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
Vvi1g0021 . Acco12g1008 . Accr10g01026 . Adu05g01942 Aed11g0475 . . . . . . . . Alju12g1091 . . Apr7g1393 . . . . Bach10g01119 . Bisa01g2761 Bva01g01915 Bva11g00903 Car02g00853 . Cca06g00538 . . Dere13g1486 . . . Enph14g1329 . Glsi09g1360 Gma02g01090 Gma01g00573 . . Gso2g0994 Gso2g0994 . . . . Lal18g0929 . . . . . . . . . . Lapu2g01324 . Lasa2g03847 . . . . Lele53g0735 Lele54g0731 Lele55g0756 Lele56g0701 Lja2g1261 . . . . . . . . Mibi10g1029 . . . . . Phco8g03007 . Prci5g1322 Psa2g2972 . . Pste1g02147 . . . . . Pumo8g00908 . Pvu3g0420 . Rops1g00720 . Seca10g01852 . Spst2g01646 Ssu2g1467 . Sto11g0851 Sto6g2930 . . . . . . . Vian10g01508 . . . Vimu7g00231 . Viun2g00796 . . . .
Vvi1g0022 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0023 . . . . . Adu05g01941 Aed11g0473 . . . . . . . . . . . Apr7g1394 . . . . . . . Bva08g01606 . Car02g00852 . Cca06g00539 . . . . . . . . . Gma02g01089 Gma01g00572 . . Gso2g0993 Gso2g0993 . . Lal6g0786 . . . . . Lan11g0790 . . . . . . Lapu2g01323 . Lasa2g03848 . . . . . . . . Lja2g1260 . . . . . . . . . . . . . . Phco8g03006 . . Psa2g2971 . . . . . . . . Pumo8g00909 . Pvu3g0421 . Rops1g00721 . Seca10g01851 . Spst2g01647 Ssu2g1478 . . Sto6g2931 . . . . . . . Vian10g01509 . Vifa1g05669 . Vimu7g00228 . Viun2g00798 . . . .
Vvi1g0024 . . . . . . Aed11g0470 . . . . . . . . . . . Apr7g1396 . . . . . . . Bva08g01605 Bva11g00904 Car02g00849 . Cca06g00541 . . . . . . . . . Gma02g01086 Gma01g00568 . . Gso2g0991 Gso2g0991 . . . . Lal18g0928 . . . . . . . . . . . . . . . . . . . . . Lja2g1255 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto6g2932 . . . . . . . . . . . . . . . . . .
Vvi1g0025 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lasa7g02889 . . . . . . . . . . Lja4g3539 . . Mepo2g02988 . Mesa13g02069 . . . . . . . Phco4g01893 . . . . . Pste3g04051 . . . . . . . Pvu2g1036 . . . . . Spst3g02320 . . . . . . . . . . . . . . . Vimu11g02242 . . . . . . .
Vvi1g0026 . . . . . . Aed11g0469 . . . . . . . . . . . Apr7g1397 . . . . . . . Bva08g01604 . Car02g00848 . Cca06g00542 . . . . . . . . . Gma02g01085 Gma01g00564 . . Gso2g0990 Gso2g0990 . . . Lal22g0692 Lal18g0926 . . . . . . . . . . . . . . . . . . . . . Lja2g1253 . Mal6g2366 . . . . . . . Mtr5g1788 . . . . . . . . . . . . . . . . . . . . . . . . . Ssu2g1480 . . . Tpr2g2090 . . . . . . . . . . . . . . . . .
Vvi1g0027 . . . . . . . . . . . . . . . . . . . . . . . . . . Bva08g01602 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g0853 Sto6g2935 . . . . . . . . . . . . . . . . . .
Vvi1g0028 . . . . . Adu04g02933 . . . . . . . . . . . . . . . Arst4g03879 . Bach8g02572 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lapu1g01260 . Lasa3g00299 . . . . . . . . . . . . . Mepo3g00319 . Mesa25g04466 . . . . . . . Phco3g02937 . . . . . Pste5g00634 . . . Pte4g00613 . Pumo5g00717 . Pvu8g0320 . Rops8g00538 . Seca2g00437 . Spst1g01443 . . . . . . . Trre13g00319 . . . Vian2g00300 . Vifa1g00323 . Vimu6g01005 . Viun5g00438 . Vivi6g00456 . .
Vvi1g0029 . . . . . . . . . Aev03g0364 . Ahy13g3900 . Aip03g04336 . . . Amo13g4915 . Apr3g1527 Arst3g05217 . . . . . Bva08g01598 . Car06g01842 . . . . . . Dod04g1161 . . . . . . . . . . . . . . . . Lal16g0797 . . . . . . . Lapu3g02296 . Lasa7g02856 . . . . . . . . . . Lja4g3517 . . Mepo2g02968 . Mesa13g02083 . . . . . Phac2g01590 . Phco4g01916 . . . . Psa7g3081 Pste3g04022 . . . . . . . Pvu2g1051 . . . . . Spst3g02336 . . . . Sto6g2939 . . Trre7g02009 . . . . . . . . . . . Vivi5g03728 . . .
Vvi1g0030 . . . . . . . . . Aev03g2358 . Ahy13g4335 . Aip03g04810 . . . . . Apr3g1526 . Arst4g03857 . Bach8g02577 . . Bva08g01596 . Car06g01843 . . . . . . Dod04g1882 . . . . . . Gma08g00843 . . . . . . . . Lal23g0829 Lal16g0798 Lal15g0772 . . . . . . . Lapu1g01272 . Lasa3g00271 . . . . . . . . . Lja4g4213 . . . Mepo3g00286 . Mesa25g04499 . . . . . . . Phco3g02924 . . . Psa7g3077 . Pste5g00658 . . Pte7g00823 Pte4g00614 . . . Pvu8g0335 . . . . . Spst1g01427 . . . Sto6g2940 . . . Trre13g00295 . . . . . . . Vimu6g00988 . . . Vivi6g00413 . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0021 Chr1 312775 316365 -
Acco Acco12g1008 Chr12 10401485 10403163 +
Accr Accr10g01026 Chr10 31455877 31457548 -
Adu Adu05g01942 Chr05 68130746 68136304 +
Aed Aed11g0475 Chr11 4128380 4132777 +
Alju Alju12g1091 Chr12 31512555 31514247 -
Apr Apr7g1393 Chr7 21056894 21062148 -
Bach Bach10g01119 Chr10 8303531 8306971 +
Bisa Bisa01g2761 Chr01 54941908 54950194 -
Bva Bva01g01915 Chr01 19414548 19418791 -
Bva Bva11g00903 Chr11 11260306 11263621 -
Car Car02g00853 Chr02 12620722 12624359 +
Cca Cca06g00538 Chr06 16125183 16132409 -
Dere Dere13g1486 Chr13 19973983 19975558 +
Enph Enph14g1329 Chr14 15114940 15124526 +
Glsi Glsi09g1360 Chr09 9996803 10000165 +
Gma Gma02g01090 Chr02 11838484 11843572 +
Gma Gma01g00573 Chr01 8783268 8788977 +
Gso Gso2g0994 Chr2 11647726 11653396 +
Gso Gso2g0994 Chr2 11647726 11653396 +
Lal Lal18g0929 Chr18 12131515 12137238 +
Lapu Lapu2g01324 Chr2 24294973 24301901 +
Lasa Lasa2g03847 Chr2 559810064 559812524 -
Lele Lele53g0735 Chr53 17391095 17391556 -
Lele Lele54g0731 Chr54 14248751 14251308 -
Lele Lele55g0756 Chr55 5051745 5052206 +
Lele Lele56g0701 Chr56 5250422 5253750 +
Lja Lja2g1261 Chr2 11992980 11998224 +
Mibi Mibi10g1029 Chr10 28873591 28875262 -
Phco Phco8g03007 Chr8 44121263 44130779 +
Prci Prci5g1322 Chr5 32567468 32568667 -
Psa Psa2g2972 Chr2 340244525 340248755 +
Pste Pste1g02147 Chr1 6850901 6863188 +
Pumo Pumo8g00908 Chr8 34381359 34388333 -
Pvu Pvu3g0420 Chr3 4419522 4426742 -
Rops Rops1g00720 Chr1 18245325 18253683 -
Seca Seca10g01852 Chr10 20581126 20588873 +
Spst Spst2g01646 Chr2 15420999 15421988 -
Ssu Ssu2g1467 Chr2 60802387 60808469 -
Sto Sto11g0851 Chr11 9233829 9235355 -
Sto Sto6g2930 Chr6 36539984 36542994 -
Vian Vian10g01508 Chr10 25711337 25716490 -
Vimu Vimu7g00231 Chr7 2886232 2891866 +
Viun Viun2g00796 Chr2 18619223 18626052 -
Vvi Vvi1g0022 Chr1 334518 337130 -
Vvi Vvi1g0023 Chr1 339458 341542 -
Adu Adu05g01941 Chr05 67518226 67522146 +
Aed Aed11g0473 Chr11 4100244 4105001 +
Apr Apr7g1394 Chr7 21069140 21073567 -
Bva Bva08g01606 Chr08 8478606 8481379 +
Car Car02g00852 Chr02 12578714 12583344 +
Cca Cca06g00539 Chr06 16169242 16174747 -
Gma Gma02g01089 Chr02 11822627 11827004 +
Gma Gma01g00572 Chr01 8724254 8724914 +
Gso Gso2g0993 Chr2 11632083 11636618 +
Gso Gso2g0993 Chr2 11632083 11636618 +
Lal Lal6g0786 Chr6 5297585 5301268 -
Lan Lan11g0790 Chr11 7464808 7469280 -
Lapu Lapu2g01323 Chr2 24267223 24272272 +
Lasa Lasa2g03848 Chr2 559839745 559842325 -
Lja Lja2g1260 Chr2 11986047 11989142 +
Phco Phco8g03006 Chr8 44106435 44110920 +
Psa Psa2g2971 Chr2 340186228 340188766 +
Pumo Pumo8g00909 Chr8 34426644 34431725 -
Pvu Pvu3g0421 Chr3 4438293 4443307 -
Rops Rops1g00721 Chr1 18267009 18270745 -
Seca Seca10g01851 Chr10 20549620 20553544 +
Spst Spst2g01647 Chr2 15444307 15455249 -
Ssu Ssu2g1478 Chr2 61437557 61448335 -
Sto Sto6g2931 Chr6 36558989 36561657 -
Vian Vian10g01509 Chr10 25731175 25735811 -
Vifa Vifa1g05669 Chr1 876774066 876775884 +
Vimu Vimu7g00228 Chr7 2854936 2861563 +
Viun Viun2g00798 Chr2 18648188 18654865 -
Vvi Vvi1g0024 Chr1 342802 373752 -
Aed Aed11g0470 Chr11 4072546 4083296 +
Apr Apr7g1396 Chr7 21081298 21095594 -
Bva Bva08g01605 Chr08 8469255 8478122 +
Bva Bva11g00904 Chr11 11267183 11276142 -
Car Car02g00849 Chr02 12542085 12555143 +
Cca Cca06g00541 Chr06 16223078 16242315 -
Gma Gma02g01086 Chr02 11787537 11800749 +
Gma Gma01g00568 Chr01 8640504 8665436 +
Gso Gso2g0991 Chr2 11597663 11613207 +
Gso Gso2g0991 Chr2 11597663 11613207 +
Lal Lal18g0928 Chr18 12100074 12114159 +
Lja Lja2g1255 Chr2 11919567 11932752 +
Sto Sto6g2932 Chr6 36564309 36575312 -
Vvi Vvi1g0025 Chr1 376807 378298 +
Lasa Lasa7g02889 Chr7 556541115 556542717 +
Lja Lja4g3539 Chr4 66407860 66410140 -
Mepo Mepo2g02988 Chr2 39535789 39538261 -
Mesa Mesa13g02069 Chr13 24331226 24333374 +
Phco Phco4g01893 Chr4 37570049 37572190 +
Pste Pste3g04051 Chr3 35120667 35124904 -
Pvu Pvu2g1036 Chr2 19879804 19882283 +
Spst Spst3g02320 Chr3 66637570 66639415 +
Vimu Vimu11g02242 Chr11 39068516 39070954 +
Vvi Vvi1g0026 Chr1 381267 382921 -
Aed Aed11g0469 Chr11 4060645 4063047 +
Apr Apr7g1397 Chr7 21105614 21107289 -
Bva Bva08g01604 Chr08 8461730 8463752 +
Car Car02g00848 Chr02 12489855 12491853 +
Cca Cca06g00542 Chr06 16284708 16286839 -
Gma Gma02g01085 Chr02 11761845 11764172 +
Gma Gma01g00564 Chr01 8597521 8599472 +
Gso Gso2g0990 Chr2 11572498 11574912 +
Gso Gso2g0990 Chr2 11572498 11574912 +
Lal Lal22g0692 Chr22 4980801 4983225 -
Lal Lal18g0926 Chr18 12073891 12075945 +
Lja Lja2g1253 Chr2 11853913 11855876 +
Mal Mal6g2366 Chr6 55368181 55369829 +
Mtr Mtr5g1788 Chr5 19781630 19783738 -
Ssu Ssu2g1480 Chr2 61541242 61543065 -
Tpr Tpr2g2090 Chr2 25043127 25045301 +
Vvi Vvi1g0027 Chr1 391167 394070 -
Bva Bva08g01602 Chr08 8442029 8445194 +
Sto Sto11g0853 Chr11 9243453 9244439 -
Sto Sto6g2935 Chr6 36582061 36582947 -
Vvi Vvi1g0028 Chr1 397554 400150 +
Adu Adu04g02933 Chr04 117620883 117624064 +
Arst Arst4g03879 Chr4 117599133 117602220 +
Bach Bach8g02572 Chr8 31964454 31968501 -
Lapu Lapu1g01260 Chr1 25412380 25417735 -
Lasa Lasa3g00299 Chr3 19106392 19109306 +
Mepo Mepo3g00319 Chr3 4374874 4381008 +
Mesa Mesa25g04466 Chr25 81220535 81225649 -
Phco Phco3g02937 Chr3 55785464 55790357 +
Pste Pste5g00634 Chr5 4084812 4090900 -
Pte Pte4g00613 Chr4 36930414 36933383 -
Pumo Pumo5g00717 Chr5 14660169 14666156 -
Pvu Pvu8g0320 Chr8 2569615 2575385 -
Rops Rops8g00538 Chr8 11242019 11247438 -
Seca Seca2g00437 Chr2 6072463 6078798 -
Spst Spst1g01443 Chr1 18082146 18086606 +
Trre Trre13g00319 Chr13 2461982 2466828 +
Vian Vian2g00300 Chr2 3279803 3284177 -
Vifa Vifa1g00323 Chr1 51894727 51897783 -
Vimu Vimu6g01005 Chr6 10855785 10860678 +
Viun Viun5g00438 Chr5 2524970 2530224 -
Vivi Vivi6g00456 Chr6 11845026 11848486 +
Vvi Vvi1g0029 Chr1 400853 418459 -
Aev Aev03g0364 Chr03 2704102 2709581 -
Ahy Ahy13g3900 Chr13 138477233 138482898 +
Aip Aip03g04336 Chr03 127813227 127819447 +
Amo Amo13g4915 Chr13 148146320 148150203 +
Apr Apr3g1527 Chr3 30095030 30109828 +
Arst Arst3g05217 Chr3 127484703 127491687 +
Bva Bva08g01598 Chr08 8414376 8417603 +
Car Car06g01842 Chr06 18247911 18262214 -
Dod Dod04g1161 Chr04 32247816 32256912 +
Lal Lal16g0797 Chr16 5167230 5174068 -
Lapu Lapu3g02296 Chr3 44170067 44184295 +
Lasa Lasa7g02856 Chr7 555208165 555216511 +
Lja Lja4g3517 Chr4 66110355 66120286 +
Mepo Mepo2g02968 Chr2 39368617 39378193 +
Mesa Mesa13g02083 Chr13 24470470 24478586 -
Phac Phac2g01590 Chr2 15807956 15821604 -
Phco Phco4g01916 Chr4 38049216 38061683 -
Psa Psa7g3081 Chr7 224446265 224455387 -
Pste Pste3g04022 Chr3 34345204 34355443 +
Pvu Pvu2g1051 Chr2 20323175 20336086 -
Spst Spst3g02336 Chr3 66996105 67005437 -
Sto Sto6g2939 Chr6 36598255 36605002 -
Trre Trre7g02009 Chr7 15947511 15954639 -
Vivi Vivi5g03728 Chr5 130829695 130837567 +
Vvi Vvi1g0030 Chr1 423821 428372 +
Aev Aev03g2358 Chr03 25033583 25034638 -
Ahy Ahy13g4335 Chr13 143023523 143025432 -
Aip Aip03g04810 Chr03 132386183 132388112 -
Apr Apr3g1526 Chr3 30068777 30073750 -
Arst Arst4g03857 Chr4 117370275 117372726 -
Bach Bach8g02577 Chr8 32075927 32080070 +
Bva Bva08g01596 Chr08 8396892 8400763 -
Car Car06g01843 Chr06 18278603 18282709 +
Dod Dod04g1882 Chr04 41766435 41767938 -
Gma Gma08g00843 Chr08 6925321 6929249 +
Lal Lal23g0829 Chr23 10740896 10745515 -
Lal Lal16g0798 Chr16 5175449 5180006 +
Lal Lal15g0772 Chr15 5524533 5528893 +
Lapu Lapu1g01272 Chr1 25514965 25528467 +
Lasa Lasa3g00271 Chr3 17367124 17369973 -
Lja Lja4g4213 Chr4 75559581 75561343 -
Mepo Mepo3g00286 Chr3 3895193 3902885 -
Mesa Mesa25g04499 Chr25 82020252 82024357 +
Phco Phco3g02924 Chr3 55641181 55650906 -
Psa Psa7g3077 Chr7 224217511 224221567 +
Pste Pste5g00658 Chr5 4263381 4282100 +
Pte Pte7g00823 Chr7 32150814 32154039 +
Pte Pte4g00614 Chr4 36992271 36997017 +
Pvu Pvu8g0335 Chr8 2707004 2717206 +
Spst Spst1g01427 Chr1 17708932 17714987 -
Sto Sto6g2940 Chr6 36610510 36613837 +
Trre Trre13g00295 Chr13 2332646 2335733 -
Vimu Vimu6g00988 Chr6 10653596 10658785 -
Vivi Vivi6g00413 Chr6 10452654 10454788 -
Lal Lal15g0772 Chr15 5524533 5528893 +