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
Vvi17g0003 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0004 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g00598 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0005 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0006 . . . . . . Aed10g0751 . Aev08g2471 . Ahy18g2888 . Aip08g03283 . . . . . Apr1g0342 . . . . Bach2g02323 . . Bva06g01583 Bva05g00181 . Car05g02589 Cca03g00267 . . . Dod09g0074 . . . . . Gma06g01451 Gma04g01958 . . Gso6g1380 Gso6g1380 . . . . . Lal17g0809 . . . . . . . . . Lapu9g00907 . Lasa5g03492 . . . . . . . . Lja1g4380 . . Mal2g1385 . Mepo3g06937 . Mesa9g04470 . . . Mtr3g3459 . . . Phco7g01902 . . . . . Pste2g00209 . . . . . Pumo10g01810 . Pvu9g1657 . Rops10g00879 . Seca4g01811 . Spst9g01788 Ssu1g2449 . Sto4g0212 . . Tpr3g3263 . Trre5g04760 . Tsu07g01196 . . . Vifa2g03354 . Vimu10g01657 . Viun9g01607 . Vivi3g02264 . .
Vvi17g0007 . . . . . . Aed10g0752 Aed5g2202 Aev08g2470 . Ahy18g2889 . Aip08g03284 . . . . . . Apr2g1113 . . . Bach2g02322 . . Bva06g01582 . . Car05g02590 Cca03g00268 Cca09g02346 . . Dod09g0075 . . . . . Gma06g01452 Gma08g00066 Gma05g01963 . Gso6g1382 Gso6g1382 Gso6g1382 . . . . Lal17g0810 Lal4g0675 . . . . . . . . Lapu9g00908 . Lasa5g03493 . . . . . . . . Lja1g4379 Lja4g0507 . Mal2g1384 . Mepo3g06938 . Mesa9g04471 . . . Mtr3g3460 . . . Phco7g01901 . . . . . Pste2g00210 . . Pte3g00111 . . Pumo10g01811 . Pvu9g1658 . Rops10g00878 . Seca4g01810 . . Ssu1g2448 Ssu5g2952 . . . Tpr3g3264 . Trre5g04759 . Tsu07g01195 . . . Vifa2g03355 . . . Viun9g01605 . Vivi3g02263 . Vra7g3560
Vvi17g0008 . . . . . . Aed10g0753 Aed5g2203 Aev08g2469 . Ahy18g2890 . Aip08g03285 . . . . . . Apr2g1115 . Arst3g03866 . Bach2g02320 . . Bva06g01580 Bva05g00182 . . Cca03g00269 Cca09g02348 . . Dod09g0076 . . . . . Gma06g01453 Gma04g01955 Gma05g01965 . Gso6g1383 Gso6g1383 Gso6g1383 . . . . Lal17g0811 Lal4g0677 Lal21g0692 . . . . . . . Lapu9g01119 . . . . . . . . . . Lja1g4377 Lja4g0505 Mal7g4837 . . . . . . . Mtr8g3375 . . . . Phco7g01900 . . . Psa7g0907 . Pste2g00211 . . Pte3g00113 . . Pumo10g01813 . Pvu9g1659 . Rops10g00876 . Seca4g01809 . Spst9g01786 Ssu1g2447 Ssu5g2954 Sto4g0211 . Tpr3g0730 . . . Tsu02g00557 . . . . . . Vimu10g01870 . Viun9g01602 . . . Vra7g3558
Vvi17g0009 . . . . . . Aed10g0754 Aed5g2204 Aev08g2466 . Ahy18g2894 . Aip08g03289 . . . . . . Apr2g1116 . Arst3g03865 . Bach2g02319 . . Bva06g01578 . . Car05g02591 Cca03g00271 Cca09g02349 . . Dod09g0077 . . . . . Gma06g01454 Gma08g00068 Gma05g01966 . Gso6g1384 Gso6g1384 Gso6g1384 . . . Lal14g1419 Lal17g0812 Lal4g0678 . . . . . . . . Lapu9g00910 . Lasa5g03494 . . . . . . . . Lja1g4374 Lja4g0504 . Mal2g1383 . Mepo3g06939 . Mesa9g04472 . . Mtr8g3376 Mtr3g3461 . . . Phco7g01899 . . . Psa7g0905 . Pste2g00217 . . Pte3g00114 . . Pumo10g01814 . Pvu9g1660 . Rops10g00875 . Seca4g01807 . Spst9g01784 Ssu1g2446 Ssu5g2955 . . Tpr3g0729 Tpr3g3265 . Trre5g04757 Tsu02g00556 Tsu07g01193 . . . Vifa2g03356 . . . Viun9g01599 . Vivi3g02262 . Vra7g3557
Vvi17g0010 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi17g0012 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Arst Arst3g03865 Chr3 109549572 109553787 -
Arst Arst3g03865 Chr3 109549572 109553787 -
Bach Bach2g02319 Chr2 29716536 29718534 -
Lapu Lapu9g00910 Chr9 13642925 13646063 +
Lasa Lasa5g03494 Chr5 567171001 567172251 +
Lja Lja4g0504 Chr4 4114096 4120442 -
Mepo Mepo3g06939 Chr3 83007577 83010027 +
Mesa Mesa9g04472 Chr9 78087667 78090025 +
Mtr Mtr8g3376 Chr8 44244090 44250446 +
Phco Phco7g01899 Chr7 22717713 22719966 -
Psa Psa7g0905 Chr7 68711349 68714140 -
Pste Pste2g00217 Chr2 1196064 1198659 +
Pte Pte3g00114 Chr3 1105097 1107559 +
Pte Pte3g00114 Chr3 1105097 1107559 +
Pumo Pumo10g01814 Chr10 23809748 23812678 +
Pvu Pvu9g1660 Chr9 23267271 23269904 +
Rops Rops10g00875 Chr10 19794198 19796316 -
Seca Seca4g01807 Chr4 29914961 29917574 -
Spst Spst9g01784 Chr9 20162075 20169056 -
Tpr Tpr3g0729 Chr3 7011297 7016012 -
Trre Trre5g04757 Chr5 49417017 49419637 -
Tsu Tsu02g00556 Chr02 4705322 4710177 -
Vifa Vifa2g03356 Chr2 964143309 964144870 +
Vifa Vifa2g03356 Chr2 964143309 964144870 +
Viun Viun9g01599 Chr9 23795691 23798222 -
Vivi Vivi3g02262 Chr3 37276801 37278919 -
Arst Arst3g03866 Chr3 109613391 109616200 +
Arst Arst3g03866 Chr3 109613391 109616200 +
Bach Bach2g02320 Chr2 29721109 29724553 +
Lapu Lapu9g01119 Chr9 24230701 24240690 -
Lja Lja4g0505 Chr4 4125040 4128163 +
Mal Mal7g4837 Chr7 116823994 116827640 -
Mtr Mtr8g3375 Chr8 44236653 44239786 -
Phco Phco7g01900 Chr7 22915332 22919016 +
Pste Pste2g00211 Chr2 1137265 1141859 -
Pte Pte3g00113 Chr3 1098032 1100988 -
Pte Pte3g00113 Chr3 1098032 1100988 -
Pumo Pumo10g01813 Chr10 23793766 23797579 -
Pvu Pvu9g1659 Chr9 23249724 23254293 -
Rops Rops10g00876 Chr10 19809982 19814678 +
Seca Seca4g01809 Chr4 29962072 29965939 +
Spst Spst9g01786 Chr9 20228850 20232222 +
Tpr Tpr3g0730 Chr3 7020360 7024094 +
Tsu Tsu02g00557 Chr02 4723703 4726526 +
Vimu Vimu10g01870 Chr10 26835034 26836936 -
Viun Viun9g01602 Chr9 23859092 23863674 +
Apr Apr1g0342 Chr1 4161756 4173146 +
Vvi Vvi17g0003 Chr17 33518 34781 -
Vvi Vvi17g0004 Chr17 35626 36257 +
Car Car06g00598 Chr06 6053440 6054570 -
Vvi Vvi17g0005 Chr17 37072 38595 -
Vvi Vvi17g0006 Chr17 39596 44249 +
Aed Aed10g0751 Chr10 6170933 6174784 +
Aev Aev08g2471 Chr08 23595024 23597999 -
Ahy Ahy18g2888 Chr18 133604958 133609603 +
Aip Aip08g03283 Chr08 123858749 123863409 +
Apr Apr1g0342 Chr1 4161756 4173146 +
Bach Bach2g02323 Chr2 29731149 29734171 -
Bva Bva06g01583 Chr06 11302502 11305814 -
Bva Bva05g00181 Chr05 874268 877988 +
Car Car05g02589 Chr05 70919088 70923247 +
Cca Cca03g00267 Chr03 3927707 3931533 +
Dod Dod09g0074 Chr09 1027692 1033401 +
Gma Gma06g01451 Chr06 13815780 13826460 +
Gma Gma04g01958 Chr04 50023583 50027448 -
Gso Gso6g1380 Chr6 13547212 13548731 +
Gso Gso6g1380 Chr6 13547212 13548731 +
Lal Lal17g0809 Chr17 5919514 5926361 +
Lapu Lapu9g00907 Chr9 13592177 13595764 +
Lasa Lasa5g03492 Chr5 567162101 567165693 +
Lja Lja1g4380 Chr1 56681437 56684754 -
Mal Mal2g1385 Chr2 16647088 16650309 -
Mepo Mepo3g06937 Chr3 82999054 83002986 +
Mesa Mesa9g04470 Chr9 78076035 78079481 +
Mtr Mtr3g3459 Chr3 48423066 48427680 +
Phco Phco7g01902 Chr7 22925071 22928253 -
Pste Pste2g00209 Chr2 1128400 1133001 +
Pumo Pumo10g01810 Chr10 23784721 23788396 +
Pvu Pvu9g1657 Chr9 23242225 23246280 +
Rops Rops10g00879 Chr10 19820027 19824047 -
Seca Seca4g01811 Chr4 29971535 29975916 -
Spst Spst9g01788 Chr9 20264581 20267739 -
Ssu Ssu1g2449 Chr1 68140492 68143790 -
Sto Sto4g0212 Chr4 1598325 1601228 -
Tpr Tpr3g3263 Chr3 35920433 35925178 +
Trre Trre5g04760 Chr5 49467977 49472169 -
Tsu Tsu07g01196 Chr07 10255231 10259210 -
Vifa Vifa2g03354 Chr2 963683720 963689124 +
Vimu Vimu10g01657 Chr10 21900341 21901887 -
Viun Viun9g01607 Chr9 23911225 23915031 -
Vivi Vivi3g02264 Chr3 37285423 37291171 -
Vvi Vvi17g0007 Chr17 44814 46677 -
Aed Aed10g0752 Chr10 6174733 6175594 -
Aed Aed5g2202 Chr5 24094123 24095675 -
Aev Aev08g2470 Chr08 23593438 23594265 +
Ahy Ahy18g2889 Chr18 133609741 133610906 -
Aip Aip08g03284 Chr08 123863623 123864697 -
Apr Apr2g1113 Chr2 17413218 17415411 -
Bach Bach2g02322 Chr2 29729524 29730581 +
Bva Bva06g01582 Chr06 11300940 11302129 +
Car Car05g02590 Chr05 70923672 70925231 -
Cca Cca03g00268 Chr03 3931537 3932808 -
Cca Cca09g02346 Chr09 48751562 48752936 -
Dod Dod09g0075 Chr09 1033403 1035317 -
Gma Gma06g01452 Chr06 13826750 13827656 -
Gma Gma08g00066 Chr08 554030 555441 -
Gma Gma05g01963 Chr05 40953542 40955416 -
Gso Gso6g1382 Chr6 13553786 13555067 -
Gso Gso6g1382 Chr6 13553786 13555067 -
Gso Gso6g1382 Chr6 13553786 13555067 -
Lal Lal17g0810 Chr17 5924295 5926475 -
Lal Lal4g0675 Chr4 5248276 5258338 -
Lapu Lapu9g00908 Chr9 13595831 13597076 -
Lasa Lasa5g03493 Chr5 567166425 567167174 -
Lja Lja1g4379 Chr1 56679152 56680601 +
Lja Lja4g0507 Chr4 4133586 4135555 +
Mal Mal2g1384 Chr2 16644593 16646266 +
Mepo Mepo3g06938 Chr3 83003162 83004823 -
Mesa Mesa9g04471 Chr9 78080261 78081466 -
Mtr Mtr3g3460 Chr3 48427926 48429332 -
Phco Phco7g01901 Chr7 22923840 22924709 +
Pste Pste2g00210 Chr2 1132924 1134252 -
Pte Pte3g00111 Chr3 1092367 1093809 -
Pumo Pumo10g01811 Chr10 23788375 23789539 -
Pvu Pvu9g1658 Chr9 23246280 23247447 -
Rops Rops10g00878 Chr10 19818282 19819755 +
Seca Seca4g01810 Chr4 29969820 29971839 +
Ssu Ssu1g2448 Chr1 68139206 68140111 +
Ssu Ssu5g2952 Chr5 76242025 76243285 -
Tpr Tpr3g3264 Chr3 35925436 35927879 -
Trre Trre5g04759 Chr5 49465683 49467166 +
Tsu Tsu07g01195 Chr07 10252965 10254409 +
Vifa Vifa2g03355 Chr2 963689915 963690724 -
Viun Viun9g01605 Chr9 23910157 23911268 +
Vivi Vivi3g02263 Chr3 37283742 37284898 +
Vra Vra7g3560 Chr7 54958280 54960700 +
Vvi Vvi17g0008 Chr17 47749 49339 -
Aed Aed10g0753 Chr10 6177118 6181249 -
Aed Aed5g2203 Chr5 24096549 24099568 -
Aev Aev08g2469 Chr08 23588476 23591282 +
Ahy Ahy18g2890 Chr18 133613039 133616478 -
Aip Aip08g03285 Chr08 123866749 123870233 -
Apr Apr2g1115 Chr2 17420989 17424673 -
Arst Arst3g03866 Chr3 109613391 109616200 +
Bach Bach2g02320 Chr2 29721109 29724553 +
Bva Bva06g01580 Chr06 11293810 11297341 +
Bva Bva05g00182 Chr05 877568 881570 -
Cca Cca03g00269 Chr03 3936377 3941322 -
Cca Cca09g02348 Chr09 48765317 48769407 -
Dod Dod09g0076 Chr09 1038602 1042453 -
Gma Gma06g01453 Chr06 13831408 13836209 -
Gma Gma04g01955 Chr04 50008583 50013240 +
Gma Gma05g01965 Chr05 40967814 40970519 -
Gso Gso6g1383 Chr6 13558701 13563446 -
Gso Gso6g1383 Chr6 13558701 13563446 -
Gso Gso6g1383 Chr6 13558701 13563446 -
Lal Lal17g0811 Chr17 5928022 5931315 -
Lal Lal4g0677 Chr4 5266286 5270501 -
Lal Lal21g0692 Chr21 5455156 5473660 -
Lapu Lapu9g01119 Chr9 24230701 24240690 -
Lja Lja1g4377 Chr1 56566869 56571948 +
Lja Lja4g0505 Chr4 4125040 4128163 +
Mal Mal7g4837 Chr7 116823994 116827640 -
Mtr Mtr8g3375 Chr8 44236653 44239786 -
Phco Phco7g01900 Chr7 22915332 22919016 +
Psa Psa7g0907 Chr7 68807816 68811146 +
Pste Pste2g00211 Chr2 1137265 1141859 -
Pte Pte3g00113 Chr3 1098032 1100988 -
Pumo Pumo10g01813 Chr10 23793766 23797579 -
Pvu Pvu9g1659 Chr9 23249724 23254293 -
Rops Rops10g00876 Chr10 19809982 19814678 +
Seca Seca4g01809 Chr4 29962072 29965939 +
Spst Spst9g01786 Chr9 20228850 20232222 +
Ssu Ssu1g2447 Chr1 68127014 68129849 +
Ssu Ssu5g2954 Chr5 76258713 76261831 -
Sto Sto4g0211 Chr4 1593045 1597918 +
Tpr Tpr3g0730 Chr3 7020360 7024094 +
Tsu Tsu02g00557 Chr02 4723703 4726526 +
Vimu Vimu10g01870 Chr10 26835034 26836936 -
Viun Viun9g01602 Chr9 23859092 23863674 +
Vra Vra7g3558 Chr7 54948987 54952782 +
Vvi Vvi17g0009 Chr17 52851 54624 +
Aed Aed10g0754 Chr10 6183305 6185596 +
Aed Aed5g2204 Chr5 24105988 24110216 +
Aev Aev08g2466 Chr08 23555374 23557026 -
Ahy Ahy18g2894 Chr18 133660775 133665350 +
Aip Aip08g03289 Chr08 123910718 123915265 +
Apr Apr2g1116 Chr2 17430623 17436778 +
Arst Arst3g03865 Chr3 109549572 109553787 -
Bach Bach2g02319 Chr2 29716536 29718534 -
Bva Bva06g01578 Chr06 11287949 11292587 -
Car Car05g02591 Chr05 70926706 70929012 +
Cca Cca03g00271 Chr03 3957170 3960396 +
Cca Cca09g02349 Chr09 48788188 48789991 +
Dod Dod09g0077 Chr09 1060231 1062694 +
Gma Gma06g01454 Chr06 13846394 13849406 +
Gma Gma08g00068 Chr08 561378 566964 +
Gma Gma05g01966 Chr05 40980869 40987765 +
Gso Gso6g1384 Chr6 13571958 13574997 +
Gso Gso6g1384 Chr6 13571958 13574997 +
Gso Gso6g1384 Chr6 13571958 13574997 +
Lal Lal14g1419 Chr14 15439558 15441912 +
Lal Lal17g0812 Chr17 5938637 5941059 +
Lal Lal4g0678 Chr4 5292051 5293426 +
Lapu Lapu9g00910 Chr9 13642925 13646063 +
Lasa Lasa5g03494 Chr5 567171001 567172251 +
Lja Lja1g4374 Chr1 56546881 56549901 -
Lja Lja4g0504 Chr4 4114096 4120442 -
Mal Mal2g1383 Chr2 16610720 16612829 -
Mepo Mepo3g06939 Chr3 83007577 83010027 +
Mesa Mesa9g04472 Chr9 78087667 78090025 +
Mtr Mtr8g3376 Chr8 44244090 44250446 +
Mtr Mtr3g3461 Chr3 48432712 48434978 +
Phco Phco7g01899 Chr7 22717713 22719966 -
Psa Psa7g0905 Chr7 68711349 68714140 -
Pste Pste2g00217 Chr2 1196064 1198659 +
Pte Pte3g00114 Chr3 1105097 1107559 +
Pumo Pumo10g01814 Chr10 23809748 23812678 +
Pvu Pvu9g1660 Chr9 23267271 23269904 +
Rops Rops10g00875 Chr10 19794198 19796316 -
Seca Seca4g01807 Chr4 29914961 29917574 -
Spst Spst9g01784 Chr9 20162075 20169056 -
Ssu Ssu1g2446 Chr1 68103099 68105178 -
Ssu Ssu5g2955 Chr5 76274524 76293205 +
Tpr Tpr3g0729 Chr3 7011297 7016012 -
Tpr Tpr3g3265 Chr3 35934596 35937224 +
Trre Trre5g04757 Chr5 49417017 49419637 -
Tsu Tsu02g00556 Chr02 4705322 4710177 -
Tsu Tsu07g01193 Chr07 10225454 10228128 -
Vifa Vifa2g03356 Chr2 964143309 964144870 +
Viun Viun9g01599 Chr9 23795691 23798222 -
Vivi Vivi3g02262 Chr3 37276801 37278919 -
Vra Vra7g3557 Chr7 54918767 54946891 -
Vvi Vvi17g0010 Chr17 58566 61775 +
Vvi Vvi17g0011 Chr17 64743 65102 -
Vvi Vvi17g0012 Chr17 67598 69620 -