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
Vvi17g0943 . . . . Adu01g01733 . . . . . . . . . . . . . . . Arst1g02267 . . . . . Bva06g01432 Bva05g00313 . Car05g01683 . . . . . . . . . . . Gma04g01840 Gma05g00409 . . . . . Lal19g1049 . Lal14g1489 . . . Lan1g1446 . Lan1g1446 . . . . . . . . . . . . . . . . . Mal5g4042 Mal2g2444 . . . . . . Mtr4g3751 Mtr3g2408 . . . . . . . . . . . . . . . . Pvu3g2128 . . . . . Spst3g04494 . . . . . Tpr5g2865 . . . Tsu04g02566 . . . . . Vimu7g00586 . . . Vivi1g02210 . . .
Vvi17g0944 . . . . . . Aed10g0875 Aed6g1395 . Aev04g1546 . Ahy13g0142 . Aip03g00158 . . . Amo13g0043 Apr1g0236 Apr9g3161 . . . . . . . . . . Cca03g00404 Cca11g01777 . . . . . . . . Gma06g01573 . . Gma17g01167 Gso6g1487 . . Gso6g1487 . Lal7g0899 . . . . . . . . . . . . . . . . . . . . . . . Lja4g2345 Mal5g4041 . . . . . . . Mtr4g3750 . . . . . . . Psa4g1443 Psa5g2734 . . . . . . . . . . . . . . . . Ssu1g2292 . Sto3g1349 Sto12g0725 . . . . . . . . . . . . . . . . . Vra7g1603
Vvi17g0945 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0946 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0947 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0948 . . . . . . Aed10g0873 . . . . . . . . . . . . . . . . . . . . . . . Cca03g00402 . . . . . . . . . . Gma04g01841 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal5g4040 . . . . . . . Mtr4g3748 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2295 . Sto3g1346 Sto12g0724 . . . . Tsu04g02561 . . . . . . . . . . . . .
Vvi17g0949 . . . . . . . Aed6g1393 . . . . . . . . . . . Apr9g3162 . . . . . . . . . Car05g01682 . Cca11g01773 . . . . . . . . . . . . . . . . . Lal7g0896 . . . . . . . . . . . . . . . . . . . . . . . . Mal5g4038 Mal2g2445 . . . . . . Mtr4g3747 Mtr3g2407 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto3g1337 Sto12g0721 Tpr5g2864 . . . Tsu04g02559 Tsu03g02325 . . . . . . . . . . . .
Vvi17g0950 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0951 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0952 . . . . . . Aed10g0871 Aed6g1391 . . Ahy11g1496 Ahy13g0161 Aip01g01614 Aip03g00167 . . Amo11g1537 . Apr1g0238 . . . . . . . . . . . Cca03g00400 Cca11g01768 . . Dod05g1549 . . . . . . . . . . . . . . . Lal14g1488 . Lal4g0756 . . . . . . . . . . . . . . . . . . . Lja1g5311 Lja4g2348 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1450 Sto3g1324 . . . . . . . . . . . . . . . . . Vra5g0719 Vra7g1608
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0943 Chr17 11172609 11176644 -
Adu Adu01g01733 Chr01 61408027 61411578 +
Arst Arst1g02267 Chr1 62067359 62069385 +
Bva Bva06g01432 Chr06 10504236 10508020 -
Bva Bva05g00313 Chr05 1531876 1535521 +
Car Car05g01683 Chr05 61643935 61647734 +
Gma Gma04g01840 Chr04 48507884 48512021 -
Gma Gma05g00409 Chr05 3839156 3843879 -
Lal Lal19g1049 Chr19 14274945 14278573 +
Lal Lal14g1489 Chr14 15850199 15853767 +
Lan Lan1g1446 Chr1 24387390 24390982 -
Lan Lan1g1446 Chr1 24387390 24390982 -
Mal Mal5g4042 Chr5 110385644 110389010 +
Mal Mal2g2444 Chr2 30801532 30802834 -
Mtr Mtr4g3751 Chr4 51289139 51293165 +
Mtr Mtr3g2408 Chr3 37899033 37902988 +
Pvu Pvu3g2128 Chr3 42063637 42067744 -
Spst Spst3g04494 Chr3 96531504 96535331 +
Tpr Tpr5g2865 Chr5 51823741 51827578 +
Tsu Tsu04g02566 Chr04 28921311 28925524 +
Vimu Vimu7g00586 Chr7 5941178 5944673 +
Vivi Vivi1g02210 Chr1 46479859 46483405 -
Vvi Vvi17g0944 Chr17 11179544 11181499 -
Aed Aed10g0875 Chr10 7329673 7331414 +
Aed Aed6g1395 Chr6 18476385 18478615 +
Aev Aev04g1546 Chr04 11122336 11123923 +
Ahy Ahy13g0142 Chr13 1582803 1586637 -
Aip Aip03g00158 Chr03 1577791 1581116 -
Amo Amo13g0043 Chr13 758392 762212 -
Apr Apr1g0236 Chr1 2577462 2579443 -
Apr Apr9g3161 Chr9 38380352 38383563 -
Cca Cca03g00404 Chr03 6301083 6306095 +
Cca Cca11g01777 Chr11 42527927 42529934 +
Gma Gma06g01573 Chr06 15263344 15266002 +
Gma Gma17g01167 Chr17 10189966 10192412 -
Gso Gso6g1487 Chr6 14970180 14972833 +
Gso Gso6g1487 Chr6 14970180 14972833 +
Lal Lal7g0899 Chr7 15503802 15505922 +
Lja Lja4g2345 Chr4 25899491 25903480 -
Mal Mal5g4041 Chr5 110336904 110360209 -
Mtr Mtr4g3750 Chr4 51276982 51281169 -
Psa Psa4g1443 Chr4 101240103 101243509 -
Psa Psa5g2734 Chr5 207804815 207806627 -
Ssu Ssu1g2292 Chr1 64765135 64768287 -
Sto Sto3g1349 Chr3 9793212 9794806 +
Sto Sto12g0725 Chr12 4568277 4570856 -
Vra Vra7g1603 Chr7 34457838 34460092 -
Vvi Vvi17g0945 Chr17 11181907 11182219 +
Vvi Vvi17g0946 Chr17 11182221 11182762 +
Vvi Vvi17g0947 Chr17 11202416 11202640 +
Vvi Vvi17g0948 Chr17 11203028 11204433 +
Aed Aed10g0873 Chr10 7317290 7318957 +
Cca Cca03g00402 Chr03 6215216 6217400 +
Gma Gma04g01841 Chr04 48518972 48520610 +
Mal Mal5g4040 Chr5 110248884 110326688 -
Mtr Mtr4g3748 Chr4 51243580 51245359 -
Ssu Ssu1g2295 Chr1 64810308 64812076 -
Sto Sto3g1346 Chr3 9777831 9779490 +
Sto Sto12g0724 Chr12 4562354 4564038 -
Tsu Tsu04g02561 Chr04 28864516 28866834 -
Vvi Vvi17g0949 Chr17 11284888 11286858 +
Aed Aed6g1393 Chr6 18469010 18472109 +
Apr Apr9g3162 Chr9 38394181 38401567 -
Car Car05g01682 Chr05 61631793 61633821 -
Cca Cca11g01773 Chr11 42431382 42435563 +
Lal Lal7g0896 Chr7 15439092 15442492 +
Mal Mal5g4038 Chr5 110223261 110225773 -
Mal Mal2g2445 Chr2 30806706 30808425 +
Mtr Mtr4g3747 Chr4 51236259 51238479 -
Mtr Mtr3g2407 Chr3 37895282 37897285 -
Sto Sto3g1337 Chr3 9720166 9721796 +
Sto Sto12g0721 Chr12 4548317 4549935 -
Tpr Tpr5g2864 Chr5 51804010 51807724 -
Tsu Tsu04g02559 Chr04 28842992 28845385 -
Tsu Tsu03g02325 Chr03 26300153 26301920 +
Vvi Vvi17g0950 Chr17 11321851 11322467 +
Vvi Vvi17g0951 Chr17 11329650 11329799 +
Vvi Vvi17g0952 Chr17 11349869 11351521 +
Aed Aed10g0871 Chr10 7309887 7311982 -
Aed Aed6g1391 Chr6 18450396 18453771 -
Ahy Ahy11g1496 Chr11 64290456 64294794 +
Ahy Ahy13g0161 Chr13 1755903 1758492 +
Aip Aip01g01614 Chr01 60175383 60179377 +
Aip Aip03g00167 Chr03 1725471 1728769 +
Amo Amo11g1537 Chr11 63833820 63837302 +
Apr Apr1g0238 Chr1 2602852 2604866 +
Cca Cca03g00400 Chr03 6121989 6124718 -
Cca Cca11g01768 Chr11 42349157 42351926 -
Dod Dod05g1549 Chr05 40413424 40415909 -
Lal Lal14g1488 Chr14 15841872 15849395 -
Lal Lal4g0756 Chr4 6374163 6375991 +
Lja Lja1g5311 Chr1 82358198 82367887 -
Lja Lja4g2348 Chr4 25944265 25948180 +
Ssu Ssu6g1450 Chr6 23735214 23736986 +
Sto Sto3g1324 Chr3 9620457 9622109 -
Vra Vra5g0719 Chr5 11688368 11690308 +
Vra Vra7g1608 Chr7 34522896 34526000 +
Apr Apr1g0238 Chr1 2602852 2604866 +