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
Vvi3g0213 . . . . . . Aed1g1771 . . . . . . . . . . . . . . . . . . . . Bva14g02362 . . Cca02g02742 . . . . . . . . . . . . . . . . . . . . . Lal12g0269 . . . . . . . Lapu7g02502 . Lasa6g04780 . . . . . . . . . . . . Mal1g0222 Mepo4g04857 . Mesa1g05261 . . . . Mtr1g4313 Phac7g00287 . Phco6g03043 . . . Psa6g5321 . Pste4g00428 . . . . . Pumo3g00199 . Pvu7g0186 . Rops6g03414 . Seca8g08010 . Spst10g01550 . Ssu7g0225 . . Sto10g0053 . Tpr1g0201 Trre1g06168 . . Tsu01g04983 Vian3g00183 . Vifa3g00182 . Vimu3g03668 . Viun7g03964 . . . Vra8g2639 .
Vvi3g0214 . . . . Adu09g02856 . Aed1g1769 . Aev09g2706 . Ahy19g3064 . Aip09g03527 . . . . . Apr8g2651 . Arst9g03817 . . . . . . Bva14g02363 . . Cca02g02743 . . . Dod06g0288 . . . . . . . . . . . . . . . . Lal13g0244 Lal12g0270 Lal24g0208 . . . . . . Lapu7g02503 . Lasa6g04784 . . . . . . . . . . . . Mal1g0216 Mepo4g04858 . Mesa1g05266 . . . . Mtr1g4315 . . Phco6g03044 . . . . . Pste4g00416 . Pte18g00500 Pte9g01590 . . Pumo3g00197 . Pvu7g0185 . Rops6g03417 . Seca8g08015 . Spst10g01552 . Ssu7g0223 . Sto2g1075 Sto10g0051 . Tpr1g0199 Trre1g06169 . . Tsu01g04985 Vian3g00181 . Vifa3g00180 . Vimu3g03669 . Viun7g03977 . . . Vra8g2640 .
Vvi3g0215 . . . . Adu09g02857 . Aed1g1768 . Aev09g2707 . Ahy19g3063 . Aip09g03526 . . . Amo19g3928 . Apr8g2652 . Arst9g03818 . . . . . . Bva14g02364 . . Cca02g02744 . . . Dod06g0289 . . . . . . . . . . . . . . . . . . Lal24g0207 . . . . . . Lapu7g02504 . Lasa6g04785 . . . . . . . . . . . . Mal1g0213 Mepo4g04859 . Mesa1g05267 . . . . Mtr1g4317 Phac7g00283 . Phco6g03045 . . . Psa6g5327 . Pste4g00415 . . . . . Pumo3g00196 . Pvu7g0184 . Rops6g03419 . Seca8g08016 . Spst10g01553 . Ssu7g0221 . Sto2g1079 . . Tpr1g0195 Trre1g06171 . . Tsu01g04986 Vian3g00180 . Vifa3g00179 . Vimu3g03670 . Viun7g03979 . . . Vra8g2641 .
Vvi3g0216 . . . . Adu09g02858 . Aed1g1767 . Aev09g2708 . Ahy19g3062 . Aip09g03525 . . . Amo19g3927 . Apr8g2653 . Arst9g03819 . . . . . . Bva14g02365 . . Cca02g02745 . . . Dod06g0290 . . . . . . . . . . . . . . . . . . Lal24g0205 . . . . . . Lapu7g02505 . Lasa6g04787 . . . . . . . . . . . . Mal1g0212 Mepo4g04860 . Mesa1g05268 . . . . Mtr1g4318 Phac7g00282 . Phco6g03046 . . . Psa6g5328 . Pste4g00414 . . Pte9g01591 . . Pumo3g00195 . Pvu7g0183 . Rops6g03420 . Seca8g08017 . Spst10g01554 . Ssu7g0219 . Sto2g1080 Sto10g0050 . Tpr1g0193 Trre1g06172 . . Tsu01g04989 Vian3g00179 . . . Vimu3g03671 . Viun7g03980 . . . Vra8g2642 .
Vvi3g0217 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto10g0049 . . . . . . . . . . . . . . . . . .
Vvi3g0218 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0219 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0220 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0221 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi3g0222 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi3g0213 Chr3 1845973 1854705 -
Aed Aed1g1771 Chr1 15220822 15229673 +
Bva Bva14g02362 Chr14 20339675 20344480 -
Cca Cca02g02742 Chr02 48873387 48892708 -
Lal Lal12g0269 Chr12 1919732 1926447 -
Lapu Lapu7g02502 Chr7 41400362 41406397 -
Lasa Lasa6g04780 Chr6 668802879 668804031 -
Mal Mal1g0222 Chr1 2507044 2512504 +
Mepo Mepo4g04857 Chr4 57896775 57903922 -
Mesa Mesa1g05261 Chr1 79870368 79875898 -
Mtr Mtr1g4313 Chr1 54806281 54814236 -
Phac Phac7g00287 Chr7 1379669 1385080 +
Phco Phco6g03043 Chr6 51478605 51483810 -
Psa Psa6g5321 Chr6 466459959 466465318 -
Pste Pste4g00428 Chr4 3318856 3320922 +
Pumo Pumo3g00199 Chr3 2529395 2535276 +
Pvu Pvu7g0186 Chr7 1256131 1261607 +
Rops Rops6g03414 Chr6 58786798 58797467 -
Seca Seca8g08010 Chr8 177677150 177683735 -
Spst Spst10g01550 Chr10 16135949 16149831 -
Ssu Ssu7g0225 Chr7 3655751 3658524 +
Sto Sto10g0053 Chr10 427783 433477 +
Tpr Tpr1g0201 Chr1 1654667 1660022 +
Trre Trre1g06168 Chr1 65503416 65508379 -
Tsu Tsu01g04983 Chr01 56654869 56659428 -
Vian Vian3g00183 Chr3 1532599 1546732 +
Vifa Vifa3g00182 Chr3 14018918 14024111 +
Vimu Vimu3g03668 Chr3 49298262 49303568 -
Viun Viun7g03964 Chr7 39344530 39354011 -
Vra Vra8g2639 Chr8 44274784 44280589 -
Vvi Vvi3g0214 Chr3 1872399 1877032 +
Adu Adu09g02856 Chr09 116259018 116262388 +
Aed Aed1g1769 Chr1 15200527 15204835 -
Aev Aev09g2706 Chr09 27917698 27919710 +
Ahy Ahy19g3064 Chr19 153411777 153415008 -
Aip Aip09g03527 Chr09 141934531 141936586 -
Apr Apr8g2651 Chr8 36301156 36306029 +
Arst Arst9g03817 Chr9 114155392 114158588 +
Bva Bva14g02363 Chr14 20350970 20355799 +
Cca Cca02g02743 Chr02 48911240 48915640 +
Dod Dod06g0288 Chr06 3899064 3904042 +
Lal Lal13g0244 Chr13 1538677 1543004 +
Lal Lal12g0270 Chr12 1934135 1939499 +
Lal Lal24g0208 Chr24 1512277 1516702 -
Lapu Lapu7g02503 Chr7 41427303 41432633 +
Lasa Lasa6g04784 Chr6 669211404 669213720 +
Mal Mal1g0216 Chr1 2378927 2381434 -
Mepo Mepo4g04858 Chr4 57921065 57924848 +
Mesa Mesa1g05266 Chr1 79918517 79921152 +
Mtr Mtr1g4315 Chr1 54843031 54846765 +
Phco Phco6g03044 Chr6 51507277 51510397 +
Pste Pste4g00416 Chr4 3215049 3219795 -
Pte Pte18g00500 Chr18 10745182 10749080 +
Pte Pte9g01590 Chr9 36938343 36943282 +
Pumo Pumo3g00197 Chr3 2479498 2484269 -
Pvu Pvu7g0185 Chr7 1228203 1232886 -
Rops Rops6g03417 Chr6 58828734 58834157 +
Seca Seca8g08015 Chr8 177722132 177726626 +
Spst Spst10g01552 Chr10 16169685 16172493 +
Ssu Ssu7g0223 Chr7 3606721 3609264 -
Sto Sto2g1075 Chr2 9415594 9418559 +
Sto Sto10g0051 Chr10 415955 419133 -
Tpr Tpr1g0199 Chr1 1626383 1629741 -
Trre Trre1g06169 Chr1 65518161 65520790 +
Tsu Tsu01g04985 Chr01 56668295 56670603 +
Vian Vian3g00181 Chr3 1494944 1498029 -
Vifa Vifa3g00180 Chr3 13788789 13791650 -
Vimu Vimu3g03669 Chr3 49321295 49325538 +
Viun Viun7g03977 Chr7 39379396 39384078 +
Vra Vra8g2640 Chr8 44301689 44306276 +
Vvi Vvi3g0215 Chr3 1886320 1890421 +
Adu Adu09g02857 Chr09 116267173 116270380 +
Aed Aed1g1768 Chr1 15192852 15197405 -
Aev Aev09g2707 Chr09 27923249 27926656 +
Ahy Ahy19g3063 Chr19 153405458 153409421 -
Aip Aip09g03526 Chr09 141928834 141932048 -
Amo Amo19g3928 Chr19 154998531 155001553 -
Apr Apr8g2652 Chr8 36309032 36312949 +
Arst Arst9g03818 Chr9 114163226 114167242 +
Bva Bva14g02364 Chr14 20358037 20361369 +
Cca Cca02g02744 Chr02 48921050 48926106 +
Dod Dod06g0289 Chr06 3906924 3910437 +
Lal Lal24g0207 Chr24 1505125 1509456 -
Lapu Lapu7g02504 Chr7 41436112 41440563 +
Lasa Lasa6g04785 Chr6 669269611 669272613 +
Mal Mal1g0213 Chr1 2364095 2367260 -
Mepo Mepo4g04859 Chr4 57934139 57937609 +
Mesa Mesa1g05267 Chr1 79928109 79931625 +
Mtr Mtr1g4317 Chr1 54859981 54864015 +
Phac Phac7g00283 Chr7 1330912 1335932 -
Phco Phco6g03045 Chr6 51514437 51518481 +
Psa Psa6g5327 Chr6 466822234 466826196 +
Pste Pste4g00415 Chr4 3197297 3203094 -
Pumo Pumo3g00196 Chr3 2462962 2467898 -
Pvu Pvu7g0184 Chr7 1219524 1224538 -
Rops Rops6g03419 Chr6 58840052 58844351 +
Seca Seca8g08016 Chr8 177730277 177735075 +
Spst Spst10g01553 Chr10 16175774 16179874 +
Ssu Ssu7g0221 Chr7 3592773 3595998 -
Sto Sto2g1079 Chr2 9463533 9468611 +
Tpr Tpr1g0195 Chr1 1598473 1600913 -
Trre Trre1g06171 Chr1 65537999 65541224 +
Tsu Tsu01g04986 Chr01 56678207 56681673 +
Vian Vian3g00180 Chr3 1485929 1489917 -
Vifa Vifa3g00179 Chr3 13596597 13602479 -
Vimu Vimu3g03670 Chr3 49330207 49334705 +
Viun Viun7g03979 Chr7 39392293 39396558 +
Vra Vra8g2641 Chr8 44309674 44314864 +
Vvi Vvi3g0216 Chr3 1891865 1896263 -
Adu Adu09g02858 Chr09 116270924 116273860 -
Aed Aed1g1767 Chr1 15189081 15192195 +
Aev Aev09g2708 Chr09 27927437 27929853 -
Ahy Ahy19g3062 Chr19 153402186 153405123 +
Aip Aip09g03525 Chr09 141925386 141928290 +
Amo Amo19g3927 Chr19 154995001 154997999 +
Apr Apr8g2653 Chr8 36314028 36316709 -
Arst Arst9g03819 Chr9 114167303 114170261 -
Bva Bva14g02365 Chr14 20362008 20365339 -
Cca Cca02g02745 Chr02 48927446 48930977 -
Dod Dod06g0290 Chr06 3911546 3921071 -
Lal Lal24g0205 Chr24 1500703 1504375 +
Lapu Lapu7g02505 Chr7 41442388 41446855 -
Lasa Lasa6g04787 Chr6 669273860 669275051 -
Mal Mal1g0212 Chr1 2357142 2359909 +
Mepo Mepo4g04860 Chr4 57939258 57942553 -
Mesa Mesa1g05268 Chr1 79933826 79937737 -
Mtr Mtr1g4318 Chr1 54866430 54869810 -
Phac Phac7g00282 Chr7 1324596 1328230 +
Phco Phco6g03046 Chr6 51521434 51524265 -
Psa Psa6g5328 Chr6 466826747 466830722 -
Pste Pste4g00414 Chr4 3181526 3184773 +
Pte Pte9g01591 Chr9 36943475 36946945 -
Pumo Pumo3g00195 Chr3 2457522 2461015 +
Pvu Pvu7g0183 Chr7 1213427 1216800 +
Rops Rops6g03420 Chr6 58845528 58848550 -
Seca Seca8g08017 Chr8 177736334 177739698 -
Spst Spst10g01554 Chr10 16182786 16185508 -
Ssu Ssu7g0219 Chr7 3583743 3587250 +
Sto Sto2g1080 Chr2 9472375 9475504 -
Sto Sto10g0050 Chr10 413387 414520 +
Tpr Tpr1g0193 Chr1 1574991 1578753 +
Trre Trre1g06172 Chr1 65543640 65545998 -
Tsu Tsu01g04989 Chr01 56691608 56694461 -
Vian Vian3g00179 Chr3 1480136 1482692 +
Vimu Vimu3g03671 Chr3 49337182 49339907 -
Viun Viun7g03980 Chr7 39399261 39402437 -
Vra Vra8g2642 Chr8 44318127 44321377 -
Vvi Vvi3g0217 Chr3 1897755 1902957 +
Sto Sto10g0049 Chr10 408087 412779 -
Vvi Vvi3g0218 Chr3 1913089 1913969 -
Vvi Vvi3g0219 Chr3 1914435 1914939 +
Vvi Vvi3g0220 Chr3 1914965 1915650 +
Vvi Vvi3g0221 Chr3 1915764 1917733 +
Vvi Vvi3g0222 Chr3 1917760 1921334 +