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
Vvi18g0186 . . . . . . Aed11g0022 . . Aev07g0659 . Ahy16g0033 . Aip06g00027 . . . . Apr9g0670 . . . . . . . Bva06g01873 . Car04g03611 . Cca05g00413 . . . . Dod08g2310 . . . . . . Gma14g02165 . . . . . . . . . . Lal22g0518 . . . . . . . . . . . . . . . . . . . Lja5g3346 Mal1g6138 . . . . . . . Mtr1g0752 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g0031 . Sto5g0093 . Tpr1g3906 . . . Tsu01g00168 . . . . . . . . . . . Vra6g2005 .
Vvi18g0187 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva06g01875 Bva10g00963 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0188 . . . . Adu08g00183 . . Aed9g0195 Aev08g0173 . Ahy17g2227 . Aip07g02382 . . . . . . . Arst8g00221 . Bach12g00066 . . . Bva06g01876 Bva10g00962 . Car05g03289 . Cca07g00238 . . . . . . . . Gma04g00198 Gma06g00187 . . Gso4g0188 Gso4g0188 . . . Lal17g0052 Lal21g0105 . . . . . . . . . Lapu9g02323 . Lasa5g04571 . . . . . . . . . Lja1g3473 . . Mal2g0451 Mepo3g07827 . Mesa9g05531 . . . . Mtr3g4298 Phac9g00039 . . . . . . Psa5g0293 . . . . . . . . Pvu9g0200 . Rops10g02499 . Seca4g00373 . Spst9g00252 . . . Sto5g0094 . . Tpr7g0201 Trre5g05718 . . . . . Vifa2g04535 . Vimu10g03519 . Viun9g03708 . Vivi3g00652 . . Vra5g1682
Vvi18g0189 Acco10g1326 . Accr4g01427 . Adu08g00182 . . . . . . . . . Alju08g1486 . . . Apr9g0664 . Arst8g00218 . Bach12g00067 . Bisa09g2090 . . Bva10g00960 . . . . Dere04g0052 . . . . . Glsi08g2070 . . . Gma14g02162 Gma17g02488 . . . . . . Lal21g0106 . . . . . . . . . Lapu9g02322 . . . Lele01g1162 Lele02g1429 Lele03g1176 Lele04g1410 . . . . . Lja5g3345 . . Mepo3g07828 . Mesa9g05530 . Mibi05g1380 . . . . . Phco7g00252 . Prci8g0717 . . . . . Pte3g01435 Pte1g02665 . . . . Pvu9g0199 . Rops10g02497 . Seca4g00378 . Spst9g00253 . . . . Sto9g3724 . . Trre5g05714 . . . Vian4g02421 . . . Vimu10g03518 . Viun9g03707 . Vivi4g05956 . . .
Vvi18g0190 . . . . . Adu06g01304 . Aed9g0196 . Aev07g0661 Ahy17g2230 Ahy16g0035 Aip07g02387 Aip06g00029 . . Amo17g2099 . . . . Arst6g01723 . Bach3g02441 . Bisa05g0576 Bva06g01877 . Car04g03610 Car05g03288 Cca05g00406 Cca07g00239 . Dere05g2846 Dod08g2308 Dod08g2308 . . . Glsi10g0102 Gma04g00199 Gma06g00188 . . Gso4g0189 Gso4g0189 . . . . . . . . . . . . . . . Lapu8g01050 . Lasa6g00319 . . . . . . . . Lja1g3474 . Mal1g6135 Mal2g0454 . Mepo4g01930 . . . . Mtr1g0751 Mtr3g4297 . Phac1g00018 . Phco2g00039 . . . . . . . . Pte3g01435 . . Pumo9g00038 . Pvu1g0037 . Rops9g02573 . Seca4g00378 . Spst8g02047 Ssu5g0034 . Sto5g0098 . . Tpr7g0202 . Trre1g00036 Tsu01g00169 Tsu07g00237 . . . Vifa3g05222 . . . Viun8g00067 . Vivi4g05956 Vra6g2007 Vra5g1681
Vvi18g0191 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0192 . . . . Adu08g00181 . . Aed9g0198 Aev08g0175 . Ahy17g2231 . Aip07g02388 . . . Amo17g2100 . . . Arst8g00217 . . . . . . Bva10g00958 . . . Cca07g00240 . . Dod08g2307 . . . . . Gma04g00200 . . . Gso4g0191 . . . Lal4g0059 . . . . . Lan14g0959 . . . . . Lapu9g02321 . . . . . . . . . . . Lja1g3476 . . . . . . . . . . . . . Phco7g00253 . . . . . . . Pte3g01434 . . . . . Pvu9g0198 . Rops10g02496 . Seca4g00379 . Spst9g00255 . . . Sto5g0099 . . . . . . . Vian4g02420 . . . Vimu10g03517 . Viun9g03706 . . . . Vra5g1680
Vvi18g0193 . . . . . Adu06g01303 Aed11g0025 . . Aev07g0662 . Ahy16g0036 . Aip06g00030 . . . . Apr9g0663 . . Arst6g01722 . Bach3g02439 . Bisa05g0579 Bva06g01878 Bva10g00957 . . Cca05g00404 . . Dere05g2843 . Dod08g2306 . . . Glsi10g0105 Gma04g02085 . Gma14g02161 Gma17g02487 Gso4g1817 . Gso4g1817 Gso4g1817 . . . . . . . . . . . . . Lapu8g01049 . . . . . . . . . . . Lja5g3343 . . . . . . . . . . . . . Phco2g00040 . . . . . Pste8g01451 . . . . . Pumo9g00039 . Pvu1g0038 . Rops9g02574 . Seca8g04101 . Spst8g02046 Ssu5g0035 . Sto5g0100 Sto9g3723 . . . . . . . Vian7g00930 . . . . . Viun8g00068 . . Vra6g2008 .
Vvi18g0194 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi18g0195 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi18g0186 Chr18 1691095 1697042 -
Aed Aed11g0022 Chr11 151204 153210 -
Aev Aev07g0659 Chr07 4151455 4158818 -
Ahy Ahy16g0033 Chr16 304730 309327 -
Aip Aip06g00027 Chr06 211606 214813 -
Apr Apr9g0670 Chr9 10976133 10983692 +
Bva Bva06g01873 Chr06 12824203 12827739 -
Car Car04g03611 Chr04 65564907 65569500 +
Cca Cca05g00413 Chr05 8944929 8950519 +
Dod Dod08g2310 Chr08 51137777 51142580 +
Gma Gma14g02165 Chr14 52779315 52786140 +
Lal Lal22g0518 Chr22 3436860 3439417 +
Lja Lja5g3346 Chr5 65149217 65154284 +
Mal Mal1g6138 Chr1 140351260 140356664 +
Mtr Mtr1g0752 Chr1 8469745 8475532 +
Ssu Ssu5g0031 Chr5 492245 496700 -
Sto Sto5g0093 Chr5 567846 575200 -
Tpr Tpr1g3906 Chr1 43152735 43158360 +
Tsu Tsu01g00168 Chr01 1310232 1314247 -
Vra Vra6g2005 Chr6 36699692 36702950 -
Vvi Vvi18g0187 Chr18 1699118 1705800 -
Bva Bva06g01875 Chr06 12829949 12833933 -
Bva Bva10g00963 Chr10 7138482 7143792 +
Vvi Vvi18g0188 Chr18 1712228 1713768 -
Adu Adu08g00183 Chr08 2856345 2861085 +
Aed Aed9g0195 Chr9 1385977 1391453 -
Aev Aev08g0173 Chr08 979138 983943 -
Ahy Ahy17g2227 Chr17 107404530 107409282 -
Aip Aip07g02382 Chr07 99750643 99755429 -
Arst Arst8g00221 Chr8 2868638 2873243 +
Bach Bach12g00066 Chr12 475873 478566 -
Bva Bva06g01876 Chr06 12835114 12837821 -
Bva Bva10g00962 Chr10 7133436 7137201 +
Car Car05g03289 Chr05 77610032 77614638 +
Cca Cca07g00238 Chr07 3033911 3041162 -
Gma Gma04g00198 Chr04 1684343 1691220 -
Gma Gma06g00187 Chr06 1625317 1632851 -
Gso Gso4g0188 Chr4 1655402 1661909 -
Gso Gso4g0188 Chr4 1655402 1661909 -
Lal Lal17g0052 Chr17 308552 312991 -
Lal Lal21g0105 Chr21 718159 724076 -
Lapu Lapu9g02323 Chr9 37815418 37821383 +
Lasa Lasa5g04571 Chr5 675042738 675045602 +
Lja Lja1g3473 Chr1 43331658 43337867 -
Mal Mal2g0451 Chr2 5136926 5140610 -
Mepo Mepo3g07827 Chr3 91371000 91376415 -
Mesa Mesa9g05531 Chr9 90756480 90761862 +
Mtr Mtr3g4298 Chr3 56895270 56900105 +
Phac Phac9g00039 Chr9 299680 306131 -
Psa Psa5g0293 Chr5 20977729 20980452 -
Pvu Pvu9g0200 Chr9 3737048 3743320 +
Rops Rops10g02499 Chr10 43626438 43631125 +
Seca Seca4g00373 Chr4 6036412 6042524 -
Spst Spst9g00252 Chr9 2305206 2310658 -
Sto Sto5g0094 Chr5 576976 580509 -
Tpr Tpr7g0201 Chr7 1683145 1687734 -
Trre Trre5g05718 Chr5 57172227 57177897 +
Vifa Vifa2g04535 Chr2 1333516336 1333519069 +
Vimu Vimu10g03519 Chr10 44823675 44828190 +
Viun Viun9g03708 Chr9 42256895 42261661 +
Vivi Vivi3g00652 Chr3 10975295 10978727 -
Vra Vra5g1682 Chr5 23153910 23158529 +
Vvi Vvi18g0189 Chr18 1721216 1721614 +
Acco Acco10g1326 Chr10 27121529 27121915 +
Accr Accr4g01427 Chr4 14368545 14368931 -
Adu Adu08g00182 Chr08 2805717 2806912 -
Alju Alju08g1486 Chr08 11578159 11578545 -
Apr Apr9g0664 Chr9 10868329 10868715 +
Arst Arst8g00218 Chr8 2817917 2819133 -
Bach Bach12g00067 Chr12 487409 488146 -
Bisa Bisa09g2090 Chr09 33494541 33494927 +
Bva Bva10g00960 Chr10 7121856 7122242 +
Dere Dere04g0052 Chr04 627251 628774 -
Glsi Glsi08g2070 Chr08 14516475 14516861 +
Gma Gma14g02162 Chr14 52765941 52767120 +
Gma Gma17g02488 Chr17 42910480 42911001 +
Lal Lal21g0106 Chr21 728187 728567 -
Lapu Lapu9g02322 Chr9 37790103 37790973 +
Lele Lele01g1162 Chr01 6915222 6915608 -
Lele Lele02g1429 Chr02 18596364 18596750 -
Lele Lele03g1176 Chr03 6887646 6888032 -
Lele Lele04g1410 Chr04 19457761 19460640 -
Lja Lja5g3345 Chr5 65130040 65131713 -
Mepo Mepo3g07828 Chr3 91387584 91388709 -
Mesa Mesa9g05530 Chr9 90735654 90736037 +
Mibi Mibi05g1380 Chr05 16403914 16404300 -
Phco Phco7g00252 Chr7 1765221 1765610 -
Prci Prci8g0717 Chr8 4586461 4587503 -
Pte Pte3g01435 Chr3 12569232 12569901 +
Pte Pte1g02665 Chr1 46835222 46836935 -
Pvu Pvu9g0199 Chr9 3636672 3637999 +
Rops Rops10g02497 Chr10 43596472 43597440 +
Seca Seca4g00378 Chr4 6169158 6169547 -
Spst Spst9g00253 Chr9 2343387 2343776 -
Sto Sto9g3724 Chr9 35508520 35508909 +
Trre Trre5g05714 Chr5 57164826 57165218 +
Vian Vian4g02421 Chr4 40846423 40846809 +
Vimu Vimu10g03518 Chr10 44802878 44804425 +
Viun Viun9g03707 Chr9 42239799 42240617 +
Vivi Vivi4g05956 Chr4 196774311 196775070 +
Vvi Vvi18g0190 Chr18 1727515 1727859 -
Adu Adu06g01304 Chr06 17806942 17807772 +
Aed Aed9g0196 Chr9 1399004 1399399 -
Aev Aev07g0661 Chr07 4170637 4171032 -
Ahy Ahy17g2230 Chr17 108028517 108029843 -
Ahy Ahy16g0035 Chr16 327521 328445 -
Aip Aip07g02387 Chr07 100318336 100319706 -
Aip Aip06g00029 Chr06 229461 230326 -
Amo Amo17g2099 Chr17 108725154 108726993 -
Arst Arst6g01723 Chr6 17840250 17841088 +
Bach Bach3g02441 Chr3 30581555 30582052 +
Bisa Bisa05g0576 Chr05 9450159 9450545 -
Bva Bva06g01877 Chr06 12842942 12844152 -
Car Car04g03610 Chr04 65556189 65557543 +
Car Car05g03288 Chr05 77602361 77603300 +
Cca Cca05g00406 Chr05 8858216 8858602 +
Cca Cca07g00239 Chr07 3057538 3058757 -
Dere Dere05g2846 Chr05 39062069 39062455 +
Dod Dod08g2308 Chr08 51122633 51123037 +
Dod Dod08g2308 Chr08 51122633 51123037 +
Glsi Glsi10g0102 Chr10 762511 762897 -
Gma Gma04g00199 Chr04 1703267 1704416 -
Gma Gma06g00188 Chr06 1643408 1643800 -
Gso Gso4g0189 Chr4 1673774 1675141 -
Gso Gso4g0189 Chr4 1673774 1675141 -
Lapu Lapu8g01050 Chr8 28525845 28527339 +
Lasa Lasa6g00319 Chr6 9466398 9466784 +
Lja Lja1g3474 Chr1 43360723 43361112 -
Mal Mal1g6135 Chr1 140331112 140331510 +
Mal Mal2g0454 Chr2 5170218 5170601 -
Mepo Mepo4g01930 Chr4 24555712 24556638 +
Mtr Mtr1g0751 Chr1 8460318 8460698 +
Mtr Mtr3g4297 Chr3 56883170 56884362 +
Phac Phac1g00018 Chr1 238123 239530 -
Phco Phco2g00039 Chr2 491266 491652 -
Pte Pte3g01435 Chr3 12569232 12569901 +
Pumo Pumo9g00038 Chr9 538767 539153 -
Pvu Pvu1g0037 Chr1 325660 326046 -
Rops Rops9g02573 Chr9 48155328 48155714 -
Seca Seca4g00378 Chr4 6169158 6169547 -
Spst Spst8g02047 Chr8 28333608 28333994 +
Ssu Ssu5g0034 Chr5 555108 555494 -
Sto Sto5g0098 Chr5 597808 598206 -
Tpr Tpr7g0202 Chr7 1691280 1692301 -
Trre Trre1g00036 Chr1 281575 281961 -
Tsu Tsu01g00169 Chr01 1319115 1319504 -
Tsu Tsu07g00237 Chr07 1784636 1785520 -
Vifa Vifa3g05222 Chr3 1525942212 1525942604 -
Viun Viun8g00067 Chr8 309619 310518 -
Vivi Vivi4g05956 Chr4 196774311 196775070 +
Vra Vra6g2007 Chr6 36712208 36713446 -
Vra Vra5g1681 Chr5 23140353 23141254 +
Vvi Vvi18g0191 Chr18 1730331 1732607 -
Vvi Vvi18g0192 Chr18 1743095 1744980 +
Adu Adu08g00181 Chr08 2771168 2780561 -
Aed Aed9g0198 Chr9 1411214 1413291 +
Aev Aev08g0175 Chr08 995007 996871 +
Ahy Ahy17g2231 Chr17 108107231 108111655 +
Aip Aip07g02388 Chr07 100387720 100392074 +
Amo Amo17g2100 Chr17 108782142 108786870 +
Arst Arst8g00217 Chr8 2790155 2792947 -
Bva Bva10g00958 Chr10 7115941 7118213 -
Cca Cca07g00240 Chr07 3067187 3070020 +
Dod Dod08g2307 Chr08 51108643 51110940 -
Gma Gma04g00200 Chr04 1711315 1721081 +
Gso Gso4g0191 Chr4 1688749 1691855 +
Lal Lal4g0059 Chr4 334867 337650 +
Lan Lan14g0959 Chr14 15959912 15962417 -
Lapu Lapu9g02321 Chr9 37781615 37784522 -
Lja Lja1g3476 Chr1 43367795 43370831 +
Phco Phco7g00253 Chr7 1774905 1776870 +
Pte Pte3g01434 Chr3 12563557 12568068 -
Pvu Pvu9g0198 Chr9 3568289 3570787 -
Rops Rops10g02496 Chr10 43528746 43532804 -
Seca Seca4g00379 Chr4 6197574 6200878 +
Spst Spst9g00255 Chr9 2349760 2358168 +
Sto Sto5g0099 Chr5 601169 603343 +
Vian Vian4g02420 Chr4 40834818 40836748 -
Vimu Vimu10g03517 Chr10 44789942 44791875 -
Viun Viun9g03706 Chr9 42227394 42229722 -
Vra Vra5g1680 Chr5 23129712 23131982 -
Vvi Vvi18g0193 Chr18 1752801 1757746 +
Adu Adu06g01303 Chr06 17722484 17726845 -
Aed Aed11g0025 Chr11 172872 175438 +
Aev Aev07g0662 Chr07 4178662 4182058 +
Ahy Ahy16g0036 Chr16 343658 347527 +
Aip Aip06g00030 Chr06 242884 247222 +
Apr Apr9g0663 Chr9 10806758 10810725 -
Arst Arst6g01722 Chr6 17756355 17760187 -
Bach Bach3g02439 Chr3 30570952 30575712 -
Bisa Bisa05g0579 Chr05 9485016 9489393 +
Bva Bva06g01878 Chr06 12847638 12852744 +
Bva Bva10g00957 Chr10 7111103 7115182 -
Cca Cca05g00404 Chr05 8805384 8809899 -
Dere Dere05g2843 Chr05 39031397 39034742 -
Dod Dod08g2306 Chr08 51102730 51107785 -
Glsi Glsi10g0105 Chr10 780620 784122 +
Gma Gma04g02085 Chr04 51336328 51339903 -
Gma Gma14g02161 Chr14 52746331 52752449 -
Gma Gma17g02487 Chr17 42905060 42907906 -
Gso Gso4g1817 Chr4 48412716 48416337 -
Gso Gso4g1817 Chr4 48412716 48416337 -
Gso Gso4g1817 Chr4 48412716 48416337 -
Lapu Lapu8g01049 Chr8 28515257 28520167 -
Lja Lja5g3343 Chr5 65115906 65122284 -
Phco Phco2g00040 Chr2 500891 505143 +
Pste Pste8g01451 Chr8 7956559 7961786 -
Pumo Pumo9g00039 Chr9 553419 558810 +
Pvu Pvu1g0038 Chr1 331080 335413 +
Rops Rops9g02574 Chr9 48171479 48177446 +
Seca Seca8g04101 Chr8 117406796 117410760 -
Spst Spst8g02046 Chr8 28306341 28310120 -
Ssu Ssu5g0035 Chr5 590199 593424 +
Sto Sto5g0100 Chr5 605117 606456 +
Sto Sto9g3723 Chr9 35496405 35499108 -
Vian Vian7g00930 Chr7 17549674 17553430 -
Viun Viun8g00068 Chr8 318152 322535 +
Vra Vra6g2008 Chr6 36719980 36724250 +
Vvi Vvi18g0194 Chr18 1761178 1761411 +
Vvi Vvi18g0195 Chr18 1762014 1765281 +