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
Vvi4g1044 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03568 . . . . . . . . . . . . . . . Gma02g00551 . . . . . . . . . . . . . . . . . Lapu1g01447 . Lasa3g02085 . . . . . . . . . Lja1g2990 . . . Mepo3g02277 . Mesa25g01940 . . . . . . . Phco3g02697 . . . . . Pste5g01143 . . Pte8g00610 . . Pumo5g00135 . Pvu8g0530 . Rops8g00952 . Seca2g00834 . Spst1g01186 . . . . . . . Trre13g02337 . . . Vian2g00508 . Vifa5g01669 . Vimu6g00669 . Viun5g00738 . Vivi6g03013 . . .
Vvi4g1045 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1046 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1047 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03569 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1048 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1049 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva13g03570 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01446 . Lasa3g02086 . . . . . . . . . Lja1g2989 . . . Mepo3g02278 . Mesa25g01938 . . . . . . . Phco3g02698 . . . . . Pste5g01140 . . . . . Pumo5g00133 . Pvu8g0529 . Rops8g00950 . Seca2g00832 . Spst1g01187 . . . . . . . Trre13g02336 . . . Vian2g00507 . Vifa5g01670 . Vimu6g00670 . Viun5g00736 . Vivi6g03015 . . .
Vvi4g1050 . . . . . . . . . . . . . . . . . . . . . . . . . . . Bva04g03484 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01445 . Lasa3g02087 . . . . . . . . . Lja1g2988 . . . Mepo3g02279 . . . . . . . . . Phco3g02699 . . . . . Pste5g01139 . . . . . Pumo5g00132 . Pvu8g0528 . Rops8g00949 . . . . . . . . . . . . . . . Vian2g00506 . Vifa5g01671 . Vimu6g00671 . Viun5g00735 . Vivi6g03016 . . .
Vvi4g1051 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1052 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi4g1053 . Acco11g2211 . Accr9g00265 . Adu05g00736 Aed11g1352 . Aev05g0572 . Ahy15g0715 . Aip05g00724 . . Alju09g2219 . . Apr3g0234 Apr7g0966 . Arst5g00920 . Bach4g00583 . Bisa11g1607 Bva08g00680 . . . Cca06g01401 . . Dere09g0825 Dod02g0631 . . Enph13g0982 . Glsi05g1525 Gma11g00570 Gma01g01831 Gma02g00551 Gma16g01313 Gso11g0528 Gso11g0528 Gso11g0528 Gso11g0528 Lal16g1468 . . . . . . . . . . . . Lapu2g00619 . Lasa2g03231 . . . . Lele49g0210 Lele50g0223 Lele51g0224 Lele52g0226 Lja2g0395 Lja4g3265 . Mal5g3513 . Mepo5g00827 . . . Mibi12g1913 Mtr5g0723 Mtr8g2556 . Phac2g02444 . Phco4g01043 . Prci10g0364 Psa2g3708 Psa4g2103 . Pste1g02566 . . . Pte12g00397 . Pumo8g01889 . Pvu2g0251 . Rops1g01710 . Seca12g02614 . Spst2g00750 Ssu2g2424 . Sto6g3770 . Tpr2g0917 Tpr4g4115 . Trre9g00952 Tsu05g00688 Tsu04g03341 . Vian10g00644 . Vifa1g06999 . Vimu7g02882 . Viun2g02032 . Vivi2g03177 Vra11g0636 .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi4g1044 Chr4 17285385 17295059 -
Bva Bva13g03568 Chr13 24073215 24077443 -
Gma Gma02g00551 Chr02 5515329 5530868 -
Lapu Lapu1g01447 Chr1 27330077 27336425 +
Lasa Lasa3g02085 Chr3 524410016 524413810 -
Lja Lja1g2990 Chr1 36335186 36340816 +
Mepo Mepo3g02277 Chr3 32467796 32472734 -
Mesa Mesa25g01940 Chr25 24014436 24018333 +
Phco Phco3g02697 Chr3 53458409 53468982 -
Pste Pste5g01143 Chr5 7470586 7476875 +
Pte Pte8g00610 Chr8 28658645 28662143 -
Pumo Pumo5g00135 Chr5 4293889 4295563 +
Pvu Pvu8g0530 Chr8 4630908 4636317 +
Rops Rops8g00952 Chr8 20583178 20589807 +
Seca Seca2g00834 Chr2 12575801 12576001 +
Spst Spst1g01186 Chr1 14149883 14159720 -
Trre Trre13g02337 Chr13 21162970 21166858 +
Vian Vian2g00508 Chr2 6133012 6138735 +
Vifa Vifa5g01669 Chr5 489994853 489997606 -
Vimu Vimu6g00669 Chr6 7817631 7822717 -
Viun Viun5g00738 Chr5 4614722 4620456 +
Vivi Vivi6g03013 Chr6 117505275 117508050 -
Vvi Vvi4g1045 Chr4 17298030 17299853 -
Vvi Vvi4g1046 Chr4 17321047 17321981 -
Vvi Vvi4g1047 Chr4 17332181 17344302 -
Bva Bva13g03569 Chr13 24082211 24093381 -
Vvi Vvi4g1048 Chr4 17354673 17357525 +
Vvi Vvi4g1049 Chr4 17362020 17370254 +
Bva Bva13g03570 Chr13 24093314 24100215 +
Lapu Lapu1g01446 Chr1 27314308 27324246 -
Lasa Lasa3g02086 Chr3 524437623 524442017 +
Lja Lja1g2989 Chr1 36311175 36327038 -
Mepo Mepo3g02278 Chr3 32483772 32491357 +
Mesa Mesa25g01938 Chr25 23999521 24006481 -
Phco Phco3g02698 Chr3 53469232 53478522 +
Pste Pste5g01140 Chr5 7451751 7459935 -
Pumo Pumo5g00133 Chr5 4270630 4278283 -
Pvu Pvu8g0529 Chr8 4615185 4624365 -
Rops Rops8g00950 Chr8 20538147 20546543 -
Seca Seca2g00832 Chr2 12548903 12554551 -
Spst Spst1g01187 Chr1 14164992 14177846 +
Trre Trre13g02336 Chr13 21151009 21159868 -
Vian Vian2g00507 Chr2 6113311 6126122 -
Vifa Vifa5g01670 Chr5 491183790 491192808 +
Vimu Vimu6g00670 Chr6 7839226 7849028 +
Viun Viun5g00736 Chr5 4600934 4607305 -
Vivi Vivi6g03015 Chr6 117535786 117540171 +
Vvi Vvi4g1050 Chr4 17380960 17384275 +
Bva Bva04g03484 Chr04 27545962 27549661 -
Lapu Lapu1g01445 Chr1 27304284 27308400 +
Lasa Lasa3g02087 Chr3 524552084 524555310 -
Lja Lja1g2988 Chr1 36299030 36303240 +
Mepo Mepo3g02279 Chr3 32498239 32502525 -
Phco Phco3g02699 Chr3 53486269 53490285 -
Pste Pste5g01139 Chr5 7435077 7439123 +
Pumo Pumo5g00132 Chr5 4256905 4261191 +
Pvu Pvu8g0528 Chr8 4601738 4606123 +
Rops Rops8g00949 Chr8 20525550 20529508 +
Vian Vian2g00506 Chr2 6095565 6099471 +
Vifa Vifa5g01671 Chr5 491728096 491731385 -
Vimu Vimu6g00671 Chr6 7854251 7858368 -
Viun Viun5g00735 Chr5 4590372 4594809 +
Vivi Vivi6g03016 Chr6 117567535 117571406 -
Vvi Vvi4g1051 Chr4 17385599 17388133 +
Vvi Vvi4g1052 Chr4 17388144 17390306 +
Vvi Vvi4g1053 Chr4 17400740 17415696 +
Acco Acco11g2211 Chr11 35858552 35872654 +
Accr Accr9g00265 Chr9 2944700 2954190 -
Adu Adu05g00736 Chr05 8670354 8677475 +
Aed Aed11g1352 Chr11 18307744 18318607 -
Aev Aev05g0572 Chr05 3999467 4007139 -
Ahy Ahy15g0715 Chr15 9540295 9551261 +
Aip Aip05g00724 Chr05 9203094 9213761 +
Alju Alju09g2219 Chr09 45456009 45468949 +
Apr Apr3g0234 Chr3 4225792 4247418 +
Apr Apr7g0966 Chr7 16654338 16667793 +
Arst Arst5g00920 Chr5 8692120 8702942 +
Bach Bach4g00583 Chr4 3917975 3927408 +
Bisa Bisa11g1607 Chr11 36884580 36899476 +
Bva Bva08g00680 Chr08 3497656 3508095 +
Cca Cca06g01401 Chr06 28905944 28920973 -
Dere Dere09g0825 Chr09 11109859 11119310 +
Dod Dod02g0631 Chr02 8338109 8350839 -
Enph Enph13g0982 Chr13 15810257 15823638 -
Glsi Glsi05g1525 Chr05 63794218 63804058 -
Gma Gma11g00570 Chr11 4737802 4748610 +
Gma Gma01g01831 Chr01 53940576 53950678 -
Gma Gma02g00551 Chr02 5515329 5530868 -
Gma Gma16g01313 Chr16 31851895 31862108 -
Gso Gso11g0528 Chr11 4709338 4722882 +
Gso Gso11g0528 Chr11 4709338 4722882 +
Gso Gso11g0528 Chr11 4709338 4722882 +
Gso Gso11g0528 Chr11 4709338 4722882 +
Lal Lal16g1468 Chr16 11605027 11618310 -
Lapu Lapu2g00619 Chr2 5372751 5386477 +
Lasa Lasa2g03231 Chr2 526036425 526043885 +
Lele Lele49g0210 Chr49 1245828 1254119 -
Lele Lele50g0223 Chr50 1323449 1331938 -
Lele Lele51g0224 Chr51 1257819 1266158 -
Lele Lele52g0226 Chr52 1343219 1351820 -
Lja Lja2g0395 Chr2 3608446 3619133 +
Lja Lja4g3265 Chr4 61419129 61422104 -
Mal Mal5g3513 Chr5 100726257 100733253 -
Mepo Mepo5g00827 Chr5 7919053 7926739 +
Mibi Mibi12g1913 Chr12 35386228 35394978 +
Mtr Mtr5g0723 Chr5 7049015 7059750 +
Mtr Mtr8g2556 Chr8 35986268 35995569 -
Phac Phac2g02444 Chr2 25928513 25942602 +
Phco Phco4g01043 Chr4 8362403 8372496 -
Prci Prci10g0364 Chr10 2471466 2483518 -
Psa Psa2g3708 Chr2 396909742 396921277 -
Psa Psa4g2103 Chr4 163668807 163673204 +
Pste Pste1g02566 Chr1 9641687 9651981 +
Pte Pte12g00397 Chr12 3290000 3292756 +
Pumo Pumo8g01889 Chr8 55378759 55390742 -
Pvu Pvu2g0251 Chr2 2579797 2594279 +
Rops Rops1g01710 Chr1 35890176 35903992 -
Seca Seca12g02614 Chr12 43379394 43391273 +
Spst Spst2g00750 Chr2 6230206 6240978 +
Ssu Ssu2g2424 Chr2 82509363 82518887 -
Sto Sto6g3770 Chr6 42414812 42423975 +
Tpr Tpr2g0917 Chr2 11116864 11127511 +
Tpr Tpr4g4115 Chr4 48043317 48064399 +
Trre Trre9g00952 Chr9 7334553 7341876 +
Tsu Tsu05g00688 Chr05 5730183 5737636 +
Tsu Tsu04g03341 Chr04 42576861 42579089 +
Vian Vian10g00644 Chr10 6122032 6131948 +
Vifa Vifa1g06999 Chr1 1081950943 1081958545 -
Vimu Vimu7g02882 Chr7 24283772 24297764 +
Viun Viun2g02032 Chr2 28712390 28725639 -
Vivi Vivi2g03177 Chr2 132703404 132714022 -
Vra Vra11g0636 Chr11 5032506 5046440 +