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
Vvi2g0062 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0063 . . . . . . Aed11g1749 . . Aev03g3110 . Ahy13g2774 . Aip03g03105 . . . . Apr7g0558 . . . . . . . Bva08g00104 Bva11g02173 . . Cca06g01825 . . . . Dod04g2777 . . . . Gma01g02229 Gma11g00187 . . Gso1g1894 Gso1g1894 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa2g4198 . . . . . . . . . . . . . . . . . Ssu2g2901 . Sto6g3179 Sto11g2216 . . . . . . . . . . . . . . . . Vra11g0251 .
Vvi2g0064 . . . . Adu03g02719 . . . . . . . . . . . . . . Apr2g1242 Arst3g03601 . Bach4g00089 . . . Bva08g00103 Bva11g02174 . Car06g00484 . . . . . . . . . . . . Gma05g02077 Gma08g00180 . . . . . . Lal23g0386 . . . . . . . . . Lapu3g03625 . Lasa7g04793 . . . . . . . . . Lja4g0378 Lja4g0378 . Mal7g4991 Mepo2g04677 . Mesa13g00441 . . . . Mtr8g3511 . . Phco4g03339 . . . . . Pste3g00922 . . . . . Pumo6g00453 . Pvu2g3024 . Rops2g00500 . Seca12g06544 . Spst3g01056 . . . . . . Tpr3g0601 Trre7g05505 . . Tsu02g00412 Vian1g03869 . . . Vimu11g04467 . Viun3g00521 . Vivi5g05987 . . .
Vvi2g0065 . . . . Adu05g01094 . Aed11g1750 . . Aev03g3111 . Ahy13g2773 . Aip03g03104 . . . . Apr7g0556 Apr2g1243 Arst5g01380 . . . . . . Bva11g02175 Car08g00200 Car06g00483 Cca06g01826 . . . . Dod04g2778 . . . . Gma01g02230 Gma11g00185 Gma05g02078 . Gso1g1895 Gso1g1895 Gso1g1895 . Lal15g0060 . . . Lal16g1180 . Lan18g1118 . . . Lan18g1118 . . . Lasa2g02756 . . . . . . . . . Lja4g0377 Lja4g0377 Mal6g0232 Mal7g4992 Mepo5g00320 . . . . . Mtr5g0270 Mtr8g3512 Phac2g04429 . Phco4g00273 . . . Psa2g4199 . Pste1g02028 . . . . . Pumo8g02367 . Pvu2g1656 . Rops1g02222 . Seca12g06545 . Spst2g00273 . Ssu2g2902 . Sto6g3178 . Tpr2g3894 Tpr3g0600 Trre9g00336 . Tsu05g00248 Tsu02g00411 Vian10g00229 . . . Vimu7g02417 . Viun2g02630 . Vivi2g02994 . Vra11g0250 .
Vvi2g0066 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0067 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0068 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0069 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0070 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0071 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00102 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0062 Chr2 634437 638469 -
Vvi Vvi2g0063 Chr2 641176 641817 +
Aed Aed11g1749 Chr11 21016619 21017230 +
Aev Aev03g3110 Chr03 29774819 29775499 +
Ahy Ahy13g2774 Chr13 107333108 107334321 -
Aip Aip03g03105 Chr03 98670657 98671681 -
Apr Apr7g0558 Chr7 11994722 11995279 -
Bva Bva08g00104 Chr08 526555 527151 -
Bva Bva11g02173 Chr11 17771198 17772046 +
Cca Cca06g01825 Chr06 33677034 33678695 +
Dod Dod04g2777 Chr04 51812616 51813805 +
Gma Gma01g02229 Chr01 57501675 57502331 +
Gma Gma11g00187 Chr11 1461381 1461914 -
Gso Gso1g1894 Chr1 55664956 55665612 +
Gso Gso1g1894 Chr1 55664956 55665612 +
Psa Psa2g4198 Chr2 422382837 422383826 +
Ssu Ssu2g2901 Chr2 90334610 90335266 +
Sto Sto6g3179 Chr6 38441340 38441873 -
Sto Sto11g2216 Chr11 21132360 21133001 -
Vra Vra11g0251 Chr11 1725874 1726752 -
Vvi Vvi2g0064 Chr2 647600 648181 +
Adu Adu03g02719 Chr03 99503717 99504668 -
Apr Apr2g1242 Chr2 18675320 18675985 +
Arst Arst3g03601 Chr3 98300738 98301887 -
Bach Bach4g00089 Chr4 606321 606989 -
Bva Bva08g00103 Chr08 524131 524981 -
Bva Bva11g02174 Chr11 17773817 17774667 +
Car Car06g00484 Chr06 4869093 4870020 -
Gma Gma05g02077 Chr05 42046460 42047134 +
Gma Gma08g00180 Chr08 1582393 1583460 +
Lal Lal23g0386 Chr23 6180838 6181500 +
Lapu Lapu3g03625 Chr3 59731267 59731938 +
Lasa Lasa7g04793 Chr7 688078404 688079078 +
Lja Lja4g0378 Chr4 3032568 3033680 -
Lja Lja4g0378 Chr4 3032568 3033680 -
Mal Mal7g4991 Chr7 118992734 118993417 +
Mepo Mepo2g04677 Chr2 55151679 55152623 +
Mesa Mesa13g00441 Chr13 5118285 5118728 -
Mtr Mtr8g3511 Chr8 45701020 45702075 +
Phco Phco4g03339 Chr4 53892141 53892812 +
Pste Pste3g00922 Chr3 5766038 5766709 -
Pumo Pumo6g00453 Chr6 5634192 5635203 -
Pvu Pvu2g3024 Chr2 45740939 45741936 +
Rops Rops2g00500 Chr2 7276968 7277636 -
Seca Seca12g06544 Chr12 157552048 157552707 +
Spst Spst3g01056 Chr3 13894103 13894771 -
Tpr Tpr3g0601 Chr3 5895290 5896368 -
Trre Trre7g05505 Chr7 60802599 60803279 +
Tsu Tsu02g00412 Chr02 3447499 3448623 -
Vian Vian1g03869 Chr1 61829076 61829747 +
Vimu Vimu11g04467 Chr11 65752803 65754017 +
Viun Viun3g00521 Chr3 3076133 3077053 -
Vivi Vivi5g05987 Chr5 164383690 164384881 +
Vvi Vvi2g0065 Chr2 659782 661278 +
Adu Adu05g01094 Chr05 14842486 14844573 -
Aed Aed11g1750 Chr11 21019089 21020877 -
Aev Aev03g3111 Chr03 29779828 29781438 -
Ahy Ahy13g2773 Chr13 107328904 107330434 +
Aip Aip03g03104 Chr03 98666572 98667841 +
Apr Apr7g0556 Chr7 11984227 11985937 +
Apr Apr2g1243 Chr2 18682575 18683839 -
Arst Arst5g01380 Chr5 14893811 14895954 -
Bva Bva11g02175 Chr11 17776194 17778329 -
Car Car08g00200 Chr08 1576717 1578419 +
Car Car06g00483 Chr06 4861767 4863442 +
Cca Cca06g01826 Chr06 33682257 33684055 -
Dod Dod04g2778 Chr04 51816849 51819629 -
Gma Gma01g02230 Chr01 57509102 57510758 -
Gma Gma11g00185 Chr11 1451787 1452946 +
Gma Gma05g02078 Chr05 42051409 42054587 -
Gso Gso1g1895 Chr1 55672359 55674280 -
Gso Gso1g1895 Chr1 55672359 55674280 -
Gso Gso1g1895 Chr1 55672359 55674280 -
Lal Lal15g0060 Chr15 427947 429514 +
Lal Lal16g1180 Chr16 8094324 8097031 +
Lan Lan18g1118 Chr18 16169050 16170944 -
Lan Lan18g1118 Chr18 16169050 16170944 -
Lasa Lasa2g02756 Chr2 509638370 509639662 +
Lja Lja4g0377 Chr4 3024700 3026158 +
Lja Lja4g0377 Chr4 3024700 3026158 +
Mal Mal6g0232 Chr6 3331229 3332801 -
Mal Mal7g4992 Chr7 118997290 118998517 -
Mepo Mepo5g00320 Chr5 2811962 2813698 +
Mtr Mtr5g0270 Chr5 2515215 2517494 +
Mtr Mtr8g3512 Chr8 45709839 45711691 -
Phac Phac2g04429 Chr2 42358934 42361608 -
Phco Phco4g00273 Chr4 1734698 1735993 +
Psa Psa2g4199 Chr2 422490440 422492566 -
Pste Pste1g02028 Chr1 6338784 6340315 +
Pumo Pumo8g02367 Chr8 60875588 60877495 -
Pvu Pvu2g1656 Chr2 30275094 30277510 -
Rops Rops1g02222 Chr1 44094000 44095685 -
Seca Seca12g06545 Chr12 157555201 157557072 -
Spst Spst2g00273 Chr2 2063697 2065001 +
Ssu Ssu2g2902 Chr2 90341163 90342465 -
Sto Sto6g3178 Chr6 38432717 38436587 +
Tpr Tpr2g3894 Chr2 41690885 41693382 -
Tpr Tpr3g0600 Chr3 5889182 5891262 +
Trre Trre9g00336 Chr9 2410070 2412246 +
Tsu Tsu05g00248 Chr05 1818933 1821628 +
Tsu Tsu02g00411 Chr02 3441603 3443481 +
Vian Vian10g00229 Chr10 2015094 2016412 +
Vimu Vimu7g02417 Chr7 20704983 20706303 +
Viun Viun2g02630 Chr2 32057222 32059175 -
Vivi Vivi2g02994 Chr2 128910546 128912413 -
Vra Vra11g0250 Chr11 1717959 1720481 +
Vvi Vvi2g0066 Chr2 662067 666143 -
Vvi Vvi2g0067 Chr2 666668 669028 -
Vvi Vvi2g0068 Chr2 670366 672560 -
Vvi Vvi2g0069 Chr2 674198 674380 +
Vvi Vvi2g0070 Chr2 678786 679886 +
Vvi Vvi2g0071 Chr2 681324 682908 -
Bva Bva08g00102 Chr08 520669 521876 +
Vivi Vivi5g05987 Chr5 164383690 164384881 +
Aed Aed11g1749 Chr11 21016619 21017230 +
Cca Cca06g01825 Chr06 33677034 33678695 +
Ssu Ssu2g2901 Chr2 90334610 90335266 +
Vra Vra11g0251 Chr11 1725874 1726752 -
Aed Aed11g1750 Chr11 21019089 21020877 -
Cca Cca06g01826 Chr06 33682257 33684055 -
Ssu Ssu2g2902 Chr2 90341163 90342465 -
Vra Vra11g0250 Chr11 1717959 1720481 +