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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
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. Sain12g00117 . Cati3g00160 Ccar2g02300 . . . . . . Pslu1g20677 . . . Ecan3g00173 Soca5g05329 . . . . . Chma7g07242 Chmo13g01180 Chmo14g01081 Chmo15g01028 . Chna2g01013 Cind3g01997 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00118 . Ceso2g03235 Cati3g00161 . Cien5g03590 Cich4g04894 Lssa7g03818 Laca7g03120 . . . . . . Ecan3g00171 Soca5g05327 Glco3g01615 Artr3g10679 Aary5g02671 . Aann4g00697 . . . . . . . Pdy4g00883 . . . . . . . . . . . . . . . . . . . . Cobi4g02767 Hean11g01484 Bial4g02996 Bial16g02431 Dapi7g00580 Dapi23g00600 Hetu32g01076 Hetu31g01028 Hetu33g01139 . Smso7g00528 Smso29g00685 Taer1g05946 Fro12g02145 Fso2g00477 . Fra11g02321 Fli1g00545 Stre6g00730 Mimi17g00827
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. Sain12g00120 . . . . . . . . . . . . . . . . . . . . Chma7g07248 Chmo13g01187 Chmo14g01088 Chmo15g01032 Chla6g05476 Chna2g01016 Cind3g01992 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00121 Sain12g00121 Ceso2g03237 Cati3g00164 Ccar2g02296 Cien5g03597 Cich4g04900 Lssa7g03823 Laca7g03125 . . Pslu1g06389 . Lomi2g04171 Enbr6g01681 Ecan3g00166 Soca5g05321 Glco3g01620 Artr3g10660 Aary5g02676 Aary13g03108 Aann4g00691 Chma7g07250 Chmo13g01188 Chmo14g01089 Chmo15g01040 Chla6g05473 Chna2g01017 Cind3g01991 Pdy4g00887 . . . . . . . . . . . . . . . . . . . . Cobi4g02762 Hean11g01480 Bial4g02990 Bial16g02426 Dapi7g00583 Dapi23g00603 Hetu32g01083 Hetu31g01040 Hetu33g01143 Amtr02g06514 Smso7g00532 Smso29g00688 Taer1g05952 Fro12g02142 . Ftr4g03443 Fra11g02315 Fli1g00550 Stre6g00735 Mimi17g00833
Armi1g00122 Sain12g00122 Ceso2g03238 Cati3g00165 Ccar2g02297 Cien5g03598 Cich4g04901 Lssa7g03828 Laca7g03126 . . Pslu1g06390 . Lomi2g04170 Enbr6g01679 Ecan3g00165 Soca5g05320 Glco3g01622 Artr3g10657 Aary5g02677 Aary13g03107 Aann4g00690 Chma7g07256 Chmo13g01190 Chmo14g01090 Chmo15g01041 Chla6g05465 Chna2g01020 Cind3g01988 Pdy4g00888 . . . . . . . . . . . . . . . . . . . . Cobi4g02761 Hean11g01479 Bial4g02989 Bial16g02425 Dapi7g00584 Dapi23g00606 Hetu32g01086 Hetu31g01048 Hetu33g01144 . Smso7g00534 Smso29g00689 Taer1g05953 Fro12g02141 Fso2g00482 Ftr4g03442 Fra11g02314 Fli1g00551 Stre6g00736 .
Armi1g00123 Sain12g00123 Ceso2g03239 Cati3g00167 Ccar2g02295 Cien5g03600 . Lssa7g03831 Laca7g03128 . . . . . . . . . . Aary5g02678 . Aann4g00689 Chma7g07258 Chmo13g01191 Chmo14g01091 Chmo15g01043 Chla6g05464 Chna2g01021 Cind3g01987 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00124 Sain12g00124 Ceso2g03240 . Ccar2g02294 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00125 Sain12g00125 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 46701317 46705342 - chr4g0763811 Aann4g00689 689
4 46757242 46758981 + chr4g0763831 Aann4g00690 690
4 46792129 46794902 + chr4g0763851 Aann4g00691 691
4 46960261 46971299 - chr4g0764011 Aann4g00697 697
5 154644681 154656205 + Aargg5g26710.1 Aary5g02671 2671
5 155064219 155065722 - Aargg5g26760.1 Aary5g02676 2676
5 155091702 155093019 - Aargg5g26770.1 Aary5g02677 2677
5 155210404 155213261 + Aargg5g26780.1 Aary5g02678 2678
13 182869112 182870564 - Aargg13g31070.1 Aary13g03107 3107
13 182898516 182899833 - Aargg13g31080.1 Aary13g03108 3108
2 117783550 117785169 - AtrifAMIRv0_Chr02g0161101 Amtr02g06514 6514
1 2365863 2382591 + AmiAMIRv0_Chr01g0001181 Armi1g00118 118
1 2447237 2448304 - AmiAMIRv0_Chr01g0001211 Armi1g00121 121
1 2473433 2474913 - AmiAMIRv0_Chr01g0001221 Armi1g00122 122
1 2526843 2531194 + AmiAMIRv0_Chr01g0001231 Armi1g00123 123
1 2534777 2535989 + AmiAMIRv0_Chr01g0001241 Armi1g00124 124
1 2540874 2541281 - AmiAMIRv0_Chr01g0001251 Armi1g00125 125
3 359335160 359336544 - AtridAMIRv0_Chr03g0413931 Artr3g10657 10657
3 359534131 359535283 - AtridAMIRv0_Chr03g0413961 Artr3g10660 10660
3 360449914 360459928 - AtridAMIRv0_Chr03g0414151 Artr3g10679 10679
4 68654291 68655840 + g55980.t1 Bial4g02989 2989
4 68684620 68685996 + g55981.t1 Bial4g02990 2990
4 68821108 68823150 - g55987.t1 Bial4g02996 2996
16 63381226 63383330 + g150157.t1 Bial16g02425 2425
16 63405608 63407182 + g150156.t1 Bial16g02426 2426
16 63515763 63522982 - g150151.t1 Bial16g02431 2431
3 1133416 1152936 + CtAH03T0008700.7 Cati3g00160 160
3 1133416 1152936 + CtAH03T0008700.8 Cati3g00161 161
3 1207624 1209354 - CtAH03T0009000.1 Cati3g00164 164
3 1227530 1235203 - CtAH03T0009100.1 Cati3g00165 165
3 1252214 1257907 + CtAH03T0009200.2 Cati3g00167 167
2 70007478 70008946 - gnl|WGS:LEKV|Ccrd_011345.mRNA.1_mrna Ccar2g02294 2294
2 70013763 70018208 - gnl|WGS:LEKV|Ccrd_011346.mRNA.1_mrna Ccar2g02295 2295
2 70029078 70030707 + gnl|WGS:LEKV|Ccrd_011347.mRNA.1_mrna Ccar2g02296 2296
2 70048185 70049576 + gnl|WGS:LEKV|Ccrd_011348.mRNA.1_mrna Ccar2g02297 2297
2 70103364 70120714 - gnl|WGS:LEKV|Ccrd_011351.mRNA.1_mrna Ccar2g02300 2300
2 81407991 81421170 + >KAJ9562674.1 Ceso2g03235 3235
2 81483358 81484906 - >KAJ9562677.1 Ceso2g03237 3237
2 81503675 81506109 - >KAJ9562567.1 Ceso2g03238 3238
2 81521513 81526133 + >KAJ9562565.1 Ceso2g03239 3239
2 81532636 81533858 + >KAJ9562566.1 Ceso2g03240 3240
6 215327811 215330863 - ClaG1_Chr06g0427111 Chla6g05464 5464
6 215405243 215406647 + ClaG1_Chr06g0427121 Chla6g05465 5465
6 215677456 215679186 + ClaG1_Chr06g0427201 Chla6g05473 5473
6 215762724 215768374 - ClaG1_Chr06g0427231 Chla6g05476 5476
7 248508870 248516514 - CmaNakai_Chr07g0695441 Chma7g07242 7242
7 248755163 248757904 + CmaNakai_Chr07g0695501 Chma7g07248 7248
7 248880484 248881845 + CmaNakai_Chr07g0695521 Chma7g07250 7250
7 249113144 249114377 - CmaNakai_Chr07g0695581 Chma7g07256 7256
7 249200363 249203707 - CmaNakai_Chr07g0695601 Chma7g07258 7258
13 61317376 61327754 + evm.model.scaffold_10828.34 Chmo13g01180 1180
13 62066983 62074452 + evm.model.scaffold_4060.187 Chmo13g01187 1187
13 62115501 62116915 - evm.model.scaffold_4060.185 Chmo13g01188 1188
13 62220918 62222567 - evm.model.scaffold_4060.177 Chmo13g01190 1190
13 62280836 62284712 + evm.model.scaffold_4060.173 Chmo13g01191 1191
14 55837055 55840560 + evm.model.scaffold_9850.50 Chmo14g01081 1081
14 56877379 56882426 + evm.model.scaffold_5062.4 Chmo14g01088 1088
14 57001011 57002177 - evm.model.scaffold_5062.9 Chmo14g01089 1089
14 57108115 57109758 - evm.model.scaffold_5062.12 Chmo14g01090 1090
14 57202498 57206397 + evm.model.scaffold_5062.15 Chmo14g01091 1091
15 59650724 59654519 + evm.model.scaffold_3415.55 Chmo15g01028 1028
15 59770055 59775063 + evm.model.scaffold_6625.2 Chmo15g01032 1032
15 59905712 59907452 - evm.model.scaffold_122.5 Chmo15g01040 1040
15 59969758 59971388 - evm.model.scaffold_122.8 Chmo15g01041 1041
15 60196272 60200195 + evm.model.scaffold_122.14 Chmo15g01043 1043
2 80089633 80105731 + Cn0815060 Chna2g01013 1013
2 80496627 80501411 + Cn0815130 Chna2g01016 1016
2 80540392 80541787 - Cn0815140 Chna2g01017 1017
2 80693961 80695475 - Cn0815210 Chna2g01020 1020
2 80919140 80922554 + Cn0815250 Chna2g01021 1021
4 138761072 138763381 + KAI3754029.1 Cich4g04894 4894
4 138858121 138859218 - KAI3754035.1 Cich4g04900 4900
4 138943285 138944503 - KAI3754036.1 Cich4g04901 4901
5 82228062 82234164 + KAI3510110.1 Cien5g03590 3590
5 82343342 82344435 - KAI3510117.1 Cien5g03597 3597
5 82384123 82385336 - KAI3510118.1 Cien5g03598 3598
5 82438890 82442166 + KAI3510120.1 Cien5g03600 3600
3 307219764 307222741 - D.indicum_Contig21_G00031.t1 Cind3g01987 1987
3 307286287 307287666 + D.indicum_Contig21_G00032.t1 Cind3g01988 1988
3 307398802 307400152 + D.indicum_Contig21_G00035.t1 Cind3g01991 1991
3 307459607 307462386 - D.indicum_Contig21_G00036.t1 Cind3g01992 1992
3 308160275 308174381 - D.indicum_Contig21_G00041.t1 Cind3g01997 1997
4 74884926 74886265 + h2tg000009l_1.g42518.t1 Cobi4g02761 2761
4 74907200 74908621 + h2tg000009l_1.g42517.t1 Cobi4g02762 2762
4 75028282 75034826 - h2tg000009l_1.g42512.t1 Cobi4g02767 2767
7 12429082 12431422 + h1tg000030l.g77170.t1 Dapi7g00580 580
7 12536922 12538083 - h1tg000030l.g77173.t1 Dapi7g00583 583
7 12607460 12610584 - h1tg000030l.g77174.t1 Dapi7g00584 584
23 13302311 13310422 + h2tg000020l.g165099.t1 Dapi23g00600 600
23 13403359 13404585 - h2tg000020l.g165096.t1 Dapi23g00603 603
23 13466995 13467546 - h2tg000020l.g165093.t1 Dapi23g00606 606
3 1583576 1584870 + XM_043765575.1 Ecan3g00165 165
3 1607087 1608727 + XM_043764813.1 Ecan3g00166 166
3 1663245 1675830 - XM_043763064.1 Ecan3g00171 171
3 1665372 1675852 - XM_043763067.1 Ecan3g00173 173
6 59277211 59278428 + evm.model.ctg291.7 Enbr6g01679 1679
6 59337065 59338375 + evm.model.ctg291.5 Enbr6g01681 1681
1 11216516 11218432 + FliAMIRv0_Chr01g0005401 Fli1g00545 545
1 11343987 11345123 - FliAMIRv0_Chr01g0005451 Fli1g00550 550
1 11367572 11368575 - FliAMIRv0_Chr01g0005461 Fli1g00551 551
11 76812449 76813480 + FraAMIRv0_Chr11g0223371 Fra11g02314 2314
11 76830903 76832069 + FraAMIRv0_Chr11g0223381 Fra11g02315 2315
11 76919784 76926851 - FraAMIRv0_Chr11g0223431 Fra11g02321 2321
12 28737878 28738889 + FroAMIRv0_Chr12g0216891 Fro12g02141 2141
12 28757392 28758493 + FroAMIRv0_Chr12g0216901 Fro12g02142 2142
12 28831417 28845007 - FroAMIRv0_Chr12g0216931 Fro12g02145 2145
2 6352262 6360540 + FsoAMIRv0_Chr02g0032961 Fso2g00477 477
2 6448363 6449366 - FsoAMIRv0_Chr02g0033011 Fso2g00482 482
4 117070619 117071597 + FtrAMIRv0_Chr04g0128761 Ftr4g03442 3442
4 117091788 117092902 + FtrAMIRv0_Chr04g0128771 Ftr4g03443 3443
3 105492972 105501466 + GcoAMIRv0_Chr03g0172441 Glco3g01615 1615
3 105825205 105826741 - GcoAMIRv0_Chr03g0172491 Glco3g01620 1620
3 105945947 105947150 - GcoAMIRv0_Chr03g0172511 Glco3g01622 1622
11 43882503 43884045 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0483251 Hean11g01479 1479
11 44075163 44076558 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0483261 Hean11g01480 1480
11 44667224 44689650 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0483311 Hean11g01484 1484
31 45692410 45712459 + >Htub.h1tg000660l.g382.t1 Hetu31g01028 1028
31 46504704 46505853 - >Htub.h1tg000660l.g394.t1 Hetu31g01040 1040
31 46958887 46960035 - >Htub.h2tg002323l.g77.t1 Hetu31g01048 1048
32 50374676 50377875 + >Htub.h1tg000795l.g325.t1 Hetu32g01076 1076
32 50933510 50934658 - >Htub.h1tg000795l.g332.t1 Hetu32g01083 1083
32 51166292 51167509 - >Htub.h1tg000795l.g335.t1 Hetu32g01086 1086
33 48044147 48058293 + >Htub.h1tg001052l.g222.t1 Hetu33g01139 1139
33 48676138 48677395 - >Htub.h1tg003380l.g179.t1 Hetu33g01143 1143
33 48921548 48922749 - >Htub.h1tg003380l.g180.t1 Hetu33g01144 1144
7 147057550 147062586 + CAI9295322.1 Laca7g03120 3120
7 147267845 147269224 - CAI9295327.1 Laca7g03125 3125
7 147362168 147363500 - CAI9295329.1 Laca7g03126 3126
7 147401387 147403503 + CAI9295331.1 Laca7g03128 3128
2 47256367 47258242 + LmiAMIRv0_Chr02g0087031 Lomi2g04170 4170
2 47270247 47271295 + LmiAMIRv0_Chr02g0087041 Lomi2g04171 4171
7 202180220 202185233 + >KAJ0197645.1 Lssa7g03818 3818
7 202315838 202317186 - >KAJ0195324.1 Lssa7g03823 3823
7 202904631 202906054 - >KAJ0195790.1 Lssa7g03828 3828
7 202941837 202943974 + >KAJ0197704.1 Lssa7g03831 3831
17 46250837 46263096 + KAD3067149.1 Mimi17g00827 827
17 46604904 46606049 - KAD3067155.1 Mimi17g00833 833
4 16629371 16635770 + PdyAMIRv0_Chr04g0156901 Pdy4g00883 883
4 16733889 16734968 - PdyAMIRv0_Chr04g0156941 Pdy4g00887 887
4 16802797 16804025 - PdyAMIRv0_Chr04g0156951 Pdy4g00888 888
1 43840904 43842361 - PluAMIRv0_Chr01g0063651 Pslu1g06389 6389
1 43856421 43857422 - PluAMIRv0_Chr01g0063661 Pslu1g06390 6390
1 149205619 149215619 - PluAMIRv0_Chr01g0205861 Pslu1g20677 20677
12 1780611 1783554 + SinAMIRv0_Chr12g0356821 Sain12g00117 117
12 1894595 1897708 + SinAMIRv0_Chr12g0356851 Sain12g00120 120
12 1965945 1967031 - SinAMIRv0_Chr12g0356861 Sain12g00121 121
12 2008543 2009860 - SinAMIRv0_Chr12g0356871 Sain12g00122 122
12 2026247 2030109 + SinAMIRv0_Chr12g0356881 Sain12g00123 123
12 2041990 2042764 + SinAMIRv0_Chr12g0356891 Sain12g00124 124
12 2072496 2072903 - SinAMIRv0_Chr12g0356901 Sain12g00125 125
7 8817308 8833658 + KAI3810108.1 Smso7g00528 528
7 8949053 8952451 - KAI3810112.1 Smso7g00532 532
7 8985239 8986271 - KAI3810114.1 Smso7g00534 534
29 9982078 9983690 + KAI3675679.1 Smso29g00685 685
29 10046006 10047060 - KAI3675682.1 Smso29g00688 688
29 10088410 10090028 - KAI3675683.1 Smso29g00689 689
5 73101419 73103189 + augustus35912.t01 Soca5g05320 5320
5 73144293 73145733 + asmbl_4275.p1 Soca5g05321 5321
5 73242583 73253386 - transfrag23870.t04 Soca5g05327 5327
5 73242583 73253386 - transfrag23870.t02 Soca5g05329 5329
6 21558006 21565724 + Streb.6G007300.1 Stre6g00730 730
6 21713268 21714355 - Streb.6G007350.1 Stre6g00735 735
6 21871848 21873858 - Streb.6G007360.1 Stre6g00736 736
1 53636000 53638465 + >KAK1440121.1 Taer1g05946 5946
1 53688944 53691238 - >KAK1440127.1 Taer1g05952 5952
1 53710740 53711679 - >KAK1440128.1 Taer1g05953 5953
       
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