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
Vvi4g1464 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1465 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1466 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1467 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1468 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1469 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1470 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1471 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1472 . Acco04g2117 . Accr8g00625 Adu10g01749 Adu03g03063 Aed5g2103 . Aev03g2892 Aev08g0603 Ahy13g3092 Ahy20g1980 Aip03g03499 Aip10g02324 . Alju06g2097 . Amo20g2518 . . Arst3g04032 Arst3g04032 . . . Bisa08g2473 . . . . Cca09g02238 . . Dere03g0353 Dod04g2514 Dod09g1791 . Enph6g0302 . Glsi02g0327 . . . . . . . . . Lal4g0617 . . . . . . . . . . . Lapu3g03415 Lasa5g03319 Lasa7g04491 . . . . Lele21g1491 Lele22g1479 Lele23g0521 Lele24g1431 . Lja4g0618 . Mal7g4716 Mepo3g06802 Mepo2g04396 . . . Mibi09g0630 Mtr3g3326 Mtr8g3262 Phac9g02461 . Phco7g01693 . . Prci4g2366 Psa5g1471 . Pste2g03702 Pste3g01626 . . Pte2g02607 . Pumo10g01642 . Pvu9g1529 Pvu2g2777 Rops10g01028 Rops2g00804 Seca4g01995 Seca12g06259 Spst9g01750 Spst3g01337 Ssu5g2839 . Sto3g3168 . Tpr3g3121 Tpr3g0844 . Trre7g05165 Tsu07g01345 Tsu02g00682 Vian4g01099 Vian1g03642 Vifa2g03149 Vifa2g03149 Vimu10g01785 Vimu11g04156 Viun9g01825 Viun3g00875 Vivi3g02494 Vivi5g04418 . .
Vvi4g1473 . Acco04g2118 . Accr8g00624 . Adu03g03062 Aed5g2104 . Aev03g2893 . Ahy13g3091 . Aip03g03498 . . Alju06g2100 Amo13g3767 . . . . Arst3g04029 . Bach2g00034 . Bisa08g2472 . . . . Cca09g02239 . . Dere03g0354 Dod04g2515 . . Enph6g0303 . Glsi02g0328 . . . . . . . . . . . . . . . . . . . . . Lapu3g03416 . Lasa7g04492 . . . . Lele21g1492 Lele22g1481 Lele23g0520 Lele24g1433 . Lja4g0617 . Mal7g4717 . Mepo2g04397 . Mesa13g00727 . Mibi09g0629 . Mtr8g3263 . . . . . Prci4g2369 . . . Pste3g01624 . . Pte2g02606 . . Pumo6g00692 . Pvu2g2778 . Rops2g00802 . Seca12g06260 . Spst3g01336 Ssu5g2840 . Sto3g3169 Sto4g0316 . Tpr3g0843 . Trre7g05166 . Tsu02g00681 . Vian1g03643 . Vifa6g03200 . Vimu11g04158 . Viun3g00873 . Vivi5g04424 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1464 Chr4 21920196 21920402 +
Vvi Vvi4g1465 Chr4 21924619 21924838 +
Vvi Vvi4g1466 Chr4 21929181 21930032 -
Vvi Vvi4g1467 Chr4 21941209 21942634 +
Vvi Vvi4g1468 Chr4 21958790 21959254 -
Vvi Vvi4g1469 Chr4 21969318 21971624 -
Vvi Vvi4g1470 Chr4 21972742 21972843 +
Vvi Vvi4g1471 Chr4 21979116 21981077 -
Vvi Vvi4g1472 Chr4 21994690 21997682 +
Acco Acco04g2117 Chr04 36986809 36990403 +
Accr Accr8g00625 Chr8 9964788 9968183 -
Adu Adu10g01749 Chr10 80629790 80632575 +
Adu Adu03g03063 Chr03 114954846 114959886 -
Aed Aed5g2103 Chr5 23379895 23382744 +
Aev Aev03g2892 Chr03 28273947 28276803 +
Aev Aev08g0603 Chr08 3465229 3467955 -
Ahy Ahy13g3092 Chr13 124747468 124751087 -
Ahy Ahy20g1980 Chr20 111790757 111794150 +
Aip Aip03g03499 Chr03 114721974 114725761 -
Aip Aip10g02324 Chr10 104781725 104784453 +
Alju Alju06g2097 Chr06 46907056 46913210 +
Amo Amo20g2518 Chr20 118117221 118119970 +
Arst Arst3g04032 Chr3 113669852 113673074 -
Arst Arst3g04032 Chr3 113669852 113673074 -
Bisa Bisa08g2473 Chr08 58497097 58500713 -
Cca Cca09g02238 Chr09 47575987 47579480 +
Dere Dere03g0353 Chr03 7202925 7206467 +
Dod Dod04g2514 Chr04 48956053 48959144 +
Dod Dod09g1791 Chr09 39510633 39512164 +
Enph Enph6g0302 Chr6 6331457 6335172 +
Glsi Glsi02g0327 Chr02 2092187 2095700 +
Lal Lal4g0617 Chr4 4548997 4552482 +
Lapu Lapu3g03415 Chr3 57364431 57367195 +
Lasa Lasa5g03319 Chr5 554047736 554050411 +
Lasa Lasa7g04491 Chr7 663567744 663570423 +
Lele Lele21g1491 Chr21 23206455 23208944 +
Lele Lele22g1479 Chr22 20551009 20553971 +
Lele Lele23g0521 Chr23 3854578 3857186 -
Lele Lele24g1431 Chr24 20264190 20268014 +
Lja Lja4g0618 Chr4 5121033 5123686 -
Mal Mal7g4716 Chr7 115358808 115361220 +
Mepo Mepo3g06802 Chr3 81760237 81762129 +
Mepo Mepo2g04396 Chr2 52480513 52483369 +
Mibi Mibi09g0630 Chr09 8263550 8266531 -
Mtr Mtr3g3326 Chr3 47167839 47171626 +
Mtr Mtr8g3262 Chr8 43066396 43070102 +
Phac Phac9g02461 Chr9 23299299 23303301 +
Phco Phco7g01693 Chr7 16784636 16787830 +
Prci Prci4g2366 Chr4 36467313 36471085 +
Psa Psa5g1471 Chr5 113509842 113512509 -
Pste Pste2g03702 Chr2 40544681 40547497 +
Pste Pste3g01626 Chr3 10251810 10255146 -
Pte Pte2g02607 Chr2 45114002 45118089 -
Pumo Pumo10g01642 Chr10 21595461 21599064 +
Pvu Pvu9g1529 Chr9 21645370 21649098 +
Pvu Pvu2g2777 Chr2 43479014 43482762 +
Rops Rops10g01028 Chr10 21870413 21874132 -
Rops Rops2g00804 Chr2 11577930 11586145 -
Seca Seca4g01995 Chr4 33991274 33994716 -
Seca Seca12g06259 Chr12 154425237 154428742 +
Spst Spst9g01750 Chr9 19355697 19358905 +
Spst Spst3g01337 Chr3 16799497 16802238 -
Ssu Ssu5g2839 Chr5 74481098 74482987 +
Sto Sto3g3168 Chr3 36526432 36531175 +
Tpr Tpr3g3121 Chr3 34312851 34318015 +
Tpr Tpr3g0844 Chr3 7968894 7972501 -
Trre Trre7g05165 Chr7 58238760 58241578 +
Tsu Tsu07g01345 Chr07 11849514 11853165 -
Tsu Tsu02g00682 Chr02 5786298 5790023 -
Vian Vian4g01099 Chr4 17769491 17771360 -
Vian Vian1g03642 Chr1 59157558 59160343 +
Vifa Vifa2g03149 Chr2 905359832 905362328 +
Vifa Vifa2g03149 Chr2 905359832 905362328 +
Vimu Vimu10g01785 Chr10 25149354 25154878 -
Vimu Vimu11g04156 Chr11 63146037 63146480 +
Viun Viun9g01825 Chr9 27826675 27830187 -
Viun Viun3g00875 Chr3 5417971 5421460 -
Vivi Vivi3g02494 Chr3 41727261 41730495 -
Vivi Vivi5g04418 Chr5 141892346 141895728 +
Vvi Vvi4g1473 Chr4 22005531 22034340 +
Acco Acco04g2118 Chr04 37002546 37012722 +
Accr Accr8g00624 Chr8 9944267 9956764 -
Adu Adu03g03062 Chr03 114923021 114931403 -
Aed Aed5g2104 Chr5 23383909 23394209 +
Aev Aev03g2893 Chr03 28278048 28285975 +
Ahy Ahy13g3091 Chr13 124719063 124727392 -
Aip Aip03g03498 Chr03 114697783 114706000 -
Alju Alju06g2100 Chr06 46922388 46932670 +
Amo Amo13g3767 Chr13 127153131 127161611 -
Arst Arst3g04029 Chr3 113637860 113646432 -
Bach Bach2g00034 Chr2 458950 468772 -
Bisa Bisa08g2472 Chr08 58485866 58495327 -
Cca Cca09g02239 Chr09 47586587 47594385 +
Dere Dere03g0354 Chr03 7220625 7230197 +
Dod Dod04g2515 Chr04 48960424 48971724 +
Enph Enph6g0303 Chr6 6342579 6351669 +
Glsi Glsi02g0328 Chr02 2097235 2106421 +
Lapu Lapu3g03416 Chr3 57368510 57378007 +
Lasa Lasa7g04492 Chr7 663603568 663614455 +
Lele Lele21g1492 Chr21 23211257 23220587 +
Lele Lele22g1481 Chr22 20557948 20568141 +
Lele Lele23g0520 Chr23 3843305 3852610 -
Lele Lele24g1433 Chr24 20273139 20277370 +
Lja Lja4g0617 Chr4 5110138 5119721 -
Mal Mal7g4717 Chr7 115366035 115377562 +
Mepo Mepo2g04397 Chr2 52486800 52497132 +
Mesa Mesa13g00727 Chr13 8661677 8672552 -
Mibi Mibi09g0629 Chr09 8240031 8254061 -
Mtr Mtr8g3263 Chr8 43072754 43085949 +
Prci Prci4g2369 Chr4 36474625 36485683 +
Pste Pste3g01624 Chr3 10234155 10246986 -
Pte Pte2g02606 Chr2 45104939 45113325 -
Pumo Pumo6g00692 Chr6 8697496 8707283 -
Pvu Pvu2g2778 Chr2 43483450 43496351 +
Rops Rops2g00802 Chr2 11561937 11572311 -
Seca Seca12g06260 Chr12 154430459 154439504 +
Spst Spst3g01336 Chr3 16788689 16797993 -
Ssu Ssu5g2840 Chr5 74488402 74498184 +
Sto Sto3g3169 Chr3 36533380 36541886 +
Sto Sto4g0316 Chr4 2441845 2451319 -
Tpr Tpr3g0843 Chr3 7957414 7967844 -
Trre Trre7g05166 Chr7 58246337 58255591 +
Tsu Tsu02g00681 Chr02 5774743 5784949 -
Vian Vian1g03643 Chr1 59162183 59172573 +
Vifa Vifa6g03200 Chr6 1055516596 1055529148 +
Vimu Vimu11g04158 Chr11 63148263 63159302 +
Viun Viun3g00873 Chr3 5405639 5415951 -
Vivi Vivi5g04424 Chr5 141906056 141921802 +