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
Vvi19g1390 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1391 . Acco08g2230 . Accr1g02665 Adu07g01510 . Aed1g0263 . Aev10g0828 . Ahy18g1929 . Aip08g02204 . . Alju10g2208 . . Apr2g0671 Apr5g0801 Arst7g01943 . Bach13g00587 . . Bisa02g2142 Bva09g01149 Bva07g01407 . . Cca10g01447 . . Dere07g2080 . . . Enph8g1212 . Glsi04g2156 Gma08g02159 Gma15g02499 . . Gso8g1951 Gso8g1951 . . . . . Lal20g0502 . . . . . . . . Lapu5g01279 . Lasa1g04567 . . . . . . Lele30g0072 . Lele32g1307 Lja3g3976 . Mal4g2021 Mal5g2126 Mepo6g02576 Mepo1g03174 Mesa5g01983 Mesa29g03595 . Mibi07g2048 Mtr2g2206 Mtr8g1468 . . Phco10g00497 Phco9g01960 . Prci6g2787 . . Pste3g01771 . . . Pte1g01127 . Pumo4g02887 Pumo10g02553 Pvu5g0507 Pvu11g1859 Rops7g01797 Rops3g02257 Seca4g06786 Seca4g06786 . Spst11g00437 Ssu8g1484 . Sto4g1816 . Tpr7g3133 Tpr7g1435 . Trre15g01710 Tsu02g03767 Tsu08g01664 Vian11g01389 Vian5g00491 Vifa1g04464 . Vimu4g01608 Vimu5g00897 Viun1g00843 . . Vivi7g00148 Vra5g2263 .
Vvi19g1392 . . . . . . . . . . . . . . . . . . . Apr5g0802 . . . . . . Bva09g01150 Bva09g01150 . . . . . . . . . . . . Gma08g02158 . . . Gso8g1950 . . . Lal9g0603 . Lal2g0690 . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2124 . Mepo1g03177 . Mesa29g03598 . . . Mtr8g1466 . Phac11g02360 . Phco9g01961 . . . . . Pste1g04195 . . Pte1g01126 . . Pumo10g02552 . Pvu11g1860 . Rops3g02258 . Seca4g07927 . Spst11g00436 . . . Sto7g1949 . Tpr7g1437 . . . Tsu08g01659 . Vian5g00490 . . . Vimu5g00896 . . . Vivi7g00135 . .
Vvi19g1393 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1394 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1395 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1396 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1397 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1398 . . . . . . Aed1g0262 . Aev10g0829 . . . Aip08g02205 . . . . . Apr2g0673 . . . . . . . Bva09g01151 Bva09g01151 . . Cca10g01448 . . . Dod10g0634 . . . . . . Gma15g02500 . . . . . . . . . Lal20g0503 . Lal11g1546 . . . . . . . . . . . . . . . . . . Lja3g3978 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu8g1485 . Sto4g1829 Sto7g1952 . . . . . . . . . . . . . . . . Vra5g2262 .
Vvi19g1399 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi19g1390 Chr19 23111233 23111571 -
Vvi Vvi19g1391 Chr19 23132252 23133331 +
Acco Acco08g2230 Chr08 37823417 37824778 -
Accr Accr1g02665 Chr1 63218813 63219729 -
Adu Adu07g01510 Chr07 34176783 34178905 -
Aed Aed1g0263 Chr1 4375201 4377434 -
Aev Aev10g0828 Chr10 10664944 10666774 +
Ahy Ahy18g1929 Chr18 97280726 97283079 +
Aip Aip08g02204 Chr08 89879232 89881579 +
Alju Alju10g2208 Chr10 43036510 43038248 -
Apr Apr2g0671 Chr2 8090563 8092457 -
Apr Apr5g0801 Chr5 11530642 11532198 +
Arst Arst7g01943 Chr7 33454628 33456725 -
Bach Bach13g00587 Chr13 11278626 11279595 -
Bisa Bisa02g2142 Chr02 49202305 49203312 -
Bva Bva09g01149 Chr09 6059326 6060575 +
Bva Bva07g01407 Chr07 14372947 14374265 -
Cca Cca10g01447 Chr10 22116690 22118704 +
Dere Dere07g2080 Chr07 34787923 34789039 +
Enph Enph8g1212 Chr8 20324098 20325619 +
Glsi Glsi04g2156 Chr04 73435713 73436601 -
Gma Gma08g02159 Chr08 20124883 20127687 +
Gma Gma15g02499 Chr15 52601404 52603754 +
Gso Gso8g1951 Chr8 19744174 19752830 +
Gso Gso8g1951 Chr8 19744174 19752830 +
Lal Lal20g0502 Chr20 4284823 4287530 +
Lapu Lapu5g01279 Chr5 25620630 25622120 +
Lasa Lasa1g04567 Chr1 754534672 754535521 -
Lele Lele30g0072 Chr30 794489 795523 +
Lele Lele32g1307 Chr32 14022634 14025670 -
Lja Lja3g3976 Chr3 78395540 78396891 +
Mal Mal4g2021 Chr4 43240258 43246460 +
Mal Mal5g2126 Chr5 50244158 50245371 -
Mepo Mepo6g02576 Chr6 35434391 35436381 -
Mepo Mepo1g03174 Chr1 36402999 36404714 +
Mesa Mesa5g01983 Chr5 31324543 31326049 +
Mesa Mesa29g03595 Chr29 58284224 58285421 +
Mibi Mibi07g2048 Chr07 43217299 43218368 -
Mtr Mtr2g2206 Chr2 33113302 33115130 -
Mtr Mtr8g1468 Chr8 18796301 18797966 -
Phco Phco10g00497 Chr10 5089106 5090109 -
Phco Phco9g01960 Chr9 44454994 44456351 +
Prci Prci6g2787 Chr6 40515555 40517063 -
Pste Pste3g01771 Chr3 11438187 11440672 -
Pte Pte1g01127 Chr1 30610144 30611423 -
Pumo Pumo4g02887 Chr4 55286052 55288273 -
Pumo Pumo10g02553 Chr10 44245903 44247173 -
Pvu Pvu5g0507 Chr5 5668885 5670180 -
Pvu Pvu11g1859 Chr11 45395989 45397778 +
Rops Rops7g01797 Chr7 28430420 28432272 +
Rops Rops3g02257 Chr3 44906626 44908150 +
Seca Seca4g06786 Chr4 141348079 141349556 +
Seca Seca4g06786 Chr4 141348079 141349556 +
Spst Spst11g00437 Chr11 25084072 25085442 -
Ssu Ssu8g1484 Chr8 29982508 29983777 +
Sto Sto4g1816 Chr4 18723285 18724614 +
Tpr Tpr7g3133 Chr7 38806893 38811645 -
Tpr Tpr7g1435 Chr7 15696633 15698436 +
Trre Trre15g01710 Chr15 13656461 13657690 -
Tsu Tsu02g03767 Chr02 42679782 42682480 -
Tsu Tsu08g01664 Chr08 19878190 19880288 -
Vian Vian11g01389 Chr11 23230418 23231900 -
Vian Vian5g00491 Chr5 14078882 14080119 -
Vifa Vifa1g04464 Chr1 693240415 693241221 -
Vimu Vimu4g01608 Chr4 17227484 17227951 -
Vimu Vimu5g00897 Chr5 12201452 12202185 -
Viun Viun1g00843 Chr1 10771904 10773770 +
Vivi Vivi7g00148 Chr7 8728863 8730205 -
Vra Vra5g2263 Chr5 28857394 28859297 -
Vvi Vvi19g1392 Chr19 23135546 23145141 -
Apr Apr5g0802 Chr5 11534005 11542769 -
Bva Bva09g01150 Chr09 6061095 6070338 -
Bva Bva09g01150 Chr09 6061095 6070338 -
Gma Gma08g02158 Chr08 20110661 20122179 +
Gso Gso8g1950 Chr8 19729651 19741826 +
Lal Lal9g0603 Chr9 4072362 4082501 -
Lal Lal2g0690 Chr2 4208991 4217089 -
Mal Mal5g2124 Chr5 50208843 50216234 +
Mepo Mepo1g03177 Chr1 36417916 36426511 -
Mesa Mesa29g03598 Chr29 58318492 58326872 -
Mtr Mtr8g1466 Chr8 18771295 18780138 +
Phac Phac11g02360 Chr11 34667069 34673921 +
Phco Phco9g01961 Chr9 44462286 44472247 +
Pste Pste1g04195 Chr1 26179999 26190567 +
Pte Pte1g01126 Chr1 30592104 30600597 +
Pumo Pumo10g02552 Chr10 44231155 44242053 +
Pvu Pvu11g1860 Chr11 45403860 45414082 +
Rops Rops3g02258 Chr3 44911047 44922181 -
Seca Seca4g07927 Chr4 183767000 183777580 +
Spst Spst11g00436 Chr11 25073651 25082577 -
Sto Sto7g1949 Chr7 25045172 25048412 -
Tpr Tpr7g1437 Chr7 15733528 15739516 -
Tsu Tsu08g01659 Chr08 19833714 19842973 +
Vian Vian5g00490 Chr5 14056027 14071399 -
Vimu Vimu5g00896 Chr5 12184739 12194459 -
Vivi Vivi7g00135 Chr7 8703387 8713163 +
Vvi Vvi19g1393 Chr19 23159631 23160686 -
Vvi Vvi19g1394 Chr19 23165739 23166104 -
Vvi Vvi19g1395 Chr19 23168516 23168662 -
Vvi Vvi19g1396 Chr19 23173191 23185203 -
Vvi Vvi19g1397 Chr19 23186135 23190573 +
Vvi Vvi19g1398 Chr19 23194285 23195624 +
Aed Aed1g0262 Chr1 4356121 4358762 -
Aev Aev10g0829 Chr10 10682593 10686319 +
Aip Aip08g02205 Chr08 90224781 90230713 +
Apr Apr2g0673 Chr2 8183477 8185417 +
Bva Bva09g01151 Chr09 6070834 6072811 +
Bva Bva09g01151 Chr09 6070834 6072811 +
Cca Cca10g01448 Chr10 22140192 22142357 +
Dod Dod10g0634 Chr10 19917794 19920180 -
Gma Gma15g02500 Chr15 52627603 52632317 +
Lal Lal20g0503 Chr20 4298987 4302398 +
Lal Lal11g1546 Chr11 18572844 18574684 +
Lja Lja3g3978 Chr3 78446446 78448845 +
Ssu Ssu8g1485 Chr8 30030134 30032073 +
Sto Sto4g1829 Chr4 18872260 18912433 +
Sto Sto7g1952 Chr7 25069386 25073274 +
Vra Vra5g2262 Chr5 28843400 28845394 -
Vvi Vvi19g1399 Chr19 23202162 23202836 +