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
Armi1g00829 Sain12g00651 . . . . . . . . . Pslu1g21686 Lomi1g00166 Lomi2g04500 . Ecan3g01956 Soca5g02915 . . . . . . . . . . Chna2g00319 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00830 Sain12g00656 Ceso2g01574 Cati3g00837 . Cien5g03095 Cich4g04213 Lssa7g03156 Laca7g02566 . Tamo4g03167 Pslu1g21687 Lomi1g00165 Lomi2g04501 Enbr6g01318 Ecan3g01955 Soca5g02916 Glco3g00167 Artr3g12293 Aary5g02949 Aary13g03486 Aann4g01416 Chma7g08655 . . . . Chna2g00316 . Pdy4g00285 . Hean4g04461 . . . . . . . . . . . . . . . . . Mimi9g01537 . . . . . . . . . . . . . . . . . . . .
Armi1g00832 Sain12g00657 Ceso2g01575 Cati3g00839 . . Cich4g04212 Lssa7g03155 Laca7g02565 . . Pslu1g21690 Lomi1g00164 . . Ecan3g01950 Soca5g02920 . . . . . Chma7g08658 . . . . Chna2g00313 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00836 Sain12g00659 Ceso2g01579 . . Cien5g03094 Cich4g04209 Lssa7g03154 Laca7g02564 . Tamo4g03168 Pslu1g21695 Lomi1g00162 Lomi2g04503 Enbr6g01310 Ecan3g01947 Soca5g02930 Glco3g00175 Artr3g12312 . . Aann4g01422 . . . . . Chna2g00312 . Pdy4g00282 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00839 Sain12g00661 Ceso2g01580 Cati3g00842 . Cien5g03091 Cich4g04205 Lssa7g03152 Laca7g02562 Tako4g04421 Tamo4g03175 Pslu1g21697 Lomi1g00157 Lomi2g04505 Enbr6g01306 Ecan3g01945 Soca5g02932 Glco3g00177 . Aary5g02955 Aary13g03492 Aann4g01426 Chma7g08662 . . . Chla6g06460 Chna2g00310 . . . Hean4g04469 . . Dapi16g02016 . Hetu11g00121 Hetu12g00114 Hetu10g00136 Amtr06g04253 . Smso26g02002 . . . . . . . . . Hean16g00806 . Bial24g02335 Dapi7g00092 Dapi23g00115 Hetu48g00907 Hetu46g01033 Hetu47g01004 Amtr01g04322 . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00842 Sain12g00666 Ceso2g01583 Cati3g00849 . . Cich4g04203 Lssa7g03150 . . Tamo4g03180 . Lomi1g00155 Lomi2g04507 Enbr6g01304 Ecan3g01943 Soca5g02935 Glco3g00206 . Aary5g02959 Aary13g03496 Aann4g01429 Chma7g08687 . . . . Chna2g00298 Cind3g00363 Pdy4g00272 . Hean4g04475 . . Dapi16g02019 . Hetu11g00117 Hetu12g00112 Hetu10g00134 Amtr06g04255 . Smso26g02005 . . . . . . . . Cobi4g03334 Hean16g00811 Bial4g03648 Bial16g02993 Dapi7g00095 Dapi23g00118 Hetu48g00905 Hetu46g01029 Hetu47g01002 Amtr01g04319 . Smso29g00265 . . . . . . Stre6g00153 .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00843 Sain12g00668 Ceso2g01588 Cati3g00855 . . . . . . . Pslu1g21701 Lomi1g00154 . Enbr6g01297 Ecan3g01941 Soca5g02938 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 71501771 71512081 + chr4g0785621 Aann4g01416 1416
4 71619442 71626808 + chr4g0785751 Aann4g01422 1422
4 71682219 71685078 + chr4g0785811 Aann4g01426 1426
4 71759825 71762697 - chr4g0785871 Aann4g01429 1429
5 180215047 180224406 + Aargg5g29490.1 Aary5g02949 2949
5 180424429 180426744 + Aargg5g29550.1 Aary5g02955 2955
5 180655080 180658185 - Aargg5g29590.1 Aary5g02959 2959
13 209686724 209696580 + Aargg13g34860.1 Aary13g03486 3486
13 209993181 209996435 + Aargg13g34920.1 Aary13g03492 3492
13 210295615 210298720 - Aargg13g34960.1 Aary13g03496 3496
1 116492852 116494556 + AtrifAMIRv0_Chr01g0043191 Amtr01g04319 4319
1 116594205 116597096 - AtrifAMIRv0_Chr01g0043221 Amtr01g04322 4322
6 93715395 93718574 + AtrifAMIRv0_Chr06g0430781 Amtr06g04253 4253
6 93797420 93798782 - AtrifAMIRv0_Chr06g0430801 Amtr06g04255 4255
1 21783297 21783749 + AmiAMIRv0_Chr01g0008291 Armi1g00829 829
1 21799312 21808033 + AmiAMIRv0_Chr01g0008301 Armi1g00830 830
1 21822525 21823284 + AmiAMIRv0_Chr01g0008321 Armi1g00832 832
1 21951652 21957331 + AmiAMIRv0_Chr01g0008361 Armi1g00836 836
1 22008953 22012096 + AmiAMIRv0_Chr01g0008391 Armi1g00839 839
1 22115988 22116956 - AmiAMIRv0_Chr01g0008421 Armi1g00842 842
1 22171311 22176968 + AmiAMIRv0_Chr01g0008431 Armi1g00843 843
3 422377734 422386113 + AtridAMIRv0_Chr03g0430291 Artr3g12293 12293
3 423112099 423118050 + AtridAMIRv0_Chr03g0430481 Artr3g12312 12312
4 82102414 82104608 + g62274.t1 Bial4g03648 3648
16 75084368 75085727 + g59534.t1 Bial16g02993 2993
24 54045524 54047906 + g68001.t1 Bial24g02335 2335
3 9992570 10001395 + CtAH03T0060000.2 Cati3g00837 837
3 10005106 10009209 + CtAH03T0060100.1 Cati3g00839 839
3 10078234 10081957 + CtAH03T0060400.1 Cati3g00842 842
3 10149208 10152578 - CtAH03T0060600.1 Cati3g00849 849
3 10277063 10287611 + CtAH03T0060800.2 Cati3g00855 855
2 33576926 33584775 + >KAJ9561081.1 Ceso2g01574 1574
2 33589582 33594782 + >KAJ9561083.1 Ceso2g01575 1575
2 33642525 33647937 + >KAJ9561079.1 Ceso2g01579 1579
2 33656631 33659901 + >KAJ9561082.1 Ceso2g01580 1580
2 33692119 33693089 - >KAJ9561044.1 Ceso2g01583 1583
2 33732649 33737665 + >KAJ9561038.1 Ceso2g01588 1588
6 264970713 264973336 + ClaG1_Chr06g0437071 Chla6g06460 6460
7 293833167 293840755 + CmaNakai_Chr07g0709571 Chma7g08655 8655
7 293880508 293883011 + CmaNakai_Chr07g0709601 Chma7g08658 8658
7 294186450 294188713 + CmaNakai_Chr07g0709641 Chma7g08662 8662
7 294835870 294837638 - CmaNakai_Chr07g0709891 Chma7g08687 8687
2 16855773 16857027 + Cn1265880 Chna2g00298 298
2 17945663 17948421 - Cn1265670 Chna2g00310 310
2 18145412 18151869 - Cn1265640 Chna2g00312 312
2 18212723 18215079 - Cn1265630 Chna2g00313 313
2 18296965 18307389 - Cn1265560 Chna2g00316 316
2 18358694 18360603 - Cn1265520 Chna2g00319 319
4 122850616 122851374 + KAI3753338.1 Cich4g04203 4203
4 122964983 122967207 - KAI3753340.1 Cich4g04205 4205
4 123169740 123174350 - KAI3753344.1 Cich4g04209 4209
4 123214009 123217129 - KAI3753347.1 Cich4g04212 4212
4 123263132 123268460 - KAI3753348.1 Cich4g04213 4213
5 73951281 73953533 - KAI3509611.1 Cien5g03091 3091
5 74059286 74064412 - KAI3509614.1 Cien5g03094 3094
5 74103099 74109162 - KAI3509615.1 Cien5g03095 3095
3 355068943 355070528 + D.indicum_Contig1240_G00015.t1 Cind3g00363 363
4 83577135 83579457 + h2tg000064l_1.g27549.t1 Cobi4g03334 3334
7 1745399 1748850 + h1tg000136l.g124572.t1 Dapi7g00092 92
7 1783086 1785007 - h1tg000136l.g124569.t1 Dapi7g00095 95
16 79177880 79180307 + h1tg000026l.g56969.t1 Dapi16g02016 2016
16 79296902 79298958 - h1tg000026l.g56972.t1 Dapi16g02019 2019
23 2407306 2411392 + h2tg000064l.g12453.t1 Dapi23g00115 115
23 2490372 2492128 - h2tg000064l.g12456.t1 Dapi23g00118 118
3 30417348 30424506 - XM_043763393.1 Ecan3g01941 1941
3 30446198 30448292 + XM_043766638.1 Ecan3g01943 1943
3 30472289 30475137 - XM_043766599.1 Ecan3g01945 1945
3 30509655 30515090 - XM_043765773.1 Ecan3g01947 1947
3 30538630 30544104 - XM_043764114.1 Ecan3g01950 1950
3 30562939 30572199 - XM_043764906.1 Ecan3g01955 1955
3 30577880 30578428 - XM_043767001.1 Ecan3g01956 1956
6 45375032 45382533 - evm.model.ctg2512.30 Enbr6g01297 1297
6 45532913 45533726 + evm.model.ctg2313.5 Enbr6g01304 1304
6 45588814 45591136 - evm.model.ctg2313.9 Enbr6g01306 1306
6 45722032 45727323 - evm.model.ctg571.1 Enbr6g01310 1310
6 45999950 46009083 - evm.model.ctg5900.2 Enbr6g01318 1318
3 10532100 10539778 + GcoAMIRv0_Chr03g0157961 Glco3g00167 167
3 10799454 10804635 + GcoAMIRv0_Chr03g0158041 Glco3g00175 175
3 10931225 10933571 + GcoAMIRv0_Chr03g0158061 Glco3g00177 177
3 11778623 11779572 - GcoAMIRv0_Chr03g0158351 Glco3g00206 206
4 206006348 206018718 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191011 Hean4g04461 4461
4 206103656 206107162 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191101 Hean4g04469 4469
4 206145832 206148172 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191171 Hean4g04475 4475
16 22836515 22840438 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0731861 Hean16g00806 806
16 23089833 23092740 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0731931 Hean16g00811 811
10 5027993 5028755 + >Htub.h1tg000798l.g558.t1 Hetu10g00134 134
10 5169675 5172092 - >Htub.h1tg000798l.g556.t1 Hetu10g00136 136
11 4308764 4309532 + >Htub.h1tg000030l.g171.t1 Hetu11g00117 117
11 4419626 4422267 - >Htub.h1tg000030l.g175.t1 Hetu11g00121 121
12 4365500 4366273 + >Htub.h1tg000754l.g316.t1 Hetu12g00112 112
12 4420159 4421525 - >Htub.h1tg000754l.g318.t1 Hetu12g00114 114
46 51872975 51873879 + >Htub.h1tg000086l.g378.t1 Hetu46g01029 1029
46 52076324 52080821 - >Htub.h1tg000086l.g374.t1 Hetu46g01033 1033
47 56539914 56540847 + >Htub.h1tg003063l.g9.t1 Hetu47g01002 1002
47 56795365 56798530 - >Htub.h1tg003063l.g11.t1 Hetu47g01004 1004
48 48348588 48349525 + >Htub.h1tg001458l.g46.t1 Hetu48g00905 905
48 48464109 48468711 - >Htub.h1tg001458l.g48.t1 Hetu48g00907 907
7 122697844 122700155 - CAI9294742.1 Laca7g02562 2562
7 122806009 122810149 - CAI9294744.1 Laca7g02564 2564
7 122812542 122815302 - CAI9294746.1 Laca7g02565 2565
7 122816778 122824043 - CAI9294747.1 Laca7g02566 2566
1 1361040 1365855 - LmiAMIRv0_Chr01g0001541 Lomi1g00154 154
1 1376186 1377110 + LmiAMIRv0_Chr01g0001551 Lomi1g00155 155
1 1398788 1401435 - LmiAMIRv0_Chr01g0001571 Lomi1g00157 157
1 1440460 1444913 - LmiAMIRv0_Chr01g0001621 Lomi1g00162 162
1 1454206 1456188 - LmiAMIRv0_Chr01g0001641 Lomi1g00164 164
1 1462543 1469669 - LmiAMIRv0_Chr01g0001651 Lomi1g00165 165
1 1476733 1477170 - LmiAMIRv0_Chr01g0001661 Lomi1g00166 166
2 50061235 50061672 + LmiAMIRv0_Chr02g0090331 Lomi2g04500 4500
2 50066553 50073645 + LmiAMIRv0_Chr02g0090341 Lomi2g04501 4501
2 50095733 50100272 + LmiAMIRv0_Chr02g0090361 Lomi2g04503 4503
2 50127147 50129789 + LmiAMIRv0_Chr02g0090381 Lomi2g04505 4505
2 50149510 50150858 - LmiAMIRv0_Chr02g0090401 Lomi2g04507 4507
7 166746681 166747378 + >KAJ0198119.1 Lssa7g03150 3150
7 166861162 166863454 - >KAJ0197241.1 Lssa7g03152 3152
7 166965072 166969378 - >KAJ0195878.1 Lssa7g03154 3154
7 166970514 166976611 - >KAJ0198379.1 Lssa7g03155 3155
7 166978221 166985585 - >KAJ0196903.1 Lssa7g03156 3156
9 56051803 56063026 - KAD5318272.1 Mimi9g01537 1537
4 5656708 5658453 + PdyAMIRv0_Chr04g0150801 Pdy4g00272 272
4 5831543 5835840 - PdyAMIRv0_Chr04g0150901 Pdy4g00282 282
4 5944742 5952700 - PdyAMIRv0_Chr04g0150931 Pdy4g00285 285
1 155794952 155795389 + PluAMIRv0_Chr01g0215911 Pslu1g21686 21686
1 155807528 155815503 + PluAMIRv0_Chr01g0215921 Pslu1g21687 21687
1 155829302 155832127 + PluAMIRv0_Chr01g0215951 Pslu1g21690 21690
1 155863548 155868654 + PluAMIRv0_Chr01g0216001 Pslu1g21695 21695
1 155879121 155881335 + PluAMIRv0_Chr01g0216021 Pslu1g21697 21697
1 155915705 155920517 + PluAMIRv0_Chr01g0216061 Pslu1g21701 21701
12 15246746 15247195 + SinAMIRv0_Chr12g0362151 Sain12g00651 651
12 15364328 15373017 + SinAMIRv0_Chr12g0362201 Sain12g00656 656
12 15378131 15382928 + SinAMIRv0_Chr12g0362211 Sain12g00657 657
12 15396395 15401912 + SinAMIRv0_Chr12g0362231 Sain12g00659 659
12 15447116 15450888 + SinAMIRv0_Chr12g0362251 Sain12g00661 661
12 15521575 15523051 - SinAMIRv0_Chr12g0362301 Sain12g00666 666
12 15600812 15605865 + SinAMIRv0_Chr12g0362321 Sain12g00668 668
26 44395591 44398279 + KAI3695487.1 Smso26g02002 2002
26 44603702 44604879 - KAI3695490.1 Smso26g02005 2005
29 4259610 4260931 + KAI3675259.1 Smso29g00265 265
5 32509316 32509726 + augustus47710.t01 Soca5g02915 2915
5 32518474 32528175 + transfrag31912.t01 Soca5g02916 2916
5 32550071 32551811 + augustus47706.t01 Soca5g02920 2920
5 32673376 32679200 + asmbl_5660.p1 Soca5g02930 2930
5 32757091 32760006 + transfrag31895.t01 Soca5g02932 2932
5 32828081 32828895 - genewise40974.t01 Soca5g02935 2935
5 32884979 32891779 + transfrag31889.t01 Soca5g02938 2938
6 3815108 3817374 - Streb.6G001530.1 Stre6g00153 153
4 102057830 102060411 + TkA04G405870.1 Tako4g04421 4421
4 61316794 61327925 + TbA04G020550.1 Tamo4g03167 3167
4 61329285 61333436 + TbA04G020540.1 Tamo4g03168 3168
4 61379656 61382337 + TbA04G020470.1 Tamo4g03175 3175
4 61522301 61524777 - TbA04G020290.1 Tamo4g03180 3180
       
DecoBrowse