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
Vvi18g1266 . . . . . . . . . . . . . . . . . . . Apr5g1665 . . . . . . . Bva10g00936 . Car05g03277 . . . . . . . . . . Gma04g00222 . . . Gso4g0206 . . . . . Lal21g0109 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1267 . . . . . . . . . . . Ahy16g2938 . Aip06g03141 . . . Amo16g3555 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1268 . . . . . . . . . . . Ahy16g0049 . Aip06g00042 . . . . Apr9g0645 . . . . . . . . Bva10g00937 . . Cca05g00384 . . . . . . . . . . . Gma14g02147 Gma17g02473 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g3333 Mal1g6103 . . . . . . . Mtr1g0729 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto9g3712 . . . . . . . . . . . . . . . . . .
Vvi18g1269 . . . . . . . Aed9g0212 . . . . . . . . . . . Apr5g1666 . . . . . . Bva06g01894 Bva10g00938 Car04g01713 . . Cca07g00256 . . . . . . . . Gma04g00220 Gma06g00201 Gma16g01169 . Gso4g0205 Gso4g0205 Gso4g0205 . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g3491 . . . . . . . . . . . . . . . . . . Psa5g1978 . . . . . . . . . . . . . . . . . . . Sto9g3713 . . . . . . . . . . . . . . . . . Vra5g1664
Vvi18g1270 . . . . . . Aed11g0039 . . Aev07g0675 . Ahy16g0048 . Aip06g00041 . . . . Apr9g0646 . . . . . . . Bva06g01893 Bva10g00939 Car04g03596 . Cca05g00385 . . . . Dod08g2291 . . . . . . Gma14g02148 Gma17g02474 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g3334 Mal1g6105 . . . . . . . Mtr1g0732 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0048 . Sto5g0121 . Tpr1g3886 . . . Tsu01g00183 . . . . . . . . . . . . .
Vvi18g1271 . . . . . . . Aed10g0357 Aev08g0900 . Ahy17g2756 . Aip07g03006 . . . . . Apr9g0779 . . . . . . . Bva06g02878 . Car04g02924 Car05g03441 . Cca03g01084 . . . . . . . . Gma04g02342 Gma06g01056 Gma14g01435 Gma13g00206 . . . . Lal4g0434 . . . . . . . . . . . . . . . . . . . . . . . Lja1g4987 . Mal1g5083 Mal2g1926 . . . . . . Mtr1g0897 Mtr3g2998 . . . . . . Psa6g0933 Psa5g1972 . . . . . . . . . . . . . . . . . Ssu1g2951 Sto5g0359 Sto9g2863 Tpr1g3070 Tpr2g5452 . . Tsu01g01018 . . . . . . . . . . . . Vra5g0743
Vvi18g1272 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1273 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1274 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g1275 . . . . . . . Aed9g0211 Aev08g0187 . Ahy17g2246 . Aip07g02405 . . . . . . Apr5g1667 . . . . . . Bva06g01891 . . Car05g03279 . Cca07g00255 . . . . . . . . Gma04g00219 . . . Gso4g0203 . . . . Lal17g0056 . . . . . . . . . . . . . . . . . . . . . . Lja1g3488 . . Mal2g0468 . . . . . . . Mtr3g4281 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0120 . . Tpr7g0221 . . . Tsu07g00250 . . . . . . . . . . . Vra5g1665
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Gma Gma16g01169 Chr16 28936511 28942562 +
Car Car04g01713 Chr04 17727457 17731474 +
Aed Aed10g0357 Chr10 2888139 2892369 +
Aev Aev08g0900 Chr08 5312463 5315781 -
Ahy Ahy17g2756 Chr17 125934013 125938509 -
Aip Aip07g03006 Chr07 117017914 117022720 -
Apr Apr9g0779 Chr9 14285002 14289188 -
Bva Bva06g02878 Chr06 17995452 17999348 +
Cca Cca03g01084 Chr03 26415396 26419389 -
Gma Gma14g01435 Chr14 30519909 30523787 +
Gma Gma13g00206 Chr13 11341764 11346275 +
Lal Lal4g0434 Chr4 3046014 3049578 +
Lja Lja1g4987 Chr1 69807699 69812220 -
Psa Psa6g0933 Chr6 35133450 35137586 -
Ssu Ssu1g2951 Chr1 77596611 77599992 -
Sto Sto5g0359 Chr5 2177126 2180551 -
Sto Sto9g2863 Chr9 30064036 30067098 -
Vra Vra5g0743 Chr5 12668267 12672163 -
Vvi Vvi18g1266 Chr18 12698536 12699201 +
Apr Apr5g1665 Chr5 20252635 20254075 +
Bva Bva10g00936 Chr10 7019811 7020941 +
Car Car05g03277 Chr05 77505173 77506540 +
Gma Gma04g00222 Chr04 1884731 1886088 -
Gso Gso4g0206 Chr4 1853633 1855009 -
Lal Lal21g0109 Chr21 742285 742863 -
Vvi Vvi18g1267 Chr18 12699750 12707027 -
Ahy Ahy16g2938 Chr16 143945415 143948903 +
Aip Aip06g03141 Chr06 126978638 126983159 +
Amo Amo16g3555 Chr16 145635843 145639429 +
Vvi Vvi18g1268 Chr18 12710695 12716154 +
Ahy Ahy16g0049 Chr16 437712 443426 -
Aip Aip06g00042 Chr06 335219 340892 -
Apr Apr9g0645 Chr9 10488030 10494014 +
Bva Bva10g00937 Chr10 7023422 7028071 +
Cca Cca05g00384 Chr05 8347520 8353361 +
Gma Gma14g02147 Chr14 52613094 52618246 +
Gma Gma17g02473 Chr17 42769949 42775272 +
Lja Lja5g3333 Chr5 64768809 64775390 +
Mal Mal1g6103 Chr1 139951781 139957113 +
Mtr Mtr1g0729 Chr1 8246926 8252806 +
Sto Sto9g3712 Chr9 35427043 35431562 +
Vvi Vvi18g1269 Chr18 12719198 12723931 +
Aed Aed9g0212 Chr9 1501686 1504414 -
Apr Apr5g1666 Chr5 20258265 20261619 +
Bva Bva06g01894 Chr06 12924222 12927450 -
Bva Bva10g00938 Chr10 7029061 7032162 +
Car Car04g01713 Chr04 17727457 17731474 +
Cca Cca07g00256 Chr07 3227811 3230194 -
Gma Gma04g00220 Chr04 1865756 1873661 -
Gma Gma06g00201 Chr06 1768024 1773083 -
Gma Gma16g01169 Chr16 28936511 28942562 +
Gso Gso4g0205 Chr4 1839672 1842608 -
Gso Gso4g0205 Chr4 1839672 1842608 -
Gso Gso4g0205 Chr4 1839672 1842608 -
Lja Lja1g3491 Chr1 43496935 43499248 -
Psa Psa5g1978 Chr5 153114038 153116411 -
Sto Sto9g3713 Chr9 35433206 35436889 +
Vra Vra5g1664 Chr5 23021481 23024925 +
Vvi Vvi18g1270 Chr18 12725431 12752925 -
Aed Aed11g0039 Chr11 261424 269104 +
Aev Aev07g0675 Chr07 4275657 4282524 +
Ahy Ahy16g0048 Chr16 431716 437484 +
Aip Aip06g00041 Chr06 329220 335002 +
Apr Apr9g0646 Chr9 10496416 10505098 -
Bva Bva06g01893 Chr06 12917085 12924188 +
Bva Bva10g00939 Chr10 7032353 7037836 -
Car Car04g03596 Chr04 65204768 65215163 -
Cca Cca05g00385 Chr05 8355870 8362043 -
Dod Dod08g2291 Chr08 50957408 50966227 -
Gma Gma14g02148 Chr14 52621571 52630583 -
Gma Gma17g02474 Chr17 42778474 42787032 -
Lja Lja5g3334 Chr5 64776699 64786591 -
Mal Mal1g6105 Chr1 139975128 139983863 -
Mtr Mtr1g0732 Chr1 8261687 8271601 -
Ssu Ssu5g0048 Chr5 908832 917872 +
Sto Sto5g0121 Chr5 691901 703274 +
Tpr Tpr1g3886 Chr1 42985182 42993894 -
Tsu Tsu01g00183 Chr01 1428884 1434953 +
Vvi Vvi18g1271 Chr18 12763512 12766685 +
Aed Aed10g0357 Chr10 2888139 2892369 +
Aev Aev08g0900 Chr08 5312463 5315781 -
Ahy Ahy17g2756 Chr17 125934013 125938509 -
Aip Aip07g03006 Chr07 117017914 117022720 -
Apr Apr9g0779 Chr9 14285002 14289188 -
Bva Bva06g02878 Chr06 17995452 17999348 +
Car Car04g02924 Chr04 56361380 56365485 -
Car Car05g03441 Chr05 78898008 78901085 +
Cca Cca03g01084 Chr03 26415396 26419389 -
Gma Gma04g02342 Chr04 53837006 53840402 -
Gma Gma06g01056 Chr06 9893091 9896810 +
Gma Gma14g01435 Chr14 30519909 30523787 +
Gma Gma13g00206 Chr13 11341764 11346275 +
Lal Lal4g0434 Chr4 3046014 3049578 +
Lja Lja1g4987 Chr1 69807699 69812220 -
Mal Mal1g5083 Chr1 122379696 122383153 -
Mal Mal2g1926 Chr2 23261586 23265087 -
Mtr Mtr1g0897 Chr1 10336244 10340617 +
Mtr Mtr3g2998 Chr3 43824148 43828401 +
Psa Psa6g0933 Chr6 35133450 35137586 -
Psa Psa5g1972 Chr5 152931992 152935918 -
Ssu Ssu1g2951 Chr1 77596611 77599992 -
Sto Sto5g0359 Chr5 2177126 2180551 -
Sto Sto9g2863 Chr9 30064036 30067098 -
Tpr Tpr1g3070 Chr1 35179228 35183653 -
Tpr Tpr2g5452 Chr2 61445397 61450037 -
Tsu Tsu01g01018 Chr01 9317990 9322714 +
Vra Vra5g0743 Chr5 12668267 12672163 -
Vvi Vvi18g1272 Chr18 12767505 12770416 -
Vvi Vvi18g1273 Chr18 12772148 12772603 -
Vvi Vvi18g1274 Chr18 12773057 12773329 -
Vvi Vvi18g1275 Chr18 12776691 12780814 +
Aed Aed9g0211 Chr9 1495507 1500019 -
Aev Aev08g0187 Chr08 1043222 1049151 -
Ahy Ahy17g2246 Chr17 108993604 108995806 -
Aip Aip07g02405 Chr07 101196132 101198534 -
Apr Apr5g1667 Chr5 20263063 20266081 +
Bva Bva06g01891 Chr06 12909934 12913761 -
Car Car05g03279 Chr05 77517401 77519967 +
Cca Cca07g00255 Chr07 3223332 3226558 -
Gma Gma04g00219 Chr04 1862390 1864913 -
Gso Gso4g0203 Chr4 1831642 1834145 -
Lal Lal17g0056 Chr17 326880 329928 -
Lja Lja1g3488 Chr1 43478639 43481607 -
Mal Mal2g0468 Chr2 5377408 5380067 -
Mtr Mtr3g4281 Chr3 56677798 56680487 +
Sto Sto5g0120 Chr5 686966 690491 -
Tpr Tpr7g0221 Chr7 1814875 1817782 -
Tsu Tsu07g00250 Chr07 1936271 1938917 -
Vra Vra5g1665 Chr5 23026606 23029863 +