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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
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
. Sain12g00406 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. Sain12g00407 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00457 Sain12g00412 Ceso2g01342 . Ccar2g02012 Cien5g03221 Cich4g04514 Lssa7g03471 Laca7g02820 . . Pslu1g21252 . . Enbr6g00790 Ecan3g02172 Soca5g02487 Glco3g01181 . . . Aann4g01106 . Chmo13g00798 . Chmo15g00677 . Chna2g00663 Cind3g01669 Pdy4g00525 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00458 Sain12g00413 . . . Cien5g03219 Cich4g04513 Lssa7g03470 Laca7g02819 Tako4g03936 Tamo4g02847 Pslu1g21253 Lomi1g00310 . . Ecan3g02171 Soca5g02488 Glco3g01169 . . . . . Chmo13g00793 . Chmo15g00674 Chla6g05928 Chna2g00661 Cind3g01667 Pdy4g00524 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00459 Sain12g00414 . Cati3g00511 Ccar2g02011 Cien5g03218 Cich4g04512 Lssa7g03468 Laca7g02816 Tako4g03938 Tamo4g02849 Pslu1g21254 Lomi1g00308 . . Ecan3g02170 Soca5g02489 Glco3g01168 Artr3g11566 Aary5g02785 . Aann4g01113 . Chmo13g00791 . Chmo15g00670 Chla6g05931 Chna2g00659 Cind3g01664 Pdy4g00523 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. Sain12g00415 Ceso2g01343 Cati3g00512 . Cien5g03217 Cich4g04511 Lssa7g03466 . Tako4g03941 Tamo4g02851 Pslu1g21256 Lomi1g00307 Lomi2g04353 . Ecan3g02164 Soca5g02706 Glco3g01167 Artr3g11568 Aary5g02786 . Aann4g01115 . Chmo13g00789 Chmo14g04027 Chmo15g00669 Chla6g05935 Chna2g00658 Cind3g01661 Pdy4g00522 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00460 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00463 Sain12g00420 Ceso2g01349 . Ccar2g02007 Cien5g03210 Cich4g04503 Lssa7g03463 . Tako4g03946 Tamo4g02857 Pslu1g21260 Lomi1g00304 Lomi2g04355 . Ecan3g02162 Soca5g02493 Glco3g01146 . . . . . . . . Chla6g05945 Chna2g00641 Cind3g01652 Pdy4g00519 Cobi6g01368 Hean15g03936 Bial24g02220 Bial12g02360 . . Hetu17g02501 Hetu16g02611 Hetu18g02774 Amtr02g04088 . Smso13g00218 . . . . . . Stre9g01590 . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 60105629 60115724 + chr4g0775591 Aann4g01106 1106
4 60264025 60266529 - chr4g0775771 Aann4g01113 1113
4 60342529 60344731 + chr4g0775841 Aann4g01115 1115
5 165516751 165519163 - Aargg5g27850.1 Aary5g02785 2785
5 165645439 165648875 + Aargg5g27860.1 Aary5g02786 2786
2 81477829 81479938 + AtrifAMIRv0_Chr02g0136841 Amtr02g04088 4088
1 9064875 9075615 + AmiAMIRv0_Chr01g0004571 Armi1g00457 457
1 9081860 9083086 + AmiAMIRv0_Chr01g0004581 Armi1g00458 458
1 9086816 9090438 - AmiAMIRv0_Chr01g0004591 Armi1g00459 459
1 9133856 9134247 + AmiAMIRv0_Chr01g0004601 Armi1g00460 460
1 9194693 9196982 - AmiAMIRv0_Chr01g0004631 Armi1g00463 463
3 391373914 391374987 - AtridAMIRv0_Chr03g0423021 Artr3g11566 11566
3 391514421 391517113 + AtridAMIRv0_Chr03g0423041 Artr3g11568 11568
12 53921534 53923668 - g35559.t1 Bial12g02360 2360
24 52783769 52786771 - g67886.t1 Bial24g02220 2220
3 5117919 5122891 - CtAH03T0035700.1 Cati3g00511 511
3 5135026 5138627 + CtAH03T0035800.1 Cati3g00512 512
2 66966403 66996983 + gnl|WGS:LEKV|Ccrd_011054.mRNA.1_mrna Ccar2g02007 2007
2 67057344 67061849 + gnl|WGS:LEKV|Ccrd_011058.mRNA.1_mrna Ccar2g02011 2011
2 67070146 67078750 - gnl|WGS:LEKV|Ccrd_011059.mRNA.1_mrna Ccar2g02012 2012
2 27120716 27128305 + >KAJ9560769.1 Ceso2g01342 1342
2 27147929 27150021 + >KAJ9560770.1 Ceso2g01343 1343
2 27223230 27229473 + >KAJ9560774.1 Ceso2g01349 1349
6 238577069 238577621 + ClaG1_Chr06g0431751 Chla6g05928 5928
6 238609034 238611513 - ClaG1_Chr06g0431781 Chla6g05931 5931
6 238736651 238739142 + ClaG1_Chr06g0431821 Chla6g05935 5935
6 239282829 239285842 - ClaG1_Chr06g0431921 Chla6g05945 5945
13 39288292 39290985 - evm.model.scaffold_461.167 Chmo13g00789 789
13 39306700 39310807 + evm.model.scaffold_461.169 Chmo13g00791 791
13 39330517 39331722 - evm.model.scaffold_461.171 Chmo13g00793 793
13 39627708 39637025 - evm.model.scaffold_461.186 Chmo13g00798 798
14 265274098 265285538 + evm.model.scaffold_956.83 Chmo14g04027 4027
15 37430530 37432746 - evm.model.scaffold_279.245 Chmo15g00669 669
15 37516703 37520175 + evm.model.scaffold_279.241 Chmo15g00670 670
15 37544870 37546069 - evm.model.scaffold_279.236 Chmo15g00674 674
15 37675885 37685634 - evm.model.scaffold_279.226 Chmo15g00677 677
2 46970262 46972780 + Cn0652930 Chna2g00641 641
2 49879008 49884342 - Cn0652250 Chna2g00658 658
2 50022527 50025072 + Cn0652240 Chna2g00659 659
2 50051785 50052993 - Cn0652210 Chna2g00661 661
2 50073609 50084059 - Cn0652190 Chna2g00663 663
4 131109205 131111323 - KAI3753638.1 Cich4g04503 4503
4 131304161 131306896 - KAI3753646.1 Cich4g04511 4511
4 131319264 131321306 + KAI3753647.1 Cich4g04512 4512
4 131349646 131350860 - KAI3753648.1 Cich4g04513 4513
4 131351356 131356784 - KAI3753649.1 Cich4g04514 4514
5 77499217 77501315 - KAI3509730.1 Cien5g03210 3210
5 77575624 77577986 - KAI3509737.1 Cien5g03217 3217
5 77592075 77594372 + KAI3509738.1 Cien5g03218 3218
5 77605004 77606266 - KAI3509739.1 Cien5g03219 3219
5 77606713 77615807 - KAI3509741.1 Cien5g03221 3221
3 330718021 330720130 - D.indicum_Contig189_G00016.t1 Cind3g01652 1652
3 329949329 329951668 + D.indicum_Contig189_G00025.t1 Cind3g01661 1661
3 329921718 329923922 - D.indicum_Contig189_G00028.t1 Cind3g01664 1664
3 329908008 329909602 + D.indicum_Contig189_G00031.t1 Cind3g01667 1667
3 329878642 329888204 + D.indicum_Contig189_G00033.t1 Cind3g01669 1669
6 11105817 11107882 + h2tg000021l_1.g11308.t1 Cobi6g01368 1368
3 32442124 32445425 + XM_043764914.1 Ecan3g02162 2162
3 32467314 32468972 + XM_043766950.1 Ecan3g02164 2164
3 32512345 32516744 + XM_043765055.1 Ecan3g02170 2170
3 32516902 32518119 - XM_043764162.1 Ecan3g02171 2171
3 32518589 32527065 - XM_043764163.1 Ecan3g02172 2172
6 27727692 27728772 - evm.model.ctg90.4 Enbr6g00790 790
3 69824302 69826410 + GcoAMIRv0_Chr03g0167751 Glco3g01146 1146
3 71540329 71543056 - GcoAMIRv0_Chr03g0167961 Glco3g01167 1167
3 71582987 71586936 + GcoAMIRv0_Chr03g0167971 Glco3g01168 1168
3 71587416 71588627 - GcoAMIRv0_Chr03g0167981 Glco3g01169 1169
3 72656612 72663562 - GcoAMIRv0_Chr03g0168101 Glco3g01181 1181
15 150939090 150941971 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716481 Hean15g03936 3936
16 138840978 138843096 - >Htub.h1tg001448l.g79.t1 Hetu16g02611 2611
17 131734248 131736100 - >Htub.h1tg000886l.g475.t1 Hetu17g02501 2501
18 139577929 139579781 - >Htub.h1tg002759l.g139.t1 Hetu18g02774 2774
7 135182841 135184818 + CAI9295004.1 Laca7g02816 2816
7 135217646 135218866 - CAI9295007.1 Laca7g02819 2819
7 135219291 135223599 - CAI9295008.1 Laca7g02820 2820
1 2601154 2603250 + LmiAMIRv0_Chr01g0003041 Lomi1g00304 304
1 2626472 2628788 - LmiAMIRv0_Chr01g0003071 Lomi1g00307 307
1 2632974 2635999 + LmiAMIRv0_Chr01g0003081 Lomi1g00308 308
1 2636771 2637685 - LmiAMIRv0_Chr01g0003101 Lomi1g00310 310
2 48886001 48888374 + LmiAMIRv0_Chr02g0088861 Lomi2g04353 4353
2 48904584 48906680 - LmiAMIRv0_Chr02g0088881 Lomi2g04355 4355
7 183432762 183435177 - >KAJ0195824.1 Lssa7g03463 3463
7 183721411 183722534 - >KAJ0195361.1 Lssa7g03466 3466
7 183745442 183747436 + >KAJ0196262.1 Lssa7g03468 3468
7 183848342 183849562 - >KAJ0196601.1 Lssa7g03470 3470
7 183849831 183854136 - >KAJ0198060.1 Lssa7g03471 3471
4 9730362 9732457 + PdyAMIRv0_Chr04g0153261 Pdy4g00519 519
4 9786750 9789015 - PdyAMIRv0_Chr04g0153291 Pdy4g00522 522
4 9800974 9804334 + PdyAMIRv0_Chr04g0153301 Pdy4g00523 523
4 9804601 9805854 - PdyAMIRv0_Chr04g0153311 Pdy4g00524 524
4 9823608 9837518 - PdyAMIRv0_Chr04g0153321 Pdy4g00525 525
1 152794965 152796421 + PluAMIRv0_Chr01g0211581 Pslu1g21252 21252
1 152797983 152799197 + PluAMIRv0_Chr01g0211591 Pslu1g21253 21253
1 152799576 152803718 - PluAMIRv0_Chr01g0211601 Pslu1g21254 21254
1 152820369 152822550 + PluAMIRv0_Chr01g0211621 Pslu1g21256 21256
1 152849295 152851388 - PluAMIRv0_Chr01g0211661 Pslu1g21260 21260
12 8363516 8382582 + SinAMIRv0_Chr12g0359701 Sain12g00406 406
12 8462766 8471856 + SinAMIRv0_Chr12g0359711 Sain12g00407 407
12 8578875 8587755 + SinAMIRv0_Chr12g0359761 Sain12g00412 412
12 8591561 8592841 + SinAMIRv0_Chr12g0359771 Sain12g00413 413
12 8610288 8613956 - SinAMIRv0_Chr12g0359781 Sain12g00414 414
12 8667312 8669917 + SinAMIRv0_Chr12g0359791 Sain12g00415 415
12 8775118 8777483 - SinAMIRv0_Chr12g0359841 Sain12g00420 420
13 15597351 15600113 + KAI3786475.1 Smso13g00218 218
5 26894541 26903091 + asmbl_1974.p1 Soca5g02487 2487
5 26903558 26904793 + augustus16737.t01 Soca5g02488 2488
5 26905138 26909238 - transfrag11127.t01 Soca5g02489 2489
5 26969986 26973395 + asmbl_1975.p1 Soca5g02493 2493
5 29792483 29793813 + transfrag32096.t03 Soca5g02706 2706
9 27973996 27976906 - Streb.9G015900.1 Stre9g01590 1590
4 88627531 88628727 + TkA04G351220.1 Tako4g03936 3936
4 88634578 88637342 - TkA04G351240.1 Tako4g03938 3938
4 88690246 88694412 + TkA04G351440.2 Tako4g03941 3941
4 88798526 88802173 - TkA04G351990.1 Tako4g03946 3946
4 54005741 54012929 + TbA04G029490.1 Tamo4g02847 2847
4 54032882 54035664 - TbA04G029460.1 Tamo4g02849 2849
4 54094921 54099445 + TbA04G029400.1 Tamo4g02851 2851
4 54230164 54232762 + TbA04G029240.1 Tamo4g02857 2857
       
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