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
Vvi2g0212 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0213 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0214 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0215 . . . . . . . . . Aev03g3168 . Ahy13g2668 . Aip03g03010 . . . Amo13g3234 . Apr2g1295 . . . . . . . Bva11g02238 . . . . . . . Dod04g2852 . . . . . . Gma05g02129 Gma08g00236 . . . . . . Lal23g0496 Lal15g1459 . Lal23g1584 . . . . . . Lapu3g03681 . . . . . . . . . . . Lja4g0315 Lja4g0315 . . . . . . . . . . . . Phco4g03409 . . . . . Pste3g00760 . . Pte12g00015 . . . . Pvu2g3092 . . . . . Spst3g00984 . . . . . . . . . . . . . . . Vimu11g04549 . . . . . . .
Vvi2g0216 . . . . . . . . . Aev03g3169 . Ahy13g2667 . Aip03g03009 . . . . . Apr2g1296 . . Bach4g00026 . . . Bva08g00031 Bva11g02239 . Car06g00420 . . . . . Dod04g2853 . . . . . . Gma05g02130 Gma08g00237 . . . . . . Lal23g0497 . . . . . . . . . Lapu3g03682 . Lasa7g04908 . . . . . . . . . Lja4g0314 Lja4g0314 . Mal7g5069 Mepo2g04755 . Mesa13g00361 . . . . Mtr8g3577 . . Phco4g03411 . . . . . Pste3g00759 . . Pte12g00014 . . . . Pvu2g3093 . . . Seca12g06614 . Spst3g00983 . . . Sto6g3086 . . Tpr3g0535 Trre7g05591 . . Tsu02g00345 Vian1g03927 . Vifa6g03721 . Vimu11g04550 . . . Vivi5g06090 . . .
Vvi2g0217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0218 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0220 Acco11g1474 . Accr9g00966 . . . . . . . . Ahy13g2666 . Aip03g03008 Alju09g1475 . . . . Apr2g1297 . . . . Bisa11g0809 . . Bva11g02240 . Car06g00419 . . Dere09g0058 . . Dod04g2854 Enph13g1515 . Glsi05g2219 . . . Gma05g02132 Gma08g00238 . . . . . . . . Lal16g1137 . . . . . . . Lapu3g03684 . . . Lele49g0765 Lele50g0807 Lele51g0789 Lele52g0792 . . . . Lja4g0313 Lja4g0313 . Mal7g5070 Mepo2g04756 . Mesa13g00360 . Mibi12g1252 . . Mtr8g3578 . . Phco4g03412 . Prci10g1239 . . . Pste3g00756 . Pte14g01324 . . . . . Pvu2g3094 . . . . . Spst3g00982 . . . Sto6g3085 . . Tpr3g0534 Trre7g05593 . . Tsu02g00344 . . . . Vimu11g04551 . . . . . . .
Vvi2g0221 . . . . . . . . . . . . . . . . . . . Apr2g1299 . . . . . . Bva08g00030 . . Car06g00418 . . . . . . . . . . . . . . . . . . . . Lal23g0499 . Lal16g1136 . . . . . . . . . . . . . . . . . . . Lja4g0312 Lja4g0312 . . . . . . . . . . . . . . . . . Psa7g0545 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0212 Chr2 1797974 1801415 +
Vvi Vvi2g0213 Chr2 1803370 1803783 -
Vvi Vvi2g0214 Chr2 1809135 1812271 +
Vvi Vvi2g0215 Chr2 1812388 1814056 -
Aev Aev03g3168 Chr03 30113956 30116232 -
Ahy Ahy13g2668 Chr13 96684022 96686313 +
Aip Aip03g03010 Chr03 89283984 89286310 +
Amo Amo13g3234 Chr13 100950860 100953231 +
Apr Apr2g1295 Chr2 19163005 19164735 -
Bva Bva11g02238 Chr11 18089275 18090615 -
Dod Dod04g2852 Chr04 52411451 52413872 -
Gma Gma05g02129 Chr05 42474790 42476477 -
Gma Gma08g00236 Chr08 2000754 2002303 -
Lal Lal23g0496 Chr23 7681836 7685981 -
Lal Lal15g1459 Chr15 16810741 16813303 -
Lal Lal23g1584 Chr23 15788768 15791385 -
Lapu Lapu3g03681 Chr3 60258655 60260959 -
Lja Lja4g0315 Chr4 2555500 2558224 +
Lja Lja4g0315 Chr4 2555500 2558224 +
Phco Phco4g03409 Chr4 54372832 54374393 -
Pste Pste3g00760 Chr3 4754400 4756508 +
Pte Pte12g00015 Chr12 264695 266291 +
Pvu Pvu2g3092 Chr2 46286609 46288606 -
Spst Spst3g00984 Chr3 13305856 13309187 +
Vimu Vimu11g04549 Chr11 66269060 66271173 -
Vvi Vvi2g0216 Chr2 1817330 1820370 -
Aev Aev03g3169 Chr03 30119883 30120951 -
Ahy Ahy13g2667 Chr13 96680176 96681162 +
Aip Aip03g03009 Chr03 89280348 89281409 +
Apr Apr2g1296 Chr2 19169738 19171372 -
Bach Bach4g00026 Chr4 217882 220392 +
Bva Bva08g00031 Chr08 166557 168073 +
Bva Bva11g02239 Chr11 18091467 18093701 -
Car Car06g00420 Chr06 4365613 4367442 +
Dod Dod04g2853 Chr04 52418391 52419616 -
Gma Gma05g02130 Chr05 42482581 42484426 -
Gma Gma08g00237 Chr08 2007048 2008762 -
Lal Lal23g0497 Chr23 7691220 7694618 -
Lapu Lapu3g03682 Chr3 60265039 60267233 -
Lasa Lasa7g04908 Chr7 694402435 694404799 +
Lja Lja4g0314 Chr4 2551216 2553342 +
Lja Lja4g0314 Chr4 2551216 2553342 +
Mal Mal7g5069 Chr7 119824496 119826412 -
Mepo Mepo2g04755 Chr2 55782047 55784476 -
Mesa Mesa13g00361 Chr13 4283261 4286633 +
Mtr Mtr8g3577 Chr8 46339070 46340419 -
Phco Phco4g03411 Chr4 54378580 54380068 -
Pste Pste3g00759 Chr3 4749522 4750497 +
Pte Pte12g00014 Chr12 261371 263291 +
Pvu Pvu2g3093 Chr2 46291114 46292868 -
Seca Seca12g06614 Chr12 158218300 158220736 -
Spst Spst3g00983 Chr3 13298628 13300520 +
Sto Sto6g3086 Chr6 37841813 37844226 +
Tpr Tpr3g0535 Chr3 5383721 5386087 +
Trre Trre7g05591 Chr7 61434997 61436868 -
Tsu Tsu02g00345 Chr02 2926500 2929362 +
Vian Vian1g03927 Chr1 62336501 62338141 -
Vifa Vifa6g03721 Chr6 1222592576 1222594492 +
Vimu Vimu11g04550 Chr11 66273499 66275129 -
Vivi Vivi5g06090 Chr5 166003046 166005459 +
Vvi Vvi2g0217 Chr2 1821076 1826254 +
Vvi Vvi2g0218 Chr2 1828137 1830113 +
Vvi Vvi2g0219 Chr2 1831755 1832406 -
Vvi Vvi2g0220 Chr2 1834524 1836964 -
Acco Acco11g1474 Chr11 29282440 29288130 +
Accr Accr9g00966 Chr9 11292502 11298123 -
Ahy Ahy13g2666 Chr13 96675565 96679782 +
Aip Aip03g03008 Chr03 89276297 89279842 +
Alju Alju09g1475 Chr09 38801560 38807213 +
Apr Apr2g1297 Chr2 19172801 19178153 -
Bisa Bisa11g0809 Chr11 23277796 23285965 +
Bva Bva11g02240 Chr11 18094777 18100479 -
Car Car06g00419 Chr06 4356402 4363179 +
Dere Dere09g0058 Chr09 3521860 3527431 +
Dod Dod04g2854 Chr04 52421024 52426098 -
Enph Enph13g1515 Chr13 20599569 20604300 -
Glsi Glsi05g2219 Chr05 68372031 68378063 -
Gma Gma05g02132 Chr05 42487938 42494086 -
Gma Gma08g00238 Chr08 2010547 2016254 -
Lal Lal16g1137 Chr16 7711124 7717296 +
Lapu Lapu3g03684 Chr3 60273329 60278015 -
Lele Lele49g0765 Chr49 4638366 4648494 -
Lele Lele50g0807 Chr50 4964077 4969490 -
Lele Lele51g0789 Chr51 4765520 4772091 -
Lele Lele52g0792 Chr52 5017255 5023404 -
Lja Lja4g0313 Chr4 2543985 2549465 +
Lja Lja4g0313 Chr4 2543985 2549465 +
Mal Mal7g5070 Chr7 119828758 119835327 -
Mepo Mepo2g04756 Chr2 55787221 55794809 -
Mesa Mesa13g00360 Chr13 4272478 4280114 +
Mibi Mibi12g1252 Chr12 28122252 28127704 +
Mtr Mtr8g3578 Chr8 46341763 46349396 -
Phco Phco4g03412 Chr4 54382898 54389464 -
Prci Prci10g1239 Chr10 8157583 8164113 -
Pste Pste3g00756 Chr3 4739910 4746999 +
Pte Pte14g01324 Chr14 34429388 34433115 -
Pvu Pvu2g3094 Chr2 46294083 46305043 -
Spst Spst3g00982 Chr3 13291531 13296830 +
Sto Sto6g3085 Chr6 37835724 37839716 +
Tpr Tpr3g0534 Chr3 5374239 5381845 +
Trre Trre7g05593 Chr7 61438487 61444897 -
Tsu Tsu02g00344 Chr02 2919000 2925301 +
Vimu Vimu11g04551 Chr11 66276234 66282360 -
Vvi Vvi2g0221 Chr2 1838388 1841076 +
Apr Apr2g1299 Chr2 19179761 19182588 +
Bva Bva08g00030 Chr08 163719 165524 -
Car Car06g00418 Chr06 4351209 4355581 -
Lal Lal23g0499 Chr23 7735292 7740828 +
Lal Lal16g1136 Chr16 7706804 7709916 -
Lja Lja4g0312 Chr4 2541459 2543705 -
Lja Lja4g0312 Chr4 2541459 2543705 -
Psa Psa7g0545 Chr7 37004393 37007631 -
Lal Lal23g1584 Chr23 15788768 15791385 -