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Asteraceae Genomic Research Platform

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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
Armi1g00922 Sain12g00725 . Cati3g00964 Ccar2g01829 . . . . . . Pslu1g21774 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00923 Sain12g00726 . . Ccar2g01828 Cien5g03056 Cich4g04129 Lssa7g03080 Laca7g02512 Tako4g04495 Tamo4g03248 . Lomi1g00123 . . Ecan3g01893 Soca5g03002 Glco3g00335 Artr3g12482 . . Aann4g01528 Chma7g08920 Chmo13g00387 . . Chla6g06578 Chna2g00214 Cind3g04192 Pdy4g00211 . . . . . . . . . . . . . . . . . . . . Cobi4g03292 Hean16g00900 Bial4g03607 Bial16g02952 Dapi7g00144 Dapi23g00162 . Hetu46g00926 Hetu47g00929 Amtr01g04233 Smso7g00195 . Taer1g05668 Fro12g02520 Fso2g00221 Ftr4g03810 Fra11g02650 Fli1g00154 Stre6g00193 Mimi17g00182
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . Ccar2g01826 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00926 Sain12g00730 . Cati3g00967 Ccar2g01825 Cien5g03052 Cich4g04124 Lssa7g03078 Laca7g02510 Tako4g04498 Tamo4g03250 Pslu1g21778 Lomi1g00120 Lomi2g04541 Enbr6g03000 Ecan3g01888 Soca5g03008 Glco3g00345 . Aary5g03023 Aary13g03599 Aann4g01536 . Chmo13g00384 . . Chla6g06581 Chna2g00211 Cind3g04195 Pdy4g00201 . . . . . . . . . . . . . . . . . . . . Cobi4g03290 Hean16g00902 Bial4g03605 Bial16g02950 Dapi7g00146 Dapi23g00164 Hetu48g00842 Hetu46g00923 Hetu47g00927 Amtr01g04229 Smso7g00192 Smso29g00233 . . . . . . Stre6g00195 Mimi17g00184
Armi1g00930 . . Cati3g00979 Ccar2g01823 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00934 Sain12g00742 . Cati3g00985 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00935 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00936 Sain12g00743 . Cati3g00986 Ccar2g01822 Cien5g03046 Cich4g04113 Lssa7g03062 Laca7g02505 Tako4g04511 Tamo4g03271 Pslu1g21782 Lomi1g00116 Lomi2g04543 . Ecan3g01882 . Glco3g00358 Artr3g12507 Aary5g03035 . Aann4g01543 . Chmo13g00249 . . Chla6g06608 Chna2g00192 Cind3g04209 Pdy4g00197 . Hean4g04515 . . Dapi16g02058 . Hetu11g00078 Hetu12g00078 Hetu10g00104 Amtr06g04353 . Smso26g02063 . . . . . . Stre6g00196 Mimi9g01578 Cobi4g03287 Hean16g00907 Bial4g03603 Bial16g02947 Dapi7g00150 Dapi23g00167 Hetu48g00838 Hetu46g00918 Hetu47g00920 Amtr01g04219 Smso7g00189 Smso29g00230 Taer1g05662 Fro12g02515 Fso2g00215 Ftr4g03804 Fra11g02645 Fli1g00159 Stre6g00198 Mimi17g00187
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
First Page 68 of 3145 Last
Gene_GFF
Chromosome Start End Strand Old_gene Gene Num
4 74323118 74324435 + chr4g0788251 Aann4g01528 1528
4 74368452 74376198 - chr4g0788341 Aann4g01536 1536
4 74608110 74609871 + chr4g0788491 Aann4g01543 1543
5 184211987 184218949 - Aargg5g30230.1 Aary5g03023 3023
5 185300312 185301496 + Aargg5g30350.1 Aary5g03035 3035
13 216458884 216459957 - Aargg13g35990.1 Aary13g03599 3599
1 113602356 113603347 - AtrifAMIRv0_Chr01g0042191 Amtr01g04219 4219
1 114024406 114032596 + AtrifAMIRv0_Chr01g0042291 Amtr01g04229 4229
1 114109545 114110363 - AtrifAMIRv0_Chr01g0042331 Amtr01g04233 4233
6 96673667 96674660 + AtrifAMIRv0_Chr06g0431781 Amtr06g04353 4353
1 24492642 24500549 + AmiAMIRv0_Chr01g0009221 Armi1g00922 922
1 24501426 24502226 - AmiAMIRv0_Chr01g0009231 Armi1g00923 923
1 24554080 24561536 - AmiAMIRv0_Chr01g0009261 Armi1g00926 926
1 24816398 24819539 + AmiAMIRv0_Chr01g0009301 Armi1g00930 930
1 24957777 24958699 - AmiAMIRv0_Chr01g0009341 Armi1g00934 934
1 24990495 24992340 - AmiAMIRv0_Chr01g0009351 Armi1g00935 935
1 25027232 25028309 + AmiAMIRv0_Chr01g0009361 Armi1g00936 936
3 428437400 428438215 + AtridAMIRv0_Chr03g0432181 Artr3g12482 12482
3 429349055 429350184 - AtridAMIRv0_Chr03g0432431 Artr3g12507 12507
4 81430935 81431875 - g62319.t1 Bial4g03603 3603
4 81486000 81494249 + g62317.t1 Bial4g03605 3605
4 81506729 81507535 - g62315.t1 Bial4g03607 3607
16 74455092 74456032 - g59580.t1 Bial16g02947 2947
16 74503536 74511131 + g59577.t1 Bial16g02950 2950
16 74522279 74523085 - g59575.t1 Bial16g02952 2952
3 12987686 12996604 + CtAH03T0069300.2 Cati3g00964 964
3 13013691 13021040 - CtAH03T0069600.1 Cati3g00967 967
3 13086727 13087635 - CtAH03T0070000.1 Cati3g00979 979
3 13240838 13245356 - CtAH03T0070500.2 Cati3g00985 985
3 13323882 13326385 + CtAH03T0070600.1 Cati3g00986 986
2 64396234 64397205 - gnl|WGS:LEKV|Ccrd_010868.mRNA.1_mrna Ccar2g01822 1822
2 64409851 64413961 + gnl|WGS:LEKV|Ccrd_010869.mRNA.1_mrna Ccar2g01823 1823
2 64463571 64471021 + gnl|WGS:LEKV|Ccrd_010871.mRNA.1_mrna Ccar2g01825 1825
2 64472413 64481780 - gnl|WGS:LEKV|Ccrd_010872.mRNA.1_mrna Ccar2g01826 1826
2 64496426 64498484 + gnl|WGS:LEKV|Ccrd_010874.mRNA.1_mrna Ccar2g01828 1828
2 64498370 64506602 - gnl|WGS:LEKV|Ccrd_010875.mRNA.1_mrna Ccar2g01829 1829
6 269474862 269475778 + ClaG1_Chr06g0438251 Chla6g06578 6578
6 269510974 269519050 - ClaG1_Chr06g0438281 Chla6g06581 6581
6 270729043 270730484 + ClaG1_Chr06g0438551 Chla6g06608 6608
7 300625467 300626282 - CmaNakai_Chr07g0712221 Chma7g08920 8920
13 11227207 11228859 + evm.model.scaffold_12263.1 Chmo13g00249 249
13 16816750 16824148 + evm.model.scaffold_927.196 Chmo13g00384 384
13 16890215 16891292 - evm.model.scaffold_927.201 Chmo13g00387 387
2 11617375 11619113 + Cn1267760 Chna2g00192 192
2 12809671 12817090 + Cn1267420 Chna2g00211 211
2 12854053 12854868 - Cn1267390 Chna2g00214 214
4 120664791 120665794 - KAI3753248.1 Cich4g04113 4113
4 121003917 121008550 + KAI3753259.1 Cich4g04124 4124
4 121107054 121107881 - KAI3753264.1 Cich4g04129 4129
5 72811307 72812310 - KAI3509566.1 Cien5g03046 3046
5 72905106 72909410 + KAI3509572.1 Cien5g03052 3052
5 72947734 72948561 - KAI3509576.1 Cien5g03056 3056
3 362436979 362437794 + D.indicum_Contig50_G00008.t1 Cind3g04192 4192
3 362556481 362563624 - D.indicum_Contig50_G00011.t1 Cind3g04195 4195
3 363733159 363733833 + D.indicum_Contig50_G00025.t1 Cind3g04209 4209
4 82748326 82749275 - h2tg000064l_1.g27502.t1 Cobi4g03287 3287
4 82781883 82788514 + h2tg000064l_1.g27505.t1 Cobi4g03290 3290
4 82801327 82802142 - h2tg000064l_1.g27507.t1 Cobi4g03292 3292
7 3018007 3018822 + h1tg000136l.g124520.t1 Dapi7g00144 144
7 3027997 3039411 - h1tg000136l.g124518.t1 Dapi7g00146 146
7 3137737 3138712 + h1tg000136l.g124514.t1 Dapi7g00150 150
16 81511140 81512214 + h1tg000026l.g57011.t1 Dapi16g02058 2058
23 3566678 3567502 + h2tg000064l.g12500.t1 Dapi23g00162 162
23 3576627 3584454 - h2tg000064l.g12502.t1 Dapi23g00164 164
23 3667807 3668781 + h2tg000064l.g12505.t1 Dapi23g00167 167
3 29846268 29847744 - XM_043764952.1 Ecan3g01882 1882
3 29884892 29892207 + XM_043764637.1 Ecan3g01888 1888
3 29918080 29919024 - XM_043766292.1 Ecan3g01893 1893
6 110213239 110220051 + evm.model.ctg3197.1 Enbr6g03000 3000
1 3073403 3074218 + FliAMIRv0_Chr01g0001491 Fli1g00154 154
1 3233982 3234602 + FliAMIRv0_Chr01g0001541 Fli1g00159 159
11 79914840 79916018 - FraAMIRv0_Chr11g0226671 Fra11g02645 2645
11 79964194 79965009 - FraAMIRv0_Chr11g0226721 Fra11g02650 2650
12 32909087 32910339 - FroAMIRv0_Chr12g0220631 Fro12g02515 2515
12 32957067 32957882 - FroAMIRv0_Chr12g0220681 Fro12g02520 2520
2 2951963 2952974 - FsoAMIRv0_Chr02g0030341 Fso2g00215 215
2 3014756 3015571 - FsoAMIRv0_Chr02g0030401 Fso2g00221 221
4 121923119 121924316 - FtrAMIRv0_Chr04g0132381 Ftr4g03804 3804
4 122003103 122003414 - FtrAMIRv0_Chr04g0132441 Ftr4g03810 3810
3 17842365 17843177 + GcoAMIRv0_Chr03g0159641 Glco3g00335 335
3 18194929 18201761 - GcoAMIRv0_Chr03g0159741 Glco3g00345 345
3 19602030 19603399 + GcoAMIRv0_Chr03g0159871 Glco3g00358 358
4 206774934 206775557 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191601 Hean4g04515 4515
16 27857979 27858284 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733051 Hean16g00900 900
16 27901217 27910350 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733071 Hean16g00902 902
16 28501744 28503073 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733151 Hean16g00907 907
10 3747894 3749918 - >Htub.h1tg003188l.g188.t1 Hetu10g00104 104
11 3122029 3125527 - >Htub.h1tg000030l.g132.t1 Hetu11g00078 78
12 3337850 3339630 - >Htub.h1tg000754l.g282.t1 Hetu12g00078 78
46 45691595 45692591 - >Htub.h1tg000086l.g493.t1 Hetu46g00918 918
46 46050729 46059251 + >Htub.h1tg000086l.g488.t1 Hetu46g00923 923
46 46186647 46187462 - >Htub.h1tg000086l.g485.t1 Hetu46g00926 926
47 50316504 50317576 - >Htub.h1tg003760l.g390.t1 Hetu47g00920 920
47 50592361 50600895 + >Htub.h1tg004623l.g25.t1 Hetu47g00927 927
47 50727764 50728579 - >Htub.h1tg004623l.g27.t1 Hetu47g00929 929
48 43263132 43264128 - >Htub.h1tg002973l.g315.t1 Hetu48g00838 838
48 43515485 43523316 + >Htub.h1tg002973l.g311.t1 Hetu48g00842 842
7 118920092 118921090 - CAI9294680.1 Laca7g02505 2505
7 119764872 119769703 + CAI9294686.1 Laca7g02510 2510
7 119787464 119788294 - CAI9294689.1 Laca7g02512 2512
1 1035370 1036849 - LmiAMIRv0_Chr01g0001161 Lomi1g00116 116
1 1067119 1072935 + LmiAMIRv0_Chr01g0001201 Lomi1g00120 120
1 1089680 1090483 - LmiAMIRv0_Chr01g0001231 Lomi1g00123 123
2 50442098 50447877 - LmiAMIRv0_Chr02g0090741 Lomi2g04541 4541
2 50459507 50460577 + LmiAMIRv0_Chr02g0090761 Lomi2g04543 4543
7 161887429 161889263 - >KAJ0195628.1 Lssa7g03062 3062
7 163207699 163212658 + >KAJ0196157.1 Lssa7g03078 3078
7 163233906 163234736 - >KAJ0195112.1 Lssa7g03080 3080
9 59137304 59138549 - KAD5318313.1 Mimi9g01578 1578
17 5046362 5047177 + KAD3066504.1 Mimi17g00182 182
17 5063002 5071178 - KAD3066506.1 Mimi17g00184 184
17 5229721 5230761 + KAD3066509.1 Mimi17g00187 187
4 4192514 4193737 - PdyAMIRv0_Chr04g0150051 Pdy4g00197 197
4 4304237 4311316 + PdyAMIRv0_Chr04g0150091 Pdy4g00201 201
4 4551115 4551924 - PdyAMIRv0_Chr04g0150191 Pdy4g00211 211
1 156420428 156427420 - PluAMIRv0_Chr01g0216791 Pslu1g21774 21774
1 156450118 156455816 - PluAMIRv0_Chr01g0216831 Pslu1g21778 21778
1 156491259 156492259 + PluAMIRv0_Chr01g0216871 Pslu1g21782 21782
12 17250874 17257184 + SinAMIRv0_Chr12g0362891 Sain12g00725 725
12 17258780 17259586 - SinAMIRv0_Chr12g0362901 Sain12g00726 726
12 17303091 17309591 - SinAMIRv0_Chr12g0362941 Sain12g00730 730
12 17467839 17470172 - SinAMIRv0_Chr12g0363061 Sain12g00742 742
12 17574362 17575452 + SinAMIRv0_Chr12g0363071 Sain12g00743 743
7 3235190 3236003 - KAI3809769.1 Smso7g00189 189
7 3309440 3319715 + KAI3809772.1 Smso7g00192 192
7 3335099 3335893 - KAI3809775.1 Smso7g00195 195
26 47413736 47414761 + KAI3695548.1 Smso26g02063 2063
29 3622057 3623332 - KAI3675224.1 Smso29g00230 230
29 3699314 3706945 + KAI3675227.1 Smso29g00233 233
5 33544059 33545130 + transfrag31840.t01 Soca5g03002 3002
5 33580587 33587955 - asmbl_5697.p1 Soca5g03008 3008
6 5063877 5064851 + Streb.6G001930.1 Stre6g00193 193
6 5075952 5084625 - Streb.6G001950.1 Stre6g00195 195
6 5117877 5119375 + Streb.6G001960.1 Stre6g00196 196
6 5303643 5305054 + Streb.6G001980.1 Stre6g00198 198
1 51485797 51486953 - >KAK1439840.1 Taer1g05662 5662
1 51545357 51546172 - >KAK1439846.1 Taer1g05668 5668
4 104034232 104035056 + TkA04G413040.1 Tako4g04495 4495
4 104051927 104056149 + TkA04G413110.1 Tako4g04498 4498
4 104453108 104454572 + TkA04G414780.1 Tako4g04511 4511
4 62777113 62777937 + TbA04G018510.1 Tamo4g03248 3248
4 62793976 62798262 + TbA04G018490.1 Tamo4g03250 3250
4 63380634 63381262 + TbA04G017860.1 Tamo4g03271 3271
       
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