi Vvi19g0005 Chr19 48560 58236 -
Aed Aed1g0441 Chr1 6132791 6136783 -
Ahy Ahy17g0498 Chr17 4857801 4864653 +
Aip Aip07g00440 Chr07 3795052 3796338 +
Apr Apr2g0522 Chr2 6001015 6005185 +
Bva Bva09g01011 Chr09 5155103 5159064 +
Bva Bva07g01553 Chr07 15131458 15135686 -
Car Car01g01909 Chr01 43607417 43611402 -
Cca Cca10g01254 Chr10 16628803 16632956 +
Gma Gma15g02342 Chr15 49725637 49729875 +
Gma Gma13g02327 Chr13 38057965 38062502 -
Lal Lal1g1584 Chr1 18227210 18232461 -
Lal Lal1g0663 Chr1 4338016 4342850 -
Mal Mal4g1729 Chr4 30755814 30760288 +
Mtr Mtr2g2425 Chr2 36519724 36523837 -
Ssu Ssu8g1319 Chr8 24519958 24523508 +
Sto Sto7g0105 Chr7 779177 782135 -
Sto Sto4g2733 Chr4 28324484 28327083 -
Tpr Tpr7g3374 Chr7 41924488 41928588 +
Tsu Tsu02g04120 Chr02 48141946 48146557 -
Vra Vra5g2370 Chr5 30744300 30748217 -
Vvi Vvi19g0006 Chr19 74079 75059 +
Vvi Vvi19g0007 Chr19 76044 77802 -
Aed Aed1g0442 Chr1 6139265 6140916 -
Aev Aev10g1208 Chr10 15768727 15770271 -
Ahy Ahy18g1643 Chr18 40819556 40821185 +
Aip Aip08g01819 Chr08 40878507 40880188 +
Amo Amo18g2020 Chr18 49272796 49274302 +
Apr Apr2g0521 Chr2 5994923 5996117 +
Bva Bva09g01010 Chr09 5152021 5153366 +
Bva Bva07g01554 Chr07 15136784 15138048 -
Car Car01g01910 Chr01 43620240 43622408 -
Cca Cca10g01253 Chr10 16604186 16606153 +
Cca Cca04g01583 Chr04 23686228 23688492 +
Dod Dod10g0826 Chr10 23822018 23831330 -
Gma Gma15g02341 Chr15 49717665 49719124 +
Gma Gma13g02328 Chr13 38067206 38068787 -
Lal Lal9g0563 Chr9 3814490 3818659 +
Lal Lal2g0655 Chr2 3928836 3931771 -
Lal Lal20g0405 Chr20 3264514 3266157 +
Lan Lan8g1331 Chr8 20174589 20176125 -
Lan Lan8g1331 Chr8 20174589 20176125 -
Lan Lan8g1331 Chr8 20174589 20176125 -
Mal Mal4g1728 Chr4 30729621 30731233 +
Mtr Mtr2g2427 Chr2 36541798 36543714 -
Ssu Ssu8g1318 Chr8 24480989 24481517 +
Sto Sto7g0106 Chr7 784756 791147 -
Tpr Tpr7g3373 Chr7 41912335 41914404 +
Tsu Tsu02g04121 Chr02 48158563 48160854 -
Vra Vra5g2371 Chr5 30754160 30755470 -
Vvi Vvi19g0008 Chr19 79524 84467 +
Aed Aed1g0443 Chr1 6141838 6146198 +
Aev Aev10g1209 Chr10 15774954 15777526 +
Ahy Ahy18g1642 Chr18 40813248 40816551 -
Aip Aip08g01818 Chr08 40871713 40875066 -
Amo Amo18g2019 Chr18 49266573 49269591 -
Apr Apr2g0520 Chr2 5988954 5992623 -
Bva Bva09g01009 Chr09 5148853 5151676 -
Bva Bva09g01009 Chr09 5148853 5151676 -
Car Car01g01911 Chr01 43627115 43632396 +
Cca Cca10g01252 Chr10 16595140 16598531 -
Dod Dod10g0827 Chr10 23835294 23838904 +
Gma Gma15g02340 Chr15 49708809 49712554 -
Gma Gma13g02329 Chr13 38070996 38074884 +
Lal Lal1g1586 Chr1 18247369 18250971 +
Mal Mal4g1727 Chr4 30723302 30726991 -
Mtr Mtr2g2428 Chr2 36545607 36549271 +
Psa Psa1g0200 Chr1 11536357 11538662 -
Ssu Ssu8g1317 Chr8 24467607 24473163 -
Sto Sto4g2734 Chr4 28334265 28336411 +
Tpr Tpr7g3372 Chr7 41905860 41909756 -
Tsu Tsu02g04122 Chr02 48171626 48175180 +
Vra Vra5g2372 Chr5 30761557 30765449 +
Vvi Vvi19g0009 Chr19 85815 87831 -
Aev Aev10g1210 Chr10 15777953 15780504 -
Ahy Ahy18g1641 Chr18 40810103 40813418 +
Aip Aip08g01817 Chr08 40868639 40871729 +
Amo Amo18g2018 Chr18 49263532 49266248 +
Apr Apr2g0519 Chr2 5981288 5988994 +
Bva Bva09g01008 Chr09 5145940 5148850 +
Bva Bva07g01555 Chr07 15139148 15141319 -
Car Car01g01912 Chr01 43630632 43634908 -
Cca Cca10g01251 Chr10 16592507 16595110 +
Dod Dod10g0828 Chr10 23839480 23841625 -
Gma Gma15g02339 Chr15 49706094 49708159 +
Gma Gma13g02330 Chr13 38075326 38077358 -
Lal Lal20g0404 Chr20 3251028 3254572 +
Mal Mal4g1726 Chr4 30719873 30722517 +
Mtr Mtr2g2429 Chr2 36549272 36552830 -
Psa Psa1g0199 Chr1 11533774 11536133 +
Tpr Tpr7g3371 Chr7 41902465 41906888 +
Tsu Tsu02g04123 Chr02 48175178 48178480 -
Vra Vra5g2373 Chr5 30765687 30768653 -