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
Vvi1g0731 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0732 . . . . . Adu03g03730 . Aed7g1599 . Aev03g0595 . . . Aip03g04097 . . . . . Apr3g0764 . . . Bach10g00907 . . Bva08g01267 Bva11g01171 . Car07g01829 . Cca11g00705 . . . Dod04g0094 . . . . . . . Gma18g01287 . . . . . . . . . . . . . . . . . . . Lasa4g02075 . . . . . . . . . Lja4g2889 . Mal5g3045 . Mepo1g02402 . Mesa29g02569 . . . Mtr8g2171 . Phac3g00919 . . . . . . . Pste7g00409 . . Pte14g00614 . . . . Pvu3g0649 . Rops2g02980 . Seca12g03416 . Spst3g02588 . Ssu5g1107 . Sto6g4302 . Tpr4g4528 . Trre15g01855 . Tsu04g03162 . . . Vifa4g01999 . Vimu11g02171 . Viun3g03217 . Vivi1g03443 . .
Vvi1g0733 . Acco12g0637 . Accr10g01397 . Adu03g03731 . Aed7g1600 . Aev03g0594 . Ahy13g3655 . Aip03g04098 . Alju12g1465 . Amo13g4623 . Apr3g0765 . . . Bach10g00908 . Bisa01g1558 Bva08g01268 Bva11g01170 . Car07g01828 . Cca11g00704 . Dere13g1148 . Dod04g0093 . Enph14g1077 . Glsi09g1024 . . Gma08g02666 Gma18g01285 . . . . . . . . . . . . . . . . . . . Lasa4g02076 . . . . Lele53g0995 Lele54g0973 Lele55g0482 Lele56g0469 . Lja4g2890 . Mal5g3046 . Mepo1g02401 . Mesa29g02568 . Mibi10g1396 . Mtr8g2172 . . . . . Prci5g1766 . . . Pste7g00410 . . . Pte12g00733 . . . Pvu3g0648 . Rops2g02981 . Seca12g03415 . Spst3g02587 . Ssu5g1106 Sto11g1148 Sto6g4303 . Tpr4g4527 . Trre15g01853 . Tsu04g03161 . . . Vifa4g01998 . Vimu11g02172 . Viun3g03219 . Vivi1g03440 . .
Vvi1g0734 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0735 . . . . . Adu03g03732 . Aed7g1604 . Aev03g0593 . Ahy13g3657 . Aip03g04100 . . . Amo13g4626 . Apr3g0766 . . . . . . Bva08g01269 Bva11g01169 . Car07g01827 . Cca11g00700 . . . Dod04g0091 . . . . . . Gma08g02668 Gma18g01278 . . . . . . . . . . . . . . . . . . . Lasa4g02081 . . . . . . . . . Lja4g2891 . Mal5g3048 . Mepo1g02399 . . . . . Mtr8g2174 . . . . . . . . . Pste7g00419 . . Pte14g00613 Pte12g00734 . . . Pvu3g0647 . Rops2g02982 . Seca12g03411 . Spst3g02586 . Ssu5g1105 . Sto6g4305 . Tpr4g4524 . Trre15g01848 . Tsu04g00640 . . . Vifa4g01992 . Vimu11g02174 . Viun3g03220 . Vivi1g03433 . .
Vvi1g0736 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi1g0737 Acco11g1073 . Accr9g01206 . Adu05g01417 . Aed6g0283 . Aev05g0033 . Ahy15g1376 . Aip05g01447 . Alju09g1094 . . . Apr7g1659 . Arst5g01807 . Bach4g01103 . Bisa11g2243 . Bva08g01270 . . . Cca06g00842 . Dere09g1535 . Dod02g0020 . Enph13g0185 . Glsi05g0885 . Gma02g00334 Gma01g00260 . . Gso2g0315 Gso2g0315 . . . . . . Lal16g0525 . . . . . . . Lapu2g01608 . . . . . . . . . . . Lja2g0950 . Mal6g0102 . Mepo5g01556 . Mesa17g01732 . Mibi12g0912 . Mtr5g1380 . Phac2g01022 . Phco4g01410 . Prci10g1636 . Psa2g2409 . Pste1g00733 . . . . . Pumo8g01242 . Pvu2g0657 . . . . . Spst2g01385 . Ssu2g1813 . Sto11g1147 Sto6g4306 Tpr2g1689 . . . Tsu05g01441 . Vian10g01198 . Vifa1g04565 . . . Viun2g01271 . . . . .
Vvi1g0738 . . . . . . . Aed7g1605 . Aev03g0591 . Ahy13g3658 . Aip03g04101 . . . Amo13g4627 . Apr3g0767 . . . . . . . . . . . Cca11g00699 . . . Dod04g0090 . . . . . . Gma08g02669 Gma18g01277 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja4g2892 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Ssu5g1104 . . . . . . . . . . . . . . . . . . . .
Vvi1g0739 . . . . . . . . Aev05g0032 . Ahy15g1379 . Aip05g01451 . . . . . . . . . . . . . Bva08g01271 . . . . . . . Dod02g0019 . . . . . . Gma01g00263 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0951 . Mal6g0103 . . . . . . . Mtr5g1381 . . . . . . . Psa2g2356 Psa4g2670 . . . . . . . . . . . . . . . . . . . . . . . . Tsu05g01442 . . . . . . . . . . . . .
Vvi1g0740 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Gma01g00264 . . . . . . . . . . . Lal15g0474 . . . . . . . . . . . . . . . . . . . . Mal6g0104 . . . . . . . Mtr5g1382 . . . . . . . Psa2g2357 . . . . . . . . . . . . . . . . . . . . . . . . . Tsu05g01443 . . . . . . . . . . . . .
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Vvi Vvi1g0731 Chr1 7381066 7383521 +
Vvi Vvi1g0732 Chr1 7385836 7387090 +
Adu Adu03g03730 Chr03 125829705 125830624 +
Aed Aed7g1599 Chr7 19080732 19082128 +
Aev Aev03g0595 Chr03 4395733 4396570 -
Aip Aip03g04097 Chr03 124671562 124672517 +
Apr Apr3g0764 Chr3 20129821 20131039 +
Bach Bach10g00907 Chr10 6418223 6418994 +
Bva Bva08g01267 Chr08 6613399 6614576 +
Bva Bva11g01171 Chr11 12708587 12709885 -
Car Car07g01829 Chr07 19474542 19475633 -
Cca Cca11g00705 Chr11 11996671 12001646 -
Dod Dod04g0094 Chr04 1063673 1064893 -
Gma Gma18g01287 Chr18 22367267 22375504 -
Lasa Lasa4g02075 Chr4 420621608 420622355 +
Lja Lja4g2889 Chr4 51097031 51103219 +
Mal Mal5g3045 Chr5 89545800 89547868 +
Mepo Mepo1g02402 Chr1 24921046 24922205 -
Mesa Mesa29g02569 Chr29 35211458 35211766 -
Mtr Mtr8g2171 Chr8 31845906 31847649 +
Phac Phac3g00919 Chr3 8287708 8289164 -
Pste Pste7g00409 Chr7 3949286 3951667 +
Pte Pte14g00614 Chr14 27010897 27011640 -
Pvu Pvu3g0649 Chr3 8704529 8705628 -
Rops Rops2g02980 Chr2 52751707 52752999 +
Seca Seca12g03416 Chr12 73893971 73895524 -
Spst Spst3g02588 Chr3 74314765 74315554 -
Ssu Ssu5g1107 Chr5 35423615 35425528 -
Sto Sto6g4302 Chr6 45793943 45794696 +
Tpr Tpr4g4528 Chr4 53458573 53464126 -
Trre Trre15g01855 Chr15 14991407 14993414 -
Tsu Tsu04g03162 Chr04 39585354 39596583 -
Vifa Vifa4g01999 Chr4 584323648 584324464 -
Vimu Vimu11g02171 Chr11 37753290 37754169 +
Viun Viun3g03217 Chr3 38914659 38915462 +
Vivi Vivi1g03443 Chr1 73984727 73985895 -
Vvi Vvi1g0733 Chr1 7390271 7409151 -
Acco Acco12g0637 Chr12 5808664 5823013 -
Accr Accr10g01397 Chr10 37137281 37155744 +
Adu Adu03g03731 Chr03 125830832 125844794 -
Aed Aed7g1600 Chr7 19081733 19098728 -
Aev Aev03g0594 Chr03 4379604 4394595 +
Ahy Ahy13g3655 Chr13 135179589 135193459 -
Aip Aip03g04098 Chr03 124680709 124693847 -
Alju Alju12g1465 Chr12 35872791 35886712 +
Amo Amo13g4623 Chr13 143633545 143647398 -
Apr Apr3g0765 Chr3 20132782 20149796 -
Bach Bach10g00908 Chr10 6419597 6435481 -
Bisa Bisa01g1558 Chr01 26536794 26558088 -
Bva Bva08g01268 Chr08 6626213 6626509 -
Bva Bva11g01170 Chr11 12694668 12708392 +
Car Car07g01828 Chr07 19452253 19471398 +
Cca Cca11g00704 Chr11 11974552 11990622 +
Dere Dere13g1148 Chr13 15901400 15927965 -
Dod Dod04g0093 Chr04 1045046 1061072 +
Enph Enph14g1077 Chr14 12425123 12442224 -
Glsi Glsi09g1024 Chr09 7166479 7185101 -
Gma Gma08g02666 Chr08 41525065 41541619 -
Gma Gma18g01285 Chr18 22336124 22357406 +
Lasa Lasa4g02076 Chr4 420700462 420725252 -
Lele Lele53g0995 Chr53 19420158 19442934 +
Lele Lele54g0973 Chr54 16040884 16042294 +
Lele Lele55g0482 Chr55 3049578 3061764 -
Lele Lele56g0469 Chr56 3453145 3454471 -
Lja Lja4g2890 Chr4 51104831 51136581 -
Mal Mal5g3046 Chr5 89548691 89564346 -
Mepo Mepo1g02401 Chr1 24904026 24920624 +
Mesa Mesa29g02568 Chr29 35194402 35210853 +
Mibi Mibi10g1396 Chr10 34651439 34665637 +
Mtr Mtr8g2172 Chr8 31847877 31864500 -
Prci Prci5g1766 Chr5 35939577 35955851 +
Pste Pste7g00410 Chr7 3961404 3987232 -
Pte Pte12g00733 Chr12 7552718 7566171 -
Pvu Pvu3g0648 Chr3 8679229 8697331 +
Rops Rops2g02981 Chr2 52754310 52804884 -
Seca Seca12g03415 Chr12 73866132 73886280 +
Spst Spst3g02587 Chr3 74293180 74309112 +
Ssu Ssu5g1106 Chr5 35404299 35419654 +
Sto Sto11g1148 Chr11 11453358 11464710 +
Sto Sto6g4303 Chr6 45795368 45813131 -
Tpr Tpr4g4527 Chr4 53438874 53454807 +
Trre Trre15g01853 Chr15 14975436 14990528 +
Tsu Tsu04g03161 Chr04 39566575 39580739 +
Vifa Vifa4g01998 Chr4 583721493 583752176 +
Vimu Vimu11g02172 Chr11 37755356 37771812 -
Viun Viun3g03219 Chr3 38916505 38932521 -
Vivi Vivi1g03440 Chr1 73957214 73984433 +
Vvi Vvi1g0734 Chr1 7416174 7416710 -
Vvi Vvi1g0735 Chr1 7422823 7426109 +
Adu Adu03g03732 Chr03 125877511 125879617 +
Aed Aed7g1604 Chr7 19179616 19181782 +
Aev Aev03g0593 Chr03 4366679 4368705 -
Ahy Ahy13g3657 Chr13 135228446 135230583 +
Aip Aip03g04100 Chr03 124744398 124746393 +
Amo Amo13g4626 Chr13 143688903 143694079 +
Apr Apr3g0766 Chr3 20195087 20197367 +
Bva Bva08g01269 Chr08 6631581 6634502 +
Bva Bva11g01169 Chr11 12688733 12691072 -
Car Car07g01827 Chr07 19423210 19427429 -
Cca Cca11g00700 Chr11 11890447 11893513 -
Dod Dod04g0091 Chr04 1024306 1026708 -
Gma Gma08g02668 Chr08 41638207 41640905 +
Gma Gma18g01278 Chr18 21952443 21955687 -
Lasa Lasa4g02081 Chr4 421366035 421367655 -
Lja Lja4g2891 Chr4 51200844 51203157 +
Mal Mal5g3048 Chr5 89595618 89599001 +
Mepo Mepo1g02399 Chr1 24884614 24888586 -
Mtr Mtr8g2174 Chr8 31880645 31883193 +
Pste Pste7g00419 Chr7 4045533 4048250 +
Pte Pte14g00613 Chr14 27003304 27005450 -
Pte Pte12g00734 Chr12 7587971 7591029 +
Pvu Pvu3g0647 Chr3 8626240 8629008 -
Rops Rops2g02982 Chr2 52845447 52847575 +
Seca Seca12g03411 Chr12 73748946 73751329 -
Spst Spst3g02586 Chr3 74235544 74238025 -
Ssu Ssu5g1105 Chr5 35298622 35301201 -
Sto Sto6g4305 Chr6 45821912 45823266 +
Tpr Tpr4g4524 Chr4 53405643 53409555 -
Trre Trre15g01848 Chr15 14957528 14959860 -
Tsu Tsu04g00640 Chr04 5969348 5971905 -
Vifa Vifa4g01992 Chr4 581734344 581736677 -
Vimu Vimu11g02174 Chr11 37881710 37884041 +
Viun Viun3g03220 Chr3 38951763 38954381 +
Vivi Vivi1g03433 Chr1 73768735 73771518 -
Vvi Vvi1g0736 Chr1 7439946 7440811 -
Vvi Vvi1g0737 Chr1 7453821 7456478 -
Acco Acco11g1073 Chr11 23296892 23300736 -
Accr Accr9g01206 Chr9 15422536 15428247 +
Adu Adu05g01417 Chr05 22060586 22065049 +
Aed Aed6g0283 Chr6 2482042 2484749 -
Aev Aev05g0033 Chr05 248462 251093 +
Ahy Ahy15g1376 Chr15 23535349 23538843 +
Aip Aip05g01447 Chr05 22618519 22621488 +
Alju Alju09g1094 Chr09 33721012 33724265 -
Apr Apr7g1659 Chr7 23748808 23751527 +
Arst Arst5g01807 Chr5 22108318 22112760 +
Bach Bach4g01103 Chr4 7529934 7532319 -
Bisa Bisa11g2243 Chr11 46306337 46310388 +
Bva Bva08g01270 Chr08 6636474 6638814 -
Cca Cca06g00842 Chr06 21554686 21557533 +
Dere Dere09g1535 Chr09 19708440 19711365 +
Dod Dod02g0020 Chr02 550404 553285 +
Enph Enph13g0185 Chr13 7667206 7670058 -
Glsi Glsi05g0885 Chr05 59105453 59108460 +
Gma Gma02g00334 Chr02 3484987 3488073 +
Gma Gma01g00260 Chr01 2955684 2958840 -
Gso Gso2g0315 Chr2 3382458 3385841 +
Gso Gso2g0315 Chr2 3382458 3385841 +
Lal Lal16g0525 Chr16 3334435 3337363 -
Lapu Lapu2g01608 Chr2 29666349 29668985 +
Lja Lja2g0950 Chr2 8926825 8929726 -
Mal Mal6g0102 Chr6 1491153 1494308 -
Mepo Mepo5g01556 Chr5 16357774 16360909 -
Mesa Mesa17g01732 Chr17 24602571 24606230 -
Mibi Mibi12g0912 Chr12 23425836 23429606 -
Mtr Mtr5g1380 Chr5 14427851 14431058 -
Phac Phac2g01022 Chr2 6658103 6661084 -
Phco Phco4g01410 Chr4 12265880 12268453 -
Prci Prci10g1636 Chr10 12006596 12010566 +
Psa Psa2g2409 Chr2 276013697 276016567 -
Pste Pste1g00733 Chr1 2292956 2294086 -
Pumo Pumo8g01242 Chr8 44166794 44169455 +
Pvu Pvu2g0657 Chr2 7121655 7124367 -
Spst Spst2g01385 Chr2 12543323 12545964 -
Ssu Ssu2g1813 Chr2 69065588 69068419 +
Sto Sto11g1147 Chr11 11441300 11445657 +
Sto Sto6g4306 Chr6 45823827 45826344 -
Tpr Tpr2g1689 Chr2 20029851 20033914 +
Tsu Tsu05g01441 Chr05 13637794 13641858 -
Vian Vian10g01198 Chr10 19830462 19833064 +
Vifa Vifa1g04565 Chr1 714314854 714317906 -
Viun Viun2g01271 Chr2 23245241 23248073 +
Vvi Vvi1g0738 Chr1 7469513 7473852 +
Aed Aed7g1605 Chr7 19183813 19188216 +
Aev Aev03g0591 Chr03 4355262 4358479 -
Ahy Ahy13g3658 Chr13 135231577 135234807 +
Aip Aip03g04101 Chr03 124747585 124749737 +
Amo Amo13g4627 Chr13 143695971 143699173 +
Apr Apr3g0767 Chr3 20232995 20236450 +
Cca Cca11g00699 Chr11 11860779 11865257 -
Dod Dod04g0090 Chr04 1013022 1017120 -
Gma Gma08g02669 Chr08 41678320 41682939 +
Gma Gma18g01277 Chr18 21937771 21941863 -
Lja Lja4g2892 Chr4 51204581 51208116 -
Ssu Ssu5g1104 Chr5 35271666 35273685 -
Vvi Vvi1g0739 Chr1 7490194 7492068 +
Aev Aev05g0032 Chr05 238681 242694 -
Ahy Ahy15g1379 Chr15 23587755 23591454 +
Aip Aip05g01451 Chr05 22677095 22680611 +
Bva Bva08g01271 Chr08 6641959 6645136 +
Dod Dod02g0019 Chr02 537316 541513 -
Gma Gma01g00263 Chr01 2974001 2977395 +
Lja Lja2g0951 Chr2 8934502 8937294 +
Mal Mal6g0103 Chr6 1500962 1504061 +
Mtr Mtr5g1381 Chr5 14437860 14441388 +
Psa Psa2g2356 Chr2 270817236 270819793 +
Psa Psa4g2670 Chr4 212386387 212389325 -
Tsu Tsu05g01442 Chr05 13653021 13655865 +
Vvi Vvi1g0740 Chr1 7494201 7502178 -
Gma Gma01g00264 Chr01 2978291 2981677 -
Lal Lal15g0474 Chr15 3228168 3231251 -
Mal Mal6g0104 Chr6 1504591 1508995 -
Mtr Mtr5g1382 Chr5 14441546 14443837 -
Psa Psa2g2357 Chr2 270820221 270823759 -
Tsu Tsu05g01443 Chr05 13656245 13660403 -
Bach Bach10g00907 Chr10 6418223 6418994 +