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
Vvi4g0284 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0285 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0286 . . . . . . . . . . . . Aip06g03648 . . . Amo16g4108 . . Apr9g0224 . . . . . . Bva10g00303 Bva06g02459 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto5g0774 . . . . . . . . . . . . . . . . . . .
Vvi4g0287 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0288 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0289 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0290 . . . . Adu08g02440 . . . . . . Ahy18g2570 . Aip08g02959 . . . . . . Arst8g03359 . . . . . Bva10g00305 . Car05g03022 . Cca03g01501 . . . . Dod09g0984 . . . . . . . . . . . . Lal21g0362 . . . . . Lan3g1043 . . . . . Lapu9g01826 . . . . . . . . . . . Lja1g3814 . Mal2g0794 . Mepo3g07508 . Mesa9g05184 . . . Mtr3g3986 . Phac9g00485 . Phco7g00824 . . . . . . . . . . . Pumo10g00010 . Pvu9g1021 . Rops10g01470 . . . Spst9g00851 . Ssu1g3384 . . . Tpr7g0531 . Trre5g05318 . Tsu07g00567 . Vian4g01910 . . . Vimu10g02855 . Viun9g02968 . . . Vra5g1129 .
Vvi4g0291 . . . . Adu08g02439 . . . . . . . . . . . . . Apr5g1197 . Arst8g03358 . Bach12g00546 . . . . Bva06g02460 . . . . . . . . . . . . Gma14g01174 . . . . . . . . . . . . . . . . . . . Lapu9g01825 . . . . . . . . . . . . Lja5g2807 . . Mepo3g07509 . Mesa9g05185 . . . . . Phac9g00487 . Phco7g00825 . . . . . Pste2g01942 . Pte3g01084 . . . Pumo10g00009 . Pvu9g1022 . Rops10g01471 . Seca8g03012 . Spst9g00852 . . . Sto5g0773 . . . Trre5g05321 . . . Vian4g01909 . . . Vimu10g02854 . Viun9g02967 . . . . .
Vvi4g0292 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g0293 . . . . . Adu06g02759 . Aed6g1088 . . Ahy16g3059 . Aip06g03290 . . . . . . . . Arst6g03587 . . . . . Bva06g02461 . Car04g03135 . Cca05g00583 . . Dod08g1623 . . . . . . . . . . . . . . . . Lal25g1080 . . . . . . . . . Lapu8g00563 . Lasa6g00652 . . . . . . . . . . . Mal1g5444 . Mepo4g00702 . Mesa1g00738 . . . Mtr1g0165 . Phac1g00772 . Phco2g00662 . . . Psa6g0721 . Pste8g00754 . . . Pte2g02172 . Pumo9g00712 . Pvu1g0585 . Rops9g01842 . Seca8g03011 . . . Ssu5g0636 . Sto9g3256 . Tpr1g3332 . Trre1g00765 . Tsu01g00751 . Vian7g00369 . Vifa3g04478 . Vimu1g02528 . Viun8g00871 . Vivi4g05021 . Vra6g1520
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g0284 Chr4 2492031 2492763 -
Vvi Vvi4g0285 Chr4 2492850 2494444 -
Vvi Vvi4g0286 Chr4 2495445 2500199 -
Aip Aip06g03648 Chr06 133912900 133917615 +
Amo Amo16g4108 Chr16 153588638 153593290 +
Apr Apr9g0224 Chr9 2919829 2924138 +
Bva Bva10g00303 Chr10 3822682 3826987 -
Bva Bva06g02459 Chr06 15693137 15693519 +
Sto Sto5g0774 Chr5 5246392 5249831 -
Vvi Vvi4g0287 Chr4 2501412 2518174 -
Vvi Vvi4g0288 Chr4 2520741 2523783 -
Vvi Vvi4g0289 Chr4 2524970 2527963 -
Vvi Vvi4g0290 Chr4 2531142 2532197 -
Adu Adu08g02440 Chr08 40122881 40124106 +
Ahy Ahy18g2570 Chr18 127555796 127557154 +
Aip Aip08g02959 Chr08 118036226 118037936 +
Arst Arst8g03359 Chr8 44487924 44489121 +
Bva Bva10g00305 Chr10 3827390 3828421 +
Car Car05g03022 Chr05 75069207 75069962 -
Cca Cca03g01501 Chr03 33609544 33610927 +
Dod Dod09g0984 Chr09 30184634 30185767 -
Lal Lal21g0362 Chr21 2460753 2461778 +
Lan Lan3g1043 Chr3 22769897 22771290 -
Lapu Lapu9g01826 Chr9 33115849 33117663 +
Lja Lja1g3814 Chr1 48107144 48108410 +
Mal Mal2g0794 Chr2 9168132 9169151 +
Mepo Mepo3g07508 Chr3 88428964 88430417 -
Mesa Mesa9g05184 Chr9 86572015 86578260 -
Mtr Mtr3g3986 Chr3 53574236 53575603 -
Phac Phac9g00485 Chr9 3154587 3156734 -
Phco Phco7g00824 Chr7 6486017 6487060 -
Pumo Pumo10g00010 Chr10 610514 612755 +
Pvu Pvu9g1021 Chr9 15177438 15178478 -
Rops Rops10g01470 Chr10 28033460 28034609 -
Spst Spst9g00851 Chr9 7493819 7494862 -
Ssu Ssu1g3384 Chr1 87286451 87287494 +
Tpr Tpr7g0531 Chr7 4486177 4487621 +
Trre Trre5g05318 Chr5 54045301 54047293 -
Tsu Tsu07g00567 Chr07 4443120 4444629 +
Vian Vian4g01910 Chr4 35609553 35610596 +
Vimu Vimu10g02855 Chr10 39835424 39838258 +
Viun Viun9g02968 Chr9 37709096 37710688 +
Vra Vra5g1129 Chr5 17750241 17751669 +
Vvi Vvi4g0291 Chr4 2534773 2547915 -
Adu Adu08g02439 Chr08 40107296 40115270 +
Apr Apr5g1197 Chr5 16413303 16422620 +
Arst Arst8g03358 Chr8 44471954 44480390 +
Bach Bach12g00546 Chr12 3721222 3729388 -
Bva Bva06g02460 Chr06 15693625 15694876 -
Gma Gma14g01174 Chr14 18728429 18729656 -
Lapu Lapu9g01825 Chr9 33104809 33115216 +
Lja Lja5g2807 Chr5 55363010 55373126 +
Mepo Mepo3g07509 Chr3 88436581 88445631 -
Mesa Mesa9g05185 Chr9 86581464 86589967 -
Phac Phac9g00487 Chr9 3158278 3168021 -
Phco Phco7g00825 Chr7 6489075 6497971 -
Pste Pste2g01942 Chr2 19727757 19731755 -
Pte Pte3g01084 Chr3 9205169 9215265 +
Pumo Pumo10g00009 Chr10 600583 609682 +
Pvu Pvu9g1022 Chr9 15180583 15189926 -
Rops Rops10g01471 Chr10 28036589 28045715 -
Seca Seca8g03012 Chr8 84253700 84265063 +
Spst Spst9g00852 Chr9 7495892 7504402 -
Sto Sto5g0773 Chr5 5235941 5244952 +
Trre Trre5g05321 Chr5 54056680 54065332 -
Vian Vian4g01909 Chr4 35598965 35608150 +
Vimu Vimu10g02854 Chr10 39824112 39834250 +
Viun Viun9g02967 Chr9 37698594 37708210 +
Vvi Vvi4g0292 Chr4 2549206 2549451 -
Vvi Vvi4g0293 Chr4 2549529 2554774 -
Adu Adu06g02759 Chr06 104553761 104559145 -
Aed Aed6g1088 Chr6 15366918 15370494 -
Ahy Ahy16g3059 Chr16 146043303 146050353 -
Aip Aip06g03290 Chr06 129206227 129212432 -
Arst Arst6g03587 Chr6 103747357 103754200 -
Bva Bva06g02461 Chr06 15695068 15698681 +
Car Car04g03135 Chr04 59518069 59521446 -
Cca Cca05g00583 Chr05 13474335 13478874 +
Dod Dod08g1623 Chr08 38070883 38074721 -
Lal Lal25g1080 Chr25 14122067 14129430 +
Lapu Lapu8g00563 Chr8 23006700 23009919 -
Lasa Lasa6g00652 Chr6 22880337 22883403 +
Mal Mal1g5444 Chr1 128887997 128891547 -
Mepo Mepo4g00702 Chr4 9483490 9488169 +
Mesa Mesa1g00738 Chr1 9614913 9619519 +
Mtr Mtr1g0165 Chr1 1807397 1810305 -
Phac Phac1g00772 Chr1 6376342 6380714 +
Phco Phco2g00662 Chr2 6648473 6652079 +
Psa Psa6g0721 Chr6 25215401 25219225 +
Pste Pste8g00754 Chr8 3910633 3915447 -
Pte Pte2g02172 Chr2 41659826 41663389 +
Pumo Pumo9g00712 Chr9 13945987 13949171 +
Pvu Pvu1g0585 Chr1 6682196 6686347 +
Rops Rops9g01842 Chr9 33222336 33225005 -
Seca Seca8g03011 Chr8 84145196 84148916 -
Ssu Ssu5g0636 Chr5 14938100 14941603 +
Sto Sto9g3256 Chr9 32769738 32779069 -
Tpr Tpr1g3332 Chr1 37660785 37665575 -
Trre Trre1g00765 Chr1 5785359 5790667 +
Tsu Tsu01g00751 Chr01 6708788 6713399 +
Vian Vian7g00369 Chr7 10035487 10038794 -
Vifa Vifa3g04478 Chr3 1280717725 1280719749 -
Vimu Vimu1g02528 Chr1 36626885 36629505 -
Viun Viun8g00871 Chr8 8382760 8386615 +
Vivi Vivi4g05021 Chr4 180663181 180677926 +
Vra Vra6g1520 Chr6 30092129 30095536 -