AGRP Logo

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
Armi1g00759 Sain12g00619 Ceso2g01537 Cati3g00792 Ccar2g01881 . . . . . . Pslu1g21636 Lomi1g00192 Lomi2g04477 Enbr6g01357 Ecan3g01995 Soca5g02877 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00761 Sain12g00620 Ceso2g01538 Cati3g00794 . . Cich4g04260 Lssa7g03216 Laca7g02613 Tako4g04308 Tamo4g03124 Pslu1g21638 Lomi1g00191 Lomi2g04478 Enbr6g01356 Ecan3g01994 Soca5g02878 Glco3g00775 Artr3g12138 Aary5g02899 Aary13g03446 Aann4g01347 . . . . . . . Pdy4g00326 . Hean4g04389 . . Dapi16g01986 . Hetu11g00355 Hetu12g00161 Hetu10g00182 . . Smso26g01961 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00769 Sain12g00621 . Cati3g00795 Ccar2g01879 . Cich4g04259 Lssa7g03215 Laca7g02612 Tako4g04331 Tamo4g03127 Pslu1g21649 Lomi1g00190 Lomi2g04480 Enbr6g01355 Ecan3g01991 Soca5g02879 Glco3g00774 Artr3g12167 Aary5g02904 Aary13g03451 Aann4g01350 . Chmo13g00569 Chmo14g00550 Chmo15g00407 . Chna2g00423 Cind3g02419 Pdy4g00325 . Hean4g04390 . . . . Hetu11g00356 . Hetu10g00181 . . . . . . . . . Stre6g00251 . Cobi4g03234 Hean16g00978 . . . . Hetu48g00788 Hetu46g00856 . Amtr01g04118 . . . . . . . . . .
Armi1g00770 Sain12g00622 Ceso2g01539 Cati3g00797 Ccar2g01878 . Cich4g04256 Lssa7g03213 Laca7g02611 Tako4g04332 Tamo4g03128 Pslu1g21651 Lomi1g00188 Lomi2g04481 Enbr6g01354 Ecan3g01990 Soca5g02880 Glco3g00085 Artr3g12175 Aary5g02905 Aary13g03452 Aann4g01351 . Chmo13g00568 Chmo14g00548 Chmo15g00405 . Chna2g00422 Cind3g02418 Pdy4g00320 . Hean4g04391 . . Dapi16g01987 . . . . . . Smso26g01967 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . Ceso2g01540 Cati3g00798 Ccar2g01877 . Cich4g04252 Lssa7g03207 . Tako4g04333 Tamo4g03131 Pslu1g21652 Lomi1g00187 . . Ecan3g01989 . . . . . . . Chmo13g00564 Chmo14g00544 Chmo15g00404 . Chna2g00421 Cind3g02414 Pdy4g00319 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 68663079 68668187 + chr4g0783201 Aann4g01347 1347
4 69111903 69117234 + chr4g0783551 Aann4g01350 1350
4 69122197 69127150 + chr4g0783561 Aann4g01351 1351
5 176829111 176835073 + Aargg5g28990.1 Aary5g02899 2899
5 177024017 177029285 + Aargg5g29040.1 Aary5g02904 2904
5 177034608 177038920 + Aargg5g29050.1 Aary5g02905 2905
13 207010598 207015569 + Aargg13g34460.1 Aary13g03446 3446
13 207269505 207274411 + Aargg13g34510.1 Aary13g03451 3451
13 207276900 207279773 + Aargg13g34520.1 Aary13g03452 3452
1 110960801 110963277 + AtrifAMIRv0_Chr01g0041181 Amtr01g04118 4118
1 18612109 18612519 - AmiAMIRv0_Chr01g0007591 Armi1g00759 759
1 18692379 18695975 + AmiAMIRv0_Chr01g0007611 Armi1g00761 761
1 19112052 19116843 + AmiAMIRv0_Chr01g0007691 Armi1g00769 769
1 19125346 19128436 + AmiAMIRv0_Chr01g0007701 Armi1g00770 770
3 416904429 417198940 + AtridAMIRv0_Chr03g0428741 Artr3g12138 12138
3 418156772 418158587 + AtridAMIRv0_Chr03g0429031 Artr3g12167 12167
3 418337630 418340347 + AtridAMIRv0_Chr03g0429111 Artr3g12175 12175
3 9021124 9024264 - CtAH03T0056400.1 Cati3g00792 792
3 9065514 9070087 + CtAH03T0056600.1 Cati3g00794 794
3 9070768 9076602 + CtAH03T0056700.1 Cati3g00795 795
3 9084648 9087959 + CtAH03T0056900.1 Cati3g00797 797
3 9123058 9127803 + CtAH03T0057000.1 Cati3g00798 798
2 65186455 65191310 - gnl|WGS:LEKV|Ccrd_010923.mRNA.1_mrna Ccar2g01877 1877
2 65222161 65224609 - gnl|WGS:LEKV|Ccrd_010924.mRNA.1_mrna Ccar2g01878 1878
2 65228041 65233938 - gnl|WGS:LEKV|Ccrd_010925.mRNA.1_mrna Ccar2g01879 1879
2 65251218 65254844 + gnl|WGS:LEKV|Ccrd_010927.mRNA.1_mrna Ccar2g01881 1881
2 32641698 32642109 - >KAJ9560849.1 Ceso2g01537 1537
2 32671854 32675403 + >KAJ9560848.1 Ceso2g01538 1538
2 32690044 32692368 + >KAJ9561193.1 Ceso2g01539 1539
2 32716844 32720126 + >KAJ9561195.1 Ceso2g01540 1540
13 25543799 25547310 - evm.model.scaffold_3155.164 Chmo13g00564 564
13 25782679 25783320 - evm.model.scaffold_3155.147 Chmo13g00568 568
13 25785276 25790487 - evm.model.scaffold_3155.146 Chmo13g00569 569
14 22561931 22565397 - evm.model.scaffold_735.233 Chmo14g00544 544
14 22845327 22845992 - evm.model.scaffold_735.222 Chmo14g00548 548
14 22964373 22965590 - evm.model.scaffold_735.216 Chmo14g00550 550
15 20863823 20867401 - evm.model.scaffold_6045.62 Chmo15g00404 404
15 20941920 20945041 - evm.model.scaffold_6045.66 Chmo15g00405 405
15 21084978 21086758 - evm.model.scaffold_6045.73 Chmo15g00407 407
2 26473679 26477712 - Cn0031200 Chna2g00421 421
2 26601823 26605347 - Cn0031180 Chna2g00422 422
2 26606857 26612215 - Cn0031170 Chna2g00423 423
4 124543927 124545916 - KAI3753387.1 Cich4g04252 4252
4 124632341 124634017 - KAI3753391.1 Cich4g04256 4256
4 124700820 124702043 - KAI3753394.1 Cich4g04259 4259
4 124708642 124710387 - KAI3753395.1 Cich4g04260 4260
3 350268930 350271056 + D.indicum_Contig231_G00063.t1 Cind3g02414 2414
3 350058666 350061284 + D.indicum_Contig231_G00067.t1 Cind3g02418 2418
3 350051399 350056540 + D.indicum_Contig231_G00068.t1 Cind3g02419 2419
4 81913376 81914839 + h2tg000009l_1.g42045.t1 Cobi4g03234 3234
16 77227952 77232782 - h1tg000026l.g56939.t1 Dapi16g01986 1986
16 77313680 77316023 + h1tg000026l.g56940.t1 Dapi16g01987 1987
3 30913625 30917679 - XM_043762690.1 Ecan3g01989 1989
3 30930602 30934770 - XM_043765343.1 Ecan3g01990 1990
3 30939586 30944802 - XM_043765345.1 Ecan3g01991 1991
3 30948412 30953033 - XM_043765344.1 Ecan3g01994 1994
3 30954623 30956235 + XM_043766232.1 Ecan3g01995 1995
6 47029356 47032550 - evm.model.ctg99.10 Enbr6g01354 1354
6 47036369 47038977 - evm.model.ctg99.9 Enbr6g01355 1355
6 47042796 47047581 - evm.model.ctg99.8 Enbr6g01356 1356
6 47052448 47052880 + evm.model.ctg99.7 Enbr6g01357 1357
3 7210657 7212593 + GcoAMIRv0_Chr03g0157141 Glco3g00085 85
3 44799012 44800882 - GcoAMIRv0_Chr03g0164031 Glco3g00774 774
3 45221884 45228628 - GcoAMIRv0_Chr03g0164041 Glco3g00775 775
4 204836427 204840465 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190161 Hean4g04389 4389
4 204880101 204880805 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190171 Hean4g04390 4390
4 204891114 204895542 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190181 Hean4g04391 4391
16 31368441 31370421 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0734041 Hean16g00978 978
10 7542942 7543858 - >Htub.h1tg000798l.g511.t1 Hetu10g00181 181
10 7583177 7586427 + >Htub.h1tg000798l.g510.t1 Hetu10g00182 182
11 11359831 11362803 - >Htub.h1tg002572l.g221.t1 Hetu11g00355 355
11 11415306 11416534 + >Htub.h1tg002572l.g222.t1 Hetu11g00356 356
12 6478954 6481879 + >Htub.h1tg004588l.g210.t1 Hetu12g00161 161
46 41904814 41905564 + >Htub.h1tg000900l.g16.t1 Hetu46g00856 856
48 40245922 40246671 + >Htub.h1tg000344l.g392.t1 Hetu48g00788 788
7 125005181 125007553 - CAI9294793.1 Laca7g02611 2611
7 125092122 125093844 - CAI9294794.1 Laca7g02612 2612
7 125101045 125102978 - CAI9294795.1 Laca7g02613 2613
1 1665291 1666330 - LmiAMIRv0_Chr01g0001871 Lomi1g00187 187
1 1674091 1676638 - LmiAMIRv0_Chr01g0001881 Lomi1g00188 188
1 1685050 1686740 - LmiAMIRv0_Chr01g0001901 Lomi1g00190 190
1 1697888 1701122 - LmiAMIRv0_Chr01g0001911 Lomi1g00191 191
1 1705292 1705712 + LmiAMIRv0_Chr01g0001921 Lomi1g00192 192
2 49857252 49857654 - LmiAMIRv0_Chr02g0090101 Lomi2g04477 4477
2 49861069 49864413 + LmiAMIRv0_Chr02g0090111 Lomi2g04478 4478
2 49878683 49880949 + LmiAMIRv0_Chr02g0090121 Lomi2g04480 4480
2 49885142 49887612 + LmiAMIRv0_Chr02g0090141 Lomi2g04481 4481
7 169914214 169915260 - >KAJ0196716.1 Lssa7g03207 3207
7 170283309 170285695 - >KAJ0195854.1 Lssa7g03213 3213
7 170419032 170420870 - >KAJ0194955.1 Lssa7g03215 3215
7 170430972 170432929 - >KAJ0197487.1 Lssa7g03216 3216
4 6420414 6425200 - PdyAMIRv0_Chr04g0151271 Pdy4g00319 319
4 6433421 6435443 - PdyAMIRv0_Chr04g0151281 Pdy4g00320 320
4 6482356 6483606 - PdyAMIRv0_Chr04g0151331 Pdy4g00325 325
4 6489767 6493868 - PdyAMIRv0_Chr04g0151341 Pdy4g00326 326
1 155338111 155338532 - PluAMIRv0_Chr01g0215411 Pslu1g21636 21636
1 155362945 155365313 + PluAMIRv0_Chr01g0215431 Pslu1g21638 21638
1 155420231 155421930 + PluAMIRv0_Chr01g0215541 Pslu1g21649 21649
1 155427708 155430434 + PluAMIRv0_Chr01g0215561 Pslu1g21651 21651
1 155443428 155444678 + PluAMIRv0_Chr01g0215571 Pslu1g21652 21652
12 14190031 14191188 - SinAMIRv0_Chr12g0361831 Sain12g00619 619
12 14229733 14233063 + SinAMIRv0_Chr12g0361841 Sain12g00620 620
12 14235515 14239559 + SinAMIRv0_Chr12g0361851 Sain12g00621 621
12 14246536 14249059 + SinAMIRv0_Chr12g0361861 Sain12g00622 622
26 42547675 42550818 - KAI3695446.1 Smso26g01961 1961
26 42598536 42600799 + KAI3695452.1 Smso26g01967 1967
5 31857334 31859348 - transfrag31947.t01 Soca5g02877 2877
5 31869834 31874067 + asmbl_5670.p1 Soca5g02878 2878
5 31891876 31895264 + augustus47753.t01 Soca5g02879 2879
5 31899033 31903216 + asmbl_5668.p1 Soca5g02880 2880
6 6780079 6782693 - Streb.6G002510.1 Stre6g00251 251
4 98243435 98245539 + TkA04G390660.1 Tako4g04308 4308
4 99056751 99058483 + TkA04G393910.1 Tako4g04331 4331
4 99112082 99114625 + TkA04G394150.1 Tako4g04332 4332
4 99123790 99128157 + TkA04G394220.1 Tako4g04333 4333
4 60354450 60356712 + TbA04G021500.1 Tamo4g03124 3124
4 60393817 60395796 + TbA04G021430.1 Tamo4g03127 3127
4 60398395 60400941 + TbA04G021420.1 Tamo4g03128 3128
4 60409765 60410945 - TbA04G021390.1 Tamo4g03131 3131
       
DecoBrowse