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.


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
. . . Cati3g01014 Ccar2g01790 . Cich4g04078 Lssa7g03033 . Tako4g04553 Tamo4g03325 . . . Enbr6g03599 Ecan3g01854 Soca5g03032 Glco3g00432 Artr3g12631 . . Aann4g01598 Chma7g09091 Chmo13g00322 Chmo14g00332 . Chla6g06692 Chna2g00149 Cind3g04261 Pdy4g00127 . Hean4g04534 . . . Dapi23g00103 Hetu11g00066 Hetu12g00066 . Amtr06g04391 . Smso26g02078 . . . . . . Stre6g00143 Mimi9g01585 . . . . . . . . . . . . . . . . . . . .
Armi1g00991 Sain12g00798 Ceso2g01665 . . . . . . . . Pslu1g21825 . Lomi2g04565 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00992 Sain12g00799 Ceso2g01666 Cati3g01018 Ccar2g01789 Cien5g03024 Cich4g04077 Lssa7g03032 . Tako4g04554 Tamo4g03326 Pslu1g21827 . Lomi2g04566 Enbr6g02972 Ecan3g01853 Soca5g03033 Glco3g00433 Artr3g12633 . . Aann4g01601 Chma7g09093 Chmo13g00323 Chmo14g00331 . Chla6g06695 Chna2g00148 Cind3g04263 Pdy4g00126 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . Chma7g09096 Chmo13g00325 Chmo14g00329 . Chla6g06698 Chna2g00146 Cind3g04265 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00996 Sain12g00803 Ceso2g01674 Cati3g01023 Ccar2g01786 Cien5g03021 Cich4g04072 Lssa7g03023 Laca7g02466 Tako4g04558 Tamo4g03332 Pslu1g21830 Lomi1g00094 Lomi2g04569 . Ecan3g01849 Soca5g03040 Glco3g00436 Artr3g12639 . . Aann4g01607 Chma7g09101 Chmo13g00326 Chmo14g00328 . Chla6g06703 Chna2g00145 Cind3g04266 Pdy4g00121 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . Chna2g00144 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g01243 Sain12g00805 . . Ccar2g01784 . . . . . . Pslu1g21832 Lomi1g00093 Lomi2g04571 . Ecan3g01846 Soca5g03043 . . . . . Chma7g09103 Chmo13g00331 Chmo14g00325 . Chla6g06705 Chna2g00143 Cind3g04268 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
First Page 72 of 3145 Last
Gene_GFF
Chromosome Start End Strand Old_gene Gene Num
4 76496729 76502593 + chr4g0790211 Aann4g01598 1598
4 76525465 76529135 + chr4g0790251 Aann4g01601 1601
4 76586935 76588792 + chr4g0790321 Aann4g01607 1607
6 97392730 97396218 + AtrifAMIRv0_Chr06g0432161 Amtr06g04391 4391
1 26843796 26851851 + AmiAMIRv0_Chr01g0009911 Armi1g00991 991
1 26853788 26854637 + AmiAMIRv0_Chr01g0009921 Armi1g00992 992
1 27148524 27150320 + AmiAMIRv0_Chr01g0009961 Armi1g00996 996
1 35569862 35571086 + AmiAMIRv0_Chr01g0012431 Armi1g01243 1243
3 434805813 434811426 + AtridAMIRv0_Chr03g0433671 Artr3g12631 12631
3 434915880 434917532 + AtridAMIRv0_Chr03g0433691 Artr3g12633 12633
3 435220868 435222364 + AtridAMIRv0_Chr03g0433751 Artr3g12639 12639
3 14256757 14264185 + CtAH03T0073100.1 Cati3g01014 1014
3 14266407 14267036 + CtAH03T0073200.4 Cati3g01018 1018
3 14391672 14394949 + CtAH03T0073600.1 Cati3g01023 1023
2 63844008 63844463 - gnl|WGS:LEKV|Ccrd_010829.mRNA.1_mrna Ccar2g01784 1784
2 63876515 63878572 - gnl|WGS:LEKV|Ccrd_010832.mRNA.1_mrna Ccar2g01786 1786
2 63929991 63931200 - gnl|WGS:LEKV|Ccrd_010835.mRNA.1_mrna Ccar2g01789 1789
2 63932786 63939752 - gnl|WGS:LEKV|Ccrd_010836.mRNA.1_mrna Ccar2g01790 1790
2 36099276 36107259 + >KAJ9561217.1 Ceso2g01665 1665
2 36108610 36109706 + >KAJ9561215.1 Ceso2g01666 1666
2 36217214 36218879 + >KAJ9561020.1 Ceso2g01674 1674
6 273342533 273348408 + ClaG1_Chr06g0439391 Chla6g06692 6692
6 273438922 273440914 + ClaG1_Chr06g0439421 Chla6g06695 6695
6 273467018 273470453 - ClaG1_Chr06g0439451 Chla6g06698 6698
6 273758845 273760339 + ClaG1_Chr06g0439501 Chla6g06703 6703
6 273806535 273806969 + ClaG1_Chr06g0439521 Chla6g06705 6705
7 305843147 305847711 + CmaNakai_Chr07g0713931 Chma7g09091 9091
7 305870408 305872199 + CmaNakai_Chr07g0713951 Chma7g09093 9093
7 305900602 305903923 - CmaNakai_Chr07g0713981 Chma7g09096 9096
7 305947298 305948782 + CmaNakai_Chr07g0714031 Chma7g09101 9101
7 305976034 305976291 + CmaNakai_Chr07g0714051 Chma7g09103 9103
13 13974282 13982026 + evm.model.scaffold_927.58 Chmo13g00322 322
13 14115315 14117881 + evm.model.scaffold_927.61 Chmo13g00323 323
13 14214684 14218941 - evm.model.scaffold_927.65 Chmo13g00325 325
13 14236147 14237628 + evm.model.scaffold_927.67 Chmo13g00326 326
13 14420939 14421897 + evm.model.scaffold_927.79 Chmo13g00331 331
14 13762440 13762865 - evm.model.scaffold_5211.45 Chmo14g00325 325
14 13806120 13806769 - evm.model.scaffold_5211.49 Chmo14g00328 328
14 13869673 13872746 + evm.model.scaffold_5211.51 Chmo14g00329 329
14 13914074 13916018 - evm.model.scaffold_5211.54 Chmo14g00331 331
14 13966431 13971936 - evm.model.scaffold_5211.55 Chmo14g00332 332
2 8839342 8839767 - Cn1268830 Chna2g00143 143
2 8910987 8922941 - Cn1268820 Chna2g00144 144
2 8951249 8952799 - Cn1268810 Chna2g00145 145
2 9103303 9106384 + Cn1268770 Chna2g00146 146
2 9152650 9155126 - Cn1268750 Chna2g00148 148
2 9221029 9225632 - Cn1268700 Chna2g00149 149
4 119319721 119321930 - KAI3753207.1 Cich4g04072 4072
4 119405055 119406001 - KAI3753212.1 Cich4g04077 4077
4 119423639 119434079 - KAI3753213.1 Cich4g04078 4078
5 72343214 72345378 - KAI3509541.1 Cien5g03021 3021
5 72408098 72409857 - KAI3509544.1 Cien5g03024 3024
3 365502128 365509392 + D.indicum_Contig50_G00077.t1 Cind3g04261 4261
3 365524558 365532575 + D.indicum_Contig50_G00079.t1 Cind3g04263 4263
3 365575390 365582491 - D.indicum_Contig50_G00081.t1 Cind3g04265 4265
3 365637831 365639026 + D.indicum_Contig50_G00082.t1 Cind3g04266 4266
3 365673046 365673471 + D.indicum_Contig50_G00084.t1 Cind3g04268 4268
23 2130061 2135794 - h2tg000064l.g12441.t1 Dapi23g00103 103
3 29548675 29549130 - XM_043764096.1 Ecan3g01846 1846
3 29568910 29570843 - XM_043762801.1 Ecan3g01849 1849
3 29601012 29602241 - XM_043765757.1 Ecan3g01853 1853
3 29604408 29610903 - XM_043764098.1 Ecan3g01854 1854
6 109094943 109096369 - evm.model.ctg3752.2 Enbr6g02972 2972
6 133385203 133385805 + evm.model.ctg4696.4 Enbr6g03599 3599
3 23760993 23765901 + GcoAMIRv0_Chr03g0160611 Glco3g00432 432
3 23861823 23863576 + GcoAMIRv0_Chr03g0160621 Glco3g00433 433
3 24171695 24173247 + GcoAMIRv0_Chr03g0160651 Glco3g00436 436
4 206928718 206940423 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191821 Hean4g04534 4534
11 2724404 2733667 - >Htub.h1tg000030l.g118.t1 Hetu11g00066 66
12 3096824 3105494 - >Htub.h1tg000754l.g269.t1 Hetu12g00066 66
7 116826906 116828873 - CAI9294640.1 Laca7g02466 2466
1 871535 871993 - LmiAMIRv0_Chr01g0000931 Lomi1g00093 93
1 887455 889059 - LmiAMIRv0_Chr01g0000941 Lomi1g00094 94
2 50603358 50607748 + LmiAMIRv0_Chr02g0090981 Lomi2g04565 4565
2 50608462 50609361 + LmiAMIRv0_Chr02g0090991 Lomi2g04566 4566
2 50649253 50650850 + LmiAMIRv0_Chr02g0091021 Lomi2g04569 4569
2 50659823 50660284 + LmiAMIRv0_Chr02g0091041 Lomi2g04571 4571
7 159438511 159440392 - >KAJ0197594.1 Lssa7g03023 3023
7 159664675 159665782 + >KAJ0195668.1 Lssa7g03032 3032
7 159677735 159685591 - >KAJ0198177.1 Lssa7g03033 3033
9 59439024 59471354 + KAD5318320.1 Mimi9g01585 1585
4 2090806 2092613 - PdyAMIRv0_Chr04g0149291 Pdy4g00121 121
4 2134936 2136302 - PdyAMIRv0_Chr04g0149341 Pdy4g00126 126
4 2137853 2144252 - PdyAMIRv0_Chr04g0149351 Pdy4g00127 127
1 156717021 156721326 + PluAMIRv0_Chr01g0217291 Pslu1g21825 21825
1 156733228 156734100 + PluAMIRv0_Chr01g0217311 Pslu1g21827 21827
1 156755209 156756681 + PluAMIRv0_Chr01g0217341 Pslu1g21830 21830
1 156766545 156766994 + PluAMIRv0_Chr01g0217361 Pslu1g21832 21832
12 19668399 19673548 + SinAMIRv0_Chr12g0363621 Sain12g00798 798
12 19674527 19675341 + SinAMIRv0_Chr12g0363631 Sain12g00799 799
12 19820420 19822323 + SinAMIRv0_Chr12g0363671 Sain12g00803 803
12 19894610 19895041 + SinAMIRv0_Chr12g0363691 Sain12g00805 805
26 47805106 47813792 + KAI3695563.1 Smso26g02078 2078
5 33842591 33848624 + asmbl_5060.p1 Soca5g03032 3032
5 33850390 33851647 + transfrag28635.t01 Soca5g03033 3033
5 33951053 33952830 + augustus42868.t01 Soca5g03040 3040
5 33969122 33970287 + transfrag28626.t01 Soca5g03043 3043
6 3568799 3575711 - Streb.6G001430.1 Stre6g00143 143
4 105687665 105694803 + TkA04G419510.1 Tako4g04553 4553
4 105695358 105696781 + TkA04G419520.1 Tako4g04554 4554
4 105813442 105815744 + TkA04G420010.2 Tako4g04558 4558
4 64630741 64636627 + TbA04G016450.1 Tamo4g03325 3325
4 64637423 64638629 + TbA04G016440.1 Tamo4g03326 3326
4 64680286 64682184 + TbA04G016370.1 Tamo4g03332 3332
       
DecoBrowse