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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
Armi1g00439 Sain12g00390 . Cati3g00470 . . . . . . . Pslu1g21217 . Lomi2g04345 . Ecan3g02188 Soca5g02436 . . . . . . Chmo13g00810 . Chmo15g00688 . Chna2g00680 Cind3g01682 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00443 Sain12g00391 . . Ccar2g02023 Cien5g03236 Cich4g04523 Lssa7g03478 Laca7g02827 Tako4g03916 Tamo4g02840 Pslu1g21232 Lomi1g00323 Lomi2g04346 Enbr6g00782 Ecan3g02187 Soca5g02437 Glco3g01205 Artr3g11533 Aary5g02771 . Aann4g01093 . Chmo13g00809 . Chmo15g00687 . Chna2g00679 Cind3g01681 Pdy4g00535 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00444 Sain12g00392 . Cati3g00471 . Cien5g03235 Cich4g04522 Lssa7g03477 . Tako4g03917 . Pslu1g21233 Lomi1g00322 Lomi2g04347 . Ecan3g02186 Soca5g02680 Glco3g01204 . . . . . . . Chmo15g00686 . Chna2g00678 Cind3g01680 Pdy4g00534 . . . . . . . . . . . . . . . . . . . . Cobi4g03079 Hean11g00871 Bial4g03363 . Dapi7g00339 Dapi23g00362 Hetu32g00680 Hetu31g00642 Hetu33g00785 Amtr02g06952 . . . . . . . . Stre6g00438 Mimi17g00431
Armi1g00445 Sain12g00393 Ceso2g03467 Cati3g00472 Ccar2g02022 Cien5g03234 Cich4g04521 Lssa7g03476 Laca7g02826 Tako4g03919 Tamo4g02841 Pslu1g21234 Lomi1g00321 Lomi2g04348 Enbr6g00784 Ecan3g02184 Soca5g02438 Glco3g01203 Artr3g11535 Aary5g02773 . Aann4g01094 . Chmo13g00808 . Chmo15g00685 . Chna2g00677 Cind3g01679 Pdy4g00533 Cobi6g01375 Hean15g03947 Bial24g02212 Bial12g02354 . . Hetu17g02486 Hetu16g02603 Hetu18g02759 Amtr02g04095 . . . . . . . . Stre9g01577 Mimi9g01442 . . . . . . . . . . . . . . . . . . . .
Armi1g00446 Sain12g00394 Ceso2g03468 Cati3g00473 Ccar2g02021 Cien5g03229 Cich4g04520 Lssa7g03475 Laca7g02825 Tako4g03921 Tamo4g02842 Pslu1g21235 Lomi1g00320 Lomi2g04349 Enbr6g00785 Ecan3g02183 . Glco3g01202 Artr3g11536 Aary5g02774 . Aann4g01095 Chma7g07958 Chmo13g00807 . Chmo15g00684 . Chna2g00675 Cind3g01678 Pdy4g00532 Cobi6g01374 Hean15g03946 Bial24g02214 Bial12g02356 . . Hetu17g02488 Hetu16g02604 Hetu18g02761 Amtr02g04094 . . . . . . . . Stre9g01579 Mimi9g01444 . . . . . . . . . . . . . . . . . . . .
Armi1g00449 Sain12g00396 . . Ccar2g02020 Cien5g03226 . Lssa7g03474 Laca7g02824 . Tamo4g02843 Pslu1g21246 . Lomi2g04351 . Ecan3g02180 Soca5g02443 . . Aary5g02776 . Aann4g01098 . Chmo13g00806 . Chmo15g00681 Chla6g05917 Chna2g00672 Cind3g01676 . . . . . . . . . . . . . . . . . . . . . Cobi4g03083 Hean11g00869 Bial4g03370 Bial16g02767 Dapi7g00337 Dapi23g00360 Hetu32g00677 Hetu31g00639 Hetu33g00778 Amtr02g06957 . . . . . . . . Stre6g00436 Mimi17g00429
Armi1g00456 Sain12g00403 Ceso2g03473 Cati3g00475 Ccar2g02013 . . Lssa7g03472 . . . Pslu1g21251 Lomi1g00312 . . Ecan3g02174 . Glco3g01188 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. Sain12g00404 . . . . . . . . . . . . . . . . . . . . Chma7g08047 . . . . Chna2g00667 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 59638663 59642362 + chr4g0775221 Aann4g01093 1093
4 59643096 59649244 - chr4g0775231 Aann4g01094 1094
4 59651503 59661763 - chr4g0775241 Aann4g01095 1095
4 59769823 59770983 + chr4g0775341 Aann4g01098 1098
5 164355499 164358829 + Aargg5g27710.1 Aary5g02771 2771
5 164360905 164365837 - Aargg5g27730.1 Aary5g02773 2773
5 164369754 164375276 - Aargg5g27740.1 Aary5g02774 2774
5 164515623 164518367 + Aargg5g27760.1 Aary5g02776 2776
2 81557521 81561046 + AtrifAMIRv0_Chr02g0136901 Amtr02g04094 4094
2 81566452 81571086 + AtrifAMIRv0_Chr02g0136911 Amtr02g04095 4095
2 126811002 126812858 - AtrifAMIRv0_Chr02g0165481 Amtr02g06952 6952
2 126914494 126918365 + AtrifAMIRv0_Chr02g0165531 Amtr02g06957 6957
1 8563755 8565080 - AmiAMIRv0_Chr01g0004391 Armi1g00439 439
1 8611097 8616009 + AmiAMIRv0_Chr01g0004431 Armi1g00443 443
1 8616433 8617559 + AmiAMIRv0_Chr01g0004441 Armi1g00444 444
1 8617994 8624991 - AmiAMIRv0_Chr01g0004451 Armi1g00445 445
1 8639193 8645219 - AmiAMIRv0_Chr01g0004461 Armi1g00446 446
1 8699260 8704544 + AmiAMIRv0_Chr01g0004491 Armi1g00449 449
1 9033900 9047423 + AmiAMIRv0_Chr01g0004561 Armi1g00456 456
3 390316127 390319882 + AtridAMIRv0_Chr03g0422691 Artr3g11533 11533
3 390321876 390326138 - AtridAMIRv0_Chr03g0422711 Artr3g11535 11535
3 390350369 390354808 - AtridAMIRv0_Chr03g0422721 Artr3g11536 11536
4 76800707 76802002 - g43202.t1 Bial4g03363 3363
4 76875845 76877440 + g43209.t1 Bial4g03370 3370
12 53830037 53832861 - g35553.t1 Bial12g02354 2354
12 53846679 53849575 - g35555.t1 Bial12g02356 2356
16 70991161 70995818 + g127433.t1 Bial16g02767 2767
24 52701932 52704756 - g67878.t1 Bial24g02212 2212
24 52718574 52721470 - g67880.t1 Bial24g02214 2214
3 4366166 4374170 - CtAH03T0033600.1 Cati3g00470 470
3 4380118 4386524 + CtAH03T0033700.1 Cati3g00471 471
3 4386506 4391662 - CtAH03T0033800.1 Cati3g00472 472
3 4393775 4399734 - CtAH03T0033900.1 Cati3g00473 473
3 4408371 4417151 - CtAH03T0034000.2 Cati3g00475 475
2 67085264 67088788 - gnl|WGS:LEKV|Ccrd_011060.mRNA.1_mrna Ccar2g02013 2013
2 67276811 67282115 - gnl|WGS:LEKV|Ccrd_011067.mRNA.1_mrna Ccar2g02020 2020
2 67294270 67300821 + gnl|WGS:LEKV|Ccrd_011068.mRNA.1_mrna Ccar2g02021 2021
2 67303762 67313790 + gnl|WGS:LEKV|Ccrd_011069.mRNA.1_mrna Ccar2g02022 2022
2 67312997 67327879 - gnl|WGS:LEKV|Ccrd_011070.mRNA.1_mrna Ccar2g02023 2023
2 85505460 85509815 - >KAJ9562794.1 Ceso2g03467 3467
2 85528525 85533733 - >KAJ9562793.1 Ceso2g03468 3468
2 85656081 85665371 - >KAJ9563062.1 Ceso2g03473 3473
6 237661945 237669282 + ClaG1_Chr06g0431641 Chla6g05917 5917
7 271477093 271479694 - CmaNakai_Chr07g0702601 Chma7g07958 7958
7 274872976 274873221 + CmaNakai_Chr07g0703491 Chma7g08047 8047
13 40091230 40103665 - evm.model.scaffold_461.212 Chmo13g00806 806
13 40251022 40255674 + evm.model.scaffold_461.213 Chmo13g00807 807
13 40265379 40269643 + evm.model.scaffold_461.214 Chmo13g00808 808
13 40271344 40274926 - evm.model.scaffold_461.215 Chmo13g00809 809
13 40442133 40443888 + evm.model.scaffold_461.226 Chmo13g00810 810
15 38042266 38049106 - evm.model.scaffold_279.216 Chmo15g00681 681
15 38286187 38290622 + evm.model.scaffold_279.197 Chmo15g00684 684
15 38297138 38301717 + evm.model.scaffold_279.196 Chmo15g00685 685
15 38302016 38302918 - evm.model.scaffold_279.195 Chmo15g00686 686
15 38303417 38310473 - evm.model.scaffold_279.194 Chmo15g00687 687
15 38556975 38558400 + evm.model.scaffold_279.181 Chmo15g00688 688
2 50510474 50520946 - Cn0652140 Chna2g00667 667
2 50694537 50703101 - Cn0652060 Chna2g00672 672
2 50837426 50841745 + Cn0652030 Chna2g00675 675
2 50865307 50870003 + Cn0652010 Chna2g00677 677
2 50869994 50871280 - Cn0652000 Chna2g00678 678
2 50871718 50875265 - Cn0651990 Chna2g00679 679
2 51131304 51132593 + Cn0651980 Chna2g00680 680
4 131506067 131508634 + KAI3753655.1 Cich4g04520 4520
4 131526973 131529946 + KAI3753656.1 Cich4g04521 4521
4 131530196 131531915 - KAI3753657.1 Cich4g04522 4522
4 131534216 131536888 - KAI3753658.1 Cich4g04523 4523
5 77690524 77694264 - KAI3509746.1 Cien5g03226 3226
5 77707929 77710005 + KAI3509749.1 Cien5g03229 3229
5 77722003 77725082 + KAI3509754.1 Cien5g03234 3234
5 77725343 77726988 - KAI3509755.1 Cien5g03235 3235
5 77727675 77730569 - KAI3509756.1 Cien5g03236 3236
3 329318657 329325714 + D.indicum_Contig189_G00040.t1 Cind3g01676 1676
3 329119575 329123632 - D.indicum_Contig189_G00042.t1 Cind3g01678 1678
3 329111958 329116280 - D.indicum_Contig189_G00043.t1 Cind3g01679 1679
3 329110632 329111661 + D.indicum_Contig189_G00044.t1 Cind3g01680 1680
3 329106683 329109959 + D.indicum_Contig189_G00045.t1 Cind3g01681 1681
3 328985209 328986498 - D.indicum_Contig189_G00046.t1 Cind3g01682 1682
4 80012382 80013664 - h2tg000009l_1.g42200.t1 Cobi4g03079 3079
4 80057183 80067243 + h2tg000009l_1.g42196.t1 Cobi4g03083 3083
6 11143610 11146748 + h2tg000021l_1.g11302.t1 Cobi6g01374 1374
6 11147952 11151161 + h2tg000021l_1.g11301.t1 Cobi6g01375 1375
7 7144712 7148299 - h1tg000030l.g76927.t1 Dapi7g00337 337
7 7169464 7170147 + h1tg000030l.g76929.t1 Dapi7g00339 339
23 7830268 7838141 - h2tg000233l.g74324.t1 Dapi23g00360 360
23 7852742 7853432 + h2tg000233l.g74326.t1 Dapi23g00362 362
3 32550085 32554780 - XM_043764164.1 Ecan3g02174 2174
3 32614242 32618399 - XM_043766117.1 Ecan3g02180 2180
3 32626903 32632115 + XM_043764618.1 Ecan3g02183 2183
3 32632878 32637736 + XM_043763299.1 Ecan3g02184 2184
3 32637674 32639091 - XM_043763301.1 Ecan3g02186 2186
3 32639279 32642807 - XM_043763300.1 Ecan3g02187 2187
3 32646985 32651544 + XM_043766370.1 Ecan3g02188 2188
6 27566026 27569233 + evm.model.ctg5529.7 Enbr6g00782 782
6 27571221 27575347 - evm.model.ctg5529.5 Enbr6g00784 784
6 27576964 27582796 - evm.model.ctg5529.4 Enbr6g00785 785
3 73475900 73495193 - GcoAMIRv0_Chr03g0168171 Glco3g01188 1188
3 74054275 74059024 + GcoAMIRv0_Chr03g0168311 Glco3g01202 1202
3 74124874 74130172 + GcoAMIRv0_Chr03g0168321 Glco3g01203 1203
3 74130479 74131452 - GcoAMIRv0_Chr03g0168331 Glco3g01204 1204
3 74132168 74135639 - GcoAMIRv0_Chr03g0168341 Glco3g01205 1205
11 20431228 20435585 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476061 Hean11g00869 869
11 20531264 20534348 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0476091 Hean11g00871 871
15 151573845 151577948 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716621 Hean15g03946 3946
15 151578822 151583196 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716631 Hean15g03947 3947
16 138412778 138416785 - >Htub.h1tg001448l.g71.t1 Hetu16g02603 2603
16 138418015 138421586 - >Htub.h1tg001448l.g72.t1 Hetu16g02604 2604
17 130978206 130984788 - >Htub.h1tg000886l.g490.t1 Hetu17g02486 2486
17 130989033 130994774 - >Htub.h1tg000886l.g488.t1 Hetu17g02488 2488
18 138864810 138871376 - >Htub.h1tg002759l.g124.t1 Hetu18g02759 2759
18 138875620 138881361 - >Htub.h1tg002759l.g126.t1 Hetu18g02761 2761
31 25835407 25839887 - >Htub.h1tg001429l.g221.t1 Hetu31g00639 639
31 25951326 25952748 + >Htub.h1tg001429l.g218.t1 Hetu31g00642 642
32 29128571 29133053 - >Htub.h1tg002251l.g214.t1 Hetu32g00677 677
32 29241096 29243746 + >Htub.h1tg002251l.g211.t1 Hetu32g00680 680
33 30221708 30225324 - >Htub.h1tg001292l.g371.t1 Hetu33g00778 778
33 30409149 30410647 + >Htub.h1tg001292l.g378.t1 Hetu33g00785 785
7 135303615 135306481 - CAI9295012.1 Laca7g02824 2824
7 135364130 135366531 + CAI9295013.1 Laca7g02825 2825
7 135367509 135371012 + CAI9295014.1 Laca7g02826 2826
7 135372928 135379560 - CAI9295015.1 Laca7g02827 2827
1 2650098 2657975 - LmiAMIRv0_Chr01g0003121 Lomi1g00312 312
1 2727870 2731707 + LmiAMIRv0_Chr01g0003201 Lomi1g00320 320
1 2733077 2736379 + LmiAMIRv0_Chr01g0003211 Lomi1g00321 321
1 2736780 2737686 - LmiAMIRv0_Chr01g0003221 Lomi1g00322 322
1 2738165 2740757 - LmiAMIRv0_Chr01g0003231 Lomi1g00323 323
2 48818666 48819958 - LmiAMIRv0_Chr02g0088781 Lomi2g04345 4345
2 48825099 48827608 + LmiAMIRv0_Chr02g0088791 Lomi2g04346 4346
2 48828092 48828999 + LmiAMIRv0_Chr02g0088801 Lomi2g04347 4347
2 48829409 48832635 - LmiAMIRv0_Chr02g0088811 Lomi2g04348 4348
2 48833780 48836996 - LmiAMIRv0_Chr02g0088821 Lomi2g04349 4349
2 48847470 48852422 + LmiAMIRv0_Chr02g0088841 Lomi2g04351 4351
7 184014497 184032404 + >KAJ0195555.1 Lssa7g03472 3472
7 184056242 184058394 - >KAJ0198521.1 Lssa7g03474 3474
7 184082579 184085266 + >KAJ0197480.1 Lssa7g03475 3475
7 184085838 184088736 + >KAJ0194950.1 Lssa7g03476 3476
7 184088779 184089782 - >KAJ0196448.1 Lssa7g03477 3477
7 184093668 184096274 - >KAJ0195794.1 Lssa7g03478 3478
9 48960082 48969076 - KAD5318177.1 Mimi9g01442 1442
9 49039441 49044807 + KAD5318179.1 Mimi9g01444 1444
17 14570812 14571471 - KAD3066751.1 Mimi17g00429 429
17 14650776 14656854 + KAD3066753.1 Mimi17g00431 431
4 10032267 10036717 + PdyAMIRv0_Chr04g0153391 Pdy4g00532 532
4 10040463 10043824 + PdyAMIRv0_Chr04g0153401 Pdy4g00533 533
4 10044228 10045532 - PdyAMIRv0_Chr04g0153411 Pdy4g00534 534
4 10045949 10048680 - PdyAMIRv0_Chr04g0153421 Pdy4g00535 535
1 152546677 152547957 - PluAMIRv0_Chr01g0211231 Pslu1g21217 21217
1 152619368 152621936 + PluAMIRv0_Chr01g0211381 Pslu1g21232 21232
1 152622417 152623728 + PluAMIRv0_Chr01g0211391 Pslu1g21233 21233
1 152624162 152627417 - PluAMIRv0_Chr01g0211401 Pslu1g21234 21234
1 152630846 152634212 - PluAMIRv0_Chr01g0211411 Pslu1g21235 21235
1 152717572 152720284 + PluAMIRv0_Chr01g0211521 Pslu1g21246 21246
1 152767376 152775743 + PluAMIRv0_Chr01g0211571 Pslu1g21251 21251
12 7608887 7610203 - SinAMIRv0_Chr12g0359541 Sain12g00390 390
12 7634914 7638121 + SinAMIRv0_Chr12g0359551 Sain12g00391 391
12 7638569 7640066 + SinAMIRv0_Chr12g0359561 Sain12g00392 392
12 7640238 7645611 - SinAMIRv0_Chr12g0359571 Sain12g00393 393
12 7647901 7652410 - SinAMIRv0_Chr12g0359581 Sain12g00394 394
12 7700456 7706587 + SinAMIRv0_Chr12g0359601 Sain12g00396 396
12 8065814 8074514 + SinAMIRv0_Chr12g0359681 Sain12g00403 403
12 8023729 8209410 + SinAMIRv0_Chr12g0359671 Sain12g00404 404
5 26045543 26051946 - transfrag11084.t01 Soca5g02436 2436
5 26055637 26059724 + asmbl_1973.p1 Soca5g02437 2437
5 26060767 26065671 - transfrag11087.t01 Soca5g02438 2438
5 26099795 26113255 + transfrag11089.t04 Soca5g02443 2443
5 29502267 29503638 + transfrag32118.t02 Soca5g02680 2680
6 11662464 11667365 - Streb.6G004360.1 Stre6g00436 436
6 11696110 11698817 + Streb.6G004380.1 Stre6g00438 438
9 27670327 27673969 - Streb.9G015770.1 Stre9g01577 1577
9 27701101 27705465 - Streb.9G015790.1 Stre9g01579 1579
4 88279187 88282301 + TkA04G349670.1 Tako4g03916 3916
4 88283114 88284509 + TkA04G349680.1 Tako4g03917 3917
4 88284646 88287060 - TkA04G349690.2 Tako4g03919 3919
4 88357466 88362150 - TkA04G350060.1 Tako4g03921 3921
4 53885117 53888364 + TbA04G029580.1 Tamo4g02840 2840
4 53890844 53893863 - TbA04G029570.1 Tamo4g02841 2841
4 53922828 53925574 - TbA04G029560.1 Tamo4g02842 2842
4 53929057 53932500 + TbA04G029550.1 Tamo4g02843 2843
       
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