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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
Armi1g00680 Sain12g00573 . Cati3g00728 . Cien5g03123 Cich4g04306 Lssa7g03289 Laca7g02673 Tako4g04170 Tamo4g03059 Pslu1g21541 . Lomi2g04445 . Ecan3g02036 . . Artr3g11987 Aary5g02866 Aary13g03397 Aann4g01301 Chma7g08230 Chmo13g00648 Chmo14g00607 Chmo15g00484 Chla6g06131 Chna2g00468 Cind3g02585 Pdy4g00376 . . . . . . . . . . . . . . . . . . . . Cobi4g03194 Hean11g00625 . Bial16g02899 . . . . . . Smso7g00130 Smso29g00166 . . . . . . Stre6g00288 Mimi17g00290
Armi1g00684 Sain12g00574 Ceso2g01468 Cati3g00732 . . . . . . . Pslu1g21543 Lomi1g00221 . . Ecan3g02033 Soca5g02843 . . . . . Chma7g08233 Chmo13g00647 Chmo14g00606 Chmo15g00483 . Chna2g00467 Cind3g02584 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00686 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00687 Sain12g00577 Ceso2g01488 Cati3g00735 . . . . . . . Pslu1g21545 Lomi1g00220 Lomi2g04446 . Ecan3g02031 Soca5g02845 . . . . . Chma7g08235 Chmo13g00645 . Chmo15g00481 . Chna2g00465 Cind3g02581 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00688 Sain12g00578 Ceso2g01490 Cati3g00736 . Cien5g03119 Cich4g04295 Lssa7g03277 Laca7g02662 Tako4g04184 Tamo4g03077 Pslu1g21549 Lomi1g00219 Lomi2g04447 . Ecan3g02030 Soca5g02846 Glco3g00864 Artr3g12008 Aary5g02870 Aary13g03402 Aann4g01304 . Chmo13g00644 Chmo14g00603 Chmo15g00479 . Chna2g00464 Cind3g02580 Pdy4g00368 . Hean4g04351 . . . . . . . . . Smso26g01886 . . . . . . . Mimi9g01469 Cobi4g03200 Hean11g00609 Bial4g03505 Bial16g02907 Dapi7g00209 Dapi23g00228 Hetu32g00490 . Hetu33g00583 . Smso7g00133 Smso29g00172 . . . . Fra11g02590 Fli1g00202 Stre6g00283 Mimi17g00280
Armi1g00689 . Ceso2g01491 Cati3g00737 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
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Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 67569894 67572838 + chr4g0782091 Aann4g01301 1301
4 67727561 67732188 + chr4g0782231 Aann4g01304 1304
5 174537561 174539994 + Aargg5g28660.1 Aary5g02866 2866
5 174706135 174708072 + Aargg5g28700.1 Aary5g02870 2870
13 203140348 203142772 + Aargg13g33970.1 Aary13g03397 3397
13 203261881 203264177 + Aargg13g34020.1 Aary13g03402 3402
1 15955815 15958623 + AmiAMIRv0_Chr01g0006801 Armi1g00680 680
1 16006900 16012065 + AmiAMIRv0_Chr01g0006841 Armi1g00684 684
1 16091794 16093254 + AmiAMIRv0_Chr01g0006861 Armi1g00686 686
1 16116846 16117154 + AmiAMIRv0_Chr01g0006871 Armi1g00687 687
1 16139187 16140911 + AmiAMIRv0_Chr01g0006881 Armi1g00688 688
1 16143038 16146079 - AmiAMIRv0_Chr01g0006891 Armi1g00689 689
3 410492024 410494080 + AtridAMIRv0_Chr03g0427231 Artr3g11987 11987
3 411537565 411539483 + AtridAMIRv0_Chr03g0427441 Artr3g12008 12008
4 79625379 79627423 + g43344.t1 Bial4g03505 3505
16 73507410 73509697 - g127301.t1 Bial16g02899 2899
16 73705935 73708224 + g127293.t1 Bial16g02907 2907
3 7892700 7896002 + CtAH03T0051700.1 Cati3g00728 728
3 7924634 7934859 + CtAH03T0052000.2 Cati3g00732 732
3 7953434 7960051 + CtAH03T0052200.1 Cati3g00735 735
3 7962917 7965364 + CtAH03T0052300.1 Cati3g00736 736
3 7965835 7970818 - CtAH03T0052400.1 Cati3g00737 737
2 30897964 30904817 + >KAJ9560795.1 Ceso2g01468 1468
2 31477987 31486228 + >KAJ9561172.1 Ceso2g01488 1488
2 31538268 31540150 + >KAJ9561170.1 Ceso2g01490 1490
2 31541321 31545076 - >KAJ9561173.1 Ceso2g01491 1491
6 248431625 248433723 + ClaG1_Chr06g0433781 Chla6g06131 6131
7 281142810 281145007 - CmaNakai_Chr07g0705321 Chma7g08230 8230
7 281389032 281391160 + CmaNakai_Chr07g0705351 Chma7g08233 8233
7 281468907 281471081 + CmaNakai_Chr07g0705371 Chma7g08235 8235
13 29966677 29969066 - evm.model.scaffold_1663.90 Chmo13g00644 644
13 30075769 30077948 - evm.model.scaffold_1663.95 Chmo13g00645 645
13 30194198 30195881 - evm.model.scaffold_1663.98 Chmo13g00647 647
13 30203348 30205858 - evm.model.scaffold_1663.99 Chmo13g00648 648
14 27161566 27163913 - evm.model.scaffold_464.246 Chmo14g00603 603
14 27232696 27234371 - evm.model.scaffold_464.240 Chmo14g00606 606
14 27254588 27257085 - evm.model.scaffold_464.239 Chmo14g00607 607
15 25069428 25071185 - evm.model.scaffold_530.76 Chmo15g00479 479
15 25288803 25292490 - evm.model.scaffold_530.92 Chmo15g00481 481
15 25307971 25309646 - evm.model.scaffold_530.95 Chmo15g00483 483
15 25376897 25379330 - evm.model.scaffold_530.97 Chmo15g00484 484
2 32296925 32305743 - Cn0777420 Chna2g00464 464
2 32420848 32422956 - Cn0777430 Chna2g00465 465
2 32456731 32458767 - Cn0777450 Chna2g00467 467
2 32469569 32472505 - Cn0777460 Chna2g00468 468
4 125726056 125728188 - KAI3753430.1 Cich4g04295 4295
4 126011310 126012842 - KAI3753441.1 Cich4g04306 4306
5 74849451 74851575 - KAI3509639.1 Cien5g03119 3119
5 74974207 74975737 - KAI3509643.1 Cien5g03123 3123
3 345172168 345173949 + D.indicum_Contig247_G00039.t1 Cind3g02580 2580
3 345045451 345045750 + D.indicum_Contig247_G00040.t1 Cind3g02581 2581
3 344963699 344965374 + D.indicum_Contig247_G00043.t1 Cind3g02584 2584
3 344937492 344939464 + D.indicum_Contig247_G00044.t1 Cind3g02585 2585
4 81487170 81488891 - h2tg000009l_1.g42085.t1 Cobi4g03194 3194
4 81579853 81583246 + h2tg000009l_1.g42079.t1 Cobi4g03200 3200
7 4273634 4275429 - h1tg000136l.g124455.t1 Dapi7g00209 209
23 4836646 4838440 - h2tg000284l.g80817.t1 Dapi23g00228 228
3 31273896 31276747 - XM_043766115.1 Ecan3g02030 2030
3 31280131 31280760 - XM_043766383.1 Ecan3g02031 2031
3 31295130 31296640 - XM_043767038.1 Ecan3g02033 2033
3 31304773 31306399 - XM_043766922.1 Ecan3g02036 2036
1 4176371 4177702 - FliAMIRv0_Chr01g0001971 Fli1g00202 202
11 79459916 79461252 + FraAMIRv0_Chr11g0226121 Fra11g02590 2590
3 49778359 49780085 - GcoAMIRv0_Chr03g0164931 Glco3g00864 864
4 204213713 204216475 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0189721 Hean4g04351 4351
11 11913173 11915540 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0472971 Hean11g00609 609
11 12204658 12206765 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0473171 Hean11g00625 625
32 18770200 18772387 - >Htub.h1tg001632l.g194.t1 Hetu32g00490 490
33 18599401 18601807 - >Htub.h1tg000883l.g46.t1 Hetu33g00583 583
7 127952240 127954931 - CAI9294846.1 Laca7g02662 2662
7 128480167 128482394 - CAI9294857.1 Laca7g02673 2673
1 1891365 1893056 - LmiAMIRv0_Chr01g0002191 Lomi1g00219 219
1 1896858 1897181 - LmiAMIRv0_Chr01g0002201 Lomi1g00220 220
1 1904237 1905930 - LmiAMIRv0_Chr01g0002211 Lomi1g00221 221
2 49609780 49612143 + LmiAMIRv0_Chr02g0089781 Lomi2g04445 4445
2 49625383 49625706 + LmiAMIRv0_Chr02g0089791 Lomi2g04446 4446
2 49632425 49634115 + LmiAMIRv0_Chr02g0089801 Lomi2g04447 4447
7 174184428 174186957 - >KAJ0196060.1 Lssa7g03277 3277
7 174983929 174986134 - >KAJ0198035.1 Lssa7g03289 3289
9 51041947 51052796 + KAD5318204.1 Mimi9g01469 1469
17 8221180 8232427 - KAD3066602.1 Mimi17g00280 280
17 8405924 8407467 + KAD3066612.1 Mimi17g00290 290
4 7230532 7232230 - PdyAMIRv0_Chr04g0151761 Pdy4g00368 368
4 7306838 7308434 - PdyAMIRv0_Chr04g0151841 Pdy4g00376 376
1 154642951 154645304 + PluAMIRv0_Chr01g0214461 Pslu1g21541 21541
1 154653530 154655171 + PluAMIRv0_Chr01g0214481 Pslu1g21543 21543
1 154661387 154661692 + PluAMIRv0_Chr01g0214501 Pslu1g21545 21545
1 154680005 154681616 + PluAMIRv0_Chr01g0214541 Pslu1g21549 21549
12 12749692 12753528 + SinAMIRv0_Chr12g0361371 Sain12g00573 573
12 12774506 12776407 + SinAMIRv0_Chr12g0361381 Sain12g00574 574
12 12811730 12812059 + SinAMIRv0_Chr12g0361411 Sain12g00577 577
12 12821066 12823187 + SinAMIRv0_Chr12g0361421 Sain12g00578 578
7 2192111 2193527 + KAI3809710.1 Smso7g00130 130
7 2297720 2302909 + KAI3809713.1 Smso7g00133 133
26 36524480 36530023 + KAI3695371.1 Smso26g01886 1886
29 2549495 2550962 + KAI3675160.1 Smso29g00166 166
29 2631221 2634096 + KAI3675166.1 Smso29g00172 172
5 31378395 31380389 + augustus47791.t01 Soca5g02843 2843
5 31409571 31409861 + genewise41052.t01 Soca5g02845 2845
5 31427378 31429867 + transfrag31973.t01 Soca5g02846 2846
6 7774353 7783936 - Streb.6G002830.1 Stre6g00283 283
6 7871538 7873786 + Streb.6G002880.1 Stre6g00288 288
4 94048732 94050911 + TkA04G374170.1 Tako4g04170 4170
4 94757720 94760776 - TkA04G375970.1 Tako4g04184 4184
4 58376918 58379365 + TbA04G023990.1 Tamo4g03059 3059
4 58778723 58780454 - TbA04G023570.1 Tamo4g03077 3077
       
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