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
Vvi4g0134 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0135 . . . . . Adu06g02975 . Aed6g1271 . . Ahy16g3277 . Aip06g03521 . . . Amo16g3993 . . . . Arst6g03859 . . . . Bva10g00533 . . . . Cca05g00784 . . Dod08g1826 . . . . . Gma14g00907 Gma17g02144 . . Gso14g0878 Gso14g0878 . . . . . . . . . . . . . . . Lapu8g00720 . Lasa6g00482 . . . . . . . . . . . . . Mepo4g00489 . Mesa1g00522 . . . . . . . Phco2g00467 . . . . . . . . . . . Pumo9g00484 . Pvu1g0409 . Rops9g02015 . Seca8g03348 . Spst8g02398 . Ssu5g0462 . . . . . Trre1g00556 . . . Vian7g00540 . . . Vimu1g02769 . Viun8g00591 . Vivi4g05315 . Vra6g1688
Vvi4g0136 . . . . Adu08g00878 Adu06g02976 Aed4g1667 Aed6g1272 . Aev08g0485 Ahy16g3278 Ahy17g3136 Aip06g03522 Aip07g03407 . . Amo16g3994 . . . Arst8g01177 Arst6g03860 Bach12g00389 . . . Bva10g00532 Bva06g02259 Car05g02854 . Cca03g01708 Cca05g00785 . . Dod08g1827 . . . . . . Gma17g02145 Gma04g00500 Gma06g00490 . . . . Lal21g0276 . . . . . Lan3g1138 . . . . . Lapu9g02012 Lapu8g00721 Lasa5g03889 Lasa6g00481 . . . . . . . . Lja1g4015 . Mal2g1041 . Mepo3g07295 Mepo4g00487 Mesa9g04843 . . . Mtr3g3789 . Phac9g00164 . Phco7g00609 Phco2g00464 . . Psa5g0825 . Pste2g01364 . Pte3g01239 . . . Pumo10g00234 Pumo9g00482 Pvu9g0822 Pvu1g0406 Rops10g01257 Rops9g02016 Seca4g01210 . Spst9g00632 Spst8g02396 Ssu1g3609 Ssu5g0461 Sto5g0998 . Tpr7g0781 . . Trre1g00555 Tsu07g00793 . Vian4g02111 Vian7g00541 Vifa2g03798 . Vimu10g03121 Vimu1g02770 Viun9g03267 Viun8g00588 Vivi3g01599 Vivi4g05317 Vra5g1370 Vra6g1689
Vvi4g0137 . . . . Adu08g00876 . Aed4g1668 . . Aev08g0486 . Ahy17g3135 . Aip07g03406 . . . . . . Arst8g01175 . . . . . Bva10g00531 . Car05g02855 . Cca03g01707 . . . . . . . . . . . Gma04g00501 Gma06g00491 . . . . . Lal4g0174 . . . . . . . . . . Lapu9g02011 . Lasa5g03890 . . . . . . . . . Lja1g4014 . Mal2g1040 . Mepo3g07296 . Mesa9g04844 . . . Mtr3g3790 . Phac9g00165 . Phco7g00610 . . . Psa5g0824 . Pste2g01366 . Pte3g01240 Pte1g01357 . . Pumo10g00233 . Pvu9g0823 . Rops10g01258 . Seca4g01207 . Spst9g00633 . Ssu1g3608 . . . Tpr7g0780 . Trre5g05029 . Tsu07g00790 . Vian4g02106 . Vifa2g03799 . Vimu10g03118 . Viun9g03265 . Vivi3g01596 . Vra5g1369 .
Vvi4g0138 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2961 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0139 Acco10g1872 . Accr4g00905 . Adu08g00875 . . . . . . . . . Alju08g0920 . . . . . Arst8g01174 . Bach12g00390 . Bisa09g1056 . . Bva06g02261 Car05g02856 . . . Dere04g0432 . . . Enph1g1285 . Glsi08g1720 . . Gma17g02146 Gma04g00502 Gma06g00492 . . . . Lal21g0278 . . . . . Lan3g1137 . . . . . Lapu9g02010 . Lasa5g03892 . . . . . . . . . . Lja5g2960 Mal2g1039 . Mepo3g07298 . Mesa9g04847 . Mibi05g0833 . Mtr3g3792 . . . Phco7g00611 . Prci8g0124 . . . Pste2g01367 . Pte3g01241 Pte1g01356 . . Pumo10g00232 . Pvu9g0824 . Rops10g01260 . Seca4g01205 . Spst9g00634 . . . . . Tpr7g0779 . Trre5g05030 . Tsu07g00789 . Vian4g02105 . Vifa2g03800 . Vimu10g03117 . Viun9g03264 . Vivi3g01590 . . .
Vvi4g0140 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0141 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car05g02857 . . . . . . . . . . . . Gma17g02147 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja5g2958 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0142 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma17g02146 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0143 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0134 Chr4 1201818 1202181 +
Vvi Vvi4g0135 Chr4 1204793 1208351 +
Adu Adu06g02975 Chr06 107637521 107642119 +
Aed Aed6g1271 Chr6 17462000 17466496 +
Ahy Ahy16g3277 Chr16 149476593 149480844 +
Aip Aip06g03521 Chr06 132462775 132467318 +
Amo Amo16g3993 Chr16 151945941 151950605 +
Arst Arst6g03859 Chr6 106836115 106840990 +
Bva Bva10g00533 Chr10 4992119 4996343 -
Cca Cca05g00784 Chr05 21739254 21743377 +
Dod Dod08g1826 Chr08 42871978 42876493 +
Gma Gma14g00907 Chr14 10228773 10232764 -
Gma Gma17g02144 Chr17 38972419 38975791 +
Gso Gso14g0878 Chr14 10168992 10173124 -
Gso Gso14g0878 Chr14 10168992 10173124 -
Lapu Lapu8g00720 Chr8 25171078 25175084 +
Lasa Lasa6g00482 Chr6 14622422 14625588 -
Mepo Mepo4g00489 Chr4 6857621 6861398 -
Mesa Mesa1g00522 Chr1 6636750 6639939 -
Phco Phco2g00467 Chr2 4216235 4219544 -
Pumo Pumo9g00484 Chr9 7486439 7486978 -
Pvu Pvu1g0409 Chr1 4093864 4097852 -
Rops Rops9g02015 Chr9 37186077 37190181 +
Seca Seca8g03348 Chr8 96018866 96023250 +
Spst Spst8g02398 Chr8 35489819 35493199 -
Ssu Ssu5g0462 Chr5 9486660 9490066 -
Trre Trre1g00556 Chr1 4200650 4203822 -
Vian Vian7g00540 Chr7 12993196 12996536 +
Vimu Vimu1g02769 Chr1 39960788 39964131 +
Viun Viun8g00591 Chr8 4397215 4401292 -
Vivi Vivi4g05315 Chr4 186255358 186258924 +
Vra Vra6g1688 Chr6 32937120 32941052 +
Vvi Vvi4g0136 Chr4 1210142 1211252 -
Adu Adu08g00878 Chr08 16308403 16310283 +
Adu Adu06g02976 Chr06 107642950 107644909 -
Aed Aed4g1667 Chr4 21234178 21234958 -
Aed Aed6g1272 Chr6 17468413 17469531 -
Aev Aev08g0485 Chr08 2742116 2742879 -
Ahy Ahy16g3278 Chr16 149481976 149484280 -
Ahy Ahy17g3136 Chr17 133079909 133081676 +
Aip Aip06g03522 Chr06 132468408 132470189 -
Aip Aip07g03407 Chr07 123809146 123810875 +
Amo Amo16g3994 Chr16 151951414 151953475 -
Arst Arst8g01177 Chr8 16277077 16278986 +
Arst Arst6g03860 Chr6 106841641 106843634 -
Bach Bach12g00389 Chr12 2600822 2601811 -
Bva Bva10g00532 Chr10 4989984 4990843 +
Bva Bva06g02259 Chr06 14731911 14733327 -
Car Car05g02854 Chr05 73565467 73569851 -
Cca Cca03g01708 Chr03 36154447 36155999 +
Cca Cca05g00785 Chr05 21744728 21746499 -
Dod Dod08g1827 Chr08 42878693 42880623 -
Gma Gma17g02145 Chr17 38978469 38979981 -
Gma Gma04g00500 Chr04 4471178 4472569 -
Gma Gma06g00490 Chr06 4184809 4191375 -
Lal Lal21g0276 Chr21 1840141 1841914 -
Lan Lan3g1138 Chr3 23697736 23702575 +
Lapu Lapu9g02012 Chr9 34937642 34938388 +
Lapu Lapu8g00721 Chr8 25181397 25182558 -
Lasa Lasa5g03889 Chr5 607006814 607007386 -
Lasa Lasa6g00481 Chr6 14621201 14621866 +
Lja Lja1g4015 Chr1 50911167 50912503 +
Mal Mal2g1041 Chr2 12159036 12159784 +
Mepo Mepo3g07295 Chr3 86512265 86513558 -
Mepo Mepo4g00487 Chr4 6830002 6831053 +
Mesa Mesa9g04843 Chr9 82734795 82735819 -
Mtr Mtr3g3789 Chr3 51741767 51742894 -
Phac Phac9g00164 Chr9 1118854 1119744 -
Phco Phco7g00609 Chr7 4597733 4598472 -
Phco Phco2g00464 Chr2 4188106 4192270 +
Psa Psa5g0825 Chr5 65663044 65665236 +
Pste Pste2g01364 Chr2 14936163 14937044 -
Pte Pte3g01239 Chr3 10589349 10591095 -
Pumo Pumo10g00234 Chr10 3148389 3153516 +
Pumo Pumo9g00482 Chr9 7481604 7483229 +
Pvu Pvu9g0822 Chr9 12910792 12911776 -
Pvu Pvu1g0406 Chr1 4074888 4076353 +
Rops Rops10g01257 Chr10 25139602 25141031 -
Rops Rops9g02016 Chr9 37199022 37200583 -
Seca Seca4g01210 Chr4 19237522 19239067 +
Spst Spst9g00632 Chr9 5521001 5521710 -
Spst Spst8g02396 Chr8 35440870 35443508 +
Ssu Ssu1g3609 Chr1 91493664 91494781 +
Ssu Ssu5g0461 Chr5 9483285 9484316 +
Sto Sto5g0998 Chr5 6729500 6732216 +
Tpr Tpr7g0781 Chr7 6893014 6894615 +
Trre Trre1g00555 Chr1 4198557 4199623 +
Tsu Tsu07g00793 Chr07 6484085 6486517 +
Vian Vian4g02111 Chr4 37952371 37953138 +
Vian Vian7g00541 Chr7 12999475 13000581 -
Vifa Vifa2g03798 Chr2 1113056463 1113057002 -
Vimu Vimu10g03121 Chr10 41938100 41939256 +
Vimu Vimu1g02770 Chr1 39966926 39968180 -
Viun Viun9g03267 Chr9 39570628 39571535 +
Viun Viun8g00588 Chr8 4384965 4386270 +
Vivi Vivi3g01599 Chr3 26164382 26165149 +
Vivi Vivi4g05317 Chr4 186266431 186267319 -
Vra Vra5g1370 Chr5 20480468 20481561 +
Vra Vra6g1689 Chr6 32943440 32944836 -
Vvi Vvi4g0137 Chr4 1213611 1219590 +
Adu Adu08g00876 Chr08 16294101 16297809 -
Aed Aed4g1668 Chr4 21237310 21241376 +
Aev Aev08g0486 Chr08 2745957 2749123 +
Ahy Ahy17g3135 Chr17 133070591 133074179 -
Aip Aip07g03406 Chr07 123800202 123803416 -
Arst Arst8g01175 Chr8 16262690 16266419 -
Bva Bva10g00531 Chr10 4983849 4988308 -
Car Car05g02855 Chr05 73572163 73577109 +
Cca Cca03g01707 Chr03 36145351 36150361 -
Gma Gma04g00501 Chr04 4482043 4487202 +
Gma Gma06g00491 Chr06 4194232 4199226 +
Lal Lal4g0174 Chr4 1101315 1105612 +
Lapu Lapu9g02011 Chr9 34927796 34932774 -
Lasa Lasa5g03890 Chr5 607054876 607058401 +
Lja Lja1g4014 Chr1 50903398 50908273 -
Mal Mal2g1040 Chr2 12149068 12155165 -
Mepo Mepo3g07296 Chr3 86515184 86520770 +
Mesa Mesa9g04844 Chr9 82738510 82743707 +
Mtr Mtr3g3790 Chr3 51745451 51751014 +
Phac Phac9g00165 Chr9 1124955 1130897 +
Phco Phco7g00610 Chr7 4603183 4607943 +
Psa Psa5g0824 Chr5 65569534 65573389 -
Pste Pste2g01366 Chr2 14968863 14974480 +
Pte Pte3g01240 Chr3 10608764 10614159 +
Pte Pte1g01357 Chr1 35074628 35080029 -
Pumo Pumo10g00233 Chr10 3119692 3124129 -
Pvu Pvu9g0823 Chr9 12915505 12920902 +
Rops Rops10g01258 Chr10 25147928 25153160 +
Seca Seca4g01207 Chr4 19218188 19219756 -
Spst Spst9g00633 Chr9 5539550 5545029 +
Ssu Ssu1g3608 Chr1 91471214 91475588 -
Tpr Tpr7g0780 Chr7 6885080 6892571 -
Trre Trre5g05029 Chr5 51827501 51832179 +
Tsu Tsu07g00790 Chr07 6470831 6475679 -
Vian Vian4g02106 Chr4 37882715 37887649 -
Vifa Vifa2g03799 Chr2 1113132021 1113135529 +
Vimu Vimu10g03118 Chr10 41923744 41928849 -
Viun Viun9g03265 Chr9 39559951 39565349 -
Vivi Vivi3g01596 Chr3 26152578 26156488 -
Vra Vra5g1369 Chr5 20467433 20472688 -
Vvi Vvi4g0138 Chr4 1219942 1220412 -
Lja Lja5g2961 Chr5 58133877 58134600 -
Vvi Vvi4g0139 Chr4 1222087 1222545 -
Acco Acco10g1872 Chr10 31642151 31643337 -
Accr Accr4g00905 Chr4 8610320 8611538 +
Adu Adu08g00875 Chr08 16292551 16293520 +
Alju Alju08g0920 Chr08 7005525 7005998 +
Arst Arst8g01174 Chr8 16261273 16262082 +
Bach Bach12g00390 Chr12 2607059 2607529 -
Bisa Bisa09g1056 Chr09 15467362 15468046 -
Bva Bva06g02261 Chr06 14737153 14737951 -
Car Car05g02856 Chr05 73577527 73578511 -
Dere Dere04g0432 Chr04 4376705 4377521 -
Enph Enph1g1285 Chr1 38629561 38630726 -
Glsi Glsi08g1720 Chr08 12240874 12243346 +
Gma Gma17g02146 Chr17 38985795 38986348 -
Gma Gma04g00502 Chr04 4487472 4488573 -
Gma Gma06g00492 Chr06 4200583 4201059 -
Lal Lal21g0278 Chr21 1843929 1844345 -
Lan Lan3g1137 Chr3 23694580 23695228 +
Lapu Lapu9g02010 Chr9 34926505 34926975 +
Lasa Lasa5g03892 Chr5 607204335 607204808 -
Lja Lja5g2960 Chr5 58118644 58119472 -
Mal Mal2g1039 Chr2 12147571 12148044 +
Mepo Mepo3g07298 Chr3 86526435 86528182 -
Mesa Mesa9g04847 Chr9 82762129 82762605 -
Mibi Mibi05g0833 Chr05 7828504 7829376 +
Mtr Mtr3g3792 Chr3 51755947 51756702 -
Phco Phco7g00611 Chr7 4608938 4609687 -
Prci Prci8g0124 Chr8 765460 766825 +
Pste Pste2g01367 Chr2 14974699 14974980 -
Pte Pte3g01241 Chr3 10614170 10614955 -
Pte Pte1g01356 Chr1 35073832 35074617 +
Pumo Pumo10g00232 Chr10 3118680 3119359 +
Pvu Pvu9g0824 Chr9 12921534 12922280 -
Rops Rops10g01260 Chr10 25162519 25162836 -
Seca Seca4g01205 Chr4 19210680 19214933 +
Spst Spst9g00634 Chr9 5545859 5546329 -
Tpr Tpr7g0779 Chr7 6883935 6884646 +
Trre Trre5g05030 Chr5 51833230 51833703 -
Tsu Tsu07g00789 Chr07 6469604 6470121 +
Vian Vian4g02105 Chr4 37880854 37881228 +
Vifa Vifa2g03800 Chr2 1113138628 1113139101 -
Vimu Vimu10g03117 Chr10 41922302 41922964 +
Viun Viun9g03264 Chr9 39558909 39559734 +
Vivi Vivi3g01590 Chr3 26060806 26061728 +
Vvi Vvi4g0140 Chr4 1223555 1224025 -
Vvi Vvi4g0141 Chr4 1224823 1225293 -
Car Car05g02857 Chr05 73580112 73581029 -
Gma Gma17g02147 Chr17 38989900 38990310 -
Lja Lja5g2958 Chr5 58063950 58064429 -
Vvi Vvi4g0142 Chr4 1226754 1229871 -
Gma Gma17g02146 Chr17 38985795 38986348 -
Vvi Vvi4g0143 Chr4 1230119 1232059 +
Gma Gma17g02144 Chr17 38972419 38975791 +
Lja Lja1g4015 Chr1 50911167 50912503 +