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AGRP

Asteraceae Genomic Research Platform

Gene Search

Example:
Example:

Hierarchical alignments with the Vitis vinifera genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Vitis vinifera as a reference, and by comparing homologous gene locus maps and Ks values between Vitis vinifera and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes.
  The relevant gene ids can be obtained from the Asteraceae blast and match under the Tools module. This link is Asteraceae blast and match.
Select Vivi_1 Arla_1 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
Vivi1g00011 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00012 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00013 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00014 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00015 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00016 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00017 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00018 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00019 Arla4g01946 Armi3g04252 Sain4g00774 . Cati7g00475 Ccar13g00320 Cien3g02873 . Lssa8g01681 Laca8g01408 Tako5g02593 Tamo5g03383 Pslu5g12889 Lomi3g01875 Lomi4g01623 . Ecan1g02732 Soca1g02984 Glco1g01623 Artr1g07693 Aary9g00825 Aary17g00869 Aann5g04703 . . Chmo17g03375 Chmo18g02878 . Chna6g01846 . Pdy1g05487 Cobi2g00604 Hean8g00426 Bial8g00377 Bial20g00142 Dapi18g02901 Dapi2g03726 Hetu23g00506 Hetu22g00473 Hetu24g00559 Amtr09g02821 Smso4g00454 . Taer8g02266 Fro18g01573 Fso14g00464 Ftr1g02466 Fra1g01602 Fli5g00476 Stre8g02873 Mimi18g00277 . . . . . . . . . . . . . . . . . .
Vivi1g00020 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
5 147250032 147253863 - chr5g0332721 Aann5g04703 4703
8 44058293 44068983 - chr8g1064681 Aann8g00806 806
4 194032584 194044945 + Aargg4g28790.1 Aary4g02879 2879
9 83237637 83240234 + Aargg9g08250.1 Aary9g00825 825
12 184116312 184130303 - Aargg12g26860.1 Aary12g02686 2686
17 78659017 78661624 + Aargg17g08690.1 Aary17g00869 869
9 74404903 74409450 - AtrifAMIRv0_Chr09g0600061 Amtr09g02821 2821
10 99040931 99048970 - AtrifAMIRv0_Chr10g0666381 Amtr10g04264 4264
4 105183272 105186923 + evm.model.000240F.61 Arla4g01946 1946
5 5492359 5504279 - evm.model.000113F.263 Arla5g00268 268
3 6266304 6278134 - AmiAMIRv0_Chr03g0092211 Armi3g00288 288
3 154802759 154806233 + AmiAMIRv0_Chr03g0131851 Armi3g04252 4252
1 224750060 224752856 + AtridAMIRv0_Chr01g0076931 Artr1g07693 7693
4 60524583 60534799 - AtridAMIRv0_Chr04g0461911 Artr4g01936 1936
8 4203799 4206673 - g30800.t1 Bial8g00377 377
9 71247488 71260899 + g77021.t1 Bial9g02641 2641
20 1660735 1664955 - g139539.t1 Bial20g00142 142
4 89399262 89412541 + CtAH04T0235000.1 Cati4g03122 3122
7 4433009 4437088 - CtAH07T0035300.1 Cati7g00475 475
12 2303877 2320397 - gnl|WGS:LEKV|Ccrd_000190.mRNA.1_mrna Ccar12g00186 186
13 3861332 3864709 - gnl|WGS:LEKV|Ccrd_016201.mRNA.1_mrna Ccar13g00320 320
2 104749867 104759035 + >KAJ9563742.1 Ceso2g04373 4373
17 229652114 229655833 + evm.model.scaffold_1419.36 Chmo17g03375 3375
18 233110770 233113472 + evm.model.scaffold_1054.35 Chmo18g02878 2878
6 115103266 115106466 - Cn0690180 Chna6g01846 1846
3 7055762 7062544 - KAI3763700.1 Cich3g00260 260
3 76215408 76216844 - KAI3516613.1 Cien3g02873 2873
2 7613661 7617351 + h2tg000034l_1.g20750.t1 Cobi2g00604 604
5 78954078 78963288 + h2tg000020l_1.g9947.t1 Cobi5g02833 2833
2 141265357 141271898 + h2tg000149l.g52083.t1 Dapi2g03726 3726
5 2726319 2735599 - h1tg000132l.g124178.t1 Dapi5g00121 121
18 131234181 131237835 + h1tg000021l.g26552.t1 Dapi18g02901 2901
21 3443947 3453162 - h1tg000096l.g113397.t1 Dapi21g00165 165
1 41671673 41674411 + XM_043783311.1 Ecan1g02732 2732
4 31287114 31295993 + XM_043769999.1 Ecan4g02013 2013
4 97911976 97921607 + evm.model.ctg11221.2 Enbr4g02824 2824
5 8014431 8016597 + FliAMIRv0_Chr05g0124971 Fli5g00476 476
1 76767297 76769461 - FraAMIRv0_Chr01g0015991 Fra1g01602 1602
18 22624118 22626377 - FroAMIRv0_Chr18g0343321 Fro18g01573 1573
14 6271621 6274134 + FsoAMIRv0_Chr14g0344341 Fso14g00464 464
1 85490321 85492725 - FtrAMIRv0_Chr01g0024631 Ftr1g02466 2466
1 80479628 80482804 + GcoAMIRv0_Chr01g0016231 Glco1g01623 1623
6 577377234 577389516 + GcoAMIRv0_Chr06g0439521 Glco6g05853 5853
8 7474068 7479751 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr08g0322481 Hean8g00426 426
17 194747051 194758945 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831681 Hean17g04556 4556
22 20510158 20514662 - >Htub.h1tg000131l.g504.t1 Hetu22g00473 473
23 25789101 25793399 + >Htub.h1tg000843l.g128.t1 Hetu23g00506 506
24 24790004 24793966 - >Htub.h1tg000167l.g26.t1 Hetu24g00559 559
49 219986425 219998454 + >Htub.h1tg001001l.g537.t1 Hetu49g03806 3806
50 205380340 205385409 + >Htub.h1tg000531l.g300.t1 Hetu50g03502 3502
51 226492596 226497900 + >Htub.h1tg000558l.g104.t1 Hetu51g03874 3874
4 12324099 12330482 - CAI9278456.1 Laca4g00306 306
8 48397134 48399013 + CAI9296961.1 Laca8g01408 1408
3 15972073 15974638 - LmiAMIRv0_Chr03g0110631 Lomi3g01875 1875
4 24299903 24301795 + LmiAMIRv0_Chr04g0140931 Lomi4g01623 1623
10 13000336 13010246 - LmiAMIRv0_Chr10g0305311 Lomi10g01539 1539
4 20309184 20317077 - >KAJ0212369.1 Lssa4g00466 466
8 68908173 68909627 + >KAJ0192004.1 Lssa8g01681 1681
18 5297708 5305762 - KAD2804171.1 Mimi18g00277 277
1 115946768 115951422 - PdyAMIRv0_Chr01g0054831 Pdy1g05487 5487
2 3837124 3841954 + PdyAMIRv0_Chr02g0058191 Pdy2g00202 202
4 21909196 21914063 - PluAMIRv0_Chr04g0613061 Pslu4g03353 3353
5 95655622 95657237 + PluAMIRv0_Chr05g0877471 Pslu5g12889 12889
4 21556494 21558581 + SinAMIRv0_Chr04g0091081 Sain4g00774 774
9 216140835 216153766 - SinAMIRv0_Chr09g0250171 Sain9g04123 4123
4 5962573 5967566 + KAI3817307.1 Smso4g00454 454
4 18385382 18397068 + KAI3818206.1 Smso4g01353 1353
21 13944465 13947004 + KAI3731523.1 Smso21g01317 1317
1 33278321 33281519 - transfrag2524.t01 Soca1g02984 2984
9 21944797 21953595 - transfrag2024.t01 Soca9g01952 1952
8 95181652 95183840 - Streb.8G028730.1 Stre8g02873 2873
8 62810505 62813438 - >KAK1416023.1 Taer8g02266 2266
5 89275262 89276691 - TkA05G359570.1 Tako5g02593 2593
3 105685620 105688408 + TbA03G004550.1 Tamo3g04997 4997
5 78533702 78535480 - TbA05G097210.1 Tamo5g03383 3383
1 230334 235218 + GSVIVT01012247001 Vivi1g00011 11
1 237202 239435 - GSVIVT01012246001 Vivi1g00012 12
1 246096 257603 + GSVIVT01012245001 Vivi1g00013 13
1 258817 261979 - GSVIVT01012244001 Vivi1g00014 14
1 263082 269275 - GSVIVT01012243001 Vivi1g00015 15
1 279359 279820 - GSVIVT01012242001 Vivi1g00016 16
1 279894 281109 + GSVIVT01012241001 Vivi1g00017 17
1 284312 287530 - GSVIVT01012240001 Vivi1g00018 18
1 297105 301979 + GSVIVT01012239001 Vivi1g00019 19
1 302206 305739 - GSVIVT01012238001 Vivi1g00020 20
       
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