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
Vvi2g0722 . . . . . . . . . . . Ahy11g1033 . Aip01g01212 . . . . Apr7g1664 Apr3g0013 . . . . . . . . . Car07g01841 . . . . . . . . . . . . Gma05g01129 Gma17g01419 . . . . . Lal16g0523 Lal23g0781 . . Lal23g1063 . . . . . . . . . . . . . . . . . . Lja2g0944 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0723 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1355 . . . . . . . . . . . . . . . . . .
Vvi2g0724 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lal15g0219 . . . . . Lan18g0947 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0725 . . . . . . . . . . . Ahy11g1036 . Aip01g01211 . . . . . . . . . . . . . . . . . . . . . Dod05g1233 . . . . . . . Gma17g01418 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0726 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0727 . Acco12g0563 . . . . . . . . . . . . . . . . Apr7g1710 . . . . Bach10g00854 . Bisa01g1494 Bva08g01200 Bva11g01238 . Car07g01884 . Cca11g00762 . Dere13g1053 . . . Enph14g1026 . Glsi09g0947 . Gma09g01861 . . . . . . . Lal16g0487 . . . Lal23g1086 . . . . . . . . . . . . . . Lele53g1045 . Lele55g0432 Lele56g0415 Lja2g0894 . . . . Mepo1g02477 . . . . . Mtr8g2095 . Phac3g04481 . Phco8g00115 . . . . . Pste7g00266 . . . Pte12g00694 . . . Pvu3g2963 . . . Seca12g03525 . Spst3g02647 . . Sto6g4240 . . Tpr4g4597 . Trre15g01930 . Tsu04g03019 . Vian1g02118 . . . Vimu11g02079 . Viun3g03159 . . . Vra7g0870
Vvi2g0728 . . . . . . . . . Aev01g0454 . Ahy11g1037 . Aip01g01210 . . . Amo11g0860 . Apr3g0011 . . . . . . . . . . . . . . . . . . . . . . Gma05g01131 Gma17g01417 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2674 . . . . . . . . . . . . . . . . . Psa4g1846 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0729 . . . . . . . . . . . . . . . . . . . Apr3g0010 . . . . . . . . . . . . . . . . . . . . . . Gma05g01133 Gma17g01416 . . . . . . Lal23g0780 . . . . . . . . . . . . . . . . . . . . . . Lja4g2673 . . . . . . . . . . . . . . . . . Psa4g1847 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0730 . . . . . . . . . . . . . . . . . . . Apr3g0009 . . . . . . . . . . . . . . . . . . . . . . Gma05g01135 Gma17g01414 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2672 . . . . . . . . . . . . . . . . . Psa4g1850 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0731 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0722 Chr2 6818538 6834534 -
Ahy Ahy11g1033 Chr11 24388546 24394259 +
Aip Aip01g01212 Chr01 31987731 31995410 -
Apr Apr7g1664 Chr7 23810655 23814632 -
Apr Apr3g0013 Chr3 181876 187977 -
Car Car07g01841 Chr07 20338407 20345568 -
Gma Gma05g01129 Chr05 32227359 32233863 +
Gma Gma17g01419 Chr17 13323398 13329740 -
Lal Lal16g0523 Chr16 3316203 3320611 +
Lal Lal23g0781 Chr23 10334369 10340369 -
Lal Lal23g1063 Chr23 12364876 12369666 -
Lja Lja2g0944 Chr2 8856296 8860228 +
Vvi Vvi2g0723 Chr2 6835547 6855270 -
Sto Sto11g1355 Chr11 13089982 13100902 -
Vvi Vvi2g0724 Chr2 6861022 6867614 +
Lal Lal15g0219 Chr15 1488582 1491101 +
Lan Lan18g0947 Chr18 14692180 14694467 -
Vvi Vvi2g0725 Chr2 6869139 6869639 -
Ahy Ahy11g1036 Chr11 24524227 24525489 -
Aip Aip01g01211 Chr01 31867053 31868379 +
Dod Dod05g1233 Chr05 35109351 35111161 -
Gma Gma17g01418 Chr17 13321059 13321957 +
Vvi Vvi2g0726 Chr2 6879277 6879984 +
Vvi Vvi2g0727 Chr2 6881520 6882848 +
Acco Acco12g0563 Chr12 5076793 5080731 -
Apr Apr7g1710 Chr7 24339522 24341657 -
Bach Bach10g00854 Chr10 6045360 6048524 +
Bisa Bisa01g1494 Chr01 25335387 25338569 +
Bva Bva08g01200 Chr08 6217390 6220719 +
Bva Bva11g01238 Chr11 13041473 13045245 -
Car Car07g01884 Chr07 21168941 21173647 -
Cca Cca11g00762 Chr11 13925451 13929993 +
Dere Dere13g1053 Chr13 13897125 13902494 -
Enph Enph14g1026 Chr14 11958656 11962170 -
Glsi Glsi09g0947 Chr09 6602001 6605234 +
Gma Gma09g01861 Chr09 44212744 44216981 -
Lal Lal16g0487 Chr16 3050436 3054531 +
Lal Lal23g1086 Chr23 12520765 12524856 -
Lele Lele53g1045 Chr53 19784342 19787364 +
Lele Lele55g0432 Chr55 2703455 2706064 -
Lele Lele56g0415 Chr56 3106777 3109834 -
Lja Lja2g0894 Chr2 8376659 8381035 +
Mepo Mepo1g02477 Chr1 25939008 25943628 -
Mtr Mtr8g2095 Chr8 30941112 30946040 +
Phac Phac3g04481 Chr3 42887925 42912058 +
Phco Phco8g00115 Chr8 1032882 1036156 -
Pste Pste7g00266 Chr7 2431076 2435362 +
Pte Pte12g00694 Chr12 6962768 6967241 +
Pvu Pvu3g2963 Chr3 51382953 51386440 +
Seca Seca12g03525 Chr12 80784363 80788217 -
Spst Spst3g02647 Chr3 75688862 75692384 -
Sto Sto6g4240 Chr6 45459950 45462870 +
Tpr Tpr4g4597 Chr4 54227904 54232556 -
Trre Trre15g01930 Chr15 15602491 15606605 -
Tsu Tsu04g03019 Chr04 37345222 37349856 +
Vian Vian1g02118 Chr1 25779583 25783031 +
Vimu Vimu11g02079 Chr11 34424313 34427862 +
Viun Viun3g03159 Chr3 38057772 38061674 +
Vra Vra7g0870 Chr7 18641513 18645049 +
Vvi Vvi2g0728 Chr2 6915234 6925380 +
Aev Aev01g0454 Chr01 3965926 3969656 -
Ahy Ahy11g1037 Chr11 24533859 24538964 +
Aip Aip01g01210 Chr01 31853692 31858803 -
Amo Amo11g0860 Chr11 20416659 20421700 +
Apr Apr3g0011 Chr3 171055 179675 -
Gma Gma05g01131 Chr05 32237028 32244016 +
Gma Gma17g01417 Chr17 13308705 13313301 -
Lja Lja4g2674 Chr4 36668076 36679086 -
Psa Psa4g1846 Chr4 132269618 132276639 +
Vvi Vvi2g0729 Chr2 6931864 6934652 -
Apr Apr3g0010 Chr3 164181 166718 +
Gma Gma05g01133 Chr05 32268292 32270951 -
Gma Gma17g01416 Chr17 13302041 13304716 +
Lal Lal23g0780 Chr23 10331397 10334787 +
Lja Lja4g2673 Chr4 36657598 36659945 +
Psa Psa4g1847 Chr4 132277672 132280884 -
Vvi Vvi2g0730 Chr2 6939429 6948976 -
Apr Apr3g0009 Chr3 142717 146184 +
Gma Gma05g01135 Chr05 32330815 32343321 -
Gma Gma17g01414 Chr17 13279165 13283520 +
Lja Lja4g2672 Chr4 36639955 36644800 +
Psa Psa4g1850 Chr4 132343625 132347437 -
Vvi Vvi2g0731 Chr2 6968082 6968987 +