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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
Armi1g00887 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00889 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . Cati3g00938 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00897 Sain12g00708 Ceso2g01641 . Ccar2g01844 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00901 Sain12g00709 Ceso2g01642 Cati3g00942 Ccar2g01842 Cien5g03069 Cich4g04157 Lssa7g03106 Laca7g02534 Tako4g04475 Tamo4g03226 Pslu1g21749 Lomi1g00134 Lomi2g04526 Enbr6g01261 Ecan3g01908 Soca5g02982 Glco3g00302 Artr3g12422 Aary5g03000 . Aann4g01500 . Chmo13g00430 Chmo14g00386 Chmo15g00275 Chla6g06521 Chna2g00246 Cind3g03504 Pdy4g00234 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00902 Sain12g00710 . Cati3g00943 Ccar2g01841 . Cich4g04156 Lssa7g03105 Laca7g02533 Tako4g04477 . Pslu1g21750 Lomi1g00133 Lomi2g04527 Enbr6g01260 Ecan3g01907 Soca5g02987 Glco3g00303 Artr3g12423 Aary5g03001 . Aann4g01501 Chma7g08780 . . . Chla6g06522 Chna2g00245 Cind3g03503 Pdy4g00233 . . . . . . . . . . . . . . . . . . . . Cobi4g03308 Hean16g00876 Bial4g03616 Bial16g02961 Dapi7g00134 Dapi23g00151 . . . Amtr01g04255 Smso7g00205 Smso29g00244 Taer1g05679 Fro12g02530 Fso2g00227 Ftr4g03819 Fra11g02658 Fli1g00143 Stre6g00174 Mimi17g00165
Armi1g00903 Sain12g00711 . Cati3g00944 Ccar2g01840 Cien5g03066 Cich4g04153 Lssa7g03101 . . . Pslu1g21751 . Lomi2g04528 Enbr6g01257 Ecan3g01906 . Glco3g00307 Artr3g12427 . . Aann4g01502 . Chmo13g00427 Chmo14g00384 Chmo15g00273 . Chna2g00244 Cind3g03502 Pdy4g00226 . Hean4g04498 . . Dapi16g02040 . Hetu11g00100 Hetu12g00095 . Amtr06g04306 . Smso26g02048 . . . . . . . Mimi9g01559 . . . . . . . . . . . . . . . . . . . .
Armi1g00904 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 73799516 73804334 + chr4g0787691 Aann4g01500 1500
4 73805935 73809854 - chr4g0787701 Aann4g01501 1501
4 73818391 73820527 + chr4g0787711 Aann4g01502 1502
5 182795336 182800366 + Aargg5g30000.1 Aary5g03000 3000
5 182803775 182805978 - Aargg5g30010.1 Aary5g03001 3001
1 114643193 114645550 + AtrifAMIRv0_Chr01g0042551 Amtr01g04255 4255
6 95517157 95518327 + AtrifAMIRv0_Chr06g0431311 Amtr06g04306 4306
1 23548781 23549179 + AmiAMIRv0_Chr01g0008871 Armi1g00887 887
1 23570157 23571599 + AmiAMIRv0_Chr01g0008891 Armi1g00889 889
1 23749651 23751099 + AmiAMIRv0_Chr01g0008971 Armi1g00897 897
1 23811649 23813469 + AmiAMIRv0_Chr01g0009011 Armi1g00901 901
1 23815265 23817298 - AmiAMIRv0_Chr01g0009021 Armi1g00902 902
1 23896676 23897775 + AmiAMIRv0_Chr01g0009031 Armi1g00903 903
1 23921408 23921656 - AmiAMIRv0_Chr01g0009041 Armi1g00904 904
3 426258020 426258768 + AtridAMIRv0_Chr03g0431581 Artr3g12422 12422
3 426275811 426277965 - AtridAMIRv0_Chr03g0431591 Artr3g12423 12423
3 426500822 426506674 + AtridAMIRv0_Chr03g0431631 Artr3g12427 12427
4 81610810 81613647 + g62306.t1 Bial4g03616 3616
16 74608463 74611253 + g59566.t1 Bial16g02961 2961
3 12413745 12415041 + CtAH03T0067000.2 Cati3g00938 938
3 12472193 12475207 + CtAH03T0067300.1 Cati3g00942 942
3 12478708 12481884 - CtAH03T0067400.1 Cati3g00943 943
3 12546522 12548824 + CtAH03T0067500.1 Cati3g00944 944
2 64677799 64680702 - gnl|WGS:LEKV|Ccrd_010886.mRNA.1_mrna Ccar2g01840 1840
2 64715212 64717519 + gnl|WGS:LEKV|Ccrd_010887.mRNA.1_mrna Ccar2g01841 1841
2 64720407 64724390 - gnl|WGS:LEKV|Ccrd_010888.mRNA.1_mrna Ccar2g01842 1842
2 64732580 64733920 - gnl|WGS:LEKV|Ccrd_010890.mRNA.1_mrna Ccar2g01844 1844
2 34894780 34895406 + >KAJ9560970.1 Ceso2g01641 1641
2 34958771 34961094 + >KAJ9560968.1 Ceso2g01642 1642
6 267249650 267252049 + ClaG1_Chr06g0437681 Chla6g06521 6521
6 267257220 267259524 - ClaG1_Chr06g0437691 Chla6g06522 6522
7 297207050 297209068 - CmaNakai_Chr07g0710821 Chma7g08780 8780
13 19134723 19135382 - evm.model.scaffold_1427.2 Chmo13g00427 427
13 19275672 19279738 - evm.model.scaffold_1427.11 Chmo13g00430 430
14 16148619 16149057 - evm.model.scaffold_1782.17 Chmo14g00384 384
14 16165397 16169626 - evm.model.scaffold_1782.15 Chmo14g00386 386
15 14552584 14553234 - evm.model.scaffold_1588.125 Chmo15g00273 273
15 14570856 14574734 - evm.model.scaffold_1588.127 Chmo15g00275 275
2 14549916 14550801 - Cn1266800 Chna2g00244 244
2 14559302 14561423 + Cn1266790 Chna2g00245 245
2 14566413 14570504 - Cn1266780 Chna2g00246 246
4 121749137 121750180 - KAI3753288.1 Cich4g04153 4153
4 121808495 121810306 + KAI3753291.1 Cich4g04156 4156
4 121830116 121830871 - KAI3753292.1 Cich4g04157 4157
5 73195794 73196747 - KAI3509586.1 Cien5g03066 3066
5 73269114 73269870 - KAI3509589.1 Cien5g03069 3069
3 359385065 359396135 + D.indicum_Contig337_G00032.t1 Cind3g03502 3502
3 359382857 359384826 - D.indicum_Contig337_G00033.t1 Cind3g03503 3503
3 359376320 359377067 + D.indicum_Contig337_G00034.t1 Cind3g03504 3504
4 83249600 83252253 + h2tg000064l_1.g27523.t1 Cobi4g03308 3308
7 2792107 2794503 - h1tg000136l.g124530.t1 Dapi7g00134 134
16 80679161 80680021 + h1tg000026l.g56993.t1 Dapi16g02040 2040
23 3313255 3315376 - h2tg000064l.g12489.t1 Dapi23g00151 151
3 30054863 30056059 - XM_043766189.1 Ecan3g01906 1906
3 30061258 30063907 + XM_043765158.1 Ecan3g01907 1907
3 30067331 30069590 - XM_043765339.1 Ecan3g01908 1908
6 44333564 44333920 - evm.model.ctg2244.3 Enbr6g01257 1257
6 44349225 44350974 + evm.model.ctg2244.6 Enbr6g01260 1260
6 44367220 44368327 - evm.model.ctg2244.9 Enbr6g01261 1261
1 2816805 2818716 - FliAMIRv0_Chr01g0001391 Fli1g00143 143
11 80049744 80051712 + FraAMIRv0_Chr11g0226801 Fra11g02658 2658
12 33060233 33062254 + FroAMIRv0_Chr12g0220781 Fro12g02530 2530
2 3133754 3135328 + FsoAMIRv0_Chr02g0030461 Fso2g00227 227
4 122100342 122102360 + FtrAMIRv0_Chr04g0132531 Ftr4g03819 3819
3 16045804 16046549 + GcoAMIRv0_Chr03g0159311 Glco3g00302 302
3 16049710 16051705 - GcoAMIRv0_Chr03g0159321 Glco3g00303 303
3 16097578 16097983 + GcoAMIRv0_Chr03g0159361 Glco3g00307 307
4 206533752 206538291 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191431 Hean4g04498 4498
16 26649598 26653183 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0732751 Hean16g00876 876
11 3727321 3730684 - >Htub.h1tg000030l.g154.t1 Hetu11g00100 100
12 3769557 3771330 - >Htub.h1tg000754l.g299.t1 Hetu12g00095 95
7 120787695 120790517 + CAI9294711.1 Laca7g02533 2533
7 120852183 120855666 + CAI9294712.1 Laca7g02534 2534
1 1170642 1172487 + LmiAMIRv0_Chr01g0001331 Lomi1g00133 133
1 1179232 1180040 - LmiAMIRv0_Chr01g0001341 Lomi1g00134 134
2 50318917 50319723 + LmiAMIRv0_Chr02g0090591 Lomi2g04526 4526
2 50326892 50328727 - LmiAMIRv0_Chr02g0090601 Lomi2g04527 4527
2 50340037 50340420 + LmiAMIRv0_Chr02g0090611 Lomi2g04528 4528
7 164127955 164128789 - >KAJ0197194.1 Lssa7g03101 3101
7 164318861 164321365 + >KAJ0196502.1 Lssa7g03105 3105
7 164347728 164350261 + >KAJ0197977.1 Lssa7g03106 3106
9 57598056 57599495 + KAD5318294.1 Mimi9g01559 1559
17 4493536 4496239 - KAD3066487.1 Mimi17g00165 165
4 4757397 4758320 - PdyAMIRv0_Chr04g0150341 Pdy4g00226 226
4 4855600 4860156 + PdyAMIRv0_Chr04g0150411 Pdy4g00233 233
4 4861923 4866174 - PdyAMIRv0_Chr04g0150421 Pdy4g00234 234
1 156287523 156288323 + PluAMIRv0_Chr01g0216541 Pslu1g21749 21749
1 156294238 156296052 - PluAMIRv0_Chr01g0216551 Pslu1g21750 21750
1 156303656 156304029 + PluAMIRv0_Chr01g0216561 Pslu1g21751 21751
12 16548320 16549627 + SinAMIRv0_Chr12g0362721 Sain12g00708 708
12 16553902 16555579 + SinAMIRv0_Chr12g0362731 Sain12g00709 709
12 16560457 16563880 - SinAMIRv0_Chr12g0362741 Sain12g00710 710
12 16725247 16725588 + SinAMIRv0_Chr12g0362751 Sain12g00711 711
7 3546705 3548790 + KAI3809785.1 Smso7g00205 205
26 46673705 46680265 + KAI3695533.1 Smso26g02048 2048
29 3872797 3874775 + KAI3675238.1 Smso29g00244 244
5 33348720 33351081 + transfrag31852.t01 Soca5g02982 2982
5 33370482 33372706 - transfrag31850.t01 Soca5g02987 2987
6 4393158 4395818 - Streb.6G001740.1 Stre6g00174 174
1 51641210 51643280 + >KAK1439857.1 Taer1g05679 5679
4 103356085 103357801 - TkA04G410420.1 Tako4g04475 4475
4 103392315 103394595 - TkA04G410540.2 Tako4g04477 4477
4 62251569 62253404 - TbA04G019220.1 Tamo4g03226 3226
       
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