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
Vvi2g1052 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1053 . . . . . . Aed6g0094 . Aev05g0215 . Ahy15g0177 . Aip05g00178 . . . . . Apr7g1830 Apr3g0487 . . . . . . Bva08g01074 Bva11g01344 . . Cca06g01065 . . . Dod02g0224 . . . . . Gma01g01534 Gma09g01976 . . Gso1g1272 Gso1g1272 . . Lal15g0359 . . . Lal16g1794 . Lan18g0813 . . . Lan18g0813 . . . . . . . . . . . . . Lja2g0752 Lja4g2983 Mal6g0586 Mal5g3155 . . . . . . Mtr5g1128 Mtr8g2248 . . . . . . Psa2g3216 Psa4g2569 . . . . . . . . . . . . . . . . . . . Sto11g1253 Tpr2g1380 Tpr4g4449 . . Tsu05g01130 Tsu04g02773 . . . . . . . . . . Vra11g0982 .
Vvi2g1054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1055 . . . . Adu05g00201 . Aed6g0092 . Aev05g0219 . Ahy15g0196 . Aip05g00181 . . . . . Apr7g1833 Apr3g0483 Arst5g00246 . . . . . Bva08g01071 Bva11g01347 . . Cca06g01067 . . . Dod02g0231 . . . . . Gma01g01537 Gma09g01978 . . Gso1g1273 Gso1g1273 . . Lal15g0358 . . . Lal16g1792 . Lan18g0814 . . . Lan18g0814 . Lapu2g00917 . . . . . . . . . . . Lja2g0748 Lja4g2989 Mal6g0585 Mal5g3162 . . . . . . Mtr5g1127 Mtr8g2251 . . Phco4g00638 . . . Psa2g3218 . . . . . . . . . Pvu2g1330 . . . . . Spst2g01147 . Ssu2g2039 . . Sto11g1251 Tpr2g1378 Tpr4g4446 . . Tsu05g01126 Tsu04g02769 . . . . Vimu7g03349 . . . . . . .
Vvi2g1056 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1057 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g1058 . . . . Adu05g00202 . Aed6g0091 . Aev05g0220 . Ahy15g0198 . Aip05g00182 . . . . . Apr7g1834 . Arst5g00247 . Bach4g00918 . . . Bva08g01070 Bva11g01349 . . Cca06g01068 . . . Dod02g0232 . . . . . . Gma09g01979 . . . . . . . . . . . . . . . . . . Lapu2g00918 . Lasa2g03681 . . . . . . . . . Lja2g0746 . Mal6g0584 . Mepo5g01256 . Mesa17g01353 . . . Mtr5g1126 . Phac2g02059 . Phco4g00641 . . . Psa2g3219 . Pste1g00278 . . . . . Pumo8g01519 . Pvu2g1328 . Rops1g01337 . Seca10g01226 . Spst2g01144 . Ssu2g2041 . . . Tpr2g1377 . Trre9g01665 . Tsu05g01125 . Vian10g01003 . Vifa1g06029 . Vimu7g03348 . Viun2g01561 . Vivi2g02544 . . .
Vvi2g1059 Acco11g1353 . . . Adu05g00203 . Aed6g0090 . Aev05g0221 . Ahy15g0199 . Aip05g00183 . Alju09g1363 . . . Apr7g1835 . Arst5g00249 . Bach4g00917 . Bisa11g2028 . Bva08g01069 Bva11g01351 . . Cca06g01069 . Dere09g1293 . Dod02g0233 . Enph13g1597 . Glsi05g1111 . . Gma09g01981 . . . . . . Lal15g0357 . . . . . Lan18g0815 . . . . . Lapu2g00919 . Lasa2g03680 . Lele49g0856 Lele50g0890 Lele51g0873 Lele52g0872 . . . . Lja2g0744 . Mal6g0582 . Mepo5g01255 . Mesa17g01352 . Mibi12g1147 . Mtr5g1125 . . . Phco4g00642 . Prci10g1374 . Psa2g3220 . Pste1g00275 . Pte14g00757 Pte12g00614 . . Pumo8g01521 . Pvu2g1327 . Rops1g01338 . Seca10g01224 . Spst2g01143 . Ssu2g2043 . . . Tpr2g1376 . Trre9g01664 . Tsu05g01124 . Vian10g01002 . Vifa1g06030 . Vimu7g03347 . Viun2g01569 . Vivi2g02546 . . .
Vvi2g1060 Acco11g1355 . . . Adu05g00205 . Aed6g0089 . Aev05g0222 . Ahy15g0200 . Aip05g00184 . Alju09g1364 . . . Apr7g1836 . Arst5g00250 . . . Bisa11g2027 . Bva08g01068 Bva11g01352 . . Cca06g01070 . Dere09g1292 . Dod02g0234 . Enph13g1596 . Glsi05g1112 . Gma01g01538 Gma09g01982 . . Gso1g1274 Gso1g1274 . . . . . . . . . . . . . . Lapu2g00920 . Lasa2g03678 . Lele49g0855 . Lele51g0871 Lele52g0871 . . . . Lja2g0742 . Mal6g0578 . Mepo5g01253 . Mesa17g01350 . Mibi12g1151 . Mtr5g1123 . Phac2g02056 . Phco4g00644 . Prci10g1372 . Psa2g3221 . Pste1g00258 . Pte14g00758 . . . Pumo8g01522 . Pvu2g1326 . Rops1g01340 . Seca10g01222 . Spst2g01142 . Ssu2g2044 . . . Tpr2g1375 . Trre9g01663 . Tsu05g01123 . Vian10g01001 . Vifa1g06033 . Vimu7g03346 . Viun2g01570 . Vivi2g02547 . . .
Vvi2g1061 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g1052 Chr2 16323760 16326453 +
Vvi Vvi2g1053 Chr2 16327359 16334830 +
Aed Aed6g0094 Chr6 920901 927222 +
Aev Aev05g0215 Chr05 1620740 1624444 -
Ahy Ahy15g0177 Chr15 2075183 2082137 -
Aip Aip05g00178 Chr05 1938291 1956534 -
Apr Apr7g1830 Chr7 25623140 25629535 -
Apr Apr3g0487 Chr3 10104190 10111733 +
Bva Bva08g01074 Chr08 5492736 5499677 +
Bva Bva11g01344 Chr11 13609634 13616339 -
Cca Cca06g01065 Chr06 24696860 24701059 -
Dod Dod02g0224 Chr02 3117109 3123941 -
Gma Gma01g01534 Chr01 50842526 50847024 -
Gma Gma09g01976 Chr09 45403103 45408362 -
Gso Gso1g1272 Chr1 49125159 49131998 -
Gso Gso1g1272 Chr1 49125159 49131998 -
Lal Lal15g0359 Chr15 2413612 2419894 +
Lal Lal16g1794 Chr16 17076798 17084622 +
Lan Lan18g0813 Chr18 13540189 13545290 -
Lan Lan18g0813 Chr18 13540189 13545290 -
Lja Lja2g0752 Chr2 6853896 6858353 +
Lja Lja4g2983 Chr4 54748878 54752672 -
Mal Mal6g0586 Chr6 7743187 7747211 +
Mal Mal5g3155 Chr5 92235111 92239377 -
Mtr Mtr5g1128 Chr5 11195317 11203347 +
Mtr Mtr8g2248 Chr8 32684258 32691217 -
Psa Psa2g3216 Chr2 367393591 367400402 -
Psa Psa4g2569 Chr4 205933211 205940796 +
Sto Sto11g1253 Chr11 12313743 12318642 +
Tpr Tpr2g1380 Chr2 16110239 16120493 +
Tpr Tpr4g4449 Chr4 52290298 52297686 +
Tsu Tsu05g01130 Chr05 9888540 9893327 +
Tsu Tsu04g02773 Chr04 32257503 32264714 +
Vra Vra11g0982 Chr11 8685902 8694247 +
Vvi Vvi2g1054 Chr2 16342586 16343184 +
Vvi Vvi2g1055 Chr2 16404847 16408012 +
Adu Adu05g00201 Chr05 2183519 2187434 -
Aed Aed6g0092 Chr6 908931 914436 +
Aev Aev05g0219 Chr05 1646126 1648760 -
Ahy Ahy15g0196 Chr15 2296784 2301656 -
Aip Aip05g00181 Chr05 1976393 1981429 -
Apr Apr7g1833 Chr7 25653738 25658961 -
Apr Apr3g0483 Chr3 10018656 10024704 +
Arst Arst5g00246 Chr5 2203178 2206871 -
Bva Bva08g01071 Chr08 5477043 5481271 +
Bva Bva11g01347 Chr11 13623746 13627839 -
Cca Cca06g01067 Chr06 24746204 24751320 -
Dod Dod02g0231 Chr02 3187251 3189079 -
Gma Gma01g01537 Chr01 50859603 50862470 -
Gma Gma09g01978 Chr09 45420253 45425488 -
Gso Gso1g1273 Chr1 49141615 49146737 -
Gso Gso1g1273 Chr1 49141615 49146737 -
Lal Lal15g0358 Chr15 2406131 2411201 +
Lal Lal16g1792 Chr16 17037872 17042701 +
Lan Lan18g0814 Chr18 13550027 13555182 -
Lan Lan18g0814 Chr18 13550027 13555182 -
Lapu Lapu2g00917 Chr2 8475303 8480751 -
Lja Lja2g0748 Chr2 6832274 6838162 +
Lja Lja4g2989 Chr4 54875830 54880880 -
Mal Mal6g0585 Chr6 7717714 7720767 +
Mal Mal5g3162 Chr5 92465385 92468418 -
Mtr Mtr5g1127 Chr5 11181799 11187094 +
Mtr Mtr8g2251 Chr8 32714951 32718511 -
Phco Phco4g00638 Chr4 4829477 4832009 -
Psa Psa2g3218 Chr2 367741211 367745663 -
Pvu Pvu2g1330 Chr2 25871076 25875623 +
Spst Spst2g01147 Chr2 10131296 10133878 +
Ssu Ssu2g2039 Chr2 74048217 74051069 -
Sto Sto11g1251 Chr11 12302441 12304705 +
Tpr Tpr2g1378 Chr2 16033877 16039200 +
Tpr Tpr4g4446 Chr4 52228504 52233943 +
Tsu Tsu05g01126 Chr05 9868631 9873715 +
Tsu Tsu04g02769 Chr04 32160043 32169990 +
Vimu Vimu7g03349 Chr7 28361840 28364544 +
Vvi Vvi2g1056 Chr2 16443473 16444009 -
Vvi Vvi2g1057 Chr2 16490488 16498730 -
Vvi Vvi2g1058 Chr2 16541037 16542581 +
Adu Adu05g00202 Chr05 2198352 2201751 -
Aed Aed6g0091 Chr6 901154 902784 +
Aev Aev05g0220 Chr05 1658899 1660553 -
Ahy Ahy15g0198 Chr15 2317132 2320700 -
Aip Aip05g00182 Chr05 1990383 1998974 -
Apr Apr7g1834 Chr7 25669320 25671941 -
Arst Arst5g00247 Chr5 2219516 2222470 -
Bach Bach4g00918 Chr4 6152182 6153986 +
Bva Bva08g01070 Chr08 5468050 5470708 +
Bva Bva11g01349 Chr11 13634904 13637726 -
Cca Cca06g01068 Chr06 24768908 24772011 -
Dod Dod02g0232 Chr02 3207800 3211468 -
Gma Gma09g01979 Chr09 45439238 45447783 -
Lapu Lapu2g00918 Chr2 8497494 8500481 -
Lasa Lasa2g03681 Chr2 547263464 547264955 +
Lja Lja2g0746 Chr2 6808578 6810822 +
Mal Mal6g0584 Chr6 7685078 7686776 +
Mepo Mepo5g01256 Chr5 12763902 12764735 +
Mesa Mesa17g01353 Chr17 17566261 17568193 +
Mtr Mtr5g1126 Chr5 11164967 11168307 +
Phac Phac2g02059 Chr2 22504705 22507370 +
Phco Phco4g00641 Chr4 4850156 4852624 -
Psa Psa2g3219 Chr2 367924744 367927158 +
Pste Pste1g00278 Chr1 968158 970020 +
Pumo Pumo8g01519 Chr8 49806861 49809014 -
Pvu Pvu2g1328 Chr2 25832994 25835559 +
Rops Rops1g01337 Chr1 29916869 29921311 -
Seca Seca10g01226 Chr10 12076819 12079539 +
Spst Spst2g01144 Chr2 10115512 10117017 +
Ssu Ssu2g2041 Chr2 74136961 74142221 -
Tpr Tpr2g1377 Chr2 16000206 16003308 +
Trre Trre9g01665 Chr9 14563919 14565603 +
Tsu Tsu05g01125 Chr05 9851708 9854643 +
Vian Vian10g01003 Chr10 10915879 10917407 +
Vifa Vifa1g06029 Chr1 943719487 943720696 -
Vimu Vimu7g03348 Chr7 28341145 28342672 +
Viun Viun2g01561 Chr2 25642265 25645018 -
Vivi Vivi2g02544 Chr2 116310207 116312443 -
Vvi Vvi2g1059 Chr2 16546148 16552676 -
Acco Acco11g1353 Chr11 27790352 27793469 -
Adu Adu05g00203 Chr05 2203367 2206802 -
Aed Aed6g0090 Chr6 891812 896983 +
Aev Aev05g0221 Chr05 1662709 1665820 -
Ahy Ahy15g0199 Chr15 2323277 2325535 -
Aip Aip05g00183 Chr05 2005748 2008044 -
Alju Alju09g1363 Chr09 37417561 37425970 -
Apr Apr7g1835 Chr7 25674134 25677680 -
Arst Arst5g00249 Chr5 2228281 2231756 -
Bach Bach4g00917 Chr4 6143404 6149030 +
Bisa Bisa11g2028 Chr11 43157621 43161162 +
Bva Bva08g01069 Chr08 5462815 5467115 +
Bva Bva11g01351 Chr11 13638332 13641511 -
Cca Cca06g01069 Chr06 24777710 24781393 -
Dere Dere09g1293 Chr09 16909806 16913313 +
Dod Dod02g0233 Chr02 3216462 3220018 -
Enph Enph13g1597 Chr13 21594146 21602217 +
Glsi Glsi05g1111 Chr05 60914907 60918584 -
Gma Gma09g01981 Chr09 45450916 45454622 -
Lal Lal15g0357 Chr15 2401403 2405349 +
Lan Lan18g0815 Chr18 13559688 13563459 -
Lapu Lapu2g00919 Chr2 8501342 8505172 -
Lasa Lasa2g03680 Chr2 547198285 547201427 +
Lele Lele49g0856 Chr49 5295950 5299290 +
Lele Lele50g0890 Chr50 5596328 5597306 +
Lele Lele51g0873 Chr51 5357114 5360424 +
Lele Lele52g0872 Chr52 5645099 5647829 +
Lja Lja2g0744 Chr2 6800124 6803687 +
Mal Mal6g0582 Chr6 7650973 7654210 +
Mepo Mepo5g01255 Chr5 12756459 12759953 +
Mesa Mesa17g01352 Chr17 17559853 17563259 +
Mibi Mibi12g1147 Chr12 26758994 26762434 -
Mtr Mtr5g1125 Chr5 11148712 11152670 +
Phco Phco4g00642 Chr4 4856257 4859607 -
Prci Prci10g1374 Chr10 9193299 9197336 +
Psa Psa2g3220 Chr2 367953395 367957559 -
Pste Pste1g00275 Chr1 956035 959766 +
Pte Pte14g00757 Chr14 29104747 29107564 -
Pte Pte12g00614 Chr12 5567256 5571658 +
Pumo Pumo8g01521 Chr8 49813697 49826981 -
Pvu Pvu2g1327 Chr2 25826093 25830036 +
Rops Rops1g01338 Chr1 29921179 29924713 -
Seca Seca10g01224 Chr10 12059069 12062746 +
Spst Spst2g01143 Chr2 10108529 10111839 +
Ssu Ssu2g2043 Chr2 74174126 74176386 +
Tpr Tpr2g1376 Chr2 15994075 15997834 +
Trre Trre9g01664 Chr9 14555920 14559170 +
Tsu Tsu05g01124 Chr05 9842945 9846273 +
Vian Vian10g01002 Chr10 10895441 10898670 +
Vifa Vifa1g06030 Chr1 943738685 943742351 -
Vimu Vimu7g03347 Chr7 28329052 28332305 +
Viun Viun2g01569 Chr2 25647664 25651328 -
Vivi Vivi2g02546 Chr2 116378986 116379962 -
Vvi Vvi2g1060 Chr2 16565462 16578004 -
Acco Acco11g1355 Chr11 27813458 27817019 +
Adu Adu05g00205 Chr05 2212042 2214947 +
Aed Aed6g0089 Chr6 885736 889572 -
Aev Aev05g0222 Chr05 1668171 1671060 +
Ahy Ahy15g0200 Chr15 2326609 2330949 +
Aip Aip05g00184 Chr05 2010725 2013632 +
Alju Alju09g1364 Chr09 37470615 37474337 +
Apr Apr7g1836 Chr7 25679195 25683106 +
Arst Arst5g00250 Chr5 2231783 2234670 +
Bisa Bisa11g2027 Chr11 43151387 43154881 -
Bva Bva08g01068 Chr08 5456954 5459593 -
Bva Bva11g01352 Chr11 13642616 13645761 +
Cca Cca06g01070 Chr06 24783300 24788564 +
Dere Dere09g1292 Chr09 16896541 16900460 -
Dod Dod02g0234 Chr02 3227733 3231695 +
Enph Enph13g1596 Chr13 21571495 21575620 -
Glsi Glsi05g1112 Chr05 60918658 60926961 +
Gma Gma01g01538 Chr01 50892681 50896694 +
Gma Gma09g01982 Chr09 45456157 45461267 +
Gso Gso1g1274 Chr1 49173649 49178338 +
Gso Gso1g1274 Chr1 49173649 49178338 +
Lapu Lapu2g00920 Chr2 8511295 8516328 +
Lasa Lasa2g03678 Chr2 547179291 547183008 -
Lele Lele49g0855 Chr49 5286771 5289760 -
Lele Lele51g0871 Chr51 5346119 5348004 -
Lele Lele52g0871 Chr52 5640161 5643237 -
Lja Lja2g0742 Chr2 6718212 6722196 -
Mal Mal6g0578 Chr6 7614278 7622332 -
Mepo Mepo5g01253 Chr5 12740448 12746479 -
Mesa Mesa17g01350 Chr17 17529953 17535077 -
Mibi Mibi12g1151 Chr12 26781262 26784749 +
Mtr Mtr5g1123 Chr5 11131514 11138521 -
Phac Phac2g02056 Chr2 22475165 22479474 -
Phco Phco4g00644 Chr4 4862723 4866618 +
Prci Prci10g1372 Chr10 9175416 9179971 -
Psa Psa2g3221 Chr2 368026141 368030070 +
Pste Pste1g00258 Chr1 914614 924175 -
Pte Pte14g00758 Chr14 29109437 29112590 +
Pumo Pumo8g01522 Chr8 49833819 49838507 +
Pvu Pvu2g1326 Chr2 25811875 25816491 -
Rops Rops1g01340 Chr1 30079641 30083942 +
Seca Seca10g01222 Chr10 12038478 12042146 -
Spst Spst2g01142 Chr2 10103522 10106706 -
Ssu Ssu2g2044 Chr2 74180702 74184695 +
Tpr Tpr2g1375 Chr2 15983830 15989055 -
Trre Trre9g01663 Chr9 14547914 14552982 -
Tsu Tsu05g01123 Chr05 9825825 9831234 -
Vian Vian10g01001 Chr10 10876238 10888474 -
Vifa Vifa1g06033 Chr1 944145730 944149670 +
Vimu Vimu7g03346 Chr7 28319344 28324671 -
Viun Viun2g01570 Chr2 25651685 25656095 +
Vivi Vivi2g02547 Chr2 116392518 116396460 +
Vvi Vvi2g1061 Chr2 16600932 16601105 +