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
Vvi17g0993 . . . . . . . Aed6g1375 . . . . . . . . . . . . . . . . . . . . . . . Cca11g01754 . . . . . . . . . . Gma05g00422 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2367 Mal5g4019 . . . . . . . Mtr4g3731 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu04g02536 . . . . . . . . . . . . .
Vvi17g0994 . . . . . Adu03g02110 Aed10g0844 . . Aev04g1506 . Ahy13g0186 . Aip03g00193 . . . Amo13g0109 . . . . . Bach2g02221 . . . . . . Cca03g00373 . . . . . . . . . . . . . . . . . Lal8g0530 . . . . . Lan10g0514 . . . . . . Lapu9g00831 . . . . . . . . . . . . . . . Mepo3g05764 . . . . . . . Phac9g02835 . Phco7g02008 . . . . . Pste2g00470 . . . . . Pumo10g01924 . Pvu9g1751 . Rops10g00759 . Seca4g02908 . . Ssu1g2330 . . . . . . Trre5g02818 . . . Vian4g00938 . Vifa2g01924 . . . Viun9g01415 . Vivi3g04582 Vra5g0687 .
Vvi17g0995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0996 . . . . . . . . . . . . . . . . . . Apr1g0261 . . . . . . . Bva06g01458 . . . . . . . . . . . . . Gma06g01547 Gma04g01864 . . Gso6g1464 Gso6g1464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa5g3284 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0997 . . . . . . . . . . . . . . . . . . . . . Arst3g02796 . . . . . . . Car05g01656 . . . . . . . . . . . . . . . . . . . . . Lal17g0872 . . . . . . . . . . . . . . . . . . . . Lja1g5282 . . Mal2g2479 . . . . . . . Mtr3g2381 . . . . . . . . . Pste2g00465 . . Pte3g00182 . . . . Pvu9g1750 . . . . . Spst9g02077 . . Sto3g1301 . . Tpr7g1200 . . . Tsu03g02531 . . . . . Vimu10g01385 . . . . . .
Vvi17g0998 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0999 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1000 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g1001 . . . . . . . Aed6g1374 Aev01g1932 . Ahy11g1521 . Aip01g01648 . . . . . . . . . . . . . Bva06g01459 Bva05g00289 . . . Cca11g01753 . . Dod05g1528 . . . . . . . . Gma17g01180 . . . . . Lal7g0892 Lal14g1477 . . . . . . . . . . . . . . . . . . . . . . Lja4g2369 Mal5g4018 . . . . . . . Mtr4g3730 . . . . . . . Psa4g1506 . . . . . . . . . Pvu3g0138 . . . . . Spst2g02118 . . Ssu6g1466 . Sto12g0700 Tpr5g2775 . . . Tsu04g02535 . . . . . Vimu7g00328 . . . . . . Vra7g1624
Vvi17g1002 . . . . . . . Aed6g1373 Aev01g1931 . . . Aip01g01650 . . . . . . . . . . . . . Bva06g01460 . . . . Cca11g01752 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g01197 . . . . . . . . . . . . Lja4g2370 . . . . . . . . . . . . . . . . . . Pste6g01899 . Pte3g00181 . . . Pumo4g01504 . Pvu3g2147 . . . Seca12g01678 . Spst3g04473 . . Ssu6g1467 . Sto12g0699 . . . . . . Vian1g01273 . . . Vimu7g00561 . Viun3g04326 . . . . Vra7g1625
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Sto Sto12g0700 Chr12 4440353 4442081 -
Vvi Vvi17g0993 Chr17 12001824 12004340 -
Aed Aed6g1375 Chr6 18349081 18352397 +
Cca Cca11g01754 Chr11 42164864 42165324 +
Gma Gma05g00422 Chr05 3986777 3988459 -
Lja Lja4g2367 Chr4 26511326 26513095 -
Mal Mal5g4019 Chr5 109928413 109929837 +
Mtr Mtr4g3731 Chr4 51042668 51044312 +
Tsu Tsu04g02536 Chr04 28581135 28582163 +
Vvi Vvi17g0994 Chr17 12031217 12098518 -
Adu Adu03g02110 Chr03 41675553 41712029 +
Aed Aed10g0844 Chr10 7023520 7075204 +
Aev Aev04g1506 Chr04 10813115 10842290 +
Ahy Ahy13g0186 Chr13 1968627 2001995 -
Aip Aip03g00193 Chr03 1939738 1963254 -
Amo Amo13g0109 Chr13 1579331 1615244 -
Bach Bach2g02221 Chr2 29004435 29029216 -
Cca Cca03g00373 Chr03 5758223 5818481 +
Lal Lal8g0530 Chr8 3619274 3624965 +
Lan Lan10g0514 Chr10 4103154 4109006 +
Lapu Lapu9g00831 Chr9 12186069 12256243 +
Mepo Mepo3g05764 Chr3 71801498 71838454 +
Phac Phac9g02835 Chr9 27073346 27124053 +
Phco Phco7g02008 Chr7 34333070 34391223 +
Pste Pste2g00470 Chr2 4303147 4337592 +
Pumo Pumo10g01924 Chr10 25375587 25395266 +
Pvu Pvu9g1751 Chr9 24767081 24770158 +
Rops Rops10g00759 Chr10 18011554 18030179 -
Seca Seca4g02908 Chr4 50067950 50084877 +
Ssu Ssu1g2330 Chr1 65443829 65510478 -
Trre Trre5g02818 Chr5 22456794 22460900 -
Vian Vian4g00938 Chr4 13568996 13635081 -
Vifa Vifa2g01924 Chr2 498089873 498137339 +
Viun Viun9g01415 Chr9 15515637 15572448 -
Vivi Vivi3g04582 Chr3 83028886 83066795 +
Vra Vra5g0687 Chr5 10996238 11058162 +
Vvi Vvi17g0995 Chr17 12115233 12115778 -
Vvi Vvi17g0996 Chr17 12125127 12128557 -
Apr Apr1g0261 Chr1 2911194 2964083 -
Bva Bva06g01458 Chr06 10626563 10654872 -
Gma Gma06g01547 Chr06 14941631 15006523 +
Gma Gma04g01864 Chr04 48801890 48863706 -
Gso Gso6g1464 Chr6 14647139 14709856 +
Gso Gso6g1464 Chr6 14647139 14709856 +
Psa Psa5g3284 Chr5 256494158 256538200 -
Vvi Vvi17g0997 Chr17 12148577 12149054 -
Arst Arst3g02796 Chr3 41966975 42003444 +
Car Car05g01656 Chr05 61330166 61383005 +
Lal Lal17g0872 Chr17 6646218 6700953 +
Lja Lja1g5282 Chr1 80654343 80722376 +
Mal Mal2g2479 Chr2 31330630 31378131 -
Mtr Mtr3g2381 Chr3 37655297 37691548 +
Pste Pste2g00465 Chr2 4268183 4291927 +
Pte Pte3g00182 Chr3 1691255 1717617 +
Pvu Pvu9g1750 Chr9 24711908 24754963 +
Spst Spst9g02077 Chr9 42314019 42381377 -
Sto Sto3g1301 Chr3 9415557 9448320 +
Tpr Tpr7g1200 Chr7 12144136 12180378 +
Tsu Tsu03g02531 Chr03 30258776 30299873 +
Vimu Vimu10g01385 Chr10 14652074 14714207 -
Vvi Vvi17g0998 Chr17 12156142 12169200 +
Vvi Vvi17g0999 Chr17 12175270 12175639 +
Vvi Vvi17g1000 Chr17 12203720 12206348 +
Vvi Vvi17g1001 Chr17 12208771 12210124 +
Aed Aed6g1374 Chr6 18343257 18345119 -
Aev Aev01g1932 Chr01 24226132 24227945 -
Ahy Ahy11g1521 Chr11 66938522 66941817 +
Aip Aip01g01648 Chr01 62488542 62492359 +
Bva Bva06g01459 Chr06 10657162 10658664 +
Bva Bva05g00289 Chr05 1410444 1412116 -
Cca Cca11g01753 Chr11 42151955 42153919 -
Dod Dod05g1528 Chr05 40187437 40189445 -
Gma Gma17g01180 Chr17 10335896 10337683 +
Lal Lal7g0892 Chr7 15408217 15410050 -
Lal Lal14g1477 Chr14 15785167 15786962 -
Lja Lja4g2369 Chr4 26523099 26524987 +
Mal Mal5g4018 Chr5 109899261 109901029 -
Mtr Mtr4g3730 Chr4 51035974 51037686 -
Psa Psa4g1506 Chr4 105136930 105138581 +
Pvu Pvu3g0138 Chr3 1252708 1254438 -
Spst Spst2g02118 Chr2 20227913 20230997 +
Ssu Ssu6g1466 Chr6 24098890 24100340 +
Sto Sto12g0700 Chr12 4440353 4442081 -
Tpr Tpr5g2775 Chr5 49865494 49867880 -
Tsu Tsu04g02535 Chr04 28573699 28576028 -
Vimu Vimu7g00328 Chr7 3883744 3885326 +
Vra Vra7g1624 Chr7 34725119 34726567 +
Vvi Vvi17g1002 Chr17 12211544 12214781 -
Aed Aed6g1373 Chr6 18339851 18342043 +
Aev Aev01g1931 Chr01 24222167 24224432 +
Aip Aip01g01650 Chr01 62544171 62559354 -
Bva Bva06g01460 Chr06 10662604 10665964 -
Cca Cca11g01752 Chr11 42147885 42149622 +
Lapu Lapu3g01197 Chr3 12908480 12910575 -
Lja Lja4g2370 Chr4 26527858 26530117 -
Pste Pste6g01899 Chr6 8769712 8774245 +
Pte Pte3g00181 Chr3 1681944 1684123 +
Pumo Pumo4g01504 Chr4 18984449 18986523 -
Pvu Pvu3g2147 Chr3 42261407 42264445 -
Seca Seca12g01678 Chr12 18311110 18313706 -
Spst Spst3g04473 Chr3 96324257 96325504 +
Ssu Ssu6g1467 Chr6 24102517 24104791 -
Sto Sto12g0699 Chr12 4437659 4439352 +
Vian Vian1g01273 Chr1 13767577 13768673 -
Vimu Vimu7g00561 Chr7 5696511 5697639 +
Viun Viun3g04326 Chr3 51034534 51035862 +
Vra Vra7g1625 Chr7 34729087 34730341 -