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
Vvi1g0661 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0662 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0663 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car06g00867 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0664 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Psa7g1383 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0665 . . Accr8g00827 . Adu10g00755 . . Aed7g1897 . . . . . . Alju06g1857 . . . . . Arst10g00974 . . . Bisa08g2681 . . . Car05g02060 . . Cca01g00136 Dere03g0131 . . . Enph6g0141 . Glsi02g0126 . . . . Gma18g00104 . . . . . . . . . . . . . . . . . . Lasa5g02663 . Lele21g1332 Lele22g1327 Lele23g0697 Lele24g1286 . . . . . . . . Mepo3g06265 . Mesa9g03739 . Mibi09g0812 . . . . . Phco2g02934 . Prci4g2135 . . . . . . . . . Pumo1g00410 . Pvu1g2657 . Rops11g03768 . Seca6g01791 . Spst1g01933 . . Ssu9g1768 . . . . Trre5g03182 . . . Vian2g03144 . Vifa2g02500 . Vimu6g01558 . Viun1g03401 . Vivi3g03289 . . Vra2g1439
Vvi1g0666 . . . . Adu03g04108 . . Aed7g1898 . Aev03g2744 . . . Aip03g04499 Alju06g1858 . . . . . Arst3g05412 . . . Bisa08g2680 . . . Car05g02061 . . Cca01g00137 Dere03g0132 . . Dod04g0545 Enph6g0142 . Glsi02g0127 . . . Gma08g01193 Gma18g00105 . . . . . . . . . . . . . . . . Lapu3g03259 . Lasa7g04264 . Lele21g1334 Lele22g1328 Lele23g0693 Lele24g1287 . . . . . Lja4g0791 . Mal7g4498 Mepo2g04174 . Mesa13g00940 . Mibi09g0811 . . Mtr8g3069 Phac2g03794 . . . Prci4g2137 . . Psa7g1382 Pste3g01989 . . . . . Pumo6g00888 . Pvu2g2608 . Rops2g00997 . Seca12g06070 . Spst3g01523 . . Ssu9g1767 . . . Tpr3g1028 Trre7g04884 . . Tsu02g00895 . . Vifa2g02500 . . . . . Vivi5g05193 . . Vra2g1440
Vvi1g0667 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Car05g02062 . . . . . . . . . . . . . . Gma18g00106 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0668 . . . . Adu03g04109 . . . . Aev03g2745 . Ahy13g4056 . Aip03g04502 . . . Amo13g5116 . . Arst3g05420 . . . Bisa08g2678 . . . . . . Cca09g02064 Dere03g0134 . . Dod04g2331 Enph6g0143 . Glsi02g0130 . . . Gma08g01194 . . . . . . . . . . . . . . . . . . . Lasa7g04265 . Lele21g1335 Lele22g1329 Lele23g0691 Lele24g1289 . . . . . Lja4g0790 . Mal7g4499 Mepo2g04175 . Mesa13g00939 . Mibi09g0809 . . Mtr8g3070 Phac2g03796 . . . Prci4g2138 . . Psa7g1380 . . . . . . Pumo6g00887 . Pvu2g2609 . Rops2g00996 . Seca12g06071 . Spst3g01522 . . Ssu5g2638 . . . Tpr3g1027 Trre7g04885 . . Tsu02g00894 . . Vifa6g02956 . . . . . Vivi5g05192 . . .
Vvi1g0669 . . . . Adu10g00759 . . Aed7g1900 . . . . . . . . . . . . Arst10g00983 . . . . . . . Car06g00856 . . Cca01g00139 . . . . . . . . . . Gma08g01196 Gma18g00107 . . . . . . . . . . . . . . . . . . Lasa5g02669 . . . . . . . . . . . . Mal7g4500 Mepo3g06268 . Mesa9g03742 . . . . Mtr8g3072 . . Phco2g02931 . . . . Psa7g1378 . . . . . . . . Pvu1g2654 . Rops11g03773 . Seca6g01797 . Spst1g01936 . . Ssu9g1763 . . . Tpr3g1026 Trre5g03188 . . Tsu02g00893 Vian2g03141 . Vifa2g02503 . Vimu6g01564 . Viun1g03399 . Vivi3g03283 . . Vra2g1442
Vvi1g0670 . . . . Adu10g00766 . . Aed7g1901 . . . . . . . . . . . . Arst10g00994 . . . . . . . Car05g02064 . . Cca01g00140 . . . . . . . . . . . Gma18g00108 . . . . . . . . . . . . . . . . Lapu6g00118 . Lasa5g02670 . . . . . . . . . . . . . Mepo3g06269 . Mesa9g03743 . . . . . . . Phco2g02930 . . . . . Pste7g02357 . . . . . Pumo1g00407 . Pvu1g2653 . Rops11g03774 . Seca6g01798 . Spst1g01937 . . Ssu9g1762 . . . . Trre5g03190 . . . Vian2g03140 . Vifa2g02504 . Vimu6g01565 . Viun1g03398 . Vivi3g03282 . . Vra2g1443
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0661 Chr1 6634535 6634609 +
Vvi Vvi1g0662 Chr1 6635057 6635092 -
Vvi Vvi1g0663 Chr1 6639469 6640404 +
Car Car06g00867 Chr06 8471359 8472018 +
Vvi Vvi1g0664 Chr1 6661392 6662376 +
Psa Psa7g1383 Chr7 99914774 99916577 -
Vvi Vvi1g0665 Chr1 6666509 6668294 +
Accr Accr8g00827 Chr8 16101379 16103196 -
Adu Adu10g00755 Chr10 9755480 9761287 +
Aed Aed7g1897 Chr7 22086863 22094824 +
Alju Alju06g1857 Chr06 39982740 39984380 +
Arst Arst10g00974 Chr10 9402349 9408156 +
Bisa Bisa08g2681 Chr08 62044380 62044811 -
Car Car05g02060 Chr05 65848910 65850106 +
Cca Cca01g00136 Chr01 1334456 1337356 +
Dere Dere03g0131 Chr03 4794345 4795143 +
Enph Enph6g0141 Chr6 4666180 4666809 +
Glsi Glsi02g0126 Chr02 848674 849567 +
Gma Gma18g00104 Chr18 822282 837170 +
Lasa Lasa5g02663 Chr5 496307737 496308772 +
Lele Lele21g1332 Chr21 21748124 21755523 +
Lele Lele22g1327 Chr22 18997600 18998081 +
Lele Lele23g0697 Chr23 5414503 5417749 -
Lele Lele24g1286 Chr24 18841763 18843861 +
Mepo Mepo3g06265 Chr3 76774672 76777579 +
Mesa Mesa9g03739 Chr9 69069241 69071402 +
Mibi Mibi09g0812 Chr09 11525617 11528400 -
Phco Phco2g02934 Chr2 58296003 58313398 -
Prci Prci4g2135 Chr4 33608040 33609628 +
Pumo Pumo1g00410 Chr1 5802320 5805143 -
Pvu Pvu1g2657 Chr1 51347118 51349817 -
Rops Rops11g03768 Chr11 71380389 71382568 +
Seca Seca6g01791 Chr6 73973929 73976641 +
Spst Spst1g01933 Chr1 27576575 27578088 +
Ssu Ssu9g1768 Chr9 54990276 54993538 -
Trre Trre5g03182 Chr5 27415583 27417313 +
Vian Vian2g03144 Chr2 51972545 51974352 -
Vifa Vifa2g02500 Chr2 656302030 656303151 +
Vimu Vimu6g01558 Chr6 14566252 14568182 +
Viun Viun1g03401 Chr1 41203136 41206045 -
Vivi Vivi3g03289 Chr3 55601727 55603278 -
Vra Vra2g1439 Chr2 22483503 22485757 +
Vvi Vvi1g0666 Chr1 6671054 6673984 +
Adu Adu03g04108 Chr03 130203469 130205374 +
Aed Aed7g1898 Chr7 22096447 22098903 +
Aev Aev03g2744 Chr03 27362092 27374907 +
Aip Aip03g04499 Chr03 129239228 129239927 +
Alju Alju06g1858 Chr06 40268766 40269623 +
Arst Arst3g05412 Chr3 128937313 128940986 +
Bisa Bisa08g2680 Chr08 62031647 62033754 -
Car Car05g02061 Chr05 65854179 65857155 +
Cca Cca01g00137 Chr01 1344680 1348283 +
Dere Dere03g0132 Chr03 4798741 4800734 +
Dod Dod04g0545 Chr04 7856637 7860102 -
Enph Enph6g0142 Chr6 4682973 4685643 +
Glsi Glsi02g0127 Chr02 851503 853527 +
Gma Gma08g01193 Chr08 10194091 10197033 +
Gma Gma18g00105 Chr18 838777 841920 +
Lapu Lapu3g03259 Chr3 55888403 55890712 -
Lasa Lasa7g04264 Chr7 650049314 650058202 +
Lele Lele21g1334 Chr21 21763408 21765445 +
Lele Lele22g1328 Chr22 19008333 19018555 +
Lele Lele23g0693 Chr23 5389514 5391587 -
Lele Lele24g1287 Chr24 18844861 18845281 +
Lja Lja4g0791 Chr4 6551687 6554631 -
Mal Mal7g4498 Chr7 112918170 112923935 +
Mepo Mepo2g04174 Chr2 50636027 50641548 +
Mesa Mesa13g00940 Chr13 11071732 11072355 -
Mibi Mibi09g0811 Chr09 11498679 11499744 +
Mtr Mtr8g3069 Chr8 41333283 41336666 +
Phac Phac2g03794 Chr2 38376013 38378970 +
Prci Prci4g2137 Chr4 33628839 33631278 +
Psa Psa7g1382 Chr7 99904779 99905160 -
Pste Pste3g01989 Chr3 13568326 13572543 -
Pumo Pumo6g00888 Chr6 11037054 11039708 -
Pvu Pvu2g2608 Chr2 41998102 42000723 +
Rops Rops2g00997 Chr2 14030372 14037582 -
Seca Seca12g06070 Chr12 152576402 152583731 +
Spst Spst3g01523 Chr3 18673636 18675715 -
Ssu Ssu9g1767 Chr9 54978488 54980760 -
Tpr Tpr3g1028 Chr3 9349628 9354015 -
Trre Trre7g04884 Chr7 56102935 56109660 +
Tsu Tsu02g00895 Chr02 7498460 7502519 -
Vifa Vifa2g02500 Chr2 656302030 656303151 +
Vivi Vivi5g05193 Chr5 153114755 153130535 -
Vra Vra2g1440 Chr2 22491574 22494215 +
Vvi Vvi1g0667 Chr1 6678840 6685523 +
Car Car05g02062 Chr05 65860776 65867991 +
Gma Gma18g00106 Chr18 843098 848932 +
Vvi Vvi1g0668 Chr1 6688133 6688879 -
Adu Adu03g04109 Chr03 130216181 130220525 -
Aev Aev03g2745 Chr03 27378404 27379138 -
Ahy Ahy13g4056 Chr13 139980785 139982182 -
Aip Aip03g04502 Chr03 129270351 129278494 -
Amo Amo13g5116 Chr13 150697436 150698218 -
Arst Arst3g05420 Chr3 128983341 128984614 -
Bisa Bisa08g2678 Chr08 62013711 62014730 +
Cca Cca09g02064 Chr09 45731310 45732416 -
Dere Dere03g0134 Chr03 4812267 4812992 -
Dod Dod04g2331 Chr04 47198695 47200425 -
Enph Enph6g0143 Chr6 4697400 4698128 -
Glsi Glsi02g0130 Chr02 859423 860154 -
Gma Gma08g01194 Chr08 10198379 10199066 -
Lasa Lasa7g04265 Chr7 650174602 650175354 -
Lele Lele21g1335 Chr21 21776100 21776822 -
Lele Lele22g1329 Chr22 19050230 19050958 -
Lele Lele23g0691 Chr23 5377066 5377794 +
Lele Lele24g1289 Chr24 18861088 18861816 -
Lja Lja4g0790 Chr4 6537180 6538258 +
Mal Mal7g4499 Chr7 112925282 112926043 -
Mepo Mepo2g04175 Chr2 50642568 50643451 -
Mesa Mesa13g00939 Chr13 11062923 11063681 +
Mibi Mibi09g0809 Chr09 11329507 11330229 +
Mtr Mtr8g3070 Chr8 41339897 41341178 -
Phac Phac2g03796 Chr2 38379577 38380559 -
Prci Prci4g2138 Chr4 33641965 33642885 -
Psa Psa7g1380 Chr7 99840650 99842266 +
Pumo Pumo6g00887 Chr6 11034642 11035400 +
Pvu Pvu2g2609 Chr2 42002330 42003076 -
Rops Rops2g00996 Chr2 14009463 14010384 +
Seca Seca12g06071 Chr12 152588832 152589572 -
Spst Spst3g01522 Chr3 18671059 18671844 +
Ssu Ssu5g2638 Chr5 71297201 71297942 -
Tpr Tpr3g1027 Chr3 9346829 9348084 +
Trre Trre7g04885 Chr7 56112664 56113428 -
Tsu Tsu02g00894 Chr02 7496236 7497003 +
Vifa Vifa6g02956 Chr6 978812145 978812888 -
Vivi Vivi5g05192 Chr5 153104680 153105713 +
Vvi Vvi1g0669 Chr1 6690946 6691551 -
Adu Adu10g00759 Chr10 9836348 9837251 -
Aed Aed7g1900 Chr7 22105636 22106217 -
Arst Arst10g00983 Chr10 9483335 9484010 -
Car Car06g00856 Chr06 8385340 8385924 +
Cca Cca01g00139 Chr01 1358653 1359847 -
Gma Gma08g01196 Chr08 10210377 10210955 -
Gma Gma18g00107 Chr18 849502 850109 -
Lasa Lasa5g02669 Chr5 496577542 496578138 -
Mal Mal7g4500 Chr7 112940030 112940632 -
Mepo Mepo3g06268 Chr3 76797740 76798807 -
Mesa Mesa9g03742 Chr9 69086204 69086800 -
Mtr Mtr8g3072 Chr8 41354267 41355093 -
Phco Phco2g02931 Chr2 58282607 58283194 +
Psa Psa7g1378 Chr7 99685338 99687387 +
Pvu Pvu1g2654 Chr1 51333848 51334501 +
Rops Rops11g03773 Chr11 71415050 71415818 -
Seca Seca6g01797 Chr6 74174892 74175497 -
Spst Spst1g01936 Chr1 27591134 27591721 -
Ssu Ssu9g1763 Chr9 54968302 54968883 +
Tpr Tpr3g1026 Chr3 9342245 9343313 +
Trre Trre5g03188 Chr5 27477470 27478057 -
Tsu Tsu02g00893 Chr02 7491323 7493236 +
Vian Vian2g03141 Chr2 51958603 51959190 +
Vifa Vifa2g02503 Chr2 656711249 656711836 -
Vimu Vimu6g01564 Chr6 14583044 14583607 -
Viun Viun1g03399 Chr1 41194657 41195509 +
Vivi Vivi3g03283 Chr3 55560617 55561458 +
Vra Vra2g1442 Chr2 22502364 22503220 -
Vvi Vvi1g0670 Chr1 6701748 6712377 +
Adu Adu10g00766 Chr10 9918829 9924898 +
Aed Aed7g1901 Chr7 22106743 22113663 +
Arst Arst10g00994 Chr10 9565691 9571716 +
Car Car05g02064 Chr05 65871295 65878089 +
Cca Cca01g00140 Chr01 1362748 1369992 +
Gma Gma18g00108 Chr18 851713 856018 +
Lapu Lapu6g00118 Chr6 911193 929238 +
Lasa Lasa5g02670 Chr5 496600170 496606004 +
Mepo Mepo3g06269 Chr3 76805878 76811984 +
Mesa Mesa9g03743 Chr9 69092096 69097410 +
Phco Phco2g02930 Chr2 58273595 58281352 -
Pste Pste7g02357 Chr7 22275916 22281715 -
Pumo Pumo1g00407 Chr1 5773343 5779158 -
Pvu Pvu1g2653 Chr1 51325715 51331288 -
Rops Rops11g03774 Chr11 71417098 71423962 +
Seca Seca6g01798 Chr6 74176799 74186688 +
Spst Spst1g01937 Chr1 27593032 27602004 +
Ssu Ssu9g1762 Chr9 54960937 54966764 -
Trre Trre5g03190 Chr5 27500186 27514460 +
Vian Vian2g03140 Chr2 51951390 51957822 -
Vifa Vifa2g02504 Chr2 657468561 657475022 +
Vimu Vimu6g01565 Chr6 14584081 14590672 +
Viun Viun1g03398 Chr1 41188029 41193997 -
Vivi Vivi3g03282 Chr3 55532986 55539034 -
Vra Vra2g1443 Chr2 22503555 22510496 +
Gma Gma18g00105 Chr18 838777 841920 +
Gma Gma18g00104 Chr18 822282 837170 +