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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Helianthus annuus genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Helianthus annuus as a reference, and by comparing homologous gene locus maps and Ks values between Helianthus annuus and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 40×70, 843 macro-matrices.


Select Hean_1 Cobi_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 Hean_2 Cobi_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
Hean17g04481 Cobi5g00104 Bial21g02654 . Dapi5g00078 Dapi21g00118 Hetu50g03595 Hetu51g03958 Hetu49g03888 Amtr10g04165 Smso4g01329 Smso21g01297 Taer9g03125 Fro13g00111 Fso12g00104 . Fra13g00720 Fli9g00108 Stre11g00153 Mimi2g00072 . . . . . . . . . . . . . . . . . . . .
Hean17g04482 . Bial21g02655 . Dapi5g00079 Dapi21g00119 Hetu50g03593 Hetu51g03957 Hetu49g03885 Amtr10g04169 Smso4g01331 Smso21g01301 . . . . . . . Mimi2g00073 . . . . . . . . . . . . . . . . . . . .
Hean17g04483 . Bial21g02656 . Dapi5g00080 Dapi21g00124 Hetu50g03589 Hetu51g03956 Hetu49g03883 Amtr10g04172 Smso4g01332 Smso21g01302 Taer9g03124 Fro13g00113 Fso12g00106 Ftr6g00080 Fra13g00718 Fli9g00113 Stre11g00156 Mimi2g00074 . . . . . . . . . . . . . . . . . . . .
Hean17g04484 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04485 . . . . . . . . Amtr10g04184 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04486 Cobi5g02873 . Bial9g02688 Dapi5g00088 Dapi21g00131 . . . Amtr10g04189 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04487 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04488 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04489 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Hean17g04490 . . . . . . Hetu51g03938 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
10 96640217 96644077 - AtrifAMIRv0_Chr10g0665391 Amtr10g04165 4165
10 96909135 96911968 - AtrifAMIRv0_Chr10g0665431 Amtr10g04169 4169
10 97055684 97056446 - AtrifAMIRv0_Chr10g0665461 Amtr10g04172 4172
10 97452193 97455581 - AtrifAMIRv0_Chr10g0665581 Amtr10g04184 4184
10 97558275 97559672 + AtrifAMIRv0_Chr10g0665631 Amtr10g04189 4189
9 72036500 72037894 - g77068.t1 Bial9g02688 2688
21 69920818 69925148 - g62422.t1 Bial21g02654 2654
21 69968778 69970275 - g62423.t1 Bial21g02655 2655
21 69980076 69981299 - g62424.t1 Bial21g02656 2656
5 1783487 1788484 - h2tg000038l_1.g23782.t1 Cobi5g00104 104
5 79596555 79597895 - h2tg000020l_1.g9907.t1 Cobi5g02873 2873
5 1719702 1724405 - h1tg000132l.g124135.t1 Dapi5g00078 78
5 1763555 1765669 - h1tg000132l.g124136.t1 Dapi5g00079 79
5 1807879 1808311 - h1tg000132l.g124137.t1 Dapi5g00080 80
5 1969418 1970770 + h1tg000132l.g124145.t1 Dapi5g00088 88
21 2428749 2433468 - h1tg000096l.g113444.t1 Dapi21g00118 118
21 2472264 2474353 - h1tg000096l.g113443.t1 Dapi21g00119 119
21 2541681 2542112 - h1tg000096l.g113438.t1 Dapi21g00124 124
21 2691201 2692547 + h1tg000096l.g113431.t1 Dapi21g00131 131
9 2373153 2376510 - FliAMIRv0_Chr09g0208751 Fli9g00108 108
9 2453718 2454573 - FliAMIRv0_Chr09g0208801 Fli9g00113 113
13 34469036 34470262 + FraAMIRv0_Chr13g0260261 Fra13g00718 718
13 34505506 34508856 + FraAMIRv0_Chr13g0260281 Fra13g00720 720
13 1426057 1429371 - FroAMIRv0_Chr13g0222951 Fro13g00111 111
13 1463250 1464157 - FroAMIRv0_Chr13g0222971 Fro13g00113 113
12 1685609 1688964 - FsoAMIRv0_Chr12g0290691 Fso12g00104 104
12 1748115 1748860 - FsoAMIRv0_Chr12g0290711 Fso12g00106 106
6 962233 963074 - FtrAMIRv0_Chr06g0162301 Ftr6g00080 80
17 192198529 192207562 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830721 Hean17g04481 4481
17 192324160 192328468 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830731 Hean17g04482 4482
17 192443511 192444301 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830761 Hean17g04483 4483
17 192520108 192520485 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830771 Hean17g04484 4484
17 192670299 192681557 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830791 Hean17g04485 4485
17 192715920 192717409 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830801 Hean17g04486 4486
17 192868138 192869933 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830811 Hean17g04487 4487
17 192965532 192966083 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830821 Hean17g04488 4488
17 193034428 193034775 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830841 Hean17g04489 4489
17 193036324 193036674 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0830851 Hean17g04490 4490
49 223567333 223567777 + >Htub.h1tg001001l.g617.t1 Hetu49g03883 3883
49 223778959 223780279 + >Htub.h1tg001001l.g619.t1 Hetu49g03885 3885
49 223905867 223910456 + >Htub.h1tg001001l.g622.t1 Hetu49g03888 3888
50 208726733 208727472 + >Htub.h1tg000531l.g390.t1 Hetu50g03589 3589
50 208972794 208973982 + >Htub.h1tg000531l.g394.t1 Hetu50g03593 3593
50 209124695 209130512 + >Htub.h1tg000531l.g396.t1 Hetu50g03595 3595
51 229286792 229287997 + >Htub.h1tg000558l.g169.t1 Hetu51g03938 3938
51 229933569 229934030 + >Htub.h1tg000558l.g188.t1 Hetu51g03956 3956
51 230087768 230090960 + >Htub.h1tg000558l.g189.t1 Hetu51g03957 3957
51 230250207 230255505 + >Htub.h1tg000558l.g190.t1 Hetu51g03958 3958
2 2072489 2074983 - KAD7116488.1 Mimi2g00072 72
2 2124893 2127997 - KAD7116489.1 Mimi2g00073 73
2 2171486 2171932 - KAD7116490.1 Mimi2g00074 74
4 17868077 17871524 - KAI3818182.1 Smso4g01329 1329
4 17915693 17919849 - KAI3818184.1 Smso4g01331 1331
4 17981719 17983575 - KAI3818185.1 Smso4g01332 1332
21 13673739 13677142 - KAI3731503.1 Smso21g01297 1297
21 13741026 13743709 - KAI3731507.1 Smso21g01301 1301
21 13761364 13762376 - KAI3731508.1 Smso21g01302 1302
11 4472435 4478102 - Streb.11G001530.1 Stre11g00153 153
11 4710293 4710766 - Streb.11G001560.1 Stre11g00156 156
9 31312768 31313372 + >KAK1413761.1 Taer9g03124 3124
9 31325680 31328702 + >KAK1413762.1 Taer9g03125 3125
       
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