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
Vvi4g1294 . . . . . . . . . . . . . . . . . . Apr3g0341 . . . . . . . . . . . . . . . . . . . . . . . Gma02g00445 Gma16g01204 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g3140 . Mal5g3343 . . . . . . . Mtr8g2415 . . . . . . . Psa4g2307 . . . . . . . . . . . . . . . . . . Sto6g3925 . . Tpr4g4263 . . . Tsu04g03505 . . . . . . . . . . . .
Vvi4g1295 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1296 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00847 . . . . . . . . . . . . . Gma11g00695 . . . Gso11g0645 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Mal6g1033 . . . . . . . Mtr5g0869 . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g3926 . Tpr2g1095 . . . Tsu05g00833 . . . . . . . . . . . . .
Vvi4g1297 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g00848 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1488 . . . . . . . . . . . . . . . . . .
Vvi4g1298 . . . . . Adu05g00916 Aed11g1216 . Aev05g0427 Aev08g0202 Ahy15g0887 Ahy17g2273 Aip05g00915 Aip07g02420 . . . . . Apr7g1094 . Arst5g01144 . . . . Bva08g00850 . . . Cca06g01269 . . . Dod02g0472 Dod08g2276 . . . . Gma11g00697 Gma01g01702 . . Gso11g0648 Gso11g0648 . . . . Lal23g1466 . . . . . . . . . . Lapu2g00755 . Lasa2g03418 . . . . . . . . Lja2g0551 . Mal6g1031 . . Mepo5g00985 . Mesa17g01029 . . Mtr5g0871 . . . . Phco4g00868 . . Psa2g3513 . . . . . . . . . . Pvu2g1125 . . . . . Spst2g00915 Ssu2g2266 . Sto6g3927 Sto11g1486 Tpr2g1097 . . Trre9g01208 Tsu05g00835 . . . . . . Vimu7g03051 . . . Vivi2g02911 Vra11g0774 .
Vvi4g1299 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1300 . . . . . Adu05g00917 Aed11g1215 . Aev05g0426 . Ahy15g0888 . Aip05g00916 . . . . . . Apr7g1095 . Arst5g01145 . Bach4g00733 . . Bva08g00851 . . . Cca06g01268 . . . Dod02g0470 . . . . . Gma11g00699 Gma01g01701 . . Gso11g0649 Gso11g0649 . . . . Lal23g1467 . . . . . . . . . . Lapu2g00756 . Lasa2g03419 . . . . . . . . Lja2g0552 . Mal6g1030 . . Mepo5g00986 . Mesa17g01030 . . Mtr5g0872 . . Phac2g02613 . Phco4g00867 . . Psa2g3512 . . Pste1g03049 . . . . . . . Pvu2g1124 . . . . . Spst2g00914 Ssu2g2265 . . Sto11g1485 Tpr2g1099 . . Trre9g01210 Tsu05g00836 . . . . . . Vimu7g03053 . . . Vivi2g02909 Vra11g0775 .
Vvi4g1301 . Acco11g2379 . Accr9g00113 . Adu05g00918 . . Aev05g0425 . Ahy15g0890 . Aip05g00918 . . Alju09g2382 . . Apr3g0342 Apr7g1096 . Arst5g01146 . . . Bisa11g1789 Bva08g00852 . . . . . . Dere09g1039 Dod02g0468 . . Enph13g0853 . Glsi05g1345 Gma11g00701 Gma01g01700 Gma02g00444 Gma16g01203 Gso11g0650 Gso11g0650 Gso11g0650 Gso11g0650 . . Lal23g1468 . . . . . . . . . . . . Lasa2g03420 . . . . Lele49g0083 Lele50g0100 Lele51g0094 Lele52g0099 . Lja4g3138 Mal6g1029 Mal5g3342 . Mepo5g00987 . Mesa17g01031 . Mibi12g2072 Mtr5g0873 Mtr8g2414 . . . Phco4g00866 . Prci10g0167 Psa2g3508 Psa4g2308 . . . . . . . . . Pvu2g1123 . . . . . Spst3g03799 . . Sto6g3928 Sto11g1484 Tpr2g1100 Tpr4g4264 . Trre9g01211 Tsu05g00837 Tsu04g03506 . . . . . Vimu11g00736 . . . Vivi2g02907 . .
Vvi4g1302 . . . . . . . . . . . . . . . . . . Apr3g0343 Apr7g1097 . . . . . . Bva08g00854 . . . . . . . . . . . . . . Gma01g01699 Gma02g00443 Gma16g01200 . . . . . Lal15g1510 Lal23g1469 . . . . . . . . . . . . . . . . . . . . . . . . Mal5g3340 . . . . . . . Mtr8g2412 . . . . . . . Psa4g2325 . . . . . . . . . . . . . . . . . . Sto6g3929 Sto11g1482 . . . . . . . . . . . . . . . . . .
Vvi4g1303 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lal Lal23g1469 Chr23 15043640 15046668 +
Vvi Vvi4g1294 Chr4 19827798 19828334 -
Apr Apr3g0341 Chr3 6775868 6776669 -
Gma Gma02g00445 Chr02 4503237 4503770 +
Gma Gma16g01204 Chr16 29671316 29672299 +
Lja Lja4g3140 Chr4 59445452 59446287 +
Mal Mal5g3343 Chr5 97127242 97127796 +
Mtr Mtr8g2415 Chr8 34596036 34596862 +
Psa Psa4g2307 Chr4 187439835 187440386 -
Sto Sto6g3925 Chr6 43406956 43407468 -
Tpr Tpr4g4263 Chr4 49774997 49775651 -
Tsu Tsu04g03505 Chr04 44249690 44250247 -
Vvi Vvi4g1295 Chr4 19828896 19833451 +
Vvi Vvi4g1296 Chr4 19837737 19839174 +
Bva Bva08g00847 Chr08 4349899 4351471 +
Gma Gma11g00695 Chr11 5808979 5810566 -
Gso Gso11g0645 Chr11 5758812 5760714 -
Mal Mal6g1033 Chr6 15457586 15459224 +
Mtr Mtr5g0869 Chr5 8573632 8575366 -
Sto Sto6g3926 Chr6 43416425 43417784 +
Tpr Tpr2g1095 Chr2 12850828 12852529 -
Tsu Tsu05g00833 Chr05 7101576 7103074 -
Vvi Vvi4g1297 Chr4 19841324 19851280 -
Bva Bva08g00848 Chr08 4353497 4356510 -
Sto Sto11g1488 Chr11 14147729 14151305 +
Vvi Vvi4g1298 Chr4 19852620 19853701 -
Adu Adu05g00916 Chr05 11711617 11712639 -
Aed Aed11g1216 Chr11 17405896 17406768 +
Aev Aev05g0427 Chr05 2957739 2959084 +
Aev Aev08g0202 Chr08 1121845 1127614 +
Ahy Ahy15g0887 Chr15 13085130 13086416 -
Ahy Ahy17g2273 Chr17 109678680 109681030 +
Aip Aip05g00915 Chr05 12694336 12695371 -
Aip Aip07g02420 Chr07 101848670 101852946 +
Apr Apr7g1094 Chr7 17916490 17917504 -
Arst Arst5g01144 Chr5 11735031 11736196 -
Bva Bva08g00850 Chr08 4359871 4360785 -
Cca Cca06g01269 Chr06 27313629 27314645 +
Dod Dod02g0472 Chr02 6203338 6204825 +
Dod Dod08g2276 Chr08 50756100 50759009 -
Gma Gma11g00697 Chr11 5836448 5837588 -
Gma Gma01g01702 Chr01 52726516 52727443 +
Gso Gso11g0648 Chr11 5785849 5787243 -
Gso Gso11g0648 Chr11 5785849 5787243 -
Lal Lal23g1466 Chr23 15000521 15001495 -
Lapu Lapu2g00755 Chr2 6700872 6701779 -
Lasa Lasa2g03418 Chr2 534800433 534801179 -
Lja Lja2g0551 Chr2 4967812 4969267 -
Mal Mal6g1031 Chr6 15417550 15418830 +
Mepo Mepo5g00985 Chr5 9649759 9650925 -
Mesa Mesa17g01029 Chr17 13157274 13158587 -
Mtr Mtr5g0871 Chr5 8604367 8605910 -
Phco Phco4g00868 Chr4 6800674 6801491 +
Psa Psa2g3513 Chr2 385262626 385264990 +
Pvu Pvu2g1125 Chr2 22113267 22114472 +
Spst Spst2g00915 Chr2 7871043 7871909 +
Ssu Ssu2g2266 Chr2 79479199 79480134 +
Sto Sto6g3927 Chr6 43419915 43420591 -
Sto Sto11g1486 Chr11 14131611 14133489 +
Tpr Tpr2g1097 Chr2 12871827 12873228 -
Trre Trre9g01208 Chr9 9951086 9952266 -
Tsu Tsu05g00835 Chr05 7123141 7124346 -
Vimu Vimu7g03051 Chr7 25716993 25717848 -
Vivi Vivi2g02911 Chr2 126538554 126539553 +
Vra Vra11g0774 Chr11 6307823 6309322 -
Vvi Vvi4g1299 Chr4 19854226 19858881 +
Vvi Vvi4g1300 Chr4 19868468 19922321 +
Adu Adu05g00917 Chr05 11721959 11748015 +
Aed Aed11g1215 Chr11 17375154 17401214 -
Aev Aev05g0426 Chr05 2927819 2948962 -
Ahy Ahy15g0888 Chr15 13091811 13114106 +
Aip Aip05g00916 Chr05 12703623 12725832 +
Apr Apr7g1095 Chr7 17922508 17953690 +
Arst Arst5g01145 Chr5 11745550 11771630 +
Bach Bach4g00733 Chr4 4841488 4870812 +
Bva Bva08g00851 Chr08 4362000 4386650 +
Cca Cca06g01268 Chr06 27266021 27295194 -
Dod Dod02g0470 Chr02 6165041 6194165 -
Gma Gma11g00699 Chr11 5852436 5874621 +
Gma Gma01g01701 Chr01 52690161 52720953 -
Gso Gso11g0649 Chr11 5792134 5824094 +
Gso Gso11g0649 Chr11 5792134 5824094 +
Lal Lal23g1467 Chr23 15003345 15027107 +
Lapu Lapu2g00756 Chr2 6708361 6738296 +
Lasa Lasa2g03419 Chr2 534885985 534904721 +
Lja Lja2g0552 Chr2 4972037 5001653 +
Mal Mal6g1030 Chr6 15384140 15409813 -
Mepo Mepo5g00986 Chr5 9663368 9688062 +
Mesa Mesa17g01030 Chr17 13167932 13193314 +
Mtr Mtr5g0872 Chr5 8610933 8638378 +
Phac Phac2g02613 Chr2 27330413 27337763 -
Phco Phco4g00867 Chr4 6761738 6794188 -
Psa Psa2g3512 Chr2 385014698 385045686 -
Pste Pste1g03049 Chr1 13580011 13608499 +
Pvu Pvu2g1124 Chr2 22062313 22096857 -
Spst Spst2g00914 Chr2 7842051 7845798 -
Ssu Ssu2g2265 Chr2 79425671 79458983 -
Sto Sto11g1485 Chr11 14101984 14128040 -
Tpr Tpr2g1099 Chr2 12884516 12908307 +
Trre Trre9g01210 Chr9 9957139 9979474 +
Tsu Tsu05g00836 Chr05 7134283 7158766 +
Vimu Vimu7g03053 Chr7 25731796 25758601 +
Vivi Vivi2g02909 Chr2 126497469 126525092 -
Vra Vra11g0775 Chr11 6316177 6344152 +
Vvi Vvi4g1301 Chr4 19923247 19924511 -
Acco Acco11g2379 Chr11 37102801 37104067 -
Accr Accr9g00113 Chr9 1317224 1318496 +
Adu Adu05g00918 Chr05 11748847 11750492 -
Aev Aev05g0425 Chr05 2925568 2926897 +
Ahy Ahy15g0890 Chr15 13123124 13124792 -
Aip Aip05g00918 Chr05 12738791 12740484 -
Alju Alju09g2382 Chr09 46811264 46817408 -
Apr Apr3g0342 Chr3 6778043 6779670 -
Apr Apr7g1096 Chr7 17954408 17955662 -
Arst Arst5g01146 Chr5 11772466 11774089 -
Bisa Bisa11g1789 Chr11 39661525 39662964 -
Bva Bva08g00852 Chr08 4387367 4388883 -
Dere Dere09g1039 Chr09 13277764 13281222 -
Dod Dod02g0468 Chr02 6161502 6162344 +
Enph Enph13g0853 Chr13 14738074 14739902 +
Glsi Glsi05g1345 Chr05 62576344 62580362 +
Gma Gma11g00701 Chr11 5877358 5878955 -
Gma Gma01g01700 Chr01 52687197 52689178 +
Gma Gma02g00444 Chr02 4500946 4502603 +
Gma Gma16g01203 Chr16 29666889 29669005 +
Gso Gso11g0650 Chr11 5826726 5828584 -
Gso Gso11g0650 Chr11 5826726 5828584 -
Gso Gso11g0650 Chr11 5826726 5828584 -
Gso Gso11g0650 Chr11 5826726 5828584 -
Lal Lal23g1468 Chr23 15027699 15034574 -
Lasa Lasa2g03420 Chr2 535039009 535040096 -
Lele Lele49g0083 Chr49 518522 519781 +
Lele Lele50g0100 Chr50 614861 617457 +
Lele Lele51g0094 Chr51 542267 543537 +
Lele Lele52g0099 Chr52 597459 599809 +
Lja Lja4g3138 Chr4 59417260 59418879 +
Mal Mal6g1029 Chr6 15373075 15374494 +
Mal Mal5g3342 Chr5 97124677 97126124 +
Mepo Mepo5g00987 Chr5 9693525 9695437 -
Mesa Mesa17g01031 Chr17 13195811 13197244 -
Mibi Mibi12g2072 Chr12 37211278 37212528 -
Mtr Mtr5g0873 Chr5 8640412 8642097 -
Mtr Mtr8g2414 Chr8 34593503 34595151 +
Phco Phco4g00866 Chr4 6754672 6756059 +
Prci Prci10g0167 Chr10 1087706 1089275 +
Psa Psa2g3508 Chr2 384918652 384920275 +
Psa Psa4g2308 Chr4 187448952 187451121 -
Pvu Pvu2g1123 Chr2 22057736 22059454 +
Spst Spst3g03799 Chr3 87995411 87996901 +
Sto Sto6g3928 Chr6 43421019 43422108 -
Sto Sto11g1484 Chr11 14099456 14100671 +
Tpr Tpr2g1100 Chr2 12910632 12912421 -
Tpr Tpr4g4264 Chr4 49777673 49779333 -
Trre Trre9g01211 Chr9 9981802 9983730 -
Tsu Tsu05g00837 Chr05 7160151 7161872 -
Tsu Tsu04g03506 Chr04 44252428 44254009 -
Vimu Vimu11g00736 Chr11 7793976 7795508 -
Vivi Vivi2g02907 Chr2 126492212 126493666 +
Vvi Vvi4g1302 Chr4 19929695 19931198 +
Apr Apr3g0343 Chr3 6793403 6795581 +
Apr Apr7g1097 Chr7 17956781 17959499 +
Bva Bva08g00854 Chr08 4394224 4395917 +
Gma Gma01g01699 Chr01 52682585 52685122 -
Gma Gma02g00443 Chr02 4494008 4496600 -
Gma Gma16g01200 Chr16 29633373 29635759 -
Lal Lal15g1510 Chr15 17221562 17224348 +
Lal Lal23g1469 Chr23 15043640 15046668 +
Mal Mal5g3340 Chr5 97093087 97095534 -
Mtr Mtr8g2412 Chr8 34558579 34561547 -
Psa Psa4g2325 Chr4 188016462 188018248 +
Sto Sto6g3929 Chr6 43428676 43428972 +
Sto Sto11g1482 Chr11 14075751 14078967 -
Vvi Vvi4g1303 Chr4 19938598 19938849 +
Aev Aev08g0202 Chr08 1121845 1127614 +
Ahy Ahy17g2273 Chr17 109678680 109681030 +
Aip Aip07g02420 Chr07 101848670 101852946 +
Dod Dod08g2276 Chr08 50756100 50759009 -
Dod Dod08g2276 Chr08 50756100 50759009 -
Gma Gma16g01200 Chr16 29633373 29635759 -