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
Vvi2g0122 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0123 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0124 . . . . . . Aed11g1767 . . . . . . . . . . . Apr7g0539 . . . Bach4g00064 . . . Bva08g00073 Bva11g02202 Car08g00187 . Cca06g01843 . . . . . . . . . Gma01g02245 Gma11g00169 . . Gso1g1908 Gso1g1908 . . . . . . . Lal23g1551 . . . . . . . . Lasa2g02736 . . . . . . . . . . . Mal6g0258 . Mepo5g00295 . Mesa17g00298 . . . Mtr5g0251 . . . Phco4g00251 . . . . . Pste1g01917 . . . . . Pumo8g02386 . Pvu2g1677 . Rops1g02241 . Seca10g00282 . Spst2g00251 . Ssu2g2928 . . . Tpr2g3911 . Trre9g00314 . Tsu05g00232 . Vian10g00213 . Vifa1g07971 . Vimu7g02398 . Viun2g02658 . Vivi2g03948 . Vra11g0235 .
Vvi2g0125 . . . . . . . . . Aev03g3131 . Ahy13g2739 . Aip03g03069 . . . Amo13g3319 Apr7g0538 Apr2g1259 . . . . . . . . Car08g00186 Car06g00464 . . . . . Dod04g2798 . . . . . . Gma05g02094 Gma08g00202 . . . . . . Lal23g0427 . Lal16g1165 . . . . . . . . . . . . . . . . . . . Lja4g0355 Lja4g0355 . Mal7g5013 . . . . . . Mtr5g0250 Mtr8g3530 . . . . . . . Psa7g0632 . . . . . . . . . . . . . . . . . . . . Tpr2g3912 Tpr3g0583 . . Tsu05g00231 Tsu02g00389 . . . . . . . . . . . .
Vvi2g0126 Acco11g1538 . Accr9g00903 . Adu03g02676 . . . . Aev03g3132 . Ahy13g2737 . Aip03g03067 Alju09g1536 . . Amo13g3314 . Apr2g1260 Arst3g03554 . . . Bisa11g0875 . Bva08g00072 Bva11g02203 . Car06g00463 . . Dere09g0121 . . Dod04g2799 Enph13g1468 . Glsi05g2172 . . . Gma05g02096 Gma08g00203 . . . . Lal15g0058 . . Lal15g1443 Lal16g1164 . Lan18g1120 . . Lan18g1120 Lan18g1120 . Lapu3g03648 . Lasa7g04849 . Lele49g0722 Lele50g0761 Lele51g0741 Lele52g0747 . . . . Lja4g0354 Lja4g0354 . . Mepo2g04706 . Mesa13g00409 . Mibi12g1305 . . Mtr8g3531 Phac2g00352 . Phco4g03369 . Prci10g1163 . . Psa7g0627 Pste3g00861 . . . . . Pumo6g00427 . Pvu2g3049 . Rops2g00477 . . . Spst3g01025 . . . Sto6g3136 . . Tpr3g0582 . . . Tsu02g00388 Vian1g03893 . Vifa6g03644 . Vimu11g04501 . Viun3g00488 . Vivi5g06030 . . .
Vvi2g0127 . . . . . . Aed11g1771 . . . . . . . . . . . Apr7g0537 . . . . . . . . . Car08g00185 . Cca06g01845 . . . . . . . . . Gma01g02246 Gma11g00168 . . Gso1g1909 Gso1g1909 . . . . . . . . . . . . . . . . Lasa2g02733 . . . . . . . . . . . Mal6g0262 . Mepo5g00293 . Mesa17g00296 . . . Mtr5g0249 . . . Phco4g00249 . . . . . Pste1g01913 . . . . . Pumo8g02389 . Pvu2g1679 . Rops1g02245 . Seca10g00279 . Spst2g00248 . Ssu2g2932 . . . Tpr2g3913 . Trre9g00310 . Tsu05g00230 . . . Vifa1g07973 . . . Viun2g02660 . Vivi2g03950 . . .
Vvi2g0128 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0129 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0130 Acco11g1536 . Accr7g00254 . Adu03g02675 . . . . Aev03g3133 . Ahy13g2732 . Aip03g03065 Alju09g1534 . . Amo13g3307 . Apr2g1261 . . Bach4g00063 . Bisa11g0873 . Bva08g00069 . . Car06g00462 . . Dere09g0119 . . Dod04g2800 Enph13g1469 . . . . . Gma05g02098 Gma08g00205 . . . . . . . Lal15g1444 Lal16g1163 . . . . . . . Lapu3g03651 . Lasa7g04852 . . . . . . . . . Lja4g0353 Lja4g0353 . Mal7g5016 Mepo2g04707 . Mesa13g00408 . Mibi12g1303 . . Mtr8g3534 . . Phco4g03370 . Prci10g1164 . . . Pste3g00859 . . . . . Pumo6g00425 . Pvu2g3050 . . . . . Spst3g01024 . . . Sto6g3133 . . Tpr3g0578 . . . Tsu02g00385 Vian1g03894 . Vifa6g03652 . Vimu11g04503 . . . . . . .
Vvi2g0131 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0122 Chr2 1094699 1097114 -
Vvi Vvi2g0123 Chr2 1100180 1102164 -
Vvi Vvi2g0124 Chr2 1105296 1112560 +
Aed Aed11g1767 Chr11 21120326 21125400 +
Apr Apr7g0539 Chr7 11831061 11835766 -
Bach Bach4g00064 Chr4 444759 451385 -
Bva Bva08g00073 Chr08 375343 379733 -
Bva Bva11g02202 Chr11 17903878 17908779 +
Car Car08g00187 Chr08 1466353 1471244 -
Cca Cca06g01843 Chr06 33847834 33851589 +
Gma Gma01g02245 Chr01 57649024 57654043 +
Gma Gma11g00169 Chr11 1307833 1312168 -
Gso Gso1g1908 Chr1 55815881 55820880 +
Gso Gso1g1908 Chr1 55815881 55820880 +
Lal Lal23g1551 Chr23 15600420 15605212 +
Lasa Lasa2g02736 Chr2 509096051 509100145 -
Mal Mal6g0258 Chr6 3581431 3587355 +
Mepo Mepo5g00295 Chr5 2605465 2611520 -
Mesa Mesa17g00298 Chr17 3154701 3160031 -
Mtr Mtr5g0251 Chr5 2301512 2307849 -
Phco Phco4g00251 Chr4 1584103 1590138 -
Pste Pste1g01917 Chr1 5948410 5953876 -
Pumo Pumo8g02386 Chr8 61077816 61078838 +
Pvu Pvu2g1677 Chr2 30474876 30481627 +
Rops Rops1g02241 Chr1 44362187 44369311 +
Seca Seca10g00282 Chr10 2419676 2428746 -
Spst Spst2g00251 Chr2 1937116 1942775 -
Ssu Ssu2g2928 Chr2 90651482 90656717 +
Tpr Tpr2g3911 Chr2 41815532 41820503 +
Trre Trre9g00314 Chr9 2259104 2259920 -
Tsu Tsu05g00232 Chr05 1691557 1698974 -
Vian Vian10g00213 Chr10 1865088 1868553 -
Vifa Vifa1g07971 Chr1 1243231149 1243235281 +
Vimu Vimu7g02398 Chr7 20572010 20573226 -
Viun Viun2g02658 Chr2 32195252 32200140 +
Vivi Vivi2g03948 Chr2 151851578 151856546 +
Vra Vra11g0235 Chr11 1578142 1582930 -
Vvi Vvi2g0125 Chr2 1124940 1126457 +
Aev Aev03g3131 Chr03 29909743 29916884 +
Ahy Ahy13g2739 Chr13 102724920 102729793 -
Aip Aip03g03069 Chr03 94601078 94603722 -
Amo Amo13g3319 Chr13 106508882 106513692 -
Apr Apr7g0538 Chr7 11824479 11826680 -
Apr Apr2g1259 Chr2 18846667 18851866 +
Car Car08g00186 Chr08 1462906 1465750 -
Car Car06g00464 Chr06 4686375 4693215 -
Dod Dod04g2798 Chr04 52037859 52040500 +
Gma Gma05g02094 Chr05 42224215 42226593 +
Gma Gma08g00202 Chr08 1760884 1768487 +
Lal Lal23g0427 Chr23 6954077 6958886 +
Lal Lal16g1165 Chr16 7960186 7963050 -
Lja Lja4g0355 Chr4 2834282 2836893 -
Lja Lja4g0355 Chr4 2834282 2836893 -
Mal Mal7g5013 Chr7 119275148 119278153 +
Mtr Mtr5g0250 Chr5 2295115 2297120 -
Mtr Mtr8g3530 Chr8 45920744 45923839 +
Psa Psa7g0632 Chr7 41039706 41046808 +
Tpr Tpr2g3912 Chr2 41822791 41824329 +
Tpr Tpr3g0583 Chr3 5734943 5738308 -
Tsu Tsu05g00231 Chr05 1688287 1689612 -
Tsu Tsu02g00389 Chr02 3220697 3228576 -
Vvi Vvi2g0126 Chr2 1131734 1137285 +
Acco Acco11g1538 Chr11 29848020 29850484 -
Accr Accr9g00903 Chr9 10668139 10670765 +
Adu Adu03g02676 Chr03 95882103 95883212 -
Aev Aev03g3132 Chr03 29921017 29924659 +
Ahy Ahy13g2737 Chr13 102695118 102701381 -
Aip Aip03g03067 Chr03 94576752 94577593 -
Alju Alju09g1536 Chr09 39277666 39279861 -
Amo Amo13g3314 Chr13 106310131 106318934 -
Apr Apr2g1260 Chr2 18856138 18861971 +
Arst Arst3g03554 Chr3 94765103 94771300 -
Bisa Bisa11g0875 Chr11 24348335 24350679 -
Bva Bva08g00072 Chr08 368963 373386 -
Bva Bva11g02203 Chr11 17915157 17922565 +
Car Car06g00463 Chr06 4681393 4683069 -
Dere Dere09g0121 Chr09 4039871 4042356 -
Dod Dod04g2799 Chr04 52042925 52049040 +
Enph Enph13g1468 Chr13 20243249 20255353 +
Glsi Glsi05g2172 Chr05 68080298 68096219 +
Gma Gma05g02096 Chr05 42233692 42237470 +
Gma Gma08g00203 Chr08 1769247 1773641 +
Lal Lal15g0058 Chr15 416544 419711 -
Lal Lal15g1443 Chr15 16634198 16640460 +
Lal Lal16g1164 Chr16 7944345 7952434 -
Lan Lan18g1120 Chr18 16178534 16183429 +
Lan Lan18g1120 Chr18 16178534 16183429 +
Lan Lan18g1120 Chr18 16178534 16183429 +
Lapu Lapu3g03648 Chr3 59950963 59958728 +
Lasa Lasa7g04849 Chr7 690878745 690883859 +
Lele Lele49g0722 Chr49 4394479 4405413 +
Lele Lele50g0761 Chr50 4686110 4694234 +
Lele Lele51g0741 Chr51 4491601 4493949 +
Lele Lele52g0747 Chr52 4734196 4735123 +
Lja Lja4g0354 Chr4 2825433 2831581 -
Lja Lja4g0354 Chr4 2825433 2831581 -
Mepo Mepo2g04706 Chr2 55403724 55406043 +
Mesa Mesa13g00409 Chr13 4775222 4777531 -
Mibi Mibi12g1305 Chr12 28618270 28619925 -
Mtr Mtr8g3531 Chr8 45929805 45937645 +
Phac Phac2g00352 Chr2 1753266 1755697 -
Phco Phco4g03369 Chr4 54091948 54098924 +
Prci Prci10g1163 Chr10 7756906 7766935 +
Psa Psa7g0627 Chr7 40896071 40899742 +
Pste Pste3g00861 Chr3 5368720 5374905 -
Pumo Pumo6g00427 Chr6 5379425 5384590 -
Pvu Pvu2g3049 Chr2 45968100 45972701 +
Rops Rops2g00477 Chr2 6810372 6817119 -
Spst Spst3g01025 Chr3 13621778 13625818 -
Sto Sto6g3136 Chr6 38141487 38143552 -
Tpr Tpr3g0582 Chr3 5719443 5725501 -
Tsu Tsu02g00388 Chr02 3218491 3220642 -
Vian Vian1g03893 Chr1 62077359 62081443 +
Vifa Vifa6g03644 Chr6 1200659496 1200665487 +
Vimu Vimu11g04501 Chr11 66004492 66012765 +
Viun Viun3g00488 Chr3 2884590 2891700 -
Vivi Vivi5g06030 Chr5 165216577 165223160 +
Vvi Vvi2g0127 Chr2 1137921 1144425 -
Aed Aed11g1771 Chr11 21137285 21138492 -
Apr Apr7g0537 Chr7 11819114 11823839 +
Car Car08g00185 Chr08 1449801 1462855 +
Cca Cca06g01845 Chr06 33861728 33865879 -
Gma Gma01g02246 Chr01 57655137 57657907 -
Gma Gma11g00168 Chr11 1303860 1307037 +
Gso Gso1g1909 Chr1 55822123 55824791 -
Gso Gso1g1909 Chr1 55822123 55824791 -
Lasa Lasa2g02733 Chr2 509048744 509051314 +
Mal Mal6g0262 Chr6 3610910 3615345 +
Mepo Mepo5g00293 Chr5 2593953 2598189 +
Mesa Mesa17g00296 Chr17 3143164 3146530 +
Mtr Mtr5g0249 Chr5 2291487 2294980 +
Phco Phco4g00249 Chr4 1570987 1574927 +
Pste Pste1g01913 Chr1 5934073 5939052 +
Pumo Pumo8g02389 Chr8 61088176 61092330 -
Pvu Pvu2g1679 Chr2 30488960 30492759 -
Rops Rops1g02245 Chr1 44397660 44401682 -
Seca Seca10g00279 Chr10 2405988 2415257 +
Spst Spst2g00248 Chr2 1922009 1928559 +
Ssu Ssu2g2932 Chr2 90692553 90696835 -
Tpr Tpr2g3913 Chr2 41824390 41827440 -
Trre Trre9g00310 Chr9 2235069 2237609 +
Tsu Tsu05g00230 Chr05 1685186 1688032 +
Vifa Vifa1g07973 Chr1 1243281752 1243284096 -
Viun Viun2g02660 Chr2 32207200 32210411 -
Vivi Vivi2g03950 Chr2 151864574 151866938 -
Vvi Vvi2g0128 Chr2 1151128 1151442 +
Vvi Vvi2g0129 Chr2 1157627 1161761 +
Vvi Vvi2g0130 Chr2 1165898 1168589 +
Acco Acco11g1536 Chr11 29824417 29828675 -
Accr Accr7g00254 Chr7 3279059 3281717 +
Adu Adu03g02675 Chr03 95555745 95559196 -
Aev Aev03g3133 Chr03 29927102 29930556 +
Ahy Ahy13g2732 Chr13 102469700 102473240 -
Aip Aip03g03065 Chr03 94389514 94392268 -
Alju Alju09g1534 Chr09 39261319 39265782 -
Amo Amo13g3307 Chr13 105885194 105888885 +
Apr Apr2g1261 Chr2 18864102 18868358 +
Bach Bach4g00063 Chr4 423538 427053 -
Bisa Bisa11g0873 Chr11 24302373 24305422 -
Bva Bva08g00069 Chr08 354807 359806 -
Car Car06g00462 Chr06 4674010 4677193 -
Dere Dere09g0119 Chr09 4013568 4017678 -
Dod Dod04g2800 Chr04 52053424 52058039 +
Enph Enph13g1469 Chr13 20259815 20263016 +
Gma Gma05g02098 Chr05 42250105 42254434 +
Gma Gma08g00205 Chr08 1783792 1786046 +
Lal Lal15g1444 Chr15 16652231 16655634 +
Lal Lal16g1163 Chr16 7935386 7938700 -
Lapu Lapu3g03651 Chr3 59970291 59974089 +
Lasa Lasa7g04852 Chr7 691169142 691171452 +
Lja Lja4g0353 Chr4 2818864 2823968 -
Lja Lja4g0353 Chr4 2818864 2823968 -
Mal Mal7g5016 Chr7 119313913 119316531 +
Mepo Mepo2g04707 Chr2 55415143 55418362 +
Mesa Mesa13g00408 Chr13 4767640 4770469 -
Mibi Mibi12g1303 Chr12 28601303 28607600 -
Mtr Mtr8g3534 Chr8 45953624 45956810 +
Phco Phco4g03370 Chr4 54099152 54104522 +
Prci Prci10g1164 Chr10 7772592 7775707 +
Pste Pste3g00859 Chr3 5363099 5366894 -
Pumo Pumo6g00425 Chr6 5367592 5370866 -
Pvu Pvu2g3050 Chr2 45975741 45978990 +
Spst Spst3g01024 Chr3 13593534 13596739 -
Sto Sto6g3133 Chr6 38127164 38129866 -
Tpr Tpr3g0578 Chr3 5700141 5703225 -
Tsu Tsu02g00385 Chr02 3204389 3207525 -
Vian Vian1g03894 Chr1 62090095 62092813 +
Vifa Vifa6g03652 Chr6 1201598418 1201601225 +
Vimu Vimu11g04503 Chr11 66015026 66017663 +
Vvi Vvi2g0131 Chr2 1168949 1169486 -