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
Vvi2g0452 . . . . . . . . . . . Ahy11g1429 . Aip01g01545 . . . Amo11g1438 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0453 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0454 . . . . . Adu02g00584 . . . . . . . . . . . . . Apr10g1378 . Arst2g00718 . Bach6g00725 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu10g00078 . Lasa4g00975 . . . . . . . . . . . . . Mepo1g03682 . Mesa29g04249 . . . . . . . Phco1g00834 . . . . . Pste6g02206 . . Pte1g00702 . . Pumo7g00895 . Pvu10g0978 . . . Seca4g11227 . Spst4g01777 . . . . . . . Trre15g01246 . . . Vian9g00719 . Vifa4g00563 . Vimu9g00383 . Viun10g01816 . Vivi7g04521 . .
Vvi2g0455 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0456 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0457 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0458 . . . . . Adu02g00619 . Aed6g1326 Aev05g0948 . Ahy15g0899 . Aip05g00928 . . . . . . Apr10g1392 . Arst2g00771 . . . . Bva08g00213 Bva11g02076 Car08g00239 Car07g01168 . Cca11g01704 . . Dod02g1062 . . . . . . . Gma05g00465 Gma17g01221 . . . . Lal15g0075 . . Lal15g1369 Lal16g1238 . Lan18g1097 . . Lan18g1097 Lan18g1097 . . Lapu10g00063 . . . . . . . . . . Lja2g0016 Lja4g2417 Mal6g0180 Mal5g3962 . . . . . . Mtr5g0321 Mtr4g3677 . . . . . . Psa2g4144 Psa4g1567 . . . . . . . . . Pvu10g0948 . . . . . . . Ssu6g1516 Sto6g3284 . Tpr2g3852 Tpr5g2732 . . Tsu05g00303 Tsu04g02481 . . . . . . . . . . . Vra7g1471
Vvi2g0459 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0461 . . . . . Adu01g01582 . Aed6g1325 Aev05g0947 . Ahy15g0900 Ahy11g1475 Aip05g00929 Aip01g01597 . . . Amo11g1514 . Apr10g1512 . Arst1g02092 . Bach10g00164 . . Bva08g00214 Bva11g02075 . Car07g01169 . Cca11g01703 . . Dod02g1061 . . . . . . . Gma05g00466 Gma17g01222 . . . . . . . . Lal16g1239 Lal23g1513 . . . . . . . Lapu3g01245 . Lasa4g02961 . . . . . . . . . Lja4g2419 . Mal5g3960 . Mepo1g01518 . . . . . Mtr4g3676 . Phac3g03270 . Phco8g00669 . . . Psa4g1570 . Pste6g01739 . . . . . Pumo4g01567 . Pvu3g2190 . Rops2g04168 . Seca12g01765 . Spst3g04410 . Ssu6g1517 Sto6g3285 Sto11g2024 . Tpr5g2731 . Trre15g03091 . Tsu04g02480 . Vian1g01316 . Vifa4g03060 . Vimu7g00496 . Viun3g04266 . Vivi1g02320 . Vra7g1470
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi2g0452 Chr2 3821960 3822628 +
Ahy Ahy11g1429 Chr11 56470662 56472285 -
Aip Aip01g01545 Chr01 53142261 53143799 -
Amo Amo11g1438 Chr11 53187846 53188700 +
Vvi Vvi2g0453 Chr2 3824931 3825719 +
Vvi Vvi2g0454 Chr2 3829912 3832266 +
Adu Adu02g00584 Chr02 7645039 7647072 +
Apr Apr10g1378 Chr10 26015527 26017494 -
Arst Arst2g00718 Chr2 7574217 7576035 +
Bach Bach6g00725 Chr6 5383392 5384712 -
Lapu Lapu10g00078 Chr10 2345917 2348161 +
Lasa Lasa4g00975 Chr4 51793174 51794038 -
Mepo Mepo1g03682 Chr1 42864644 42866548 +
Mesa Mesa29g04249 Chr29 69904136 69905817 +
Phco Phco1g00834 Chr1 7712299 7714553 -
Pste Pste6g02206 Chr6 10453465 10455620 -
Pte Pte1g00702 Chr1 9598479 9673729 -
Pumo Pumo7g00895 Chr7 15644060 15646730 -
Pvu Pvu10g0978 Chr10 34558766 34561242 +
Seca Seca4g11227 Chr4 250830293 250832383 +
Spst Spst4g01777 Chr4 57849381 57850823 +
Trre Trre15g01246 Chr15 9595964 9598222 -
Vian Vian9g00719 Chr9 9324861 9326863 -
Vifa Vifa4g00563 Chr4 162294282 162295202 +
Vimu Vimu9g00383 Chr9 4490833 4492778 -
Viun Viun10g01816 Chr10 33215985 33218159 +
Vivi Vivi7g04521 Chr7 115668284 115669653 -
Vvi Vvi2g0455 Chr2 3833681 3835488 -
Vvi Vvi2g0456 Chr2 3838090 3839902 -
Vvi Vvi2g0457 Chr2 3841570 3841971 -
Vvi Vvi2g0458 Chr2 3852963 3855441 +
Adu Adu02g00619 Chr02 8398579 8400739 +
Aed Aed6g1326 Chr6 17986927 17989446 -
Aev Aev05g0948 Chr05 6685666 6687684 -
Ahy Ahy15g0899 Chr15 13286675 13289832 +
Aip Aip05g00928 Chr05 12880330 12885015 +
Apr Apr10g1392 Chr10 26165718 26169499 +
Arst Arst2g00771 Chr2 8327346 8329862 +
Bva Bva08g00213 Chr08 1032567 1035091 +
Bva Bva11g02076 Chr11 17342405 17345195 -
Car Car08g00239 Chr08 1903767 1906938 +
Car Car07g01168 Chr07 10494769 10497231 +
Cca Cca11g01704 Chr11 41457345 41460030 -
Dod Dod02g1062 Chr02 13258924 13260675 -
Gma Gma05g00465 Chr05 4431813 4434648 +
Gma Gma17g01221 Chr17 10734394 10736816 +
Lal Lal15g0075 Chr15 522316 525136 +
Lal Lal15g1369 Chr15 15827403 15831026 -
Lal Lal16g1238 Chr16 8635862 8638925 +
Lan Lan18g1097 Chr18 16045941 16048437 -
Lan Lan18g1097 Chr18 16045941 16048437 -
Lan Lan18g1097 Chr18 16045941 16048437 -
Lapu Lapu10g00063 Chr10 2073814 2077093 -
Lja Lja2g0016 Chr2 132760 138152 +
Lja Lja4g2417 Chr4 27331121 27333128 +
Mal Mal6g0180 Chr6 2593777 2596331 -
Mal Mal5g3962 Chr5 109182625 109183177 -
Mtr Mtr5g0321 Chr5 2988419 2991835 +
Mtr Mtr4g3677 Chr4 50537904 50540141 -
Psa Psa2g4144 Chr2 421039715 421042291 -
Psa Psa4g1567 Chr4 109289108 109291699 +
Pvu Pvu10g0948 Chr10 33595380 33598380 +
Ssu Ssu6g1516 Chr6 24849360 24851688 +
Sto Sto6g3284 Chr6 39101476 39103713 +
Tpr Tpr2g3852 Chr2 41330786 41334252 -
Tpr Tpr5g2732 Chr5 49476358 49478321 -
Tsu Tsu05g00303 Chr05 2266553 2269987 +
Tsu Tsu04g02481 Chr04 28012277 28014226 -
Vra Vra7g1471 Chr7 32013239 32015988 -
Vvi Vvi2g0459 Chr2 3857081 3867464 -
Vvi Vvi2g0460 Chr2 3870898 3875873 -
Vvi Vvi2g0461 Chr2 3880336 3884777 +
Adu Adu01g01582 Chr01 48448323 48456494 +
Aed Aed6g1325 Chr6 17977657 17985148 -
Aev Aev05g0947 Chr05 6681428 6683884 -
Ahy Ahy15g0900 Chr15 13290940 13294228 +
Ahy Ahy11g1475 Chr11 62817623 62820767 +
Aip Aip05g00929 Chr05 12885115 12888026 +
Aip Aip01g01597 Chr01 58800447 58803591 +
Amo Amo11g1514 Chr11 62113950 62117103 +
Apr Apr10g1512 Chr10 27568787 27572751 +
Arst Arst1g02092 Chr1 48943531 48946843 +
Bach Bach10g00164 Chr10 1132831 1138810 +
Bva Bva08g00214 Chr08 1035773 1039020 +
Bva Bva11g02075 Chr11 17338592 17341876 -
Car Car07g01169 Chr07 10499954 10504081 +
Cca Cca11g01703 Chr11 41433239 41436757 -
Dod Dod02g1061 Chr02 13251899 13255250 -
Gma Gma05g00466 Chr05 4438692 4442055 +
Gma Gma17g01222 Chr17 10745854 10753950 +
Lal Lal16g1239 Chr16 8640534 8644614 +
Lal Lal23g1513 Chr23 15320836 15325670 -
Lapu Lapu3g01245 Chr3 13396250 13402259 +
Lasa Lasa4g02961 Chr4 550399485 550402750 -
Lja Lja4g2419 Chr4 27360584 27364006 +
Mal Mal5g3960 Chr5 109160832 109163691 -
Mepo Mepo1g01518 Chr1 14956716 14960420 +
Mtr Mtr4g3676 Chr4 50530281 50533947 -
Phac Phac3g03270 Chr3 33556472 33561135 +
Phco Phco8g00669 Chr8 6685941 6689384 +
Psa Psa4g1570 Chr4 109467119 109470454 +
Pste Pste6g01739 Chr6 7827614 7832815 -
Pumo Pumo4g01567 Chr4 19763269 19767088 +
Pvu Pvu3g2190 Chr3 42749786 42754003 +
Rops Rops2g04168 Chr2 75892304 75895368 +
Seca Seca12g01765 Chr12 19680040 19683571 +
Spst Spst3g04410 Chr3 95663072 95666716 -
Ssu Ssu6g1517 Chr6 24873909 24877081 +
Sto Sto6g3285 Chr6 39105304 39108294 +
Sto Sto11g2024 Chr11 19042459 19045349 +
Tpr Tpr5g2731 Chr5 49470296 49474083 -
Trre Trre15g03091 Chr15 28134460 28137431 +
Tsu Tsu04g02480 Chr04 27998269 28001661 -
Vian Vian1g01316 Chr1 14231064 14234473 +
Vifa Vifa4g03060 Chr4 984506966 984510372 -
Vimu Vimu7g00496 Chr7 5222257 5225498 -
Viun Viun3g04266 Chr3 50441181 50445296 -
Vivi Vivi1g02320 Chr1 48985413 48989531 +
Vra Vra7g1470 Chr7 31998572 32003346 -
Apr Apr10g1392 Chr10 26165718 26169499 +
Mal Mal6g0180 Chr6 2593777 2596331 -
Mtr Mtr5g0321 Chr5 2988419 2991835 +
Psa Psa2g4144 Chr2 421039715 421042291 -
Tpr Tpr2g3852 Chr2 41330786 41334252 -
Tsu Tsu05g00303 Chr05 2266553 2269987 +