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
Vvi19g0290 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0291 Acco01g3295 . Accr1g02973 . . . Aed1g0622 Aed5g1133 Aev10g1389 . Ahy18g1322 . Aip08g01415 . Alju02g0728 . Amo18g1538 . Apr2g0380 . Arst8g02747 . Bach13g00798 . Bisa12g0602 . Bva09g00844 Bva07g01769 Car01g02061 . Cca10g01084 Cca04g01403 Dere08g0460 . Dod10g1011 . Enph3g0997 . Glsi14g1080 . Gma06g02260 . Gma12g02096 Gma13g02465 Gso6g2063 . Gso6g2063 Gso6g2063 . . . Lal20g0320 . . . . . . . . . . . . . . . . . . . . . . . . Mepo6g03138 . . . Mibi01g0636 . Mtr2g2653 . . . Phco10g00908 . Prci7g1919 . Psa5g5623 . Pste3g02418 . . Pte15g01706 . . . . Pvu5g0853 . . . . . . . Ssu8g1130 . . Sto4g2877 Tpr7g3560 . . . Tsu02g04419 . . . . . . . . . . . Vra5g2871 .
Vvi19g0292 Acco01g3294 . Accr1g02972 . . . Aed1g0623 . Aev10g1390 . Ahy18g1321 . Aip08g01414 . Alju02g0729 . Amo18g1537 . Apr2g0379 . . . Bach13g00799 . Bisa12g0601 . Bva09g00843 Bva09g00843 Car01g02063 . Cca10g01083 . Dere08g0459 . Dod10g1012 . Enph3g0996 . Glsi14g1078 . . . Gma12g02095 Gma13g02466 . . . . . . . Lal20g0319 . . . . . . . . . . . . Lele09g0691 Lele10g0630 Lele11g0701 Lele12g0636 . . . . . . . . Mepo6g03139 . Mesa5g01424 . Mibi01g0637 . Mtr2g2654 . . . Phco10g00910 . Prci7g1917 . . . Pste3g02421 . . . . . . . Pvu5g0855 . . . . . . . Ssu8g1129 . . . Tpr7g3561 . . . Tsu02g04421 . . . . . . . . . . . . .
Vvi19g0293 Acco01g3293 . Accr1g02971 . Adu08g01999 . Aed1g0628 . Aev10g1392 . Ahy18g1314 . Aip08g01406 . Alju02g0730 . Amo18g1528 . Apr2g0377 . Arst8g02744 . Bach13g00800 . Bisa12g0600 . Bva09g00842 Bva09g00842 Car01g02065 . Cca10g01079 . Dere08g0458 . Dod10g1016 . Enph3g0995 . Glsi14g1077 . . . Gma12g02093 Gma13g02468 . . . . . . . . . . . . . . . . . . Lasa1g05035 . Lele09g0690 Lele10g0629 Lele11g0700 Lele12g0637 . . . . . . Mal4g1045 . . . . . Mibi01g0638 . Mtr2g2656 . Phac5g01204 . Phco10g00915 . Prci7g1915 . Psa5g5629 . Pste3g02434 . . . . . Pumo4g03460 . Pvu5g0858 . Rops7g01348 . Seca4g06072 . . . Ssu8g1123 . . . Tpr7g3565 . . . . . Vian11g00998 . Vifa1g02898 . . . Viun5g02663 . Vivi2g06617 . . .
Vvi19g0294 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0295 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0296 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0297 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0298 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi19g0299 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vra Vra5g2871 Chr5 36962731 36965487 +
Vvi Vvi19g0290 Chr19 3075867 3076310 +
Vvi Vvi19g0291 Chr19 3077197 3091229 -
Acco Acco01g3295 Chr01 50135294 50142406 +
Accr Accr1g02973 Chr1 66470490 66476160 +
Aed Aed1g0622 Chr1 7536131 7544652 -
Aed Aed5g1133 Chr5 9635224 9643222 +
Aev Aev10g1389 Chr10 17254401 17259921 -
Ahy Ahy18g1322 Chr18 24261547 24268641 +
Aip Aip08g01415 Chr08 23041581 23048750 +
Alju Alju02g0728 Chr02 5365971 5371640 -
Amo Amo18g1538 Chr18 30121498 30124724 +
Apr Apr2g0380 Chr2 4539831 4547695 +
Arst Arst8g02747 Chr8 37863240 37870333 +
Bach Bach13g00798 Chr13 13438334 13439048 -
Bisa Bisa12g0602 Chr12 8910791 8919839 +
Bva Bva09g00844 Chr09 4369419 4375125 +
Bva Bva07g01769 Chr07 16258863 16266218 -
Car Car01g02061 Chr01 45946601 45954553 -
Cca Cca10g01084 Chr10 13708873 13717491 +
Cca Cca04g01403 Chr04 18489557 18504151 +
Dere Dere08g0460 Chr08 7058184 7065614 +
Dod Dod10g1011 Chr10 28163778 28171717 -
Enph Enph3g0997 Chr3 31180921 31193027 +
Glsi Glsi14g1080 Chr14 11845526 11852882 +
Gma Gma06g02260 Chr06 42148849 42154637 -
Gma Gma12g02096 Chr12 41749995 41756707 +
Gma Gma13g02465 Chr13 39448279 39455609 -
Gso Gso6g2063 Chr6 38188499 38194471 -
Gso Gso6g2063 Chr6 38188499 38194471 -
Gso Gso6g2063 Chr6 38188499 38194471 -
Lal Lal20g0320 Chr20 2552766 2559219 +
Mepo Mepo6g03138 Chr6 43060413 43066019 -
Mibi Mibi01g0636 Chr01 6117903 6124019 -
Mtr Mtr2g2653 Chr2 39587092 39593685 -
Phco Phco10g00908 Chr10 26126877 26155045 -
Prci Prci7g1919 Chr7 33618638 33627246 +
Psa Psa5g5623 Chr5 489845318 489852542 -
Pste Pste3g02418 Chr3 17089634 17097317 -
Pte Pte15g01706 Chr15 17628459 17631548 +
Pvu Pvu5g0853 Chr5 19827114 19833447 -
Ssu Ssu8g1130 Chr8 20047434 20054716 +
Sto Sto4g2877 Chr4 29394542 29399103 -
Tpr Tpr7g3560 Chr7 44196255 44202104 -
Tsu Tsu02g04419 Chr02 53005105 53010609 -
Vra Vra5g2871 Chr5 36962731 36965487 +
Vvi Vvi19g0292 Chr19 3098585 3107848 -
Acco Acco01g3294 Chr01 50120890 50126556 +
Accr Accr1g02972 Chr1 66456878 66462523 +
Aed Aed1g0623 Chr1 7546572 7551161 -
Aev Aev10g1390 Chr10 17265764 17269599 -
Ahy Ahy18g1321 Chr18 24251632 24255832 +
Aip Aip08g01414 Chr08 23033804 23037968 +
Alju Alju02g0729 Chr02 5376712 5382980 -
Amo Amo18g1537 Chr18 30110441 30114668 +
Apr Apr2g0379 Chr2 4528410 4534203 +
Bach Bach13g00799 Chr13 13442470 13446714 -
Bisa Bisa12g0601 Chr12 8902345 8910334 +
Bva Bva09g00843 Chr09 4363078 4367914 +
Bva Bva09g00843 Chr09 4363078 4367914 +
Car Car01g02063 Chr01 45968325 45973475 -
Cca Cca10g01083 Chr10 13698864 13704186 +
Dere Dere08g0459 Chr08 7039591 7045986 +
Dod Dod10g1012 Chr10 28177414 28182543 -
Enph Enph3g0996 Chr3 31169109 31177096 +
Glsi Glsi14g1078 Chr14 11831819 11838210 +
Gma Gma12g02095 Chr12 41741432 41746900 +
Gma Gma13g02466 Chr13 39460179 39465770 -
Lal Lal20g0319 Chr20 2542876 2549364 +
Lele Lele09g0691 Chr09 5246890 5252540 +
Lele Lele10g0630 Chr10 4649166 4652926 +
Lele Lele11g0701 Chr11 6654298 6660057 +
Lele Lele12g0636 Chr12 14724650 14728476 -
Mepo Mepo6g03139 Chr6 43074970 43080579 -
Mesa Mesa5g01424 Chr5 20436684 20442462 +
Mibi Mibi01g0637 Chr01 6131174 6136526 -
Mtr Mtr2g2654 Chr2 39601020 39606501 -
Phco Phco10g00910 Chr10 26177683 26180608 -
Prci Prci7g1917 Chr7 33608735 33615586 +
Pste Pste3g02421 Chr3 17111583 17117697 -
Pvu Pvu5g0855 Chr5 19894204 19895511 -
Ssu Ssu8g1129 Chr8 20034786 20040138 +
Tpr Tpr7g3561 Chr7 44212251 44213145 -
Tsu Tsu02g04421 Chr02 53034211 53040018 -
Vvi Vvi19g0293 Chr19 3110547 3131158 +
Acco Acco01g3293 Chr01 50110840 50118451 -
Accr Accr1g02971 Chr1 66438827 66453522 -
Adu Adu08g01999 Chr08 33429373 33435900 -
Aed Aed1g0628 Chr1 7590757 7593170 +
Aev Aev10g1392 Chr10 17280931 17289718 +
Ahy Ahy18g1314 Chr18 24018859 24026086 -
Aip Aip08g01406 Chr08 22825381 22832093 -
Alju Alju02g0730 Chr02 5392099 5399858 +
Amo Amo18g1528 Chr18 29887601 29894855 -
Apr Apr2g0377 Chr2 4509917 4519877 -
Arst Arst8g02744 Chr8 37817324 37824040 -
Bach Bach13g00800 Chr13 13447856 13458804 +
Bisa Bisa12g0600 Chr12 8887220 8898956 -
Bva Bva09g00842 Chr09 4352062 4362422 -
Bva Bva09g00842 Chr09 4352062 4362422 -
Car Car01g02065 Chr01 45980509 45993420 +
Cca Cca10g01079 Chr10 13558739 13579751 -
Dere Dere08g0458 Chr08 7022268 7036868 -
Dod Dod10g1016 Chr10 28204817 28205291 -
Enph Enph3g0995 Chr3 31155418 31164927 -
Glsi Glsi14g1077 Chr14 11818614 11830082 -
Gma Gma12g02093 Chr12 41700310 41713260 -
Gma Gma13g02468 Chr13 39486020 39494341 +
Lasa Lasa1g05035 Chr1 817128413 817136751 +
Lele Lele09g0690 Chr09 5236811 5244473 -
Lele Lele10g0629 Chr10 4640777 4647279 -
Lele Lele11g0700 Chr11 6642957 6650661 -
Lele Lele12g0637 Chr12 14730750 14739999 +
Mal Mal4g1045 Chr4 14551035 14561794 +
Mibi Mibi01g0638 Chr01 6145215 6152884 +
Mtr Mtr2g2656 Chr2 39626202 39636679 +
Phac Phac5g01204 Chr5 18056644 18065454 -
Phco Phco10g00915 Chr10 26634270 26642230 +
Prci Prci7g1915 Chr7 33595161 33604140 -
Psa Psa5g5629 Chr5 490259920 490269815 +
Pste Pste3g02434 Chr3 17197848 17207533 +
Pumo Pumo4g03460 Chr4 72531237 72534196 +
Pvu Pvu5g0858 Chr5 19994613 20003048 +
Rops Rops7g01348 Chr7 18496828 18502829 +
Seca Seca4g06072 Chr4 118730440 118749079 -
Ssu Ssu8g1123 Chr8 19974195 19983367 -
Tpr Tpr7g3565 Chr7 44224786 44234538 +
Vian Vian11g00998 Chr11 13032511 13034446 -
Vifa Vifa1g02898 Chr1 452503921 452512854 -
Viun Viun5g02663 Chr5 37850877 37853837 +
Vivi Vivi2g06617 Chr2 202812456 202821924 +
Vvi Vvi19g0294 Chr19 3167379 3183071 -
Vvi Vvi19g0295 Chr19 3197031 3197336 +
Vvi Vvi19g0296 Chr19 3220030 3220137 -
Vvi Vvi19g0297 Chr19 3234545 3237736 -
Vvi Vvi19g0298 Chr19 3247058 3248771 -
Vvi Vvi19g0299 Chr19 3253184 3253999 -