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
Vvi2g0142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0143 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3122 . . . . . . . . . . . . . . . . . . .
Vvi2g0145 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0146 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0147 . . . . Adu05g01121 . Aed11g1778 . . Aev03g3141 . Ahy13g2716 . Aip03g03048 . . . . Apr7g0530 Apr2g1270 Arst5g01413 . Bach4g00054 . . . Bva08g00057 Bva11g02211 Car08g00182 . Cca06g01851 . . . . Dod04g2809 . . . . Gma01g02252 Gma11g00164 . . Gso1g1915 Gso1g1915 . . . Lal16g0077 Lal23g0440 Lal15g1451 . Lal23g1553 . . . . . . . . Lasa2g02730 . . . . . . . . . Lja4g0344 Lja4g0344 Mal6g0266 . Mepo5g00285 . Mesa17g00288 . . . Mtr5g0245 . . . Phco4g00243 . . . . . Pste1g01887 . . . . . Pumo8g02395 . Pvu2g1685 . Rops1g02251 . Seca12g06587 . Spst2g00241 . Ssu2g2939 . Sto6g3120 . Tpr2g3916 . Trre9g00305 . Tsu05g00226 . Vian10g00208 . Vifa1g07978 . Vimu7g02392 . Viun2g02666 . Vivi2g03953 . Vra11g0229 .
Vvi2g0148 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0149 Acco11g1523 . Accr9g00922 . Adu03g02656 . . . . . . . . . Alju09g1520 . . . . Apr2g1271 Arst3g03529 . Bach4g00053 . Bisa11g0853 . Bva08g00056 Bva11g02212 . Car06g00452 . . Dere09g0098 . . . Enph13g1481 . Glsi05g2188 . . . Gma05g02108 Gma08g00212 . . . . . . Lal23g0455 . Lal16g1156 . . . . . . . Lapu3g03659 . Lasa7g04867 . . . . . . . . . Lja4g0343 Lja4g0343 . Mal7g5030 Mepo2g04719 . Mesa13g00398 . Mibi12g1287 . . Mtr8g3544 . . Phco4g03383 . Prci10g1176 . . . Pste3g00839 . . Pte12g00020 . . Pumo6g00415 . Pvu2g3063 . Rops2g00462 . . . Spst3g01013 . . . Sto6g3118 . . Tpr3g0568 . . . Tsu02g00375 Vian1g03903 . Vifa6g03673 . Vimu11g04514 . Viun3g00476 . . . . .
Vvi2g0150 . . . . Adu05g01122 . Aed11g1779 . . . . . . . . . . . Apr7g0529 . Arst5g01414 . . . . . Bva08g00055 Bva11g02213 Car08g00181 . Cca06g01852 . . . . . . . . . Gma01g02253 Gma11g00163 . . Gso1g1916 Gso1g1916 . . Lal15g0057 . . . . . Lan18g1122 . . . . . . . Lasa2g02729 . . . . . . . . . . . Mal6g0267 . Mepo5g00283 . . . . . Mtr5g0244 . . . Phco4g00242 . . . Psa2g4224 . Pste1g01879 . . . . . Pumo8g02396 . Pvu2g1687 . Rops1g02252 . Seca10g00270 . Spst2g00239 . Ssu2g2940 . . Sto11g2182 Tpr2g3917 . . . Tsu05g00225 . Vian10g00204 . Vifa1g07981 . Vimu7g02390 . . . . . Vra11g0228 .
Vvi2g0151 Acco11g1521 . Accr9g00924 . Adu03g02655 . . . . Aev03g3143 . Ahy13g2710 . Aip03g03044 Alju09g1518 . . Amo13g3287 . Apr2g1272 Arst3g03528 . . . Bisa11g0852 . . Bva11g02214 . Car06g00451 . . Dere09g0096 . . Dod04g2813 Enph13g1483 . Glsi05g2189 . . . Gma05g02109 . . . . . . . . . Lal16g1155 . . . . . . . Lapu3g03660 . Lasa7g04869 . Lele49g0735 Lele50g0775 Lele51g0755 Lele52g0762 . . . . Lja4g0342 Lja4g0342 . Mal7g5031 Mepo2g04720 . Mesa13g00397 . Mibi12g1286 . . Mtr8g3545 . . Phco4g03384 . Prci10g1178 . . . Pste3g00837 . . . . . Pumo6g00414 . Pvu2g3064 . Rops2g00460 . Seca12g06589 . Spst3g01012 . . . Sto6g3117 . . Tpr3g0567 Trre7g05551 . . Tsu02g00374 Vian1g03904 . Vifa6g03674 . Vimu11g04516 . Viun3g00475 . Vivi5g06049 . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0142 Chr2 1244909 1246172 -
Vvi Vvi2g0143 Chr2 1249009 1249772 +
Vvi Vvi2g0144 Chr2 1253297 1258117 -
Sto Sto6g3122 Chr6 38076362 38079673 +
Vvi Vvi2g0145 Chr2 1261463 1263545 -
Vvi Vvi2g0146 Chr2 1267453 1273472 +
Vvi Vvi2g0147 Chr2 1274105 1275209 -
Adu Adu05g01121 Chr05 15521460 15522858 -
Aed Aed11g1778 Chr11 21166572 21167462 -
Aev Aev03g3141 Chr03 29967414 29968337 -
Ahy Ahy13g2716 Chr13 101640597 101641797 +
Aip Aip03g03048 Chr03 93673579 93674764 +
Apr Apr7g0530 Chr7 11759341 11761052 +
Apr Apr2g1270 Chr2 18936864 18937802 -
Arst Arst5g01413 Chr5 15572359 15573785 -
Bach Bach4g00054 Chr4 379943 380869 +
Bva Bva08g00057 Chr08 323865 325352 +
Bva Bva11g02211 Chr11 17950841 17952407 -
Car Car08g00182 Chr08 1429538 1430697 +
Cca Cca06g01851 Chr06 33920551 33922294 -
Dod Dod04g2809 Chr04 52114094 52115907 -
Gma Gma01g02252 Chr01 57696784 57698318 -
Gma Gma11g00164 Chr11 1275910 1277205 +
Gso Gso1g1915 Chr1 55863897 55865433 -
Gso Gso1g1915 Chr1 55863897 55865433 -
Lal Lal16g0077 Chr16 468760 469740 +
Lal Lal23g0440 Chr23 7127073 7127927 +
Lal Lal15g1451 Chr15 16713191 16714036 -
Lal Lal23g1553 Chr23 15612351 15613289 -
Lasa Lasa2g02730 Chr2 508977206 508978195 +
Lja Lja4g0344 Chr4 2761799 2762644 +
Lja Lja4g0344 Chr4 2761799 2762644 +
Mal Mal6g0266 Chr6 3658436 3659398 -
Mepo Mepo5g00285 Chr5 2538768 2540111 +
Mesa Mesa17g00288 Chr17 3058517 3059491 +
Mtr Mtr5g0245 Chr5 2259259 2260658 +
Phco Phco4g00243 Chr4 1526412 1527377 +
Pste Pste1g01887 Chr1 5834635 5835555 +
Pumo Pumo8g02395 Chr8 61154976 61156185 -
Pvu Pvu2g1685 Chr2 30545248 30546790 -
Rops Rops1g02251 Chr1 44489229 44490831 -
Seca Seca12g06587 Chr12 157939658 157940509 -
Spst Spst2g00241 Chr2 1888174 1889145 +
Ssu Ssu2g2939 Chr2 90813873 90814843 -
Sto Sto6g3120 Chr6 38070614 38073305 +
Tpr Tpr2g3916 Chr2 41847211 41848779 -
Trre Trre9g00305 Chr9 2195596 2196579 +
Tsu Tsu05g00226 Chr05 1664436 1665966 +
Vian Vian10g00208 Chr10 1824924 1825913 +
Vifa Vifa1g07978 Chr1 1244457713 1244458687 -
Vimu Vimu7g02392 Chr7 20538646 20539635 +
Viun Viun2g02666 Chr2 32235578 32237401 -
Vivi Vivi2g03953 Chr2 151964944 151966329 -
Vra Vra11g0229 Chr11 1538480 1540913 +
Vvi Vvi2g0148 Chr2 1310201 1313876 +
Vvi Vvi2g0149 Chr2 1331566 1335344 +
Acco Acco11g1523 Chr11 29703993 29707562 -
Accr Accr9g00922 Chr9 10828600 10832300 +
Adu Adu03g02656 Chr03 94688938 94693745 -
Alju Alju09g1520 Chr09 39152249 39156043 -
Apr Apr2g1271 Chr2 18962818 18968520 +
Arst Arst3g03529 Chr3 93538732 93543392 -
Bach Bach4g00053 Chr4 361632 365802 -
Bisa Bisa11g0853 Chr11 23859858 23863703 -
Bva Bva08g00056 Chr08 306319 311038 -
Bva Bva11g02212 Chr11 17967312 17971946 +
Car Car06g00452 Chr06 4585917 4591616 -
Dere Dere09g0098 Chr09 3864748 3868513 -
Enph Enph13g1481 Chr13 20356489 20362068 +
Glsi Glsi05g2188 Chr05 68190868 68194509 +
Gma Gma05g02108 Chr05 42311543 42316922 +
Gma Gma08g00212 Chr08 1836374 1841116 +
Lal Lal23g0455 Chr23 7236997 7251909 -
Lal Lal16g1156 Chr16 7882645 7888996 -
Lapu Lapu3g03659 Chr3 60057589 60063301 +
Lasa Lasa7g04867 Chr7 692040800 692044518 +
Lja Lja4g0343 Chr4 2739679 2744952 -
Lja Lja4g0343 Chr4 2739679 2744952 -
Mal Mal7g5030 Chr7 119458885 119463391 +
Mepo Mepo2g04719 Chr2 55511251 55516511 +
Mesa Mesa13g00398 Chr13 4660369 4664900 -
Mibi Mibi12g1287 Chr12 28452233 28456640 -
Mtr Mtr8g3544 Chr8 46048178 46053481 +
Phco Phco4g03383 Chr4 54188527 54192814 +
Prci Prci10g1176 Chr10 7881912 7886420 +
Pste Pste3g00839 Chr3 5195443 5200790 -
Pte Pte12g00020 Chr12 294036 298096 -
Pumo Pumo6g00415 Chr6 5257770 5263850 -
Pvu Pvu2g3063 Chr2 46063305 46068164 +
Rops Rops2g00462 Chr2 6583417 6588196 -
Spst Spst3g01013 Chr3 13519206 13525227 -
Sto Sto6g3118 Chr6 38052620 38056107 -
Tpr Tpr3g0568 Chr3 5605488 5611739 -
Tsu Tsu02g00375 Chr02 3140549 3146442 -
Vian Vian1g03903 Chr1 62155661 62159950 +
Vifa Vifa6g03673 Chr6 1207712359 1207716182 +
Vimu Vimu11g04514 Chr11 66075046 66079211 +
Viun Viun3g00476 Chr3 2812224 2817134 -
Vvi Vvi2g0150 Chr2 1336617 1338192 -
Adu Adu05g01122 Chr05 15568145 15569791 -
Aed Aed11g1779 Chr11 21178563 21179676 -
Apr Apr7g0529 Chr7 11749800 11751044 +
Arst Arst5g01414 Chr5 15619098 15620695 -
Bva Bva08g00055 Chr08 304201 306318 +
Bva Bva11g02213 Chr11 17971947 17973924 -
Car Car08g00181 Chr08 1412176 1413872 +
Cca Cca06g01852 Chr06 33935943 33937574 -
Gma Gma01g02253 Chr01 57711345 57712998 -
Gma Gma11g00163 Chr11 1260159 1261880 +
Gso Gso1g1916 Chr1 55878387 55880136 -
Gso Gso1g1916 Chr1 55878387 55880136 -
Lal Lal15g0057 Chr15 408449 410638 +
Lan Lan18g1122 Chr18 16189138 16191832 -
Lasa Lasa2g02729 Chr2 508884315 508885635 +
Mal Mal6g0267 Chr6 3682899 3684328 -
Mepo Mepo5g00283 Chr5 2495295 2497359 +
Mtr Mtr5g0244 Chr5 2236676 2238470 +
Phco Phco4g00242 Chr4 1515126 1516541 +
Psa Psa2g4224 Chr2 423301523 423303107 -
Pste Pste1g01879 Chr1 5802090 5803434 +
Pumo Pumo8g02396 Chr8 61177697 61179344 -
Pvu Pvu2g1687 Chr2 30562075 30563773 -
Rops Rops1g02252 Chr1 44509826 44512460 -
Seca Seca10g00270 Chr10 2303984 2305753 +
Spst Spst2g00239 Chr2 1870345 1871466 +
Ssu Ssu2g2940 Chr2 90836129 90837899 -
Sto Sto11g2182 Chr11 20742157 20744834 +
Tpr Tpr2g3917 Chr2 41869427 41871516 -
Tsu Tsu05g00225 Chr05 1646869 1649388 +
Vian Vian10g00204 Chr10 1798220 1799648 +
Vifa Vifa1g07981 Chr1 1245750065 1245751310 -
Vimu Vimu7g02390 Chr7 20516209 20517597 +
Vra Vra11g0228 Chr11 1518850 1524160 +
Vvi Vvi2g0151 Chr2 1342881 1348305 +
Acco Acco11g1521 Chr11 29691408 29696166 -
Accr Accr9g00924 Chr9 10834328 10837733 +
Adu Adu03g02655 Chr03 94670616 94673042 -
Aev Aev03g3143 Chr03 29990298 29992899 +
Ahy Ahy13g2710 Chr13 101457740 101460269 -
Aip Aip03g03044 Chr03 93530423 93532893 -
Alju Alju09g1518 Chr09 39147024 39150379 -
Amo Amo13g3287 Chr13 104992551 104994666 -
Apr Apr2g1272 Chr2 18969675 18974973 +
Arst Arst3g03528 Chr3 93520294 93522810 -
Bisa Bisa11g0852 Chr11 23853292 23857892 -
Bva Bva11g02214 Chr11 17976264 17980852 +
Car Car06g00451 Chr06 4580278 4584817 -
Dere Dere09g0096 Chr09 3857471 3861871 -
Dod Dod04g2813 Chr04 52164906 52168869 +
Enph Enph13g1483 Chr13 20362508 20366956 +
Glsi Glsi05g2189 Chr05 68196947 68201163 +
Gma Gma05g02109 Chr05 42319428 42323662 +
Lal Lal16g1155 Chr16 7875478 7881936 -
Lapu Lapu3g03660 Chr3 60065117 60070880 +
Lasa Lasa7g04869 Chr7 692076841 692080167 +
Lele Lele49g0735 Chr49 4471254 4473961 +
Lele Lele50g0775 Chr50 4782704 4786077 +
Lele Lele51g0755 Chr51 4578211 4583219 +
Lele Lele52g0762 Chr52 4828094 4831459 +
Lja Lja4g0342 Chr4 2733947 2738607 -
Lja Lja4g0342 Chr4 2733947 2738607 -
Mal Mal7g5031 Chr7 119468110 119472609 +
Mepo Mepo2g04720 Chr2 55517628 55520939 +
Mesa Mesa13g00397 Chr13 4652105 4655393 -
Mibi Mibi12g1286 Chr12 28447400 28450639 -
Mtr Mtr8g3545 Chr8 46054749 46058921 +
Phco Phco4g03384 Chr4 54193509 54201067 +
Prci Prci10g1178 Chr10 7891658 7895731 +
Pste Pste3g00837 Chr3 5170847 5175575 -
Pumo Pumo6g00414 Chr6 5251305 5256147 -
Pvu Pvu2g3064 Chr2 46070564 46075619 +
Rops Rops2g00460 Chr2 6552856 6558353 -
Seca Seca12g06589 Chr12 157999440 158003764 +
Spst Spst3g01012 Chr3 13512975 13517457 -
Sto Sto6g3117 Chr6 38045066 38048320 -
Tpr Tpr3g0567 Chr3 5599273 5604348 -
Trre Trre7g05551 Chr7 61176121 61179987 +
Tsu Tsu02g00374 Chr02 3135538 3139255 -
Vian Vian1g03904 Chr1 62161457 62166094 +
Vifa Vifa6g03674 Chr6 1208079032 1208090023 +
Vimu Vimu11g04516 Chr11 66084829 66085314 +
Viun Viun3g00475 Chr3 2804962 2811136 -
Vivi Vivi5g06049 Chr5 165518833 165522487 +
Bva Bva08g00056 Chr08 306319 311038 -
Aed Aed11g1779 Chr11 21178563 21179676 -
Cca Cca06g01852 Chr06 33935943 33937574 -
Ssu Ssu2g2940 Chr2 90836129 90837899 -
Vra Vra11g0228 Chr11 1518850 1524160 +