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
Vvi2g0672 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lja2g0949 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0673 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0674 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0675 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Sto11g1356 . . . . . . . . . . . . . . . . . .
Vvi2g0676 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0677 . . . . Adu05g00485 . Aed11g1562 . Aev05g0812 . Ahy15g0462 . Aip05g00462 . . . . . Apr7g0754 . Arst5g00618 . Bach4g00352 . . . Bva08g01238 Bva11g01906 . . Cca06g01626 . . . Dod02g0898 . . . . . Gma01g02056 Gma11g00361 . . Gso1g1731 Gso1g1731 . . . Lal16g0295 . . . . . . . . . . Lapu2g00420 . Lasa2g02967 . . . . . . . . . Lja2g0168 . Mal6g1488 Mal5g2957 Mepo5g00548 . Mesa17g00575 . . . Mtr5g0485 Mtr8g2096 Phac2g00832 . Phco4g01285 . . . Psa2g3983 . Pste1g01403 . . Pte12g00231 . . Pumo8g02121 . Pvu2g0032 . Rops1g01968 . Seca10g00548 . Spst2g00490 . Ssu2g2665 . . Sto11g1853 Tpr2g5585 . . . Tsu05g00454 . Vian10g00436 . . . Vimu7g02646 . Viun2g02320 . Vivi2g03614 . Vra11g0436 .
Vvi2g0678 . . . . . . . . Aev05g0811 . . . Aip05g00463 . . . . . Apr7g0755 . . . . . . . Bva08g00408 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0679 Acco11g1908 . Accr9g00544 . Adu05g00487 . Aed11g1560 . Aev05g0810 . Ahy15g0463 . Aip05g00464 . Alju09g1903 . . . Apr7g0756 Apr3g0018 Arst5g00620 . Bach4g00354 . Bisa11g1252 . . Bva11g01905 Car08g00356 . Cca06g01625 . Dere09g0491 . Dod02g0896 . Enph13g1194 . Glsi05g1811 . Gma01g02051 Gma11g00363 . . Gso1g1729 Gso1g1729 . . Lal15g0230 Lal16g0294 . . . Lal23g1259 Lan18g0934 Lan18g0934 . . . Lan18g0934 Lapu2g00421 . Lasa2g02968 . Lele49g0439 Lele50g0473 Lele51g0454 Lele52g0468 . . . . Lja2g0169 Lja4g2715 Mal6g1486 . Mepo5g00549 . Mesa17g00576 . Mibi12g1643 . Mtr5g0486 . Phac2g00830 . Phco4g01283 . Prci10g0708 . Psa2g3981 . Pste1g01410 . Pte14g01022 Pte12g00232 . . Pumo8g02117 . Pvu2g0033 . Rops1g01967 . Seca10g00550 . Spst2g00493 . Ssu2g2663 . Sto6g3489 Sto11g1852 Tpr2g5586 . . . Tsu05g00455 . Vian10g00437 . Vifa1g07597 . Vimu7g02649 . Viun2g02318 . Vivi2g03612 . Vra11g0438 .
Vvi2g0680 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vvi2g0681 . . . . . Adu01g01282 . Aed6g0626 . Aev01g0422 . Ahy11g1198 . Aip01g01265 . . . . . Apr10g1680 . Arst1g01703 . . . . Bva08g00409 Bva11g01904 . Car07g01312 . Cca11g01514 . . . Dod05g1283 . . . . . . Gma05g00645 Gma17g01383 . . . . . . . Lal15g0835 . . . . . . . . . . . Lasa4g02728 . . . . . . . . . . . Mal5g3786 . Mepo1g01703 . . . . . Mtr4g3515 . . . Phco8g00857 . . . . . Pste7g00696 . . . . . Pumo4g01767 . Pvu3g2342 . Rops2g04356 . Seca12g02141 . Spst3g04202 . Ssu6g1700 . Sto11g1851 . Tpr4g3872 . Trre15g03485 . . . Vian1g01494 . Vifa4g02812 . Vimu11g00243 . Viun3g04053 . . . Vra7g1308
   
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DecoBrowse

Select Species Gene Chromosome Start End Strand
Lja Lja2g0949 Chr2 8905415 8909797 -
Vvi Vvi2g0672 Chr2 6193720 6198659 +
Lja Lja2g0949 Chr2 8905415 8909797 -
Vvi Vvi2g0673 Chr2 6199955 6203949 +
Vvi Vvi2g0674 Chr2 6208527 6208852 +
Vvi Vvi2g0675 Chr2 6209000 6209468 +
Sto Sto11g1356 Chr11 13112605 13127386 -
Vvi Vvi2g0676 Chr2 6211851 6213490 +
Vvi Vvi2g0677 Chr2 6220277 6270195 -
Adu Adu05g00485 Chr05 5119160 5130933 -
Aed Aed11g1562 Chr11 19740580 19760295 +
Aev Aev05g0812 Chr05 5656867 5670948 +
Ahy Ahy15g0462 Chr15 5459403 5475294 -
Aip Aip05g00462 Chr05 5233096 5247277 -
Apr Apr7g0754 Chr7 14524972 14542957 -
Arst Arst5g00618 Chr5 5130222 5149055 -
Bach Bach4g00352 Chr4 2334930 2348583 -
Bva Bva08g01238 Chr08 6445687 6448288 -
Bva Bva11g01906 Chr11 16442963 16457051 +
Cca Cca06g01626 Chr06 31393736 31412253 +
Dod Dod02g0898 Chr02 11440226 11456527 +
Gma Gma01g02056 Chr01 55897901 55914719 +
Gma Gma11g00361 Chr11 2963598 2978728 -
Gso Gso1g1731 Chr1 54093874 54112703 +
Gso Gso1g1731 Chr1 54093874 54112703 +
Lal Lal16g0295 Chr16 1761564 1780792 +
Lapu Lapu2g00420 Chr2 3519701 3534950 -
Lasa Lasa2g02967 Chr2 515900914 515914389 -
Lja Lja2g0168 Chr2 1444749 1458165 -
Mal Mal6g1488 Chr6 27558455 27571212 +
Mal Mal5g2957 Chr5 87568307 87573103 +
Mepo Mepo5g00548 Chr5 4897052 4910603 -
Mesa Mesa17g00575 Chr17 6756565 6769598 -
Mtr Mtr5g0485 Chr5 4518948 4532896 -
Mtr Mtr8g2096 Chr8 30949608 30954448 +
Phac Phac2g00832 Chr2 5106777 5129781 +
Phco Phco4g01285 Chr4 10872743 10895480 +
Psa Psa2g3983 Chr2 414434152 414449514 +
Pste Pste1g01403 Chr1 4445075 4459503 -
Pte Pte12g00231 Chr12 1865185 1876882 -
Pumo Pumo8g02121 Chr8 58143964 58158983 +
Pvu Pvu2g0032 Chr2 461967 483832 -
Rops Rops1g01968 Chr1 39788197 39813291 +
Seca Seca10g00548 Chr10 4961018 4977859 -
Spst Spst2g00490 Chr2 3977595 3999808 -
Ssu Ssu2g2665 Chr2 86612165 86639939 +
Sto Sto11g1853 Chr11 17267291 17280665 +
Tpr Tpr2g5585 Chr2 64662997 64678286 -
Tsu Tsu05g00454 Chr05 3515606 3529694 -
Vian Vian10g00436 Chr10 3995753 4018530 -
Vimu Vimu7g02646 Chr7 22337037 22338012 -
Viun Viun2g02320 Chr2 30460683 30478662 +
Vivi Vivi2g03614 Chr2 144893525 144909369 +
Vra Vra11g0436 Chr11 3221075 3238996 -
Vvi Vvi2g0678 Chr2 6285884 6286579 +
Aev Aev05g0811 Chr05 5649751 5650449 -
Aip Aip05g00463 Chr05 5252788 5253834 +
Apr Apr7g0755 Chr7 14546652 14547484 +
Bva Bva08g00408 Chr08 2110765 2111322 +
Vvi Vvi2g0679 Chr2 6288109 6317928 -
Acco Acco11g1908 Chr11 33371403 33382247 -
Accr Accr9g00544 Chr9 6150588 6162302 +
Adu Adu05g00487 Chr05 5134872 5147076 -
Aed Aed11g1560 Chr11 19724557 19736220 +
Aev Aev05g0810 Chr05 5638011 5648913 +
Ahy Ahy15g0463 Chr15 5480734 5492890 -
Aip Aip05g00464 Chr05 5253893 5266644 -
Alju Alju09g1903 Chr09 42888212 42899017 -
Apr Apr7g0756 Chr7 14548125 14559724 -
Apr Apr3g0018 Chr3 293929 294654 +
Arst Arst5g00620 Chr5 5154255 5166358 -
Bach Bach4g00354 Chr4 2356617 2367161 -
Bisa Bisa11g1252 Chr11 31434232 31447936 -
Bva Bva11g01905 Chr11 16430524 16440683 +
Car Car08g00356 Chr08 2893487 2923147 -
Cca Cca06g01625 Chr06 31374269 31385470 +
Dere Dere09g0491 Chr09 7824253 7835293 -
Dod Dod02g0896 Chr02 11419950 11433330 +
Enph Enph13g1194 Chr13 17681815 17695477 +
Glsi Glsi05g1811 Chr05 65749213 65759910 +
Gma Gma01g02051 Chr01 55864103 55876721 +
Gma Gma11g00363 Chr11 2987737 3000561 -
Gso Gso1g1729 Chr1 54062982 54076543 +
Gso Gso1g1729 Chr1 54062982 54076543 +
Lal Lal15g0230 Chr15 1545403 1559876 +
Lal Lal16g0294 Chr16 1747889 1759775 +
Lal Lal23g1259 Chr23 13702313 13714337 -
Lan Lan18g0934 Chr18 14605023 14622097 -
Lan Lan18g0934 Chr18 14605023 14622097 -
Lan Lan18g0934 Chr18 14605023 14622097 -
Lapu Lapu2g00421 Chr2 3543354 3555292 -
Lasa Lasa2g02968 Chr2 515936178 515947214 -
Lele Lele49g0439 Chr49 2587055 2598975 +
Lele Lele50g0473 Chr50 2728254 2739461 +
Lele Lele51g0454 Chr51 2636967 2649118 +
Lele Lele52g0468 Chr52 2797882 2811022 +
Lja Lja2g0169 Chr2 1459693 1471026 -
Lja Lja4g2715 Chr4 41810758 41812210 -
Mal Mal6g1486 Chr6 27526701 27539918 +
Mepo Mepo5g00549 Chr5 4917350 4930437 -
Mesa Mesa17g00576 Chr17 6781609 6794026 -
Mibi Mibi12g1643 Chr12 32462397 32473477 -
Mtr Mtr5g0486 Chr5 4540437 4553585 -
Phac Phac2g00830 Chr2 5085073 5097261 +
Phco Phco4g01283 Chr4 10846112 10856258 +
Prci Prci10g0708 Chr10 4734257 4749486 +
Psa Psa2g3981 Chr2 414305256 414317216 +
Pste Pste1g01410 Chr1 4468339 4480359 -
Pte Pte14g01022 Chr14 31900797 31910807 -
Pte Pte12g00232 Chr12 1880957 1890536 -
Pumo Pumo8g02117 Chr8 58113874 58121562 +
Pvu Pvu2g0033 Chr2 493642 505035 -
Rops Rops1g01967 Chr1 39750380 39763425 +
Seca Seca10g00550 Chr10 4998916 5003441 -
Spst Spst2g00493 Chr2 4008121 4018334 -
Ssu Ssu2g2663 Chr2 86578192 86589662 +
Sto Sto6g3489 Chr6 40518745 40533639 -
Sto Sto11g1852 Chr11 17246859 17258703 +
Tpr Tpr2g5586 Chr2 64680502 64693520 -
Tsu Tsu05g00455 Chr05 3532138 3544138 -
Vian Vian10g00437 Chr10 4029954 4045516 -
Vifa Vifa1g07597 Chr1 1178473755 1178485323 -
Vimu Vimu7g02649 Chr7 22348740 22359267 -
Viun Viun2g02318 Chr2 30445467 30456582 +
Vivi Vivi2g03612 Chr2 144868668 144880782 +
Vra Vra11g0438 Chr11 3249874 3261320 -
Vvi Vvi2g0680 Chr2 6334361 6334748 -
Vvi Vvi2g0681 Chr2 6337819 6338534 +
Adu Adu01g01282 Chr01 29644520 29645360 -
Aed Aed6g0626 Chr6 5370589 5372857 +
Aev Aev01g0422 Chr01 3622953 3623537 +
Ahy Ahy11g1198 Chr11 37270761 37271560 -
Aip Aip01g01265 Chr01 35309867 35310699 -
Apr Apr10g1680 Chr10 29567403 29567951 +
Arst Arst1g01703 Chr1 30052802 30053542 -
Bva Bva08g00409 Chr08 2124579 2125474 +
Bva Bva11g01904 Chr11 16426743 16427270 -
Car Car07g01312 Chr07 12074467 12077198 +
Cca Cca11g01514 Chr11 38139127 38140053 -
Dod Dod05g1283 Chr05 36245842 36246496 -
Gma Gma05g00645 Chr05 7117912 7118463 +
Gma Gma17g01383 Chr17 12818021 12818766 +
Lal Lal15g0835 Chr15 6236880 6238145 -
Lasa Lasa4g02728 Chr4 517969180 517969737 -
Mal Mal5g3786 Chr5 106340736 106341290 -
Mepo Mepo1g01703 Chr1 16805125 16806026 +
Mtr Mtr4g3515 Chr4 48851805 48852724 -
Phco Phco8g00857 Chr8 8763337 8763891 +
Pste Pste7g00696 Chr7 6355501 6363043 +
Pumo Pumo4g01767 Chr4 23293040 23293576 +
Pvu Pvu3g2342 Chr3 44785822 44786619 +
Rops Rops2g04356 Chr2 79399522 79400179 +
Seca Seca12g02141 Chr12 27261275 27261814 +
Spst Spst3g04202 Chr3 93445287 93445832 -
Ssu Ssu6g1700 Chr6 28699595 28699936 +
Sto Sto11g1851 Chr11 17232942 17237806 -
Tpr Tpr4g3872 Chr4 44926291 44927445 +
Trre Trre15g03485 Chr15 41660709 41661281 +
Vian Vian1g01494 Chr1 16572644 16573198 +
Vifa Vifa4g02812 Chr4 894462448 894463014 -
Vimu Vimu11g00243 Chr11 2454571 2455131 +
Viun Viun3g04053 Chr3 48127915 48128743 -
Vra Vra7g1308 Chr7 29906450 29907049 -
Sto Sto11g1356 Chr11 13112605 13127386 -