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
Vvi3g0803 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0804 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0805 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0806 . . . . . . Aed1g2022 . . . . . . . . . . . Apr8g2406 . . . Bach11g00348 . . . Bva13g00396 . Car04g01411 . Cca02g02491 . . . . . . . . . . . . . . . . . . . . . Lal12g0377 . . . . . . . Lapu7g02262 . Lasa6g04419 . . . . . . . . . Lja5g0451 . . Mal1g0586 Mepo4g04517 . Mesa1g04952 . . . . Mtr1g4014 . . . . . . Psa6g4908 . . . . . . . . . Pvu7g0468 . . . . . . . Ssu7g0524 . . . . Tpr1g0494 Trre1g05759 . . . . . . . . . . . Vivi1g03964 . . .
Vvi3g0807 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0808 . . . . . . Aed1g2025 . Aev09g2456 . Ahy19g3342 . Aip09g03809 . . . Amo19g4254 . Apr8g2404 . . . . . . . Bva13g00399 Bva14g00486 . . Cca02g02489 . . . Dod06g0504 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu7g0526 . . Sto10g0375 . . . . . . . . . . . . . . . . . .
Vvi3g0809 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0810 . . . . Adu09g02583 . Aed1g2026 . . . Ahy19g3343 . Aip09g03810 . . . . . Apr8g2403 . Arst9g03433 . . . . . . Bva14g00487 Car04g01407 . Cca02g02487 . . . . . . . . . . . . . . . . . . . . Lal13g0368 Lal12g0375 . . . . . . . Lapu7g02258 . Lasa6g04414 . . . . . . . . . Lja5g0453 . . . . . . . . . . . . . Phco6g02740 . . . . . Pste4g01244 . . . . . Pumo3g00685 . Pvu7g0470 . Rops6g03047 . Seca8g07678 . Spst10g01240 . Ssu7g0527 . Sto2g0493 . . . . . . . Vian3g00426 . Vifa3g03279 . Vimu3g03338 . Viun7g03575 . Vivi1g03978 . Vra8g2388 .
Vvi3g0811 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g00401 . . Car08g00034 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto2g0492 . . . . . . . . . . . . . . . . . . .
Vvi3g0812 . . . . . Adu05g01355 . Aed11g1945 . Aev05g1259 . Ahy15g1324 . Aip05g01394 . . . . . . . Arst5g01728 . . . . . . . . . Cca06g02036 . . . Dod02g1403 . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa2g02525 . . . . . . . . . . . . . Mepo5g00040 . Mesa17g00036 . . . . . . . Phco4g00037 . . . . . Pste1g00708 . . . . . Pumo8g02601 . Pvu2g0531 . Rops1g02457 . Seca10g00058 . Spst2g00037 . Ssu2g3155 . . . . . Trre9g00035 . . . Vian10g00032 . Vifa1g04043 . Vimu7g02175 . Viun2g02937 . Vivi2g04263 . Vra11g0036
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0803 Chr3 7417454 7418376 -
Vvi Vvi3g0804 Chr3 7424912 7425513 +
Vvi Vvi3g0805 Chr3 7428428 7430945 -
Vvi Vvi3g0806 Chr3 7441440 7444729 +
Aed Aed1g2022 Chr1 17039851 17043052 +
Apr Apr8g2406 Chr8 34301235 34305253 -
Bach Bach11g00348 Chr11 2324772 2327425 +
Bva Bva13g00396 Chr13 1834784 1837777 +
Car Car04g01411 Chr04 14389215 14393943 -
Cca Cca02g02491 Chr02 46077560 46087504 -
Lal Lal12g0377 Chr12 2681539 2685639 -
Lapu Lapu7g02262 Chr7 39006166 39011839 -
Lasa Lasa6g04419 Chr6 641415649 641418138 -
Lja Lja5g0451 Chr5 3948197 3954790 +
Mal Mal1g0586 Chr1 6755715 6759068 +
Mepo Mepo4g04517 Chr4 54909787 54915045 -
Mesa Mesa1g04952 Chr1 76411832 76414894 -
Mtr Mtr1g4014 Chr1 51756037 51761487 -
Psa Psa6g4908 Chr6 428309356 428312946 -
Pvu Pvu7g0468 Chr7 3619017 3623109 -
Ssu Ssu7g0524 Chr7 9608458 9612245 +
Tpr Tpr1g0494 Chr1 4165048 4168199 +
Trre Trre1g05759 Chr1 62498184 62501453 -
Vivi Vivi1g03964 Chr1 83557607 83560111 +
Vvi Vvi3g0807 Chr3 7446730 7449614 -
Vvi Vvi3g0808 Chr3 7469920 7483956 +
Aed Aed1g2025 Chr1 17048064 17050059 +
Aev Aev09g2456 Chr09 26461508 26474010 -
Ahy Ahy19g3342 Chr19 156393767 156396021 +
Aip Aip09g03809 Chr09 144751526 144752999 +
Amo Amo19g4254 Chr19 159268137 159270566 -
Apr Apr8g2404 Chr8 34291945 34295037 -
Bva Bva13g00399 Chr13 1844324 1847019 +
Bva Bva14g00486 Chr14 2326304 2329403 +
Cca Cca02g02489 Chr02 46043927 46046474 -
Dod Dod06g0504 Chr06 6090126 6093291 +
Ssu Ssu7g0526 Chr7 9621802 9623705 +
Sto Sto10g0375 Chr10 3006089 3008576 +
Vvi Vvi3g0809 Chr3 7502149 7502253 -
Vvi Vvi3g0810 Chr3 7535168 7536283 +
Adu Adu09g02583 Chr09 113397077 113398835 -
Aed Aed1g2026 Chr1 17066921 17068666 +
Ahy Ahy19g3343 Chr19 156397278 156399152 +
Aip Aip09g03810 Chr09 144754320 144756444 +
Apr Apr8g2403 Chr8 34282698 34287735 -
Arst Arst9g03433 Chr9 111293962 111296606 -
Bva Bva14g00487 Chr14 2331664 2333059 +
Car Car04g01407 Chr04 14372639 14373625 -
Cca Cca02g02487 Chr02 46017424 46018899 -
Lal Lal13g0368 Chr13 2312770 2315310 -
Lal Lal12g0375 Chr12 2667798 2680985 -
Lapu Lapu7g02258 Chr7 38947155 38948845 +
Lasa Lasa6g04414 Chr6 640812944 640813890 -
Lja Lja5g0453 Chr5 3968274 3971186 +
Phco Phco6g02740 Chr6 48859107 48860676 -
Pste Pste4g01244 Chr4 9111990 9113914 +
Pumo Pumo3g00685 Chr3 10180158 10181833 +
Pvu Pvu7g0470 Chr7 3683207 3685582 +
Rops Rops6g03047 Chr6 53617936 53620042 -
Seca Seca8g07678 Chr8 174098707 174100286 -
Spst Spst10g01240 Chr10 13206222 13207380 -
Ssu Ssu7g0527 Chr7 9657203 9659118 +
Sto Sto2g0493 Chr2 4263867 4266077 -
Vian Vian3g00426 Chr3 4002088 4003201 +
Vifa Vifa3g03279 Chr3 940300538 940301424 -
Vimu Vimu3g03338 Chr3 46804822 46806072 -
Viun Viun7g03575 Chr7 37038574 37039571 -
Vivi Vivi1g03978 Chr1 83822017 83823273 +
Vra Vra8g2388 Chr8 42056147 42057555 -
Vvi Vvi3g0811 Chr3 7537597 7553211 -
Bva Bva13g00401 Chr13 1850214 1857966 -
Car Car08g00034 Chr08 302904 311906 -
Sto Sto2g0492 Chr2 4252853 4261145 +
Vvi Vvi3g0812 Chr3 7557129 7558981 -
Adu Adu05g01355 Chr05 20497779 20504168 +
Aed Aed11g1945 Chr11 22202862 22209984 +
Aev Aev05g1259 Chr05 8855373 8866906 +
Ahy Ahy15g1324 Chr15 21759000 21765526 +
Aip Aip05g01394 Chr05 20954653 20960477 +
Arst Arst5g01728 Chr5 20545924 20552849 +
Cca Cca06g02036 Chr06 35617483 35628062 +
Dod Dod02g1403 Chr02 16884941 16887320 +
Lasa Lasa2g02525 Chr2 503943433 503952402 -
Mepo Mepo5g00040 Chr5 382144 390946 -
Mesa Mesa17g00036 Chr17 337070 345105 -
Phco Phco4g00037 Chr4 246831 254819 -
Pste Pste1g00708 Chr1 2216947 2217890 -
Pumo Pumo8g02601 Chr8 63247897 63255654 +
Pvu Pvu2g0531 Chr2 4755477 4763409 +
Rops Rops1g02457 Chr1 47639135 47654774 +
Seca Seca10g00058 Chr10 511749 514521 -
Spst Spst2g00037 Chr2 354940 361803 -
Ssu Ssu2g3155 Chr2 93828302 93835320 -
Trre Trre9g00035 Chr9 442339 450599 -
Vian Vian10g00032 Chr10 253310 260007 -
Vifa Vifa1g04043 Chr1 620840510 620851020 +
Vimu Vimu7g02175 Chr7 19210227 19220935 -
Viun Viun2g02937 Chr2 33621632 33628768 +
Vivi Vivi2g04263 Chr2 156293418 156304296 +
Vra Vra11g0036 Chr11 291478 300007 -
Ahy Ahy19g3343 Chr19 156397278 156399152 +
Aip Aip09g03810 Chr09 144754320 144756444 +