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
Vvi19g1420 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva09g01176 Bva07g01392 . . . . . . . . . . . . . . . . . . . . . . Lal2g0693 . . . . . . . . . . . . . . . . . . . . . . . . Mal5g2118 . . . . . . . Mtr8g1446 . . . . . . . . . . . . . . . . . . . . . . . . . . Sto4g1913 . . Tpr7g1446 . . . Tsu08g01635 . . . . . . . . . . . .
Vvi19g1421 . . . . . . . . . . . . . . . . . . Apr2g0689 Apr5g0812 . Arst3g05433 Bach13g00569 . . . Bva09g01181 Bva09g01181 . . Cca10g01494 . Dere08g0049 . . . . . Glsi14g0658 . Gma08g02152 . . . Gso8g1945 . . . . . . . . . . . . . . . Lapu5g01292 . Lasa1g04535 . . . Lele11g0405 . . . . . Lja3g3992 . Mal4g2059 Mal5g2111 . Mepo1g03196 Mesa5g02032 Mesa29g03621 . . Mtr2g2178 Mtr8g1442 . Phac11g02373 Phco10g00481 Phco9g01968 Prci7g1409 . Psa1g0365 . Pste3g01724 Pste1g00215 . Pte15g01517 . . Pumo4g02830 . Pvu5g0482 Pvu11g1867 Rops7g01822 Rops3g02300 Seca4g06823 Seca4g06822 Spst5g01734 Spst11g00429 Ssu8g1502 . . Sto7g0009 . Tpr7g1453 . Trre15g01678 . Tsu08g01628 Vian11g01370 Vian5g00470 Vifa1g04388 . Vimu4g01577 Vimu5g00886 Viun1g00874 . . Vivi7g00095 Vra5g2243 .
Vvi19g1422 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1423 . . . . . . . . . . . . . . . . . . . . . . . Bach9g01056 . . . Bva07g01389 . . . . . . . . . . . . Gma08g02147 . . . Gso8g1943 . . . Lal9g0607 . . . . Lal11g1553 . . . . . . . . . Lasa4g01273 . . . . . . . . Lja3g3993 . Mal4g2061 Mal5g2107 . Mepo1g03199 . Mesa29g03628 . . Mtr2g2174 Mtr8g1440 . . . Phco9g01972 . . . . . Pste1g01450 . . . . . Pumo10g02538 . Pvu11g1871 . . . Seca4g09611 . Spst11g00428 . . . Sto7g0010 Tpr7g3112 Tpr7g1455 . Trre15g01677 Tsu06g01437 Tsu08g01621 . . . . . Vimu5g00872 . . . Vivi7g00077 . .
Vvi19g1424 . . . . . . Aed1g0236 . . . . . . . . . . . Apr2g0690 . . . . . . . Bva09g01184 Bva07g01388 . . Cca10g01495 . Dere08g0047 . . . . . . . Gma08g02146 Gma15g02077 . . Gso8g1942 Gso8g1942 . . . . . Lal20g0518 . . . . . . . . . . Lasa1g04531 . . . Lele11g0401 . . . . . . . Mal4g2062 Mal5g2106 Mepo6g02538 Mepo1g03200 Mesa5g02039 Mesa29g03629 . . Mtr2g2173 Mtr8g1439 . . Phco10g00478 Phco9g01973 Prci7g1404 . . . Pste3g01722 Pste1g00180 . Pte15g01516 Pte1g01115 . Pumo4g02824 Pumo10g02537 Pvu5g0478 Pvu11g1872 Rops7g01827 . Seca4g06832 Seca4g09612 Spst5g01735 Spst11g00427 Ssu8g1503 . Sto4g1936 Sto7g0011 Tpr7g3111 Tpr7g1456 . Trre15g01676 Tsu06g01438 Tsu08g01620 . Vian5g00466 Vifa1g04385 Vifa4g00397 Vimu4g01576 Vimu5g00869 . . . . Vra5g2242 .
Vvi19g1425 . . . . . . Aed1g0230 . . . Ahy18g1959 . Aip08g02243 . . . . . Apr2g0692 . . . . . . . . Bva07g01387 . . Cca10g01501 . . . Dod10g0595 . . . . . Gma08g01490 Gma15g02517 . . Gso8g1348 Gso8g1348 . . . . . Lal20g0520 . Lal11g1558 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto7g0012 . . . . . . . . . . . . . . . . Vra5g2241 .
Vvi19g1426 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva07g01386 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja3g3994 . Mal4g2067 . . . . . . . Mtr2g2172 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Tsu06g01444 . . . . . . . . . . . . .
Vvi19g1427 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1428 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g1429 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst3g05433 Chr3 129045333 129049193 -
Vvi Vvi19g1420 Chr19 23495631 23508494 +
Bva Bva09g01176 Chr09 6290214 6292177 +
Bva Bva07g01392 Chr07 14284729 14286147 -
Lal Lal2g0693 Chr2 4229285 4239681 +
Mal Mal5g2118 Chr5 49925098 49928398 -
Mtr Mtr8g1446 Chr8 18030117 18033214 -
Sto Sto4g1913 Chr4 20076552 20078555 +
Tpr Tpr7g1446 Chr7 15924904 15930234 +
Tsu Tsu08g01635 Chr08 19525225 19528022 -
Vvi Vvi19g1421 Chr19 23509116 23515147 -
Apr Apr2g0689 Chr2 8561227 8568163 -
Apr Apr5g0812 Chr5 11676133 11686040 -
Arst Arst3g05433 Chr3 129045333 129049193 -
Bach Bach13g00569 Chr13 11080730 11087939 +
Bva Bva09g01181 Chr09 6311118 6324502 -
Bva Bva09g01181 Chr09 6311118 6324502 -
Cca Cca10g01494 Chr10 23847204 23858551 -
Dere Dere08g0049 Chr08 1466457 1484046 +
Glsi Glsi14g0658 Chr14 7304131 7314147 +
Gma Gma08g02152 Chr08 19965447 19973505 +
Gso Gso8g1945 Chr8 19582343 19589801 +
Lapu Lapu5g01292 Chr5 25830946 25842994 -
Lasa Lasa1g04535 Chr1 751623540 751626697 +
Lele Lele11g0405 Chr11 3883179 3889284 +
Lja Lja3g3992 Chr3 78745441 78751252 -
Mal Mal4g2059 Chr4 45637032 45642010 -
Mal Mal5g2111 Chr5 49832912 49837897 +
Mepo Mepo1g03196 Chr1 36605253 36611921 -
Mesa Mesa5g02032 Chr5 32736729 32740799 +
Mesa Mesa29g03621 Chr29 58764077 58764369 -
Mtr Mtr2g2178 Chr2 32555077 32559699 -
Mtr Mtr8g1442 Chr8 17984613 17990971 +
Phac Phac11g02373 Chr11 34750404 34759744 -
Phco Phco10g00481 Chr10 4697082 4712898 +
Phco Phco9g01968 Chr9 44556176 44567244 -
Prci Prci7g1409 Chr7 30097902 30108489 +
Psa Psa1g0365 Chr1 21947923 21951847 -
Pste Pste3g01724 Chr3 11014704 11027478 +
Pste Pste1g00215 Chr1 760094 776283 +
Pte Pte15g01517 Chr15 12449030 12451694 +
Pumo Pumo4g02830 Chr4 52267185 52281360 +
Pvu Pvu5g0482 Chr5 5085415 5096362 +
Pvu Pvu11g1867 Chr11 45507032 45518040 -
Rops Rops7g01822 Chr7 29009279 29018117 -
Rops Rops3g02300 Chr3 46252712 46263400 -
Seca Seca4g06823 Chr4 142808479 142818500 -
Seca Seca4g06822 Chr4 142800247 142803108 -
Spst Spst5g01734 Chr5 52991786 52997848 -
Spst Spst11g00429 Chr11 24992424 25005242 +
Ssu Ssu8g1502 Chr8 30783644 30795931 -
Sto Sto7g0009 Chr7 110910 119507 -
Tpr Tpr7g1453 Chr7 16074220 16081082 -
Trre Trre15g01678 Chr15 13481168 13487799 +
Tsu Tsu08g01628 Chr08 19368117 19375916 +
Vian Vian11g01370 Chr11 22680190 22690878 +
Vian Vian5g00470 Chr5 12880102 12889039 +
Vifa Vifa1g04388 Chr1 682017042 682020088 +
Vimu Vimu4g01577 Chr4 16826372 16831854 +
Vimu Vimu5g00886 Chr5 11818830 11831734 +
Viun Viun1g00874 Chr1 11480192 11488016 -
Vivi Vivi7g00095 Chr7 5251050 5256734 +
Vra Vra5g2243 Chr5 28531179 28546400 +
Vvi Vvi19g1422 Chr19 23540099 23540502 -
Vvi Vvi19g1423 Chr19 23555077 23621803 +
Bach Bach9g01056 Chr9 7946905 7959235 +
Bva Bva07g01389 Chr07 14256601 14269104 -
Gma Gma08g02147 Chr08 19802167 19859901 -
Gso Gso8g1943 Chr8 19476162 19550747 -
Lal Lal9g0607 Chr9 4097575 4119439 +
Lal Lal11g1553 Chr11 18618861 18635905 +
Lasa Lasa4g01273 Chr4 112557485 112580559 +
Lja Lja3g3993 Chr3 78753336 78778656 +
Mal Mal4g2061 Chr4 45753141 45845745 +
Mal Mal5g2107 Chr5 49686091 49708485 -
Mepo Mepo1g03199 Chr1 36663518 36687318 +
Mesa Mesa29g03628 Chr29 58905354 58924175 +
Mtr Mtr2g2174 Chr2 32430189 32526833 -
Mtr Mtr8g1440 Chr8 17905801 17926527 -
Phco Phco9g01972 Chr9 44602153 44627860 +
Pste Pste1g01450 Chr1 4571569 4581410 +
Pumo Pumo10g02538 Chr10 43630824 43656622 -
Pvu Pvu11g1871 Chr11 45566114 45585874 +
Seca Seca4g09611 Chr4 226541529 226578671 +
Spst Spst11g00428 Chr11 24967503 24988785 -
Sto Sto7g0010 Chr7 137385 181730 +
Tpr Tpr7g3112 Chr7 38524797 38533353 -
Tpr Tpr7g1455 Chr7 16094943 16116124 +
Trre Trre15g01677 Chr15 13455496 13473692 -
Tsu Tsu06g01437 Chr06 14237171 14239597 +
Tsu Tsu08g01621 Chr08 19225568 19244496 -
Vimu Vimu5g00872 Chr5 11514338 11540718 -
Vivi Vivi7g00077 Chr7 3980400 4015624 -
Vvi Vvi19g1424 Chr19 23626375 23627744 -
Aed Aed1g0236 Chr1 3937531 3939404 -
Apr Apr2g0690 Chr2 8579314 8581681 -
Bva Bva09g01184 Chr09 6336818 6338591 -
Bva Bva07g01388 Chr07 14254437 14256364 +
Cca Cca10g01495 Chr10 23892031 23895361 -
Dere Dere08g0047 Chr08 1415673 1417719 +
Gma Gma08g02146 Chr08 19730549 19734051 +
Gma Gma15g02077 Chr15 37796959 37802984 +
Gso Gso8g1942 Chr8 19437021 19440444 +
Gso Gso8g1942 Chr8 19437021 19440444 +
Lal Lal20g0518 Chr20 4441181 4443985 -
Lasa Lasa1g04531 Chr1 751538806 751540554 +
Lele Lele11g0401 Chr11 3850910 3857322 +
Mal Mal4g2062 Chr4 45846185 45848413 -
Mal Mal5g2106 Chr5 49682723 49684706 +
Mepo Mepo6g02538 Chr6 34722660 34724718 +
Mepo Mepo1g03200 Chr1 36685218 36687362 -
Mesa Mesa5g02039 Chr5 32879397 32881567 -
Mesa Mesa29g03629 Chr29 58924897 58926699 -
Mtr Mtr2g2173 Chr2 32428099 32430253 +
Mtr Mtr8g1439 Chr8 17903599 17905681 +
Phco Phco10g00478 Chr10 4632607 4635245 +
Phco Phco9g01973 Chr9 44628350 44630672 -
Prci Prci7g1404 Chr7 30060603 30062903 +
Pste Pste3g01722 Chr3 11008232 11011079 +
Pste Pste1g00180 Chr1 665371 669323 +
Pte Pte15g01516 Chr15 12441137 12442972 +
Pte Pte1g01115 Chr1 29980820 29982470 +
Pumo Pumo4g02824 Chr4 52169215 52169498 +
Pumo Pumo10g02537 Chr10 43614450 43616820 +
Pvu Pvu5g0478 Chr5 4989199 4991987 +
Pvu Pvu11g1872 Chr11 45585875 45588451 -
Rops Rops7g01827 Chr7 29110174 29112783 -
Seca Seca4g06832 Chr4 143047505 143050757 -
Seca Seca4g09612 Chr4 226578460 226580828 -
Spst Spst5g01735 Chr5 53001594 53003491 -
Spst Spst11g00427 Chr11 24965062 24967020 +
Ssu Ssu8g1503 Chr8 30808641 30813923 -
Sto Sto4g1936 Chr4 20495898 20502553 -
Sto Sto7g0011 Chr7 182275 183950 -
Tpr Tpr7g3111 Chr7 38521903 38523596 +
Tpr Tpr7g1456 Chr7 16116190 16118347 -
Trre Trre15g01676 Chr15 13452977 13454860 +
Tsu Tsu06g01438 Chr06 14240735 14243698 -
Tsu Tsu08g01620 Chr08 19223221 19225476 +
Vian Vian5g00466 Chr5 12629450 12631604 +
Vifa Vifa1g04385 Chr1 681913456 681913979 +
Vifa Vifa4g00397 Chr4 105599269 105600916 +
Vimu Vimu4g01576 Chr4 16810794 16817960 +
Vimu Vimu5g00869 Chr5 11451038 11453185 +
Vra Vra5g2242 Chr5 28524689 28527167 +
Vvi Vvi19g1425 Chr19 23628375 23629597 -
Aed Aed1g0230 Chr1 3861067 3863665 +
Ahy Ahy18g1959 Chr18 101944942 101947714 +
Aip Aip08g02243 Chr08 94164054 94166618 +
Apr Apr2g0692 Chr2 8587770 8589505 -
Bva Bva07g01387 Chr07 14251693 14253111 +
Cca Cca10g01501 Chr10 24080248 24082646 +
Dod Dod10g0595 Chr10 19086479 19088270 +
Gma Gma08g01490 Chr08 13004218 13010153 +
Gma Gma15g02517 Chr15 52928284 52930293 -
Gso Gso8g1348 Chr8 12826526 12828671 +
Gso Gso8g1348 Chr8 12826526 12828671 +
Lal Lal20g0520 Chr20 4458493 4464756 -
Lal Lal11g1558 Chr11 18656744 18658017 -
Sto Sto7g0012 Chr7 185584 188794 -
Vra Vra5g2241 Chr5 28519731 28522380 -
Vvi Vvi19g1426 Chr19 23631231 23631671 -
Bva Bva07g01386 Chr07 14250296 14251300 +
Lja Lja3g3994 Chr3 78779389 78779907 -
Mal Mal4g2067 Chr4 45927068 45927592 -
Mtr Mtr2g2172 Chr2 32425693 32426419 +
Tsu Tsu06g01444 Chr06 14389860 14390378 -
Vvi Vvi19g1427 Chr19 23634533 23647257 +
Vvi Vvi19g1428 Chr19 23650465 23650794 +
Vvi Vvi19g1429 Chr19 23667412 23683123 +