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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
. Sain12g00744 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00952 Sain12g00747 . Cati3g00993 Ccar2g01820 . . . . . . Pslu1g21787 . Lomi2g04544 . Ecan3g01881 . . . . . . Chma7g08966 Chmo13g00236 . . Chla6g06611 Chna2g00188 Cind3g04213 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00953 Sain12g00748 . Cati3g00994 Ccar2g01819 Cien5g03045 Cich4g04112 Lssa7g03061 Laca7g02504 . Tamo4g03272 Pslu1g21788 Lomi1g00115 . . Ecan3g01880 . Glco3g00365 . Aary5g03038 . Aann4g01545 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00955 Sain12g00751 Ceso2g01655 Cati3g00996 . . Cich4g04110 Lssa7g03060 Laca7g02502 Tako4g04515 Tamo4g03276 Pslu1g21792 Lomi1g00114 Lomi2g04545 Enbr6g02999 Ecan3g01878 . Glco3g00370 Artr3g12524 Aary5g03040 . Aann4g01547 Chma7g09012 Chmo13g00267 . . Chla6g06631 Chna2g00184 Cind3g04219 Pdy4g00195 . . . . . . . . . . . . . . . . . . . . Cobi4g03282 Hean16g00909 Bial4g03600 Bial16g02941 Dapi7g00152 Dapi23g00169 . Hetu46g00916 Hetu47g00918 Amtr01g04217 . Smso29g00228 . . . . . . . Mimi17g00189
Armi1g00956 . . . . . . . . . . . . . . . . . . . . . . Chmo13g00269 . . . Chna2g00182 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00957 . Ceso2g01656 Cati3g00997 Ccar2g01809 . Cich4g04108 Lssa7g03058 Laca7g02500 Tako4g04516 Tamo4g03277 Pslu1g21794 Lomi1g00112 Lomi2g04546 Enbr6g02997 Ecan3g01876 Soca5g03014 Glco3g00391 Artr3g12535 Aary5g03044 . Aann4g01563 Chma7g09016 Chmo13g00270 . . Chla6g06634 Chna2g00181 Cind3g04222 Pdy4g00193 . Hean4g04516 . . Dapi16g02059 . Hetu11g00077 Hetu12g00077 Hetu10g00103 Amtr06g04363 . Smso26g02064 . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00958 . Ceso2g01657 Cati3g00998 Ccar2g01808 . Cich4g04106 Lssa7g03057 Laca7g02498 Tako4g04520 Tamo4g03279 Pslu1g21796 Lomi1g00111 Lomi2g04548 Enbr6g02994 Ecan3g01874 Soca5g03015 Glco3g00392 Artr3g12538 Aary5g03046 . Aann4g01564 Chma7g09017 Chmo13g00273 . . Chla6g06637 Chna2g00179 Cind3g04224 Pdy4g00191 . Hean4g04517 . . . . Hetu11g00076 Hetu12g00076 . . . . . . . . . . . . Cobi4g03278 Hean16g00913 . . Dapi7g00155 Dapi23g00172 Hetu48g00834 Hetu46g00913 Hetu47g00916 Amtr01g04213 Smso7g00184 Smso29g00225 . . . . . . Stre6g00203 Mimi17g00192
First Page 69 of 3145 Last
Gene_GFF
Chromosome Start End Strand Old_gene Gene Num
4 74632824 74635877 - chr4g0788521 Aann4g01545 1545
4 74644928 74650759 + chr4g0788541 Aann4g01547 1547
4 75087195 75092411 + chr4g0788921 Aann4g01563 1563
4 75119423 75122073 + chr4g0788951 Aann4g01564 1564
5 185724002 185724442 - Aargg5g30380.1 Aary5g03038 3038
5 185786332 185790585 + Aargg5g30400.1 Aary5g03040 3040
5 185903881 185906955 + Aargg5g30440.1 Aary5g03044 3044
5 185925086 185926044 + Aargg5g30460.1 Aary5g03046 3046
1 113541430 113543121 - AtrifAMIRv0_Chr01g0042131 Amtr01g04213 4213
1 113576715 113580803 - AtrifAMIRv0_Chr01g0042171 Amtr01g04217 4217
6 96850578 96854432 + AtrifAMIRv0_Chr06g0431881 Amtr06g04363 4363
1 25700353 25701555 + AmiAMIRv0_Chr01g0009521 Armi1g00952 952
1 25704878 25705309 - AmiAMIRv0_Chr01g0009531 Armi1g00953 953
1 25811012 25815860 + AmiAMIRv0_Chr01g0009551 Armi1g00955 955
1 25819029 25821062 + AmiAMIRv0_Chr01g0009561 Armi1g00956 956
1 25822665 25835020 + AmiAMIRv0_Chr01g0009571 Armi1g00957 957
1 25844007 25845028 + AmiAMIRv0_Chr01g0009581 Armi1g00958 958
3 429958032 429962145 + AtridAMIRv0_Chr03g0432601 Artr3g12524 12524
3 430136085 430138849 + AtridAMIRv0_Chr03g0432711 Artr3g12535 12535
3 430256223 430257159 + AtridAMIRv0_Chr03g0432741 Artr3g12538 12538
4 81368264 81373930 - g62322.t1 Bial4g03600 3600
16 74321364 74325448 - g59586.t1 Bial16g02941 2941
3 13714700 13718882 + CtAH03T0071300.1 Cati3g00993 993
3 13719279 13726759 - CtAH03T0071400.1 Cati3g00994 994
3 13832098 13836151 + CtAH03T0071600.1 Cati3g00996 996
3 13841833 13848892 + CtAH03T0071700.1 Cati3g00997 997
3 13854531 13858232 + CtAH03T0071800.1 Cati3g00998 998
2 64183040 64185292 - gnl|WGS:LEKV|Ccrd_010854.mRNA.1_mrna Ccar2g01808 1808
2 64193790 64211681 - gnl|WGS:LEKV|Ccrd_010855.mRNA.1_mrna Ccar2g01809 1809
2 64339641 64345907 + gnl|WGS:LEKV|Ccrd_010865.mRNA.1_mrna Ccar2g01819 1819
2 64349977 64352806 - gnl|WGS:LEKV|Ccrd_010866.mRNA.1_mrna Ccar2g01820 1820
2 35728804 35733445 + >KAJ9560976.1 Ceso2g01655 1655
2 35753692 35757838 + >KAJ9560975.1 Ceso2g01656 1656
2 35766176 35767171 + >KAJ9560974.1 Ceso2g01657 1657
6 270957502 270958756 + ClaG1_Chr06g0438581 Chla6g06611 6611
6 271645911 271650731 + ClaG1_Chr06g0438781 Chla6g06631 6631
6 271674439 271677423 + ClaG1_Chr06g0438811 Chla6g06634 6634
6 271688976 271691277 + ClaG1_Chr06g0438841 Chla6g06637 6637
7 302194562 302195395 - CmaNakai_Chr07g0712681 Chma7g08966 8966
7 303773112 303777854 + CmaNakai_Chr07g0713141 Chma7g09012 9012
7 303819897 303822507 + CmaNakai_Chr07g0713181 Chma7g09016 9016
7 303832852 303833726 + CmaNakai_Chr07g0713191 Chma7g09017 9017
13 10692600 10693999 + evm.model.scaffold_9462.18 Chmo13g00236 236
13 12069718 12073578 + evm.model.scaffold_1647.71 Chmo13g00267 267
13 12106801 12109051 + evm.model.scaffold_1647.67 Chmo13g00269 269
13 12110008 12113949 + evm.model.scaffold_1647.66 Chmo13g00270 270
13 12129987 12136968 + evm.model.scaffold_1647.62 Chmo13g00273 273
2 11001962 11003731 - Cn1268090 Chna2g00179 179
2 11013072 11014561 - Cn1268070 Chna2g00181 181
2 11025516 11027387 - Cn1268060 Chna2g00182 182
2 11054951 11063420 - Cn1267980 Chna2g00184 184
2 11499952 11507051 + Cn1267820 Chna2g00188 188
4 120526139 120527161 - KAI3753241.1 Cich4g04106 4106
4 120556485 120558107 - KAI3753243.1 Cich4g04108 4108
4 120564138 120566076 - KAI3753245.1 Cich4g04110 4110
4 120645338 120645871 + KAI3753247.1 Cich4g04112 4112
5 72803910 72804425 + KAI3509565.1 Cien5g03045 3045
3 364032050 364033303 + D.indicum_Contig50_G00029.t1 Cind3g04213 4213
3 364147789 364150468 + D.indicum_Contig50_G00035.t1 Cind3g04219 4219
3 364185564 364187900 + D.indicum_Contig50_G00038.t1 Cind3g04222 4222
3 364211197 364212097 + D.indicum_Contig50_G00040.t1 Cind3g04224 4224
4 82708552 82709800 - h2tg000064l_1.g27493.t1 Cobi4g03278 3278
4 82729788 82733868 - h2tg000064l_1.g27497.t1 Cobi4g03282 3282
7 3167998 3171660 + h1tg000136l.g124512.t1 Dapi7g00152 152
7 3185801 3186833 + h1tg000136l.g124509.t1 Dapi7g00155 155
16 81544504 81548979 + h1tg000026l.g57012.t1 Dapi16g02059 2059
23 3676650 3682669 + h2tg000064l.g12507.t1 Dapi23g00169 169
23 3694779 3695818 + h2tg000064l.g12510.t1 Dapi23g00172 172
3 29770251 29772653 - XM_043766221.1 Ecan3g01874 1874
3 29776974 29780557 - XM_043762995.1 Ecan3g01876 1876
3 29796994 29805935 - XM_043762994.1 Ecan3g01878 1878
3 29811768 29812492 + XM_043766350.1 Ecan3g01880 1880
3 29816392 29817750 - XM_043766956.1 Ecan3g01881 1881
6 110028340 110029279 - evm.model.ctg5021.6 Enbr6g02994 2994
6 110055135 110056712 - evm.model.ctg5021.2 Enbr6g02997 2997
6 110159844 110172150 - evm.model.ctg6185.2 Enbr6g02999 2999
3 20040176 20040613 - GcoAMIRv0_Chr03g0159941 Glco3g00365 365
3 20189928 20193800 + GcoAMIRv0_Chr03g0159991 Glco3g00370 370
3 21083517 21086171 + GcoAMIRv0_Chr03g0160201 Glco3g00391 391
3 21206701 21207639 + GcoAMIRv0_Chr03g0160211 Glco3g00392 392
4 206776510 206781576 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191611 Hean4g04516 4516
4 206785483 206787529 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr04g0191621 Hean4g04517 4517
16 28514779 28519641 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733171 Hean16g00909 909
16 28554121 28557578 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr16g0733211 Hean16g00913 913
10 3735296 3738528 - >Htub.h1tg003188l.g189.t1 Hetu10g00103 103
11 3111610 3113533 - >Htub.h1tg000030l.g130.t1 Hetu11g00076 76
11 3117029 3121074 - >Htub.h1tg000030l.g131.t1 Hetu11g00077 77
12 3323942 3325457 - >Htub.h1tg000754l.g280.t1 Hetu12g00076 76
12 3330157 3334597 - >Htub.h1tg000754l.g281.t1 Hetu12g00077 77
46 45566302 45567413 - >Htub.h1tg000086l.g498.t1 Hetu46g00913 913
46 45644893 45650265 - >Htub.h1tg000086l.g495.t1 Hetu46g00916 916
47 50204268 50205807 - >Htub.h1tg003760l.g394.t1 Hetu47g00916 916
47 50261939 50265496 - >Htub.h1tg003760l.g392.t1 Hetu47g00918 918
48 43103918 43106651 - >Htub.h1tg002973l.g320.t1 Hetu48g00834 834
7 118718440 118723088 - CAI9294673.1 Laca7g02498 2498
7 118734273 118736227 - CAI9294675.1 Laca7g02500 2500
7 118738238 118740792 - CAI9294677.1 Laca7g02502 2502
7 118853414 118855755 + CAI9294679.1 Laca7g02504 2504
1 1006551 1007503 - LmiAMIRv0_Chr01g0001111 Lomi1g00111 111
1 1014358 1017173 - LmiAMIRv0_Chr01g0001121 Lomi1g00112 112
1 1020866 1024689 - LmiAMIRv0_Chr01g0001141 Lomi1g00114 114
1 1028855 1029292 + LmiAMIRv0_Chr01g0001151 Lomi1g00115 115
2 50478109 50479555 + LmiAMIRv0_Chr02g0090771 Lomi2g04544 4544
2 50490728 50494272 + LmiAMIRv0_Chr02g0090781 Lomi2g04545 4545
2 50497568 50500172 + LmiAMIRv0_Chr02g0090791 Lomi2g04546 4546
2 50511063 50511999 + LmiAMIRv0_Chr02g0090811 Lomi2g04548 4548
7 161696587 161698759 - >KAJ0195175.1 Lssa7g03057 3057
7 161711536 161713459 - >KAJ0197693.1 Lssa7g03058 3058
7 161715724 161718089 - >KAJ0194725.1 Lssa7g03060 3060
7 161842199 161843244 + >KAJ0197121.1 Lssa7g03061 3061
17 5242013 5249756 + KAD3066511.1 Mimi17g00189 189
17 5275324 5278957 + KAD3066514.1 Mimi17g00192 192
4 4139647 4140953 - PdyAMIRv0_Chr04g0149991 Pdy4g00191 191
4 4149264 4152179 - PdyAMIRv0_Chr04g0150011 Pdy4g00193 193
4 4159200 4163015 - PdyAMIRv0_Chr04g0150031 Pdy4g00195 195
1 156524033 156525400 + PluAMIRv0_Chr01g0216911 Pslu1g21787 21787
1 156527629 156528069 - PluAMIRv0_Chr01g0216921 Pslu1g21788 21788
1 156543358 156548040 + PluAMIRv0_Chr01g0216961 Pslu1g21792 21792
1 156551436 156553883 + PluAMIRv0_Chr01g0216981 Pslu1g21794 21794
1 156560042 156560998 + PluAMIRv0_Chr01g0217001 Pslu1g21796 21796
12 17693050 17693767 - SinAMIRv0_Chr12g0363081 Sain12g00744 744
12 17938413 17940116 + SinAMIRv0_Chr12g0363111 Sain12g00747 747
12 17959319 17959750 - SinAMIRv0_Chr12g0363121 Sain12g00748 748
12 18037236 18041355 + SinAMIRv0_Chr12g0363151 Sain12g00751 751
7 3193319 3195081 - KAI3809764.1 Smso7g00184 184
26 47421586 47425159 + KAI3695549.1 Smso26g02064 2064
29 3584642 3586385 - KAI3675219.1 Smso29g00225 225
29 3598000 3602666 - KAI3675222.1 Smso29g00228 228
5 33648155 33650347 + transfrag28654.t01 Soca5g03014 3014
5 33658925 33661170 + transfrag28652.t01 Soca5g03015 3015
6 5341370 5344547 + Streb.6G002030.1 Stre6g00203 203
4 104532879 104537502 + TkA04G414990.1 Tako4g04515 4515
4 104538865 104546591 + TkA04G415000.1 Tako4g04516 4516
4 104605828 104607577 + TkA04G415270.2 Tako4g04520 4520
4 63383529 63386933 - TbA04G017850.1 Tamo4g03272 3272
4 63463307 63468080 + TbA04G017760.1 Tamo4g03276 3276
4 63468214 63470748 + TbA04G017750.1 Tamo4g03277 3277
4 63535158 63536432 + TbA04G017660.1 Tamo4g03279 3279
       
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