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AGRP

Asteraceae Genomic Research Platform

Gene Search

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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
Armi1g00740 Sain12g00602 Ceso2g01520 Cati3g00768 Ccar2g01891 . . Lssa7g03230 Laca7g02639 Tako4g04271 Tamo4g03105 Pslu1g21619 Lomi1g00200 Lomi2g04470 Enbr6g01425 Ecan3g02005 Soca5g02869 Glco3g00818 . Aary5g02887 Aary13g03433 Aann4g01328 . . . . . . . Pdy4g00336 . Hean4g04381 . . Dapi16g01969 . Hetu11g00350 Hetu12g00166 Hetu10g00190 . . Smso26g01953 . . . . . . . Mimi9g01502 . . . . . . . . . . . . . . . . . . . .
Armi1g00747 Sain12g00609 Ceso2g01524 Cati3g00780 Ccar2g01890 . . Lssa7g03227 Laca7g02634 Tako4g04273 Tamo4g03106 Pslu1g21621 Lomi1g00199 Lomi2g04471 Enbr6g01427 Ecan3g02003 Soca5g02870 Glco3g00793 Artr3g12093 Aary5g02890 Aary13g03436 Aann4g01331 . . . . . . . Pdy4g00335 . . . . . . . . . . . . . . . . . . . . Cobi4g03224 Hean16g00993 Bial4g03525 . Dapi7g00191 Dapi23g00213 Hetu48g00774 Hetu46g00840 Hetu47g00837 . Smso7g00149 Smso29g00188 Taer1g05622 Fro12g02471 Fso2g00098 Ftr4g03765 Fra11g02607 Fli1g00187 Stre6g00258 Mimi17g00231
Armi1g00748 Sain12g00610 . Cati3g00782 Ccar2g01889 . . Lssa7g03226 Laca7g02632 Tako4g04274 Tamo4g03107 Pslu1g21622 . . Enbr6g01428 Ecan3g02002 Soca5g02871 Glco3g00791 . . . Aann4g01332 Chma7g08648 . . . . Chna2g00320 . Pdy4g00334 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00749 Sain12g00611 Ceso2g01525 Cati3g00784 Ccar2g01888 . . Lssa7g03225 Laca7g02630 Tako4g04289 Tamo4g03110 Pslu1g21623 Lomi1g00197 Lomi2g04473 . Ecan3g02001 . Glco3g00790 Artr3g12095 Aary5g02892 . Aann4g01333 . . . . . . . Pdy4g00333 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00750 Sain12g00612 Ceso2g01526 Cati3g00785 Ccar2g01887 . . Lssa7g03224 Laca7g02629 Tako4g04290 Tamo4g03111 Pslu1g21624 Lomi1g00196 Lomi2g04474 Enbr6g01430 Ecan3g01999 Soca5g02873 Glco3g00789 Artr3g12098 Aary5g02894 Aary13g03438 Aann4g01334 . . . . . . . Pdy4g00332 . Hean4g04383 . . Dapi16g01974 Dapi23g00211 Hetu11g00351 Hetu12g00165 Hetu10g00188 . . Smso26g01955 . . . . . . Stre6g00256 Mimi9g01503 Cobi4g03228 Hean16g00991 Bial4g03531 . Dapi7g00189 Dapi23g00211 Hetu48g00776 Hetu46g00843 Hetu47g00840 . Smso7g00151 Smso29g00190 . . . . . . Stre6g00256 Mimi17g00229
Armi1g00753 Sain12g00613 Ceso2g01535 Cati3g00787 Ccar2g01885 . Cich4g04266 Lssa7g03222 . Tako4g04295 . Pslu1g21628 Lomi1g00195 Lomi2g04475 Enbr6g01362 Ecan3g01998 Soca5g02874 . . . . . . . . . . . . Pdy4g00330 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00754 Sain12g00614 . Cati3g00788 Ccar2g01884 . Cich4g04265 Lssa7g03221 . Tako4g04296 Tamo4g03121 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00755 Sain12g00615 Ceso2g01536 Cati3g00789 Ccar2g01883 . Cich4g04264 Lssa7g03219 Laca7g02620 Tako4g04299 Tamo4g03122 Pslu1g21634 Lomi1g00194 . Enbr6g01360 Ecan3g01997 Soca5g02875 Glco3g00783 Artr3g12125 . . Aann4g01340 . . . . . . . Pdy4g00329 . Hean4g04386 . . . . . . . . . Smso26g01958 . . . . . . . . Cobi4g03231 Hean16g00982 . . . . . . . Amtr01g04112 Smso7g00153 Smso29g00192 . . . . . . . Mimi17g00228
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 68279520 68282946 - chr4g0782841 Aann4g01328 1328
4 68337574 68347720 + chr4g0782881 Aann4g01331 1331
4 68348427 68351730 + chr4g0782891 Aann4g01332 1332
4 68352219 68356896 - chr4g0782901 Aann4g01333 1333
4 68361387 68364846 - chr4g0782921 Aann4g01334 1334
4 68588047 68593811 + chr4g0783101 Aann4g01340 1340
5 176097356 176100113 - Aargg5g28870.1 Aary5g02887 2887
5 176371937 176377388 + Aargg5g28900.1 Aary5g02890 2890
5 176383587 176386177 - Aargg5g28920.1 Aary5g02892 2892
5 176396819 176399757 - Aargg5g28940.1 Aary5g02894 2894
13 206149689 206152590 - Aargg13g34330.1 Aary13g03433 3433
13 206321045 206327863 + Aargg13g34360.1 Aary13g03436 3436
13 206343140 206345411 - Aargg13g34380.1 Aary13g03438 3438
1 110879889 110889419 + AtrifAMIRv0_Chr01g0041121 Amtr01g04112 4112
1 17778456 17781501 - AmiAMIRv0_Chr01g0007401 Armi1g00740 740
1 17982215 17988731 + AmiAMIRv0_Chr01g0007471 Armi1g00747 747
1 18019738 18022682 + AmiAMIRv0_Chr01g0007481 Armi1g00748 748
1 18027742 18029694 - AmiAMIRv0_Chr01g0007491 Armi1g00749 749
1 18040050 18042866 - AmiAMIRv0_Chr01g0007501 Armi1g00750 750
1 18430577 18434614 + AmiAMIRv0_Chr01g0007531 Armi1g00753 753
1 18454282 18457324 - AmiAMIRv0_Chr01g0007541 Armi1g00754 754
1 18503917 18512968 + AmiAMIRv0_Chr01g0007551 Armi1g00755 755
3 414839429 414844578 + AtridAMIRv0_Chr03g0428291 Artr3g12093 12093
3 414888878 414892926 - AtridAMIRv0_Chr03g0428311 Artr3g12095 12095
3 415043328 415045688 - AtridAMIRv0_Chr03g0428341 Artr3g12098 12098
3 416431913 416437241 + AtridAMIRv0_Chr03g0428611 Artr3g12125 12125
4 79913396 79918417 + g43364.t1 Bial4g03525 3525
4 80110057 80112999 - g43370.t1 Bial4g03531 3531
3 8546134 8550486 - CtAH03T0054700.1 Cati3g00768 768
3 8738491 8756545 + CtAH03T0055500.2 Cati3g00780 780
3 8761125 8768078 + CtAH03T0055600.1 Cati3g00782 782
3 8772676 8775632 - CtAH03T0055700.1 Cati3g00784 784
3 8784512 8792659 - CtAH03T0055800.1 Cati3g00785 785
3 8944542 8949012 + CtAH03T0056000.1 Cati3g00787 787
3 8949312 8960462 - CtAH03T0056100.1 Cati3g00788 788
3 8985502 8993309 + CtAH03T0056200.1 Cati3g00789 789
2 65272161 65276816 - gnl|WGS:LEKV|Ccrd_010929.mRNA.1_mrna Ccar2g01883 1883
2 65296128 65307451 + gnl|WGS:LEKV|Ccrd_010930.mRNA.1_mrna Ccar2g01884 1884
2 65308860 65312707 - gnl|WGS:LEKV|Ccrd_010931.mRNA.1_mrna Ccar2g01885 1885
2 65378139 65386091 + gnl|WGS:LEKV|Ccrd_010933.mRNA.1_mrna Ccar2g01887 1887
2 65392055 65395218 + gnl|WGS:LEKV|Ccrd_010934.mRNA.1_mrna Ccar2g01888 1888
2 65397267 65400384 - gnl|WGS:LEKV|Ccrd_010935.mRNA.1_mrna Ccar2g01889 1889
2 65402022 65409489 - gnl|WGS:LEKV|Ccrd_010936.mRNA.1_mrna Ccar2g01890 1890
2 65439629 65446688 + gnl|WGS:LEKV|Ccrd_010937.mRNA.1_mrna Ccar2g01891 1891
2 32275365 32278744 - >KAJ9560955.1 Ceso2g01520 1520
2 32331993 32337555 + >KAJ9560913.1 Ceso2g01524 1524
2 32357254 32360521 - >KAJ9560916.1 Ceso2g01525 1525
2 32367636 32370235 - >KAJ9560915.1 Ceso2g01526 1526
2 32548040 32551716 + >KAJ9560971.1 Ceso2g01535 1535
2 32587326 32594504 + >KAJ9560847.1 Ceso2g01536 1536
7 293768333 293772729 - CmaNakai_Chr07g0709501 Chma7g08648 8648
2 18458013 18462123 + Cn1265500 Chna2g00320 320
4 124857931 124862180 - KAI3753399.1 Cich4g04264 4264
4 124968612 124971017 + KAI3753400.1 Cich4g04265 4265
4 124971324 124973300 - KAI3753401.1 Cich4g04266 4266
4 81793269 81796715 + h2tg000009l_1.g42055.t1 Cobi4g03224 3224
4 81839359 81842328 - h2tg000009l_1.g42051.t1 Cobi4g03228 3228
4 81879739 81884267 + h2tg000009l_1.g42048.t1 Cobi4g03231 3231
7 3993996 3995682 + h1tg000136l.g124475.t1 Dapi7g00189 189
7 4010155 4015554 - h1tg000136l.g124473.t1 Dapi7g00191 191
16 76288167 76291596 - h1tg000026l.g56922.t1 Dapi16g01969 1969
16 76533415 76534904 - h1tg000026l.g56927.t1 Dapi16g01974 1974
23 4563381 4564983 + h2tg000284l.g80834.t1 Dapi23g00211 211
23 4593881 4598789 - h2tg000284l.g80832.t1 Dapi23g00213 213
3 30967978 30972648 - XM_043766549.1 Ecan3g01997 1997
3 30985562 30988106 - XM_043766295.1 Ecan3g01998 1998
3 31037979 31040583 + XM_043765950.1 Ecan3g01999 1999
3 31047823 31050352 + XM_043764746.1 Ecan3g02001 2001
3 31053044 31055733 - XM_043766973.1 Ecan3g02002 2002
3 31056807 31062298 - XM_043764484.1 Ecan3g02003 2003
3 31088062 31091131 + XM_043766311.1 Ecan3g02005 2005
6 47082413 47094001 - evm.model.ctg99.4 Enbr6g01360 1360
6 47114434 47116651 - evm.model.ctg99.2 Enbr6g01362 1362
6 49335624 49338472 - evm.model.ctg1642.18 Enbr6g01425 1425
6 49358981 49365251 + evm.model.ctg1642.20 Enbr6g01427 1427
6 49367645 49370240 + evm.model.ctg1642.21 Enbr6g01428 1428
6 49377443 49379855 - evm.model.ctg1642.23 Enbr6g01430 1430
1 3798640 3805057 - FliAMIRv0_Chr01g0001821 Fli1g00187 187
11 79605767 79611815 + FraAMIRv0_Chr11g0226291 Fra11g02607 2607
12 32473474 32479444 + FroAMIRv0_Chr12g0220191 Fro12g02471 2471
2 1333723 1336124 - FsoAMIRv0_Chr02g0029171 Fso2g00098 98
4 121502333 121508469 + FtrAMIRv0_Chr04g0131991 Ftr4g03765 3765
3 46031425 46036723 - GcoAMIRv0_Chr03g0164121 Glco3g00783 783
3 46638516 46641206 + GcoAMIRv0_Chr03g0164181 Glco3g00789 789
3 46645389 46647298 + GcoAMIRv0_Chr03g0164191 Glco3g00790 790
3 46654922 46658062 - GcoAMIRv0_Chr03g0164201 Glco3g00791 791
3 46736645 46741718 - GcoAMIRv0_Chr03g0164221 Glco3g00793 793
3 48043107 48046523 + GcoAMIRv0_Chr03g0164471 Glco3g00818 818
4 204719188 204723572 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190051 Hean4g04381 4381
4 204736030 204740378 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190101 Hean4g04383 4383
4 204784427 204792286 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0190131 Hean4g04386 4386
16 31413679 31420403 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0734081 Hean16g00982 982
16 32259899 32262595 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0734181 Hean16g00991 991
16 32286769 32293482 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0734201 Hean16g00993 993
10 7760381 7763805 + >Htub.h1tg000798l.g504.t1 Hetu10g00188 188
10 7794900 7799151 + >Htub.h1tg000798l.g502.t1 Hetu10g00190 190
11 11208037 11212165 - >Htub.h1tg002572l.g216.t1 Hetu11g00350 350
11 11234261 11237273 - >Htub.h1tg002572l.g217.t1 Hetu11g00351 351
12 6562502 6564418 + >Htub.h1tg004588l.g206.t1 Hetu12g00165 165
12 6630884 6634537 + >Htub.h1tg004588l.g205.t1 Hetu12g00166 166
46 40363969 40370694 + >Htub.h1tg000900l.g34.t1 Hetu46g00840 840
46 40655735 40657174 - >Htub.h1tg000900l.g31.t1 Hetu46g00843 843
47 45444347 45451418 + >Htub.h1tg001955l.g57.t1 Hetu47g00837 837
47 45643341 45645214 - >Htub.h1tg001955l.g60.t1 Hetu47g00840 840
48 39191239 39197294 + >Htub.h1tg000344l.g407.t1 Hetu48g00774 774
48 39340320 39341855 - >Htub.h1tg000344l.g405.t1 Hetu48g00776 776
7 125460697 125465611 - CAI9294802.1 Laca7g02620 2620
7 126249531 126251325 + CAI9294811.1 Laca7g02629 2629
7 126279631 126281994 + CAI9294812.1 Laca7g02630 2630
7 126300758 126303637 - CAI9294814.1 Laca7g02632 2632
7 126328177 126331818 - CAI9294816.1 Laca7g02634 2634
7 126401011 126402626 + CAI9294821.1 Laca7g02639 2639
1 1713838 1718123 - LmiAMIRv0_Chr01g0001941 Lomi1g00194 194
1 1726041 1728125 - LmiAMIRv0_Chr01g0001951 Lomi1g00195 195
1 1750752 1752398 + LmiAMIRv0_Chr01g0001961 Lomi1g00196 196
1 1757494 1759145 + LmiAMIRv0_Chr01g0001971 Lomi1g00197 197
1 1765969 1769879 - LmiAMIRv0_Chr01g0001991 Lomi1g00199 199
1 1780421 1782563 + LmiAMIRv0_Chr01g0002001 Lomi1g00200 200
2 49785983 49788150 - LmiAMIRv0_Chr02g0090031 Lomi2g04470 4470
2 49794468 49798430 + LmiAMIRv0_Chr02g0090041 Lomi2g04471 4471
2 49804490 49806101 - LmiAMIRv0_Chr02g0090061 Lomi2g04473 4473
2 49809322 49811011 - LmiAMIRv0_Chr02g0090071 Lomi2g04474 4474
2 49836976 49838870 + LmiAMIRv0_Chr02g0090081 Lomi2g04475 4475
7 170711102 170715663 - >KAJ0197058.1 Lssa7g03219 3219
7 171022211 171024846 + >KAJ0198071.1 Lssa7g03221 3221
7 171024998 171027278 - >KAJ0196613.1 Lssa7g03222 3222
7 171526821 171528636 + >KAJ0197036.1 Lssa7g03224 3224
7 171538119 171540057 + >KAJ0195172.1 Lssa7g03225 3225
7 171551736 171554255 - >KAJ0196673.1 Lssa7g03226 3226
7 171565160 171569539 - >KAJ0198127.1 Lssa7g03227 3227
7 171629214 171630397 + >KAJ0194719.1 Lssa7g03230 3230
9 53635295 53651535 - KAD5318237.1 Mimi9g01502 1502
9 53670582 53674795 + KAD5318238.1 Mimi9g01503 1503
17 6044001 6051363 - KAD3066550.1 Mimi17g00228 228
17 6161854 6167957 + KAD3066551.1 Mimi17g00229 229
17 6192899 6199932 - KAD3066553.1 Mimi17g00231 231
4 6521966 6528921 - PdyAMIRv0_Chr04g0151371 Pdy4g00329 329
4 6548693 6551047 - PdyAMIRv0_Chr04g0151381 Pdy4g00330 330
4 6619304 6621880 + PdyAMIRv0_Chr04g0151401 Pdy4g00332 332
4 6636852 6638546 + PdyAMIRv0_Chr04g0151411 Pdy4g00333 333
4 6646229 6648662 - PdyAMIRv0_Chr04g0151421 Pdy4g00334 334
4 6652416 6656107 - PdyAMIRv0_Chr04g0151431 Pdy4g00335 335
4 6681201 6683965 + PdyAMIRv0_Chr04g0151441 Pdy4g00336 336
1 155162335 155165079 - PluAMIRv0_Chr01g0215241 Pslu1g21619 21619
1 155187901 155191706 + PluAMIRv0_Chr01g0215261 Pslu1g21621 21621
1 155193064 155196876 + PluAMIRv0_Chr01g0215271 Pslu1g21622 21622
1 155198699 155200316 - PluAMIRv0_Chr01g0215281 Pslu1g21623 21623
1 155204978 155207194 - PluAMIRv0_Chr01g0215291 Pslu1g21624 21624
1 155294785 155296695 + PluAMIRv0_Chr01g0215331 Pslu1g21628 21628
1 155324770 155329465 + PluAMIRv0_Chr01g0215391 Pslu1g21634 21634
12 13718250 13720685 - SinAMIRv0_Chr12g0361661 Sain12g00602 602
12 13879112 13884673 + SinAMIRv0_Chr12g0361731 Sain12g00609 609
12 13887584 13891877 + SinAMIRv0_Chr12g0361741 Sain12g00610 610
12 13900988 13902912 - SinAMIRv0_Chr12g0361751 Sain12g00611 611
12 13910603 13913188 - SinAMIRv0_Chr12g0361761 Sain12g00612 612
12 14013877 14017479 + SinAMIRv0_Chr12g0361771 Sain12g00613 613
12 14018907 14027490 - SinAMIRv0_Chr12g0361781 Sain12g00614 614
12 14087182 14091452 + SinAMIRv0_Chr12g0361791 Sain12g00615 615
7 2615502 2621459 + KAI3809729.1 Smso7g00149 149
7 2649632 2651208 - KAI3809731.1 Smso7g00151 151
7 2732272 2737680 + KAI3809733.1 Smso7g00153 153
26 41923637 41935923 - KAI3695438.1 Smso26g01953 1953
26 42290107 42292286 - KAI3695440.1 Smso26g01955 1955
26 42511800 42520046 + KAI3695443.1 Smso26g01958 1958
29 3006829 3011986 + KAI3675182.1 Smso29g00188 188
29 3026788 3028142 - KAI3675184.1 Smso29g00190 190
29 3079458 3085083 + KAI3675186.1 Smso29g00192 192
5 31663113 31666607 - transfrag31955.t01 Soca5g02869 2869
5 31694992 31700888 + transfrag31954.t01 Soca5g02870 2870
5 31704308 31707122 + augustus47761.t01 Soca5g02871 2871
5 31723294 31725207 - augustus47759.t01 Soca5g02873 2873
5 31800516 31803102 + transfrag31950.t01 Soca5g02874 2874
5 31835716 31840162 + transfrag31949.t01 Soca5g02875 2875
6 6931797 6933829 + Streb.6G002560.1 Stre6g00256 256
6 7029286 7035856 - Streb.6G002580.1 Stre6g00258 258
1 51170078 51175585 + >KAK1439801.1 Taer1g05622 5622
4 97503694 97505816 - TkA04G387600.2 Tako4g04271 4271
4 97560091 97565138 + TkA04G387800.1 Tako4g04273 4273
4 97567818 97570398 + TkA04G387820.1 Tako4g04274 4274
4 97738097 97742173 - TkA04G388560.2 Tako4g04289 4289
4 97763880 97765936 - TkA04G388630.1 Tako4g04290 4290
4 97918401 97920801 + TkA04G389270.1 Tako4g04295 4295
4 97920807 97923736 - TkA04G389280.1 Tako4g04296 4296
4 98112781 98118162 + TkA04G390040.1 Tako4g04299 4299
4 59822174 59824671 - TbA04G022260.1 Tamo4g03105 3105
4 59910589 59915773 + TbA04G022120.1 Tamo4g03106 3106
4 59918045 59921651 + TbA04G022110.1 Tamo4g03107 3107
4 60075603 60077506 - TbA04G021870.1 Tamo4g03110 3110
4 60093546 60096296 - TbA04G021830.1 Tamo4g03111 3111
4 60292948 60295334 - TbA04G021560.1 Tamo4g03121 3121
4 60328059 60333305 + TbA04G021520.1 Tamo4g03122 3122
       
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