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AGRP

Asteraceae Genomic Research Platform

Gene Search

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Example:

Hierarchical alignments with the Arctium lappa genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Arctium lappa as a reference, and by comparing homologous gene locus maps and Ks values between Arctium lappa and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 74×31,441 macro-matrices.


Select Armi_1 Sain_1 Ceso_1 Cati_1 Ccar_1 Cien_1 Cich_1 Lssa_1 Laca_1 Tako_1 Tamo_1 Pslu_1 Lomi_1 Lomi_2 Enbr_1 Ecan_1 Soca_1 Glco_1 Artr_1 Aary_1 Aary_2 Aann_1 Chma_1 Chmo_1 Chmo_2 Chmo_3 Chla_1 Chna_1 Cind_1 Pdy_1 Cobi_1 Hean_1 Bial_1 Bial_2 Dapi_1 Dapi_2 Hetu_1 Hetu_2 Hetu_3 Amtr_1 Smso_1 Smso_2 Taer_1 Fro_1 Fso_1 Ftr_1 Fra_1 Fli_1 Stre_1 Mimi_1 Cobi_2 Hean_2 Bial_3 Bial_4 Dapi_3 Dapi_4 Hetu_4 Hetu_5 Hetu_6 Amtr_2 Smso_3 Smso_4 Taer_2 Fro_2 Fso_2 Ftr_2 Fra_2 Fli_2 Stre_2 Mimi_2
Armi18g00010 Sain8g01988 . . . Cien7g02622 . Lssa3g03669 Laca3g02889 Tako6g03100 Tamo6g02653 . Lomi6g01922 Lomi7g01694 Enbr1g09118 Ecan8g02710 Soca4g03443 Glco7g02167 . . . . Chma3g03750 Chmo25g01533 Chmo26g01658 Chmo27g01493 Chla9g03248 Chna8g01067 Cind9g03636 Pdy3g03132 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi18g00009 Sain8g01987 . . . . . Lssa3g03670 Laca3g02890 Tako6g03103 Tamo6g02661 . Lomi6g01921 . Enbr1g09119 Ecan8g02711 Soca4g03444 Glco7g02168 . . . . Chma3g03751 Chmo25g01535 . . Chla9g03247 Chna8g01068 Cind9g03635 Pdy3g03133 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi18g00008 Sain8g01986 . . . Cien7g02623 . Lssa3g03671 Laca3g02891 Tako6g03108 Tamo6g02662 Pslu2g13605 Lomi6g01920 Lomi7g01693 Enbr1g09120 Ecan8g02712 Soca4g03445 Glco7g02169 . . . . Chma3g03752 Chmo25g01536 Chmo26g01659 . Chla9g03246 Chna8g01069 Cind9g03634 Pdy3g03134 Cobi3g02287 Hean15g01364 Bial14g01302 . Dapi30g00567 Dapi14g00540 Hetu43g01434 Hetu45g01471 . Amtr08g04033 Smso2g02211 Smso23g01191 Taer5g00686 Fro11g01635 Fso10g02399 . Fra7g01746 Fli2g01917 Stre11g01671 Mimi1g01873 . . . . . . . . . . . . . . . . . . . .
Armi18g00007 Sain8g01978 . . . Cien7g02624 . Lssa3g03672 . Tako6g03111 . . Lomi6g01918 Lomi7g01692 Enbr1g09122 Ecan8g02714 Soca4g03447 Glco7g02170 . . . . Chma3g03753 Chmo25g01537 Chmo26g01661 . . Chna8g01070 Cind9g03633 Pdy3g03135 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi18g00006 Sain8g01977 . . . Cien7g02625 . Lssa3g03673 . . Tamo6g02674 Pslu2g13598 Lomi6g01917 Lomi7g01691 Enbr1g09123 Ecan8g02715 Soca4g03448 Glco7g02171 . . . . Chma3g03758 Chmo25g01538 Chmo26g01662 . . Chna8g01072 . Pdy3g03136 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi18g00005 Sain8g01976 . . . Cien7g02628 . Lssa3g03675 Laca3g02893 . Tamo6g02676 Pslu2g13591 Lomi6g01916 Lomi7g01690 . Ecan8g02717 Soca4g03449 Glco7g02172 . . . . Chma3g03760 Chmo25g01539 Chmo26g01663 . Chla9g03245 Chna8g01073 Cind9g03631 Pdy3g03138 Cobi3g02288 Hean15g01365 Bial14g01300 . Dapi30g00566 Dapi14g00539 Hetu43g01435 Hetu45g01472 . Amtr08g04034 Smso2g02209 Smso23g01190 Taer5g00684 Fro11g01634 . Ftr12g02564 Fra7g01747 Fli2g01916 Stre11g01677 Mimi1g01874 . . . . . . . . . . . . . . . . . . . .
Armi18g00004 . . . . Cien7g02633 . Lssa3g03681 Laca3g02896 . Tamo6g02911 Pslu2g13590 . Lomi7g01689 Enbr1g09128 Ecan8g02719 Soca4g03450 Glco7g02173 . . . . Chma3g03761 Chmo25g01540 Chmo26g01664 . Chla9g03244 Chna8g01074 Cind9g03630 Pdy3g03139 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi18g00003 Sain8g01974 . . . Cien7g02634 . Lssa3g03682 Laca3g02898 . Tamo6g02687 Pslu2g13589 Lomi6g01915 Lomi7g01688 Enbr1g09129 Ecan8g02720 Soca4g03451 Glco7g02174 . . . . Chma3g03762 Chmo25g01541 Chmo26g01665 . Chla9g03243 Chna8g01075 Cind9g03629 Pdy3g03140 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
8 108088548 108095598 - AtrifAMIRv0_Chr08g0556151 Amtr08g04033 4033
8 108141227 108146666 + AtrifAMIRv0_Chr08g0556161 Amtr08g04034 4034
18 198506 211450 + AmiAMIRv0_Chr18g0469361 Armi18g00003 3
18 212591 217693 - AmiAMIRv0_Chr18g0469371 Armi18g00004 4
18 217737 228120 - AmiAMIRv0_Chr18g0469381 Armi18g00005 5
18 239517 240615 + AmiAMIRv0_Chr18g0469391 Armi18g00006 6
18 240785 245253 - AmiAMIRv0_Chr18g0469401 Armi18g00007 7
18 250606 262028 + AmiAMIRv0_Chr18g0469411 Armi18g00008 8
18 263552 264710 - AmiAMIRv0_Chr18g0469421 Armi18g00009 9
18 265350 271271 + AmiAMIRv0_Chr18g0469431 Armi18g00010 10
14 23463877 23469458 - g101406.t1 Bial14g01300 1300
14 23553789 23560499 + g101408.t1 Bial14g01302 1302
9 111531692 111538404 + ClaG1_Chr09g0612041 Chla9g03243 3243
9 111538655 111542150 - ClaG1_Chr09g0612051 Chla9g03244 3244
9 111543197 111549704 - ClaG1_Chr09g0612061 Chla9g03245 3245
9 111598673 111606494 + ClaG1_Chr09g0612071 Chla9g03246 3246
9 111608685 111611398 - ClaG1_Chr09g0612081 Chla9g03247 3247
9 111615476 111621635 + ClaG1_Chr09g0612091 Chla9g03248 3248
3 155179582 155185535 - CmaNakai_Chr03g0267101 Chma3g03750 3750
3 155187661 155189801 + CmaNakai_Chr03g0267111 Chma3g03751 3751
3 155192280 155199617 - CmaNakai_Chr03g0267121 Chma3g03752 3752
3 155278278 155282732 + CmaNakai_Chr03g0267131 Chma3g03753 3753
3 155341432 155343559 + CmaNakai_Chr03g0267181 Chma3g03758 3758
3 155379431 155383103 + CmaNakai_Chr03g0267201 Chma3g03760 3760
3 155386948 155389824 + CmaNakai_Chr03g0267211 Chma3g03761 3761
3 155390725 155398322 - CmaNakai_Chr03g0267221 Chma3g03762 3762
25 127880478 127882744 - evm.model.scaffold_1102.115 Chmo25g01533 1533
25 128015939 128018886 + evm.model.scaffold_1102.121 Chmo25g01535 1535
25 128020069 128027378 - evm.model.scaffold_1102.122 Chmo25g01536 1536
25 128056248 128060438 + evm.model.scaffold_1102.124 Chmo25g01537 1537
25 128060501 128062547 - evm.model.scaffold_1102.125 Chmo25g01538 1538
25 128097106 128103797 + evm.model.scaffold_1102.126 Chmo25g01539 1539
25 128104775 128107610 + evm.model.scaffold_1102.127 Chmo25g01540 1540
25 128108211 128115138 - evm.model.scaffold_1102.128 Chmo25g01541 1541
26 136750081 136766155 - evm.model.scaffold_517.54 Chmo26g01658 1658
26 136767833 136775867 - evm.model.scaffold_517.53 Chmo26g01659 1659
26 136868537 136872742 + evm.model.scaffold_517.49 Chmo26g01661 1661
26 136872805 136874815 - evm.model.scaffold_517.48 Chmo26g01662 1662
26 136897000 136903677 + evm.model.scaffold_517.47 Chmo26g01663 1663
26 136904623 136907479 + evm.model.scaffold_517.46 Chmo26g01664 1664
26 136908085 136915137 - evm.model.scaffold_517.45 Chmo26g01665 1665
27 114789521 114791495 - evm.model.scaffold_1914.39 Chmo27g01493 1493
8 102420010 102426613 - Cn0734650 Chna8g01067 1067
8 102433636 102437511 + Cn0734640 Chna8g01068 1068
8 102438551 102446066 - Cn0734630 Chna8g01069 1069
8 102475371 102479892 + Cn0734620 Chna8g01070 1070
8 102500097 102502014 - Cn0734600 Chna8g01072 1072
8 102583417 102587522 + Cn0734590 Chna8g01073 1073
8 102588247 102591393 + Cn0734580 Chna8g01074 1074
8 102591840 102598638 - Cn0734570 Chna8g01075 1075
7 40719874 40724541 + KAI3503647.1 Cien7g02622 2622
7 40728379 40737158 - KAI3503648.1 Cien7g02623 2623
7 40757356 40758711 + KAI3503649.1 Cien7g02624 2624
7 40763176 40764176 - KAI3503650.1 Cien7g02625 2625
7 40792534 40796254 + KAI3503653.1 Cien7g02628 2628
7 40812152 40817598 + KAI3503658.1 Cien7g02633 2633
7 40819090 40826277 - KAI3503659.1 Cien7g02634 2634
9 154431581 154438006 - D.indicum_Contig59_G00056.t1 Cind9g03629 3629
9 154427973 154430832 + D.indicum_Contig59_G00057.t1 Cind9g03630 3630
9 154422998 154426641 + D.indicum_Contig59_G00058.t1 Cind9g03631 3631
9 154386978 154390657 + D.indicum_Contig59_G00060.t1 Cind9g03633 3633
9 154315773 154323219 - D.indicum_Contig59_G00061.t1 Cind9g03634 3634
9 154311564 154313852 + D.indicum_Contig59_G00062.t1 Cind9g03635 3635
9 154298948 154304906 - D.indicum_Contig59_G00063.t1 Cind9g03636 3636
3 71019833 71026766 - h2tg000002l_1.g22284.t1 Cobi3g02287 2287
3 71048101 71053506 + h2tg000002l_1.g22283.t1 Cobi3g02288 2288
14 9650207 9655023 - h2tg000265l.g78855.t1 Dapi14g00539 539
14 9682857 9687986 + h2tg000265l.g78854.t1 Dapi14g00540 540
30 9577933 9583351 - h1tg000008l.g131276.t1 Dapi30g00566 566
30 9590703 9595885 + h1tg000008l.g131277.t1 Dapi30g00567 567
8 37973747 37979321 - XM_043751518.1 Ecan8g02710 2710
8 37983167 37985579 + XM_043751073.1 Ecan8g02711 2711
8 37989840 37995675 - XM_043750912.1 Ecan8g02712 2712
8 38015512 38019666 + XM_043751763.1 Ecan8g02714 2714
8 38020083 38021355 - XM_043750808.1 Ecan8g02715 2715
8 38025380 38031270 + XM_043750019.1 Ecan8g02717 2717
8 38031826 38035573 + XM_043752587.1 Ecan8g02719 2719
8 38036511 38045526 - XM_043751874.1 Ecan8g02720 2720
1 283089349 283094300 - evm.model.ctg3325.2 Enbr1g09118 9118
1 283099649 283101810 + evm.model.ctg3325.3 Enbr1g09119 9119
1 283103283 283108828 - evm.model.ctg3325.4 Enbr1g09120 9120
1 283144358 283147904 + evm.model.ctg3325.6 Enbr1g09122 9122
1 283148647 283149762 - evm.model.ctg3325.7 Enbr1g09123 9123
1 283216428 283225152 + evm.model.ctg712.10 Enbr1g09128 9128
1 283225963 283238706 - evm.model.ctg712.9 Enbr1g09129 9129
2 35142551 35147046 - FliAMIRv0_Chr02g0053401 Fli2g01916 1916
2 35158985 35165624 + FliAMIRv0_Chr02g0053411 Fli2g01917 1917
7 74771683 74780329 - FraAMIRv0_Chr07g0116101 Fra7g01746 1746
7 74790890 74795428 + FraAMIRv0_Chr07g0116111 Fra7g01747 1747
11 14804860 14809894 - FroAMIRv0_Chr11g0176781 Fro11g01634 1634
11 14820594 14830383 + FroAMIRv0_Chr11g0176791 Fro11g01635 1635
10 65999488 66006631 - FsoAMIRv0_Chr10g0241151 Fso10g02399 2399
12 89185154 89187635 + FtrAMIRv0_Chr12g0356741 Ftr12g02564 2564
7 350672862 350679259 - GcoAMIRv0_Chr07g0469521 Glco7g02167 2167
7 350681064 350683517 + GcoAMIRv0_Chr07g0469531 Glco7g02168 2168
7 350685813 350692448 - GcoAMIRv0_Chr07g0469541 Glco7g02169 2169
7 350780491 350783626 + GcoAMIRv0_Chr07g0469551 Glco7g02170 2170
7 350784324 350786038 - GcoAMIRv0_Chr07g0469561 Glco7g02171 2171
7 351090836 351094795 + GcoAMIRv0_Chr07g0469571 Glco7g02172 2172
7 351098641 351101561 + GcoAMIRv0_Chr07g0469581 Glco7g02173 2173
7 351102363 351109757 - GcoAMIRv0_Chr07g0469591 Glco7g02174 2174
15 33320128 33326547 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0686501 Hean15g01364 1364
15 33353241 33360074 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0686511 Hean15g01365 1365
43 99299961 99304059 - >Htub.h1tg001098l.g58.t1 Hetu43g01434 1434
43 99366915 99371447 + >Htub.h1tg001098l.g59.t1 Hetu43g01435 1435
45 95525146 95530925 - >Htub.h1tg003389l.g241.t1 Hetu45g01471 1471
45 95627599 95632152 + >Htub.h1tg003389l.g242.t1 Hetu45g01472 1472
3 123520632 123524374 - CAI9277256.1 Laca3g02889 2889
3 123699929 123701419 + CAI9277258.1 Laca3g02890 2890
3 123883750 123891282 - CAI9277259.1 Laca3g02891 2891
3 124258550 124264486 + CAI9277261.1 Laca3g02893 2893
3 124493541 124497179 + CAI9277264.1 Laca3g02896 2896
3 124578074 124585044 - CAI9277266.1 Laca3g02898 2898
6 27043676 27052301 + LmiAMIRv0_Chr06g0205531 Lomi6g01915 1915
6 27057656 27061693 - LmiAMIRv0_Chr06g0205541 Lomi6g01916 1916
6 27073935 27075393 + LmiAMIRv0_Chr06g0205551 Lomi6g01917 1917
6 27076088 27080285 - LmiAMIRv0_Chr06g0205561 Lomi6g01918 1918
6 27116819 27123709 + LmiAMIRv0_Chr06g0205581 Lomi6g01920 1920
6 27125869 27127946 - LmiAMIRv0_Chr06g0205591 Lomi6g01921 1921
6 27130328 27134567 + LmiAMIRv0_Chr06g0205601 Lomi6g01922 1922
7 27215654 27223489 + LmiAMIRv0_Chr07g0231581 Lomi7g01688 1688
7 27224946 27228916 - LmiAMIRv0_Chr07g0231591 Lomi7g01689 1689
7 27230142 27234082 - LmiAMIRv0_Chr07g0231601 Lomi7g01690 1690
7 27243720 27245663 + LmiAMIRv0_Chr07g0231611 Lomi7g01691 1691
7 27246319 27250351 - LmiAMIRv0_Chr07g0231621 Lomi7g01692 1692
7 27266256 27271807 + LmiAMIRv0_Chr07g0231631 Lomi7g01693 1693
7 27275922 27279375 + LmiAMIRv0_Chr07g0231641 Lomi7g01694 1694
3 216194201 216198647 - >KAJ0216799.1 Lssa3g03669 3669
3 216331121 216332563 + >KAJ0217341.1 Lssa3g03670 3670
3 216443958 216454732 - >KAJ0215526.1 Lssa3g03671 3671
3 216557437 216559531 + >KAJ0216258.1 Lssa3g03672 3672
3 216571024 216572198 - >KAJ0219296.1 Lssa3g03673 3673
3 216790508 216796845 + >KAJ0215950.1 Lssa3g03675 3675
3 216996702 217000185 + >KAJ0217212.1 Lssa3g03681 3681
3 217064405 217071540 - >KAJ0219156.1 Lssa3g03682 3682
1 90088359 90103134 - KAD7478737.1 Mimi1g01873 1873
1 90116170 90121805 + KAD7478738.1 Mimi1g01874 1874
3 89168682 89173101 - PdyAMIRv0_Chr03g0129711 Pdy3g03132 3132
3 89177330 89178644 + PdyAMIRv0_Chr03g0129721 Pdy3g03133 3133
3 89184014 89196950 - PdyAMIRv0_Chr03g0129731 Pdy3g03134 3134
3 89205227 89212491 + PdyAMIRv0_Chr03g0129741 Pdy3g03135 3135
3 89214051 89215063 - PdyAMIRv0_Chr03g0129751 Pdy3g03136 3136
3 89263553 89267908 + PdyAMIRv0_Chr03g0129771 Pdy3g03138 3138
3 89273916 89279903 + PdyAMIRv0_Chr03g0129781 Pdy3g03139 3139
3 89281183 89290575 - PdyAMIRv0_Chr03g0129791 Pdy3g03140 3140
2 101413173 101420877 + PluAMIRv0_Chr02g0356351 Pslu2g13589 13589
2 101421893 101425486 - PluAMIRv0_Chr02g0356361 Pslu2g13590 13590
2 101427761 101431502 - PluAMIRv0_Chr02g0356371 Pslu2g13591 13591
2 101472354 101473835 - PluAMIRv0_Chr02g0356441 Pslu2g13598 13598
2 101565343 101571970 + PluAMIRv0_Chr02g0356511 Pslu2g13605 13605
8 132213075 132222298 + SinAMIRv0_Chr08g0197071 Sain8g01974 1974
8 132237795 132244157 - SinAMIRv0_Chr08g0197091 Sain8g01976 1976
8 132375782 132376795 + SinAMIRv0_Chr08g0197101 Sain8g01977 1977
8 132376945 132380662 - SinAMIRv0_Chr08g0197111 Sain8g01978 1978
8 133007384 133017160 + SinAMIRv0_Chr08g0197191 Sain8g01986 1986
8 133063646 133064708 - SinAMIRv0_Chr08g0197201 Sain8g01987 1987
8 133064951 133071411 + SinAMIRv0_Chr08g0197211 Sain8g01988 1988
2 75257031 75264818 - KAI3825242.1 Smso2g02209 2209
2 75668350 75679903 + KAI3825244.1 Smso2g02211 2211
23 53337023 53343383 - KAI3717590.1 Smso23g01190 1190
23 53481311 53489017 + KAI3717591.1 Smso23g01191 1191
4 64997657 65003047 - transfrag37567.t01 Soca4g03443 3443
4 65009391 65011956 + transfrag37566.t01 Soca4g03444 3444
4 65013263 65020249 - transfrag37565.t01 Soca4g03445 3445
4 65033161 65039479 + transfrag37562.t01 Soca4g03447 3447
4 65039771 65041121 - transfrag37561.t01 Soca4g03448 3448
4 65043497 65049266 + transfrag37560.t01 Soca4g03449 3449
4 65050779 65054928 + transfrag37559.t01 Soca4g03450 3450
4 65055382 65064164 - asmbl_6652.p1 Soca4g03451 3451
11 90877106 90883564 - Streb.11G016710.1 Stre11g01671 1671
11 90963051 90968520 + Streb.11G016770.1 Stre11g01677 1677
5 5897094 5901554 - >KAK1423214.1 Taer5g00684 684
5 5909407 5916142 + >KAK1423216.1 Taer5g00686 686
6 61099510 61103110 - TkA06G238350.1 Tako6g03100 3100
6 61409547 61411000 + TkA06G239910.1 Tako6g03103 3103
6 61570416 61577170 - TkA06G240390.1 Tako6g03108 3108
6 61607771 61611035 + TkA06G240590.1 Tako6g03111 3111
6 45524935 45529161 - TbA06G053490.1 Tamo6g02653 2653
6 45646646 45647934 + TbA06G053340.1 Tamo6g02661 2661
6 45658754 45661195 - TbA06G053330.1 Tamo6g02662 2662
6 46355132 46355862 - TbA06G052520.1 Tamo6g02674 2674
6 46375776 46382645 - TbA06G052500.1 Tamo6g02676 2676
6 46943021 46949314 - TbA06G051550.1 Tamo6g02687 2687
6 58094853 58096204 - TbA06G036070.1 Tamo6g02911 2911
       
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