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
Vvi17g0243 . . . . . . . . . . . . . . . . . . . Apr2g1557 . . . . . . . Bva03g00724 . Car06g00178 . Cca09g02808 . . . . . . . . . Gma08g00495 . . . . . . . . Lal23g0689 . . . . . . . . . . . . . . . . . . . . . . Lja4g0039 Mal5g0405 . . . . . . . Mtr8g3855 . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g3474 . Sto8g2233 Tpr3g0251 . . . Tsu02g00052 . . . . . . . . . . . . .
Vvi17g0244 . . . . . . . . Aev05g3495 . Ahy15g2672 . Aip05g02983 . . . . . Apr6g1008 . . . . . . . Bva04g00863 . . . . . . . Dod02g3720 . . . . . . . . . . . . . . . . . Lal10g0959 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0245 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0246 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g00862 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g2169 . . Mal6g3645 . . . . . . . Mtr6g2099 Phac4g01995 . . . . . Psa1g0779 . Pste9g01447 . . . . . Pumo6g02959 . Pvu4g1605 . . . Seca10g04802 . Spst4g02816 . . . . . . . . . . . Vian8g01418 . . . Vimu8g01621 . Viun4g00370 . . . . .
Vvi17g0247 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0248 . . . . . . . Aed5g2633 Aev05g3494 . Ahy15g2673 . Aip05g02984 . . . . . . Apr2g1556 . . . Bach1g01465 . . Bva04g00861 Bva03g00722 . Car06g00179 . Cca09g02807 . . Dod02g3719 . . . . . . Gma08g00494 Gma05g02364 Gma09g01650 . . . . . Lal16g0954 Lal23g0688 Lal8g0460 Lal10g0960 Lal25g0473 . . . . . . . Lapu3g03931 . Lasa7g05256 . . . . . . . . . Lja4g0040 Mal5g0404 . . Mepo2g05075 . Mesa13g00057 . . Mtr8g3854 . . Phac2g04901 . Phco4g03703 . . . Psa7g0088 . . . . . . . Pumo6g00082 . Pvu2g3370 . Rops2g00079 . Seca12g06968 . Spst3g00688 . Ssu5g3473 . Sto8g2231 Tpr3g0252 . . Trre7g05945 Tsu02g00053 . . Vian1g04194 . Vifa6g04119 . Vimu11g04898 . Viun3g00086 . Vivi5g06526 . .
Vvi17g0249 . . . . . . . Aed5g2632 . . . . . . . . . . . Apr2g1555 . Arst5g01953 . Bach1g01466 . . Bva04g00860 Bva03g00721 . Car06g00180 . Cca09g02806 . . . . . . . . . Gma08g00493 Gma05g02363 . . . . . Lal15g0924 Lal16g0956 Lal23g0687 . . . . . . . . . . Lapu3g03930 . Lasa7g05255 . . . . . . . . . Lja4g0041 Mal5g0403 . . Mepo2g05074 . Mesa13g00058 . . Mtr8g3853 . . Phac2g04900 . Phco4g03701 . . . Psa7g0089 . . . . . . . Pumo6g00083 . Pvu2g3369 . Rops2g00080 . Seca12g06967 . Spst3g00689 . Ssu5g3472 . Sto8g2230 Tpr3g0253 . . . Tsu02g00054 . . Vian1g04193 . Vifa6g04118 . Vimu11g04897 . Viun3g00088 . Vivi5g06528 . .
Vvi17g0250 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0251 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0252 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi17g0243 Chr17 2507238 2509659 -
Apr Apr2g1557 Chr2 21427081 21430801 +
Bva Bva03g00724 Chr03 4331249 4332725 +
Car Car06g00178 Chr06 2003668 2007766 -
Cca Cca09g02808 Chr09 53677370 53681381 +
Gma Gma08g00495 Chr08 4104658 4107971 +
Lal Lal23g0689 Chr23 9585945 9591413 +
Lja Lja4g0039 Chr4 315474 319273 -
Mal Mal5g0405 Chr5 6095113 6098370 +
Mtr Mtr8g3855 Chr8 49222333 49225558 +
Ssu Ssu5g3474 Chr5 85578493 85582154 +
Sto Sto8g2233 Chr8 14789480 14797096 +
Tpr Tpr3g0251 Chr3 2966790 2970340 -
Tsu Tsu02g00052 Chr02 324794 328319 -
Vvi Vvi17g0244 Chr17 2514165 2519530 +
Aev Aev05g3495 Chr05 34200221 34206015 -
Ahy Ahy15g2672 Chr15 142932408 142938492 +
Aip Aip05g02983 Chr05 132035407 132041328 +
Apr Apr6g1008 Chr6 14776970 14785424 +
Bva Bva04g00863 Chr04 5655866 5661227 -
Dod Dod02g3720 Chr02 75951434 75959289 -
Lal Lal10g0959 Chr10 16900051 16916787 +
Vvi Vvi17g0245 Chr17 2522142 2529652 -
Vvi Vvi17g0246 Chr17 2530493 2534945 +
Bva Bva04g00862 Chr04 5652870 5656430 -
Lja Lja2g2169 Chr2 24510788 24518385 -
Mal Mal6g3645 Chr6 106691263 106698104 -
Mtr Mtr6g2099 Chr6 37597158 37604860 -
Phac Phac4g01995 Chr4 46594911 46604126 -
Psa Psa1g0779 Chr1 49990920 49997854 +
Pste Pste9g01447 Chr9 13937371 13945128 -
Pumo Pumo6g02959 Chr6 70251618 70258200 -
Pvu Pvu4g1605 Chr4 43309332 43318471 -
Seca Seca10g04802 Chr10 110586934 110593880 +
Spst Spst4g02816 Chr4 67858257 67868370 +
Vian Vian8g01418 Chr8 33506668 33514443 -
Vimu Vimu8g01621 Chr8 22057378 22058727 +
Viun Viun4g00370 Chr4 2364990 2372045 +
Vvi Vvi17g0247 Chr17 2535458 2535855 +
Vvi Vvi17g0248 Chr17 2538382 2540667 +
Aed Aed5g2633 Chr5 26972083 26973822 +
Aev Aev05g3494 Chr05 34196959 34198942 +
Ahy Ahy15g2673 Chr15 142962748 142965086 +
Aip Aip05g02984 Chr05 132060905 132061422 +
Apr Apr2g1556 Chr2 21421678 21423721 +
Bach Bach1g01465 Chr1 28162821 28165019 -
Bva Bva04g00861 Chr04 5650204 5652119 +
Bva Bva03g00722 Chr03 4324570 4326583 +
Car Car06g00179 Chr06 2015472 2017777 -
Cca Cca09g02807 Chr09 53671213 53673195 +
Dod Dod02g3719 Chr02 75940916 75943839 +
Gma Gma08g00494 Chr08 4095601 4097637 +
Gma Gma05g02364 Chr05 44511200 44513146 +
Gma Gma09g01650 Chr09 42015831 42017120 +
Lal Lal16g0954 Chr16 6336134 6341752 -
Lal Lal23g0688 Chr23 9582024 9584446 +
Lal Lal8g0460 Chr8 3058812 3061402 -
Lal Lal10g0960 Chr10 16918799 16921494 +
Lal Lal25g0473 Chr25 3260388 3263061 -
Lapu Lapu3g03931 Chr3 62787575 62790537 +
Lasa Lasa7g05256 Chr7 718303763 718305294 +
Lja Lja4g0040 Chr4 321597 323615 -
Mal Mal5g0404 Chr5 6088959 6090577 +
Mepo Mepo2g05075 Chr2 58665336 58668225 +
Mesa Mesa13g00057 Chr13 677180 678163 -
Mtr Mtr8g3854 Chr8 49212994 49215304 +
Phac Phac2g04901 Chr2 45333224 45335290 +
Phco Phco4g03703 Chr4 56616428 56617953 +
Psa Psa7g0088 Chr7 6575749 6577680 -
Pumo Pumo6g00082 Chr6 907904 910017 -
Pvu Pvu2g3370 Chr2 48558739 48560657 +
Rops Rops2g00079 Chr2 1322241 1324200 -
Seca Seca12g06968 Chr12 161671990 161674851 +
Spst Spst3g00688 Chr3 10301461 10302942 -
Ssu Ssu5g3473 Chr5 85547420 85548960 +
Sto Sto8g2231 Chr8 14776379 14778500 +
Tpr Tpr3g0252 Chr3 2973349 2975255 -
Trre Trre7g05945 Chr7 63869866 63871400 +
Tsu Tsu02g00053 Chr02 332689 335249 -
Vian Vian1g04194 Chr1 64930398 64931933 +
Vifa Vifa6g04119 Chr6 1356084694 1356086648 +
Vimu Vimu11g04898 Chr11 68638250 68639796 +
Viun Viun3g00086 Chr3 406332 408250 -
Vivi Vivi5g06526 Chr5 172079392 172081405 -
Vvi Vvi17g0249 Chr17 2544905 2556529 +
Aed Aed5g2632 Chr5 26963615 26969920 -
Apr Apr2g1555 Chr2 21409304 21414129 -
Arst Arst5g01953 Chr5 25982873 25986467 +
Bach Bach1g01466 Chr1 28167817 28174111 +
Bva Bva04g00860 Chr04 5643253 5649199 -
Bva Bva03g00721 Chr03 4316909 4323417 -
Car Car06g00180 Chr06 2023843 2028522 +
Cca Cca09g02806 Chr09 53657502 53666209 -
Gma Gma08g00493 Chr08 4089665 4094331 -
Gma Gma05g02363 Chr05 44501761 44507750 -
Lal Lal15g0924 Chr15 7074788 7080735 +
Lal Lal16g0956 Chr16 6342037 6350703 +
Lal Lal23g0687 Chr23 9568183 9573992 -
Lapu Lapu3g03930 Chr3 62779931 62784551 -
Lasa Lasa7g05255 Chr7 718191931 718195737 -
Lja Lja4g0041 Chr4 325161 331489 +
Mal Mal5g0403 Chr5 6078036 6083945 -
Mepo Mepo2g05074 Chr2 58658207 58663910 -
Mesa Mesa13g00058 Chr13 685326 690581 +
Mtr Mtr8g3853 Chr8 49205042 49210815 -
Phac Phac2g04900 Chr2 45324125 45328930 -
Phco Phco4g03701 Chr4 56610431 56613570 -
Psa Psa7g0089 Chr7 6633261 6638125 +
Pumo Pumo6g00083 Chr6 931647 939810 +
Pvu Pvu2g3369 Chr2 48548678 48553574 -
Rops Rops2g00080 Chr2 1326322 1331614 +
Seca Seca12g06967 Chr12 161669015 161670466 -
Spst Spst3g00689 Chr3 10344019 10348065 +
Ssu Ssu5g3472 Chr5 85526406 85530624 -
Sto Sto8g2230 Chr8 14762447 14767235 -
Tpr Tpr3g0253 Chr3 2976679 2982402 +
Tsu Tsu02g00054 Chr02 337443 343830 +
Vian Vian1g04193 Chr1 64923861 64927681 -
Vifa Vifa6g04118 Chr6 1354807078 1354815592 -
Vimu Vimu11g04897 Chr11 68630759 68635527 -
Viun Viun3g00088 Chr3 417249 420901 +
Vivi Vivi5g06528 Chr5 172091624 172096301 +
Vvi Vvi17g0250 Chr17 2559221 2561770 -
Vvi Vvi17g0251 Chr17 2563812 2564480 -
Vvi Vvi17g0252 Chr17 2564537 2565658 -