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
Vvi17g0073 . . . . . . . . . . . . . . . . . . Apr1g0319 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja1g4336 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0074 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0075 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0076 . . . . . . Aed10g0785 . Aev08g2424 . Ahy18g2933 . Aip08g03332 . . . . . Apr1g0318 . . . . . . . . Bva05g00218 . Car06g00570 Cca03g00302 . . . Dod09g0118 . . . . . Gma06g01489 Gma08g00099 Gma05g01992 . Gso6g1415 Gso6g1415 Gso6g1415 . Lal19g1016 . . Lal17g0831 . . Lan1g1482 . . Lan1g1482 . . . . . . . . . . . . . . Lja1g4335 . Mal7g4874 Mal2g1348 . . . . . . Mtr8g3406 Mtr3g3492 . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2408 . Sto4g0163 . Tpr3g0695 Tpr3g3302 . . Tsu02g00519 Tsu07g01153 . . . . . . . . . . Vra5g0643 .
Vvi17g0077 . . . . . Adu03g02859 Aed10g0786 Aed5g2238 Aev08g2423 . Ahy18g2934 . Aip08g03333 . . . . . Apr1g0317 Apr2g1153 . Arst3g03780 . . . . Bva06g01532 Bva05g00219 . Car05g02630 Cca03g00303 Cca09g02385 . . Dod09g0120 . . . . . Gma06g01490 Gma08g00100 Gma05g01993 . Gso6g1416 Gso6g1416 Gso6g1416 . Lal19g1017 . . . Lal4g0702 . Lan1g1481 . . . Lan1g1481 . . . . . . . . . . . . . Lja1g4334 . . Mal2g1347 . . . . . . . Mtr3g3493 . . . Phco4g03235 . . . . . Pste3g01181 . . Pte2g02480 Pte3g00144 . Pumo6g00545 . Pvu2g2931 . . . . . Spst3g01155 Ssu1g2407 Ssu5g2999 Sto4g0161 . . Tpr3g3303 . . . Tsu07g01151 . Vian1g03783 . Vifa2g03419 . Vimu11g04345 . Viun3g00645 . . Vra5g0644 Vra7g3455
Vvi17g0078 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0079 . . . . . . . . Aev08g2422 . Ahy18g2935 . Aip08g03334 . . . . . Apr1g0316 . . . . . . . . Bva05g00220 . Car05g02631 Cca03g00304 . . . Dod09g0121 . . . . . . . . . . . . . . . . . Lal4g0704 . . . . . . . . . . . . . . . . . . . Lja1g4333 . . Mal2g1346 . . . . . . . Mtr3g3494 . . . . . . . . . . . . . . . . . . . . . . . . Ssu1g2405 . Sto4g0160 . . Tpr3g3312 . . . Tsu07g01150 . . . . . . . . . . . .
Vvi17g0080 . . . . Adu01g01544 . . Aed6g0492 . . . . . . . . . . . . Arst1g02037 . . . . . . . Car07g01202 . . Cca11g01664 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu3g01284 . Lasa4g02893 . . . . . . . . . . . Mal5g3916 . Mepo1g01571 . . . . . Mtr4g3636 . Phac3g03335 . Phco8g00722 . . . . . Pste6g01534 . . . . . Pumo4g01614 . Pvu3g2227 . Rops2g04220 . Seca12g01879 . Spst3g04358 . . Ssu6g1568 . . Tpr5g2692 . Trre15g03159 . Tsu04g02444 . Vian1g01367 . Vifa4g03003 . Vimu11g00082 . Viun3g04218 . Vivi1g02421 . . Vra7g1420
Vvi17g0081 . . . . . Adu03g02858 . Aed5g2239 . . . . . . . . . . . Apr2g1155 . Arst3g03779 . . . . Bva06g01529 . . Car06g00569 . Cca09g02386 . . . . . . . . . Gma08g00101 . . . . . . . Lal7g0870 . . . . . . . . . . . Lapu3g03540 . Lasa7g04664 . . . . . . . . . Lja4g0467 Mal7g4875 . . Mepo2g04558 . Mesa13g00534 . . Mtr8g3407 . . Phac2g04289 . Phco4g03236 . . . Psa7g0850 . Pste3g01179 . . . . . Pumo6g00544 . Pvu2g2932 . Rops2g00620 . Seca12g06422 . Spst3g01153 . Ssu5g3001 Sto4g0156 . Tpr3g0694 . . Trre7g05357 Tsu02g00518 . . Vian1g03784 . Vifa6g03438 . Vimu11g04346 . Viun3g00644 . Vivi5g05775 . Vra7g3456
Vvi17g0082 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Seca Seca12g01879 Chr12 21802081 21805774 -
Vvi Vvi17g0073 Chr17 663556 663948 +
Apr Apr1g0319 Chr1 3808480 3808980 -
Lja Lja1g4336 Chr1 56022927 56023361 -
Vvi Vvi17g0074 Chr17 675326 675634 +
Vvi Vvi17g0075 Chr17 691438 691896 +
Vvi Vvi17g0076 Chr17 696682 698079 -
Aed Aed10g0785 Chr10 6513325 6515703 -
Aev Aev08g2424 Chr08 23195152 23197275 +
Ahy Ahy18g2933 Chr18 134353675 134360171 -
Aip Aip08g03332 Chr08 124581089 124587774 -
Apr Apr1g0318 Chr1 3790531 3794016 +
Bva Bva05g00218 Chr05 1087521 1089405 -
Car Car06g00570 Chr06 5725086 5728027 +
Cca Cca03g00302 Chr03 4587976 4591795 -
Dod Dod09g0118 Chr09 1740522 1743112 -
Gma Gma06g01489 Chr06 14341639 14345327 -
Gma Gma08g00099 Chr08 868265 871133 -
Gma Gma05g01992 Chr05 41281177 41286336 -
Gso Gso6g1415 Chr6 14061486 14065208 -
Gso Gso6g1415 Chr6 14061486 14065208 -
Gso Gso6g1415 Chr6 14061486 14065208 -
Lal Lal19g1016 Chr19 14019857 14022215 -
Lal Lal17g0831 Chr17 6178276 6181947 -
Lan Lan1g1482 Chr1 24877170 24880093 +
Lan Lan1g1482 Chr1 24877170 24880093 +
Lja Lja1g4335 Chr1 56002958 56005460 +
Mal Mal7g4874 Chr7 117332678 117335551 -
Mal Mal2g1348 Chr2 16187018 16191080 +
Mtr Mtr8g3406 Chr8 44625422 44628897 -
Mtr Mtr3g3492 Chr3 48802999 48806675 -
Ssu Ssu1g2408 Chr1 67205747 67209905 +
Sto Sto4g0163 Chr4 1198119 1199704 +
Tpr Tpr3g0695 Chr3 6677388 6681608 +
Tpr Tpr3g3302 Chr3 36356320 36361443 -
Tsu Tsu02g00519 Chr02 4342735 4344896 +
Tsu Tsu07g01153 Chr07 9825614 9830941 +
Vra Vra5g0643 Chr5 9934345 9942325 -
Vvi Vvi17g0077 Chr17 701297 707292 -
Adu Adu03g02859 Chr03 108262449 108265836 +
Aed Aed10g0786 Chr10 6518437 6524969 -
Aed Aed5g2238 Chr5 24359346 24364297 -
Aev Aev08g2423 Chr08 23186502 23192112 +
Ahy Ahy18g2934 Chr18 134363363 134369317 -
Aip Aip08g03333 Chr08 124590638 124596566 -
Apr Apr1g0317 Chr1 3773372 3782831 +
Apr Apr2g1153 Chr2 17799483 17805861 -
Arst Arst3g03780 Chr3 106988579 106992064 +
Bva Bva06g01532 Chr06 11006986 11012240 +
Bva Bva05g00219 Chr05 1090894 1095224 -
Car Car05g02630 Chr05 71322494 71328729 -
Cca Cca03g00303 Chr03 4600066 4606286 -
Cca Cca09g02385 Chr09 49242973 49250026 -
Dod Dod09g0120 Chr09 1749981 1754829 -
Gma Gma06g01490 Chr06 14348814 14354539 -
Gma Gma08g00100 Chr08 878118 884020 -
Gma Gma05g01993 Chr05 41298297 41305667 -
Gso Gso6g1416 Chr6 14068797 14074616 -
Gso Gso6g1416 Chr6 14068797 14074616 -
Gso Gso6g1416 Chr6 14068797 14074616 -
Lal Lal19g1017 Chr19 14028523 14033340 -
Lal Lal4g0702 Chr4 5673552 5682904 -
Lan Lan1g1481 Chr1 24865990 24870822 +
Lan Lan1g1481 Chr1 24865990 24870822 +
Lja Lja1g4334 Chr1 55991288 55998904 +
Mal Mal2g1347 Chr2 16173612 16178882 +
Mtr Mtr3g3493 Chr3 48812529 48818169 -
Phco Phco4g03235 Chr4 53011497 53016313 -
Pste Pste3g01181 Chr3 7521972 7522819 +
Pte Pte2g02480 Chr2 44047955 44050867 +
Pte Pte3g00144 Chr3 1429012 1433878 +
Pumo Pumo6g00545 Chr6 6788770 6794846 +
Pvu Pvu2g2931 Chr2 44839291 44843951 -
Spst Spst3g01155 Chr3 14963822 14968551 +
Ssu Ssu1g2407 Chr1 67199926 67200404 +
Ssu Ssu5g2999 Chr5 77133791 77138642 -
Sto Sto4g0161 Chr4 1184619 1189374 +
Tpr Tpr3g3303 Chr3 36371036 36378031 -
Tsu Tsu07g01151 Chr07 9799277 9805146 +
Vian Vian1g03783 Chr1 60822291 60826797 -
Vifa Vifa2g03419 Chr2 986378153 986382637 -
Vimu Vimu11g04345 Chr11 64789219 64793682 -
Viun Viun3g00645 Chr3 3958685 3962721 +
Vra Vra5g0644 Chr5 9959600 9965508 -
Vra Vra7g3455 Chr7 53930397 53934761 -
Vvi Vvi17g0078 Chr17 711769 715770 +
Vvi Vvi17g0079 Chr17 717777 722900 +
Aev Aev08g2422 Chr08 23180713 23183839 -
Ahy Ahy18g2935 Chr18 134374701 134378168 +
Aip Aip08g03334 Chr08 124601203 124604687 +
Apr Apr1g0316 Chr1 3759911 3767141 -
Bva Bva05g00220 Chr05 1095718 1099102 +
Car Car05g02631 Chr05 71333133 71337730 +
Cca Cca03g00304 Chr03 4615045 4619701 +
Dod Dod09g0121 Chr09 1756198 1760163 +
Lal Lal4g0704 Chr4 5703896 5709699 +
Lja Lja1g4333 Chr1 55969496 55975230 -
Mal Mal2g1346 Chr2 16163906 16168818 -
Mtr Mtr3g3494 Chr3 48823412 48829254 +
Ssu Ssu1g2405 Chr1 67179991 67185226 -
Sto Sto4g0160 Chr4 1178696 1182383 -
Tpr Tpr3g3312 Chr3 36532702 36542768 +
Tsu Tsu07g01150 Chr07 9783373 9789182 -
Vvi Vvi17g0080 Chr17 723812 725574 -
Adu Adu01g01544 Chr01 45008145 45011539 +
Aed Aed6g0492 Chr6 4262103 4265404 -
Arst Arst1g02037 Chr1 45482713 45486143 +
Car Car07g01202 Chr07 10805589 10809049 -
Cca Cca11g01664 Chr11 40697291 40699636 +
Lapu Lapu3g01284 Chr3 13937864 13941172 -
Lasa Lasa4g02893 Chr4 537940264 537942572 +
Mal Mal5g3916 Chr5 108538787 108540941 +
Mepo Mepo1g01571 Chr1 15472924 15475912 -
Mtr Mtr4g3636 Chr4 50135508 50138485 +
Phac Phac3g03335 Chr3 34101815 34105151 -
Phco Phco8g00722 Chr8 7212045 7214523 -
Pste Pste6g01534 Chr6 6713129 6715975 +
Pumo Pumo4g01614 Chr4 20384752 20388084 -
Pvu Pvu3g2227 Chr3 43205231 43208556 -
Rops Rops2g04220 Chr2 76678208 76681265 -
Seca Seca12g01879 Chr12 21802081 21805774 -
Spst Spst3g04358 Chr3 95211434 95213963 +
Ssu Ssu6g1568 Chr6 25821133 25823637 -
Tpr Tpr5g2692 Chr5 49146626 49149986 +
Trre Trre15g03159 Chr15 29327774 29331586 -
Tsu Tsu04g02444 Chr04 27556282 27559468 +
Vian Vian1g01367 Chr1 14894818 14897288 -
Vifa Vifa4g03003 Chr4 963098507 963100641 +
Vimu Vimu11g00082 Chr11 755086 756593 -
Viun Viun3g04218 Chr3 49861758 49865028 +
Vivi Vivi1g02421 Chr1 50883417 50886232 -
Vra Vra7g1420 Chr7 31453951 31457215 +
Vvi Vvi17g0081 Chr17 734895 740741 +
Adu Adu03g02858 Chr03 108258837 108262187 -
Aed Aed5g2239 Chr5 24364945 24367694 +
Apr Apr2g1155 Chr2 17814167 17820607 +
Arst Arst3g03779 Chr3 106975937 106988573 -
Bva Bva06g01529 Chr06 10996415 11000993 -
Car Car06g00569 Chr06 5713295 5719579 -
Cca Cca09g02386 Chr09 49256519 49260948 +
Gma Gma08g00101 Chr08 884643 887826 +
Lal Lal7g0870 Chr7 15249082 15255463 +
Lapu Lapu3g03540 Chr3 58824323 58828566 +
Lasa Lasa7g04664 Chr7 677915611 677919939 +
Lja Lja4g0467 Chr4 3809995 3814398 -
Mal Mal7g4875 Chr7 117339377 117343763 +
Mepo Mepo2g04558 Chr2 54043598 54048075 +
Mesa Mesa13g00534 Chr13 6234726 6238151 -
Mtr Mtr8g3407 Chr8 44637596 44641887 +
Phac Phac2g04289 Chr2 41357649 41361906 +
Phco Phco4g03236 Chr4 53028194 53031495 +
Psa Psa7g0850 Chr7 62402016 62406694 -
Pste Pste3g01179 Chr3 7510294 7514670 -
Pumo Pumo6g00544 Chr6 6781961 6786426 -
Pvu Pvu2g2932 Chr2 44846590 44850663 +
Rops Rops2g00620 Chr2 8822037 8832823 -
Seca Seca12g06422 Chr12 156282785 156287264 +
Spst Spst3g01153 Chr3 14958455 14961987 -
Ssu Ssu5g3001 Chr5 77148111 77151489 +
Sto Sto4g0156 Chr4 1167248 1171307 -
Tpr Tpr3g0694 Chr3 6667058 6672402 -
Trre Trre7g05357 Chr7 59717208 59721602 +
Tsu Tsu02g00518 Chr02 4335398 4339372 -
Vian Vian1g03784 Chr1 60829074 60832409 +
Vifa Vifa6g03438 Chr6 1131663401 1131668047 +
Vimu Vimu11g04346 Chr11 64799417 64803342 +
Viun Viun3g00644 Chr3 3949085 3953043 -
Vivi Vivi5g05775 Chr5 161525765 161532611 +
Vra Vra7g3456 Chr7 53941111 53945305 +
Vvi Vvi17g0082 Chr17 743853 744116 -