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
Vvi17g0693 . . . . Adu01g03222 . . Aed6g1615 Aev01g2065 . Ahy11g1808 Ahy20g2628 Aip01g01994 Aip10g03068 . . Amo11g2083 Amo20g3407 . Apr9g2967 Arst1g04169 . Bach10g01100 . . . Bva06g01164 Bva05g00412 Car07g00904 . . Cca11g01999 . . Dod05g1673 Dod02g2424 . . . . . . Gma05g00220 Gma17g00727 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g4309 . Mepo1g01221 . Mesa29g01254 . . . Mtr4g3970 . Phac3g02846 . Phco8g01394 . . . Psa4g1128 . . . . Pte2g02216 . . Pumo4g01243 . Pvu3g1922 . Rops2g03837 . . . Spst3g04744 . . Ssu6g1215 . Sto12g0949 Tpr5g3077 . Trre15g04274 . Tsu04g03741 . Vian1g00819 . Vifa4g03405 . Vimu7g00844 . Viun3g04638 . Vivi1g01870 . . Vra7g1930
Vvi17g0694 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0695 . . . . Adu01g03221 . . Aed6g1617 Aev01g2164 . Ahy11g1999 . Aip01g02207 . . . . . . Apr9g2966 Arst1g04165 . . . . . Bva06g01162 Bva05g00535 Car07g00902 . . Cca11g02000 . . Dod05g1780 . Enph6g0746 . Glsi02g0901 . . . Gma05g00218 Gma17g00729 . . . . Lal19g1458 Lal7g0942 . . . . Lan1g1053 Lan1g1053 . . . . Lapu3g00982 . Lasa4g03326 . . . . . . . . . . Lja4g2097 Mal5g4310 . Mepo1g01219 . Mesa29g01252 . . . Mtr4g3971 . . . Phco8g01396 . . . . . Pste6g02652 . . Pte2g02218 . . . . Pvu3g1920 . . . . . Spst3g04747 . . Ssu6g1214 Sto3g1605 Sto12g0952 Tpr5g3078 . Trre15g04276 . Tsu04g03743 . . . . . Vimu7g00846 . . . Vivi1g01868 . . Vra7g1931
Vvi17g0696 . . . . . . . . . . . Ahy20g2630 . Aip10g03070 . . . Amo20g3409 . . . . . . . . . . . . . . . . . Dod02g2422 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0697 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal14g1548 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mtr3g0842 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0698 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car05g00666 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0699 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0700 . . . . . . . . . . . Ahy20g2639 . Aip10g03079 . . . . . . . . . . . . . . . . . . . . . Dod02g2418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0701 . . . . . . . . . . . Ahy20g2643 . Aip10g03085 . . . Amo20g3423 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0702 . . . . . . . . . . . Ahy20g2644 . Aip10g03087 . . . Amo20g3427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0693 Chr17 7659780 7661222 -
Adu Adu01g03222 Chr01 104625904 104628427 +
Aed Aed6g1615 Chr6 20085256 20086682 -
Aev Aev01g2065 Chr01 25211553 25215656 -
Ahy Ahy11g1808 Chr11 116503066 116508734 -
Ahy Ahy20g2628 Chr20 135562302 135565282 -
Aip Aip01g01994 Chr01 106566471 106571981 -
Aip Aip10g03068 Chr10 127726486 127729469 -
Amo Amo11g2083 Chr11 114417648 114423266 -
Amo Amo20g3407 Chr20 143345236 143348120 -
Apr Apr9g2967 Chr9 36547382 36548800 +
Arst Arst1g04169 Chr1 103893395 103895987 +
Bach Bach10g01100 Chr10 8170175 8171617 -
Bva Bva06g01164 Chr06 9185892 9188117 +
Bva Bva05g00412 Chr05 2034011 2037988 -
Car Car07g00904 Chr07 8034521 8034823 +
Cca Cca11g01999 Chr11 45419041 45421182 -
Dod Dod05g1673 Chr05 41989580 41994446 -
Dod Dod02g2424 Chr02 53467184 53470113 +
Gma Gma05g00220 Chr05 2023721 2025857 +
Gma Gma17g00727 Chr17 6155182 6156745 -
Mal Mal5g4309 Chr5 114174564 114175997 -
Mepo Mepo1g01221 Chr1 11953710 11956936 +
Mesa Mesa29g01254 Chr29 16252750 16254186 +
Mtr Mtr4g3970 Chr4 53454115 53457251 -
Phac Phac3g02846 Chr3 30382580 30384578 +
Phco Phco8g01394 Chr8 14448262 14449710 -
Psa Psa4g1128 Chr4 81176252 81179069 -
Pte Pte2g02216 Chr2 41947528 41949728 -
Pumo Pumo4g01243 Chr4 15923176 15925640 +
Pvu Pvu3g1922 Chr3 39802814 39805224 +
Rops Rops2g03837 Chr2 70647288 70649715 +
Spst Spst3g04744 Chr3 99190534 99191982 -
Ssu Ssu6g1215 Chr6 19884036 19885478 +
Sto Sto12g0949 Chr12 5892221 5893654 -
Tpr Tpr5g3077 Chr5 53609851 53612927 -
Trre Trre15g04274 Chr15 53366168 53370749 -
Tsu Tsu04g03741 Chr04 46383508 46386395 -
Vian Vian1g00819 Chr1 8541609 8543021 -
Vifa Vifa4g03405 Chr4 1063730862 1063732295 -
Vimu Vimu7g00844 Chr7 8306457 8307869 -
Viun Viun3g04638 Chr3 53859111 53861577 -
Vivi Vivi1g01870 Chr1 39811653 39813956 +
Vra Vra7g1930 Chr7 38805028 38806872 -
Vvi Vvi17g0694 Chr17 7666637 7667140 +
Vvi Vvi17g0695 Chr17 7668429 7674394 -
Adu Adu01g03221 Chr01 104575124 104580727 +
Aed Aed6g1617 Chr6 20088828 20096043 -
Aev Aev01g2164 Chr01 25932927 25937108 -
Ahy Ahy11g1999 Chr11 127425590 127432019 -
Aip Aip01g02207 Chr01 116679685 116684891 -
Apr Apr9g2966 Chr9 36535664 36542885 +
Arst Arst1g04165 Chr1 103842646 103848876 +
Bva Bva06g01162 Chr06 9176898 9182755 +
Bva Bva05g00535 Chr05 2620777 2626436 -
Car Car07g00902 Chr07 8023019 8029310 +
Cca Cca11g02000 Chr11 45423572 45431849 -
Dod Dod05g1780 Chr05 43193431 43200396 -
Enph Enph6g0746 Chr6 10410480 10414283 -
Glsi Glsi02g0901 Chr02 5763089 5774137 -
Gma Gma05g00218 Chr05 2011181 2018207 +
Gma Gma17g00729 Chr17 6163514 6169240 -
Lal Lal19g1458 Chr19 17147585 17153471 +
Lal Lal7g0942 Chr7 15768708 15775257 -
Lan Lan1g1053 Chr1 20748093 20753531 -
Lan Lan1g1053 Chr1 20748093 20753531 -
Lapu Lapu3g00982 Chr3 10594795 10607113 +
Lasa Lasa4g03326 Chr4 584372514 584378753 -
Lja Lja4g2097 Chr4 22543265 22550625 +
Mal Mal5g4310 Chr5 114183161 114189146 -
Mepo Mepo1g01219 Chr1 11941935 11948805 +
Mesa Mesa29g01252 Chr29 16239189 16244935 +
Mtr Mtr4g3971 Chr4 53465402 53473652 -
Phco Phco8g01396 Chr8 14458302 14468068 -
Pste Pste6g02652 Chr6 13929274 13936164 -
Pte Pte2g02218 Chr2 41952288 41958643 -
Pvu Pvu3g1920 Chr3 39784328 39792924 +
Spst Spst3g04747 Chr3 99210220 99215776 -
Ssu Ssu6g1214 Chr6 19861557 19867388 +
Sto Sto3g1605 Chr3 11963269 11968176 -
Sto Sto12g0952 Chr12 5900825 5905878 -
Tpr Tpr5g3078 Chr5 53616490 53623219 -
Trre Trre15g04276 Chr15 53377161 53382913 -
Tsu Tsu04g03743 Chr04 46392704 46399406 -
Vimu Vimu7g00846 Chr7 8322188 8337008 -
Vivi Vivi1g01868 Chr1 39796003 39802679 +
Vra Vra7g1931 Chr7 38814309 38825496 -
Vvi Vvi17g0696 Chr17 7682689 7685520 -
Ahy Ahy20g2630 Chr20 135592902 135594543 -
Aip Aip10g03070 Chr10 127765589 127767247 -
Amo Amo20g3409 Chr20 143375723 143377429 -
Dod Dod02g2422 Chr02 53451494 53453634 +
Vvi Vvi17g0697 Chr17 7690973 7692254 +
Lal Lal14g1548 Chr14 16163669 16176920 -
Mtr Mtr3g0842 Chr3 12214162 12217222 +
Vvi Vvi17g0698 Chr17 7702062 7708142 -
Car Car05g00666 Chr05 36781761 36794059 -
Vvi Vvi17g0699 Chr17 7713591 7714449 -
Vvi Vvi17g0700 Chr17 7726000 7727173 -
Ahy Ahy20g2639 Chr20 135761543 135764231 -
Aip Aip10g03079 Chr10 127922763 127925143 -
Dod Dod02g2418 Chr02 53356688 53357191 +
Vvi Vvi17g0701 Chr17 7731845 7732588 -
Ahy Ahy20g2643 Chr20 135834523 135837138 -
Aip Aip10g03085 Chr10 127992109 127994032 -
Amo Amo20g3423 Chr20 143616523 143621885 -
Vvi Vvi17g0702 Chr17 7732840 7733322 -
Ahy Ahy20g2644 Chr20 135854184 135859520 -
Aip Aip10g03087 Chr10 127995290 127996868 -
Amo Amo20g3427 Chr20 143677172 143677796 -