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
Vvi18g0046 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0047 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0048 . . . . . . . Aed9g0130 . . . . . . . . . . . . . . . . . . Bva06g01816 Bva10g01030 . Car05g03362 . Cca07g00165 . . . . . . . . Gma04g00131 Gma06g00124 . . Gso4g0125 Gso4g0125 . . Lal4g0018 . Lal21g0058 . . . Lan14g0996 . Lan14g0996 . . . Lapu9g02385 . Lasa5g04652 . . . . . . . . . Lja1g2268 . . Mal2g0340 Mepo3g07735 . Mesa9g05619 . . . . Mtr3g4379 . . . . . . . Psa5g0194 . . . . . . . . Pvu9g0088 . . . . . Spst9g00172 . . . . . . Tpr7g0129 Trre5g05835 . . Tsu07g00144 . . . . . . . . Vivi3g00817 . . Vra5g1751
Vvi18g0049 . . . . . . . Aed9g0131 Aev08g0107 . Ahy17g2121 . Aip07g02259 . . . . . . . Arst8g00311 . . . Bisa09g2154 . Bva06g01817 Bva10g01029 . Car05g03361 . Cca07g00166 . . . . . . . . Gma04g00132 Gma06g00125 . . Gso4g0126 Gso4g0126 . . Lal4g0019 . . . . . Lan14g0995 . . . . . Lapu9g02384 . Lasa5g04651 . . . . . . . . . Lja1g2269 . . Mal2g0341 Mepo3g07736 . Mesa9g05618 . . . . Mtr3g4378 Phac9g01946 . . . . . . Psa5g0196 . . . . . . . . Pvu9g0087 . . . . . . . . . . . . Tpr7g0130 Trre5g05833 . . Tsu07g00145 . . . . . . . . Vivi3g00815 . . Vra5g1750
Vvi18g0050 . . . . . . . Aed9g0132 Aev08g0108 . Ahy17g2122 . Aip07g02260 . . . Amo17g1968 . . . . . . . . . Bva06g01818 . . Car05g03360 . Cca07g00167 . . . . . . . . Gma04g00133 Gma06g00126 . . Gso4g0127 Gso4g0127 . . . . Lal21g0059 . . . . . . . . . Lapu9g02383 . Lasa5g04650 . . . . . . . . . Lja1g2270 . . Mal2g0342 Mepo3g07737 . Mesa9g05617 . . . . Mtr3g4377 . . . . . . . Psa5g0197 . . . . . . . . Pvu9g0086 . . . . . Spst9g00173 . . . Sto5g0020 . . Tpr7g0131 Trre5g05832 . . Tsu07g00146 . . . . . . . . Vivi3g00814 . . Vra5g1749
Vvi18g0051 . . . . . . . Aed9g0133 Aev08g0109 . Ahy17g2126 . Aip07g02261 . . . . . . . . . . . . . . Bva10g01028 . . . Cca07g00169 . . . . . . . . Gma04g00134 Gma06g00127 . . Gso4g0128 Gso4g0128 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Pvu9g0085 . . . . . Spst9g00174 . . . Sto5g0021 . . . . . . . . . . . . . . . . . . Vra5g1748
Vvi18g0052 . . . . . Adu06g01334 . . . Aev07g2392 . Ahy16g0007 . Aip06g00007 . . . . Apr9g0698 . . Arst6g01764 . Bach3g02506 . . . Bva10g01027 . Car05g03359 Cca05g00435 . . . . Dod08g2335 . . . . . . Gma14g02186 . . . . . . . . . . . . . . . . . . . . Lasa6g00345 . . . . . . . . . Lja5g3364 Mal1g6162 . . . . . . . Mtr1g0770 . . . . Phco2g00010 . . . . . . . . Pte3g01451 . . Pumo9g00006 . Pvu1g0009 . Rops9g02532 . Seca4g01147 . Spst8g02092 Ssu5g0006 . . . . . . . Tsu01g00152 . . . . . . . . Viun8g00023 . Vivi4g06000 . .
Vvi18g0053 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0054 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0055 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Seca Seca4g01147 Chr4 18361364 18368463 +
Vvi Vvi18g0046 Chr18 515004 519747 +
Vvi Vvi18g0047 Chr18 521342 522292 +
Vvi Vvi18g0048 Chr18 525430 528843 +
Aed Aed9g0130 Chr9 906411 912061 +
Bva Bva06g01816 Chr06 12546397 12551270 +
Bva Bva10g01030 Chr10 7493639 7500799 -
Car Car05g03362 Chr05 78242445 78246279 -
Cca Cca07g00165 Chr07 2114003 2118496 +
Gma Gma04g00131 Chr04 1125405 1130504 +
Gma Gma06g00124 Chr06 1093731 1098620 +
Gso Gso4g0125 Chr4 1107026 1111878 +
Gso Gso4g0125 Chr4 1107026 1111878 +
Lal Lal4g0018 Chr4 123291 127980 +
Lal Lal21g0058 Chr21 437834 441207 +
Lan Lan14g0996 Chr14 16158177 16177980 -
Lan Lan14g0996 Chr14 16158177 16177980 -
Lapu Lapu9g02385 Chr9 38367755 38373574 -
Lasa Lasa5g04652 Chr5 683166841 683170233 -
Lja Lja1g2268 Chr1 26448330 26454261 +
Mal Mal2g0340 Chr2 3799559 3802639 +
Mepo Mepo3g07735 Chr3 90602003 90607195 +
Mesa Mesa9g05619 Chr9 91740057 91743066 -
Mtr Mtr3g4379 Chr3 57698652 57703903 -
Psa Psa5g0194 Chr5 14357706 14363302 +
Pvu Pvu9g0088 Chr9 1331195 1335286 -
Spst Spst9g00172 Chr9 1543469 1546207 +
Tpr Tpr7g0129 Chr7 1035209 1040009 +
Trre Trre5g05835 Chr5 58029366 58032416 -
Tsu Tsu07g00144 Chr07 1099953 1104957 +
Vivi Vivi3g00817 Chr3 13291547 13296239 +
Vra Vra5g1751 Chr5 23652451 23657521 -
Vvi Vvi18g0049 Chr18 532123 535425 +
Aed Aed9g0131 Chr9 912491 915420 +
Aev Aev08g0107 Chr08 606103 608095 +
Ahy Ahy17g2121 Chr17 101965893 101968341 +
Aip Aip07g02259 Chr07 94678663 94681048 +
Arst Arst8g00311 Chr8 4434920 4437368 -
Bisa Bisa09g2154 Chr09 34650792 34654934 +
Bva Bva06g01817 Chr06 12552077 12555369 +
Bva Bva10g01029 Chr10 7491379 7494628 -
Car Car05g03361 Chr05 78235778 78238589 -
Cca Cca07g00166 Chr07 2120584 2124061 +
Gma Gma04g00132 Chr04 1133845 1137489 +
Gma Gma06g00125 Chr06 1100146 1103732 +
Gso Gso4g0126 Chr4 1114607 1118381 +
Gso Gso4g0126 Chr4 1114607 1118381 +
Lal Lal4g0019 Chr4 128575 131219 +
Lan Lan14g0995 Chr14 16154500 16157242 -
Lapu Lapu9g02384 Chr9 38363097 38366795 -
Lasa Lasa5g04651 Chr5 683086658 683088930 -
Lja Lja1g2269 Chr1 26455478 26458379 +
Mal Mal2g0341 Chr2 3806277 3808664 +
Mepo Mepo3g07736 Chr3 90608264 90611005 +
Mesa Mesa9g05618 Chr9 91734789 91737176 -
Mtr Mtr3g4378 Chr3 57693944 57696606 -
Phac Phac9g01946 Chr9 18326668 18330501 -
Psa Psa5g0196 Chr5 14380034 14381383 +
Pvu Pvu9g0087 Chr9 1325144 1328968 -
Tpr Tpr7g0130 Chr7 1041586 1044671 +
Trre Trre5g05833 Chr5 58024933 58027320 -
Tsu Tsu07g00145 Chr07 1105995 1108582 +
Vivi Vivi3g00815 Chr3 13279237 13282179 -
Vra Vra5g1750 Chr5 23647871 23651161 -
Vvi Vvi18g0050 Chr18 536333 538059 -
Aed Aed9g0132 Chr9 915915 917634 -
Aev Aev08g0108 Chr08 608348 609835 -
Ahy Ahy17g2122 Chr17 101968679 101970559 -
Aip Aip07g02260 Chr07 94681354 94683261 -
Amo Amo17g1968 Chr17 100998582 101000566 +
Bva Bva06g01818 Chr06 12555705 12557374 -
Car Car05g03360 Chr05 78233298 78235003 +
Cca Cca07g00167 Chr07 2124869 2127350 -
Gma Gma04g00133 Chr04 1138626 1140693 -
Gma Gma06g00126 Chr06 1104416 1106846 -
Gso Gso4g0127 Chr4 1119218 1121603 -
Gso Gso4g0127 Chr4 1119218 1121603 -
Lal Lal21g0059 Chr21 441942 443409 -
Lapu Lapu9g02383 Chr9 38360094 38362784 +
Lasa Lasa5g04650 Chr5 683084185 683085893 +
Lja Lja1g2270 Chr1 26458579 26461313 -
Mal Mal2g0342 Chr2 3809731 3811625 -
Mepo Mepo3g07737 Chr3 90611747 90613624 -
Mesa Mesa9g05617 Chr9 91731531 91733342 +
Mtr Mtr3g4377 Chr3 57690766 57693024 +
Psa Psa5g0197 Chr5 14381706 14384027 -
Pvu Pvu9g0086 Chr9 1321541 1323786 +
Spst Spst9g00173 Chr9 1554243 1556236 -
Sto Sto5g0020 Chr5 145415 154794 -
Tpr Tpr7g0131 Chr7 1044998 1047135 -
Trre Trre5g05832 Chr5 58022104 58023950 +
Tsu Tsu07g00146 Chr07 1108927 1111308 -
Vivi Vivi3g00814 Chr3 13277031 13279014 +
Vra Vra5g1749 Chr5 23645208 23647438 +
Vvi Vvi18g0051 Chr18 540369 544705 +
Aed Aed9g0133 Chr9 920754 925895 +
Aev Aev08g0109 Chr08 611327 615323 +
Ahy Ahy17g2126 Chr17 102212713 102216310 +
Aip Aip07g02261 Chr07 94916813 94920319 +
Bva Bva10g01028 Chr10 7486854 7490315 -
Cca Cca07g00169 Chr07 2147412 2150524 +
Gma Gma04g00134 Chr04 1144936 1147820 +
Gma Gma06g00127 Chr06 1109577 1113106 +
Gso Gso4g0128 Chr4 1124352 1128353 +
Gso Gso4g0128 Chr4 1124352 1128353 +
Pvu Pvu9g0085 Chr9 1271445 1275269 -
Spst Spst9g00174 Chr9 1560518 1563349 +
Sto Sto5g0021 Chr5 155645 163501 +
Vra Vra5g1748 Chr5 23630860 23634654 -
Vvi Vvi18g0052 Chr18 547108 551046 -
Adu Adu06g01334 Chr06 18471775 18473942 +
Aev Aev07g2392 Chr07 24597453 24599445 -
Ahy Ahy16g0007 Chr16 63078 65355 -
Aip Aip06g00007 Chr06 58012 60230 -
Apr Apr9g0698 Chr9 11644378 11646477 +
Arst Arst6g01764 Chr6 18504701 18506751 +
Bach Bach3g02506 Chr3 30989650 30992372 +
Bva Bva10g01027 Chr10 7483870 7486530 +
Car Car05g03359 Chr05 78232624 78232965 +
Cca Cca05g00435 Chr05 9556200 9558799 +
Dod Dod08g2335 Chr08 51485008 51487701 +
Gma Gma14g02186 Chr14 53011023 53013397 +
Lasa Lasa6g00345 Chr6 9870940 9873672 +
Lja Lja5g3364 Chr5 65754368 65756877 +
Mal Mal1g6162 Chr1 140768307 140771254 +
Mtr Mtr1g0770 Chr1 8671819 8675097 +
Phco Phco2g00010 Chr2 143249 145135 -
Pte Pte3g01451 Chr3 12720485 12723517 +
Pumo Pumo9g00006 Chr9 170114 172492 -
Pvu Pvu1g0009 Chr1 165085 167549 -
Rops Rops9g02532 Chr9 47551994 47554391 -
Seca Seca4g01147 Chr4 18361364 18368463 +
Spst Spst8g02092 Chr8 29090190 29092046 +
Ssu Ssu5g0006 Chr5 90576 91144 -
Tsu Tsu01g00152 Chr01 1170550 1173096 -
Viun Viun8g00023 Chr8 132448 134399 +
Vivi Vivi4g06000 Chr4 197224722 197227304 +
Vvi Vvi18g0053 Chr18 553803 554164 -
Vvi Vvi18g0054 Chr18 565468 567910 +
Vvi Vvi18g0055 Chr18 575430 576933 +