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
Vvi2g0632 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0633 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0634 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0635 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0636 . . . . . . . Aed6g0610 . Aev01g0405 Ahy15g0448 Ahy11g1239 Aip05g00444 Aip01g01312 . . . . Apr7g0741 . . . . . . . Bva08g00388 Bva11g01921 Car08g00345 Car07g01293 Cca06g01644 Cca11g01533 . . Dod02g0917 Dod05g1305 . . . . Gma01g02065 Gma11g00350 . . Gso1g1740 Gso1g1740 . . . . . Lal15g0859 Lal16g0874 . . . . . . . . . . . . . . . . . . . Lja2g0154 Lja4g2720 Mal6g1507 . . . . . . . Mtr5g0472 Mtr4g3534 . . . . . . . Psa4g1786 . . . . . . . . . . . . . . . . Ssu2g2678 Ssu6g1684 . Sto11g1867 Tpr2g5567 Tpr5g2579 . . Tsu05g00431 . . . . . . . . . . . Vra11g0425 Vra7g1325
Vvi2g0637 Acco11g1884 . Accr9g00561 . Adu05g00469 . Aed11g1572 Aed6g0611 Aev05g0826 Aev01g0407 Ahy15g0449 Ahy11g1235 Aip05g00445 Aip01g01309 Alju09g1884 . . . Apr7g0742 . Arst5g00596 . Bach4g00336 . Bisa11g1226 . Bva08g00389 Bva11g01920 Car08g00346 Car07g01294 Cca06g01643 Cca11g01531 Dere09g0470 . Dod02g0916 Dod05g1304 Enph13g1208 . Glsi05g1834 . . Gma11g00351 . Gma17g01365 . . . . . . Lal23g0754 . Lal16g0872 Lal23g1250 . . . . . . Lapu2g00410 . Lasa2g02956 . Lele49g0454 . . Lele52g0489 . . . . Lja2g0156 . Mal6g1506 Mal5g3805 Mepo5g00539 . . . Mibi12g1626 . Mtr5g0473 Mtr4g3531 Phac2g00847 . Phco4g01295 . . . Psa2g3995 . Pste1g01282 . . . . . Pumo8g02131 . Pvu2g0023 . Rops1g01985 . Seca12g02116 . Spst3g04226 . Ssu2g2677 . Sto6g3465 Sto11g1865 Tpr2g5568 Tpr5g2580 Trre9g00594 . Tsu05g00439 Tsu04g02301 Vian10g00427 . Vifa1g07643 . Vimu7g02632 . Viun2g02336 . Vivi2g03635 . Vra11g0426 Vra7g1324
Vvi2g0638 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0639 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0640 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00390 . . Car07g01296 . Cca11g01530 . . . . . . . . . . . Gma17g01366 . . . . . . . Lal15g0857 . . . . . . . . . . . . . . . . . . . . . . . Mal5g3804 . . . . . . . Mtr4g3530 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu6g1685 Sto6g3466 . . Tpr5g2581 . . . Tsu04g02299 . . . . . . . . . . . .
Vvi2g0641 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0632 Chr2 5523371 5523828 -
Vvi Vvi2g0633 Chr2 5533954 5534423 -
Vvi Vvi2g0634 Chr2 5537681 5537878 +
Vvi Vvi2g0635 Chr2 5555980 5556374 -
Vvi Vvi2g0636 Chr2 5557832 5562087 -
Aed Aed6g0610 Chr6 5189544 5193117 -
Aev Aev01g0405 Chr01 3416830 3420493 -
Ahy Ahy15g0448 Chr15 5224570 5226846 -
Ahy Ahy11g1239 Chr11 40794645 40798517 +
Aip Aip05g00444 Chr05 5004518 5006334 -
Aip Aip01g01312 Chr01 38533420 38537042 +
Apr Apr7g0741 Chr7 14304276 14308154 -
Bva Bva08g00388 Chr08 1939253 1942668 -
Bva Bva11g01921 Chr11 16552846 16555768 +
Car Car08g00345 Chr08 2704905 2708825 -
Car Car07g01293 Chr07 11843831 11847284 -
Cca Cca06g01644 Chr06 31672113 31675148 +
Cca Cca11g01533 Chr11 38485741 38501943 +
Dod Dod02g0917 Chr02 11783347 11787071 +
Dod Dod05g1305 Chr05 36668558 36672341 +
Gma Gma01g02065 Chr01 56043329 56047137 +
Gma Gma11g00350 Chr11 2804109 2807829 -
Gso Gso1g1740 Chr1 54229523 54233368 +
Gso Gso1g1740 Chr1 54229523 54233368 +
Lal Lal15g0859 Chr15 6443927 6449138 +
Lal Lal16g0874 Chr16 5739429 5743519 +
Lja Lja2g0154 Chr2 1259963 1262685 -
Lja Lja4g2720 Chr4 41909151 41912659 +
Mal Mal6g1507 Chr6 28058785 28061735 +
Mtr Mtr5g0472 Chr5 4324033 4328239 -
Mtr Mtr4g3534 Chr4 49053623 49057102 +
Psa Psa4g1786 Chr4 125987668 125990914 -
Ssu Ssu2g2678 Chr2 86990169 86993205 +
Ssu Ssu6g1684 Chr6 28288219 28291700 -
Sto Sto11g1867 Chr11 17427180 17430263 +
Tpr Tpr2g5567 Chr2 64388611 64391555 -
Tpr Tpr5g2579 Chr5 47806301 47810101 -
Tsu Tsu05g00431 Chr05 3248717 3258579 -
Vra Vra11g0425 Chr11 3081845 3085141 -
Vra Vra7g1325 Chr7 30145375 30149634 +
Vvi Vvi2g0637 Chr2 5574398 5598021 +
Acco Acco11g1884 Chr11 33110482 33112858 +
Accr Accr9g00561 Chr9 6450456 6452914 -
Adu Adu05g00469 Chr05 4889488 4893551 +
Aed Aed11g1572 Chr11 19879344 19882897 -
Aed Aed6g0611 Chr6 5201038 5205299 +
Aev Aev05g0826 Chr05 5805914 5808788 -
Aev Aev01g0407 Chr01 3430346 3433565 +
Ahy Ahy15g0449 Chr15 5232643 5235218 +
Ahy Ahy11g1235 Chr11 40078196 40082896 -
Aip Aip05g00445 Chr05 5010480 5012283 +
Aip Aip01g01309 Chr01 37878839 37882107 -
Alju Alju09g1884 Chr09 42640510 42644396 +
Apr Apr7g0742 Chr7 14312336 14314400 +
Arst Arst5g00596 Chr5 4910297 4912667 +
Bach Bach4g00336 Chr4 2175898 2179908 +
Bisa Bisa11g1226 Chr11 30947529 30952600 +
Bva Bva08g00389 Chr08 1944905 1949024 +
Bva Bva11g01920 Chr11 16547008 16551598 -
Car Car08g00346 Chr08 2713059 2715557 +
Car Car07g01294 Chr07 11858486 11862451 +
Cca Cca06g01643 Chr06 31663639 31667401 -
Cca Cca11g01531 Chr11 38442646 38445839 -
Dere Dere09g0470 Chr09 7555298 7559158 +
Dod Dod02g0916 Chr02 11773589 11779310 -
Dod Dod05g1304 Chr05 36626898 36631392 -
Enph Enph13g1208 Chr13 17920942 17931335 -
Glsi Glsi05g1834 Chr05 65978180 65981290 -
Gma Gma11g00351 Chr11 2811100 2813221 +
Gma Gma17g01365 Chr17 12562000 12568453 +
Lal Lal23g0754 Chr23 10137236 10141984 +
Lal Lal16g0872 Chr16 5725684 5730146 -
Lal Lal23g1250 Chr23 13637713 13641016 +
Lapu Lapu2g00410 Chr2 3344297 3345331 +
Lasa Lasa2g02956 Chr2 515246434 515248140 +
Lele Lele49g0454 Chr49 2720126 2731922 -
Lele Lele52g0489 Chr52 2971028 2978338 -
Lja Lja2g0156 Chr2 1278658 1282168 +
Mal Mal6g1506 Chr6 28045660 28048617 -
Mal Mal5g3805 Chr5 106606106 106609353 -
Mepo Mepo5g00539 Chr5 4694598 4698961 +
Mibi Mibi12g1626 Chr12 32173828 32176841 +
Mtr Mtr5g0473 Chr5 4333047 4336213 +
Mtr Mtr4g3531 Chr4 49038936 49043046 -
Phac Phac2g00847 Chr2 5422214 5426532 -
Phco Phco4g01295 Chr4 11104288 11106986 -
Psa Psa2g3995 Chr2 414843221 414847293 -
Pste Pste1g01282 Chr1 4074815 4077231 +
Pumo Pumo8g02131 Chr8 58337066 58340099 -
Pvu Pvu2g0023 Chr2 224863 226115 +
Rops Rops1g01985 Chr1 40144834 40147590 -
Seca Seca12g02116 Chr12 26539531 26543962 +
Spst Spst3g04226 Chr3 93660800 93663713 -
Ssu Ssu2g2677 Chr2 86977031 86979983 -
Sto Sto6g3465 Chr6 40316868 40318928 +
Sto Sto11g1865 Chr11 17410953 17413854 -
Tpr Tpr2g5568 Chr2 64394085 64397043 +
Tpr Tpr5g2580 Chr5 47817302 47821560 +
Trre Trre9g00594 Chr9 4245367 4247974 +
Tsu Tsu05g00439 Chr05 3326923 3329718 -
Tsu Tsu04g02301 Chr04 25679779 25683796 -
Vian Vian10g00427 Chr10 3834025 3836008 +
Vifa Vifa1g07643 Chr1 1186742573 1186746022 -
Vimu Vimu7g02632 Chr7 22192278 22194855 +
Viun Viun2g02336 Chr2 30635158 30638663 -
Vivi Vivi2g03635 Chr2 145615545 145620174 -
Vra Vra11g0426 Chr11 3088307 3090966 +
Vra Vra7g1324 Chr7 30121024 30125116 -
Vvi Vvi2g0638 Chr2 5599977 5600417 +
Vvi Vvi2g0639 Chr2 5602092 5602402 -
Vvi Vvi2g0640 Chr2 5607265 5609423 +
Bva Bva08g00390 Chr08 1950349 1953275 +
Car Car07g01296 Chr07 11873092 11875170 +
Cca Cca11g01530 Chr11 38431551 38434508 -
Gma Gma17g01366 Chr17 12580145 12582901 +
Lal Lal15g0857 Chr15 6426667 6428628 -
Mal Mal5g3804 Chr5 106596069 106598129 -
Mtr Mtr4g3530 Chr4 49029031 49032962 -
Ssu Ssu6g1685 Chr6 28414997 28417054 +
Sto Sto6g3466 Chr6 40320308 40322251 +
Tpr Tpr5g2581 Chr5 47824180 47827708 +
Tsu Tsu04g02299 Chr04 25653544 25656449 -
Vvi Vvi2g0641 Chr2 5619035 5619268 +
Apr Apr7g0741 Chr7 14304276 14308154 -
Car Car08g00345 Chr08 2704905 2708825 -
Mal Mal6g1507 Chr6 28058785 28061735 +
Mtr Mtr5g0472 Chr5 4324033 4328239 -
Tpr Tpr2g5567 Chr2 64388611 64391555 -
Tsu Tsu05g00431 Chr05 3248717 3258579 -