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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
Vivi1g00021 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00022 Arla4g01948 Armi3g04253 Sain4g00775 . Cati7g00474 Ccar13g00319 Cien3g02871 Cich2g01169 Lssa8g01682 Laca8g01409 Tako5g02592 . Pslu5g12900 Lomi3g01874 Lomi4g01624 . Ecan1g02733 Soca1g02983 Glco1g01624 Artr1g07686 Aary9g00827 Aary17g00871 Aann5g04698 . Chmo16g03223 Chmo17g03377 Chmo18g02879 . Chna6g01845 . Pdy1g05486 Cobi2g00609 Hean8g00419 Bial8g00376 Bial20g00141 Dapi18g02903 Dapi2g03728 Hetu23g00511 Hetu22g00471 Hetu24g00547 Amtr09g02816 Smso4g00456 Smso21g00488 Taer8g02264 Fro18g01571 Fso14g00466 Ftr1g02464 Fra1g01600 Fli5g00477 Stre8g02866 . Cobi12g00194 Hean12g01075 Bial1g00174 Bial13g00227 Dapi8g00213 Dapi24g00165 Hetu47g03391 Hetu48g03172 Hetu46g03336 Amtr02g01396 Smso5g02204 Smso26g02834 . . . . . .
Vivi1g00023 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00024 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00025 Arla4g01951 Armi3g04254 Sain4g00776 . Cati7g00473 Ccar13g00318 Cien3g02868 . Lssa8g01688 . . Tamo5g03381 Pslu5g12902 . . . . . Glco1g01626 Artr1g07673 . . Aann5g04697 Chma8g01199 Chmo16g03224 Chmo17g03378 Chmo18g02880 . Chna6g01844 Cind2g04267 Pdy1g05484 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00026 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00027 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00028 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00029 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi1g00030 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
5 147034027 147046277 + chr5g0332491 Aann5g04697 4697
5 147139637 147142401 + chr5g0332581 Aann5g04698 4698
8 44016833 44024859 + chr8g1064611 Aann8g00800 800
4 194094572 194101702 - Aargg4g28840.1 Aary4g02884 2884
9 83294193 83296314 - Aargg9g08270.1 Aary9g00827 827
12 193673538 193680446 - Aargg12g28770.1 Aary12g02877 2877
17 78720690 78724050 - Aargg17g08710.1 Aary17g00871 871
2 34231703 34233143 - AtrifAMIRv0_Chr02g0109921 Amtr02g01396 1396
9 74330386 74332668 + AtrifAMIRv0_Chr09g0600011 Amtr09g02816 2816
10 98982974 98998655 + AtrifAMIRv0_Chr10g0666321 Amtr10g04258 4258
4 105207621 105209529 - evm.model.000240F.59 Arla4g01948 1948
4 105269331 105289157 - evm.model.000240F.56 Arla4g01951 1951
5 5474535 5481950 + evm.model.000113F.261 Arla5g00266 266
14 14682864 14684860 + evm.model.000126F.8 Arla14g00265 265
3 6243046 6255912 + AmiAMIRv0_Chr03g0092191 Armi3g00286 286
3 154814955 154816866 - AmiAMIRv0_Chr03g0131861 Armi3g04253 4253
3 154874082 154895159 - AmiAMIRv0_Chr03g0131871 Armi3g04254 4254
1 224231820 224243168 + AtridAMIRv0_Chr01g0076731 Artr1g07673 7673
1 224577116 224578988 + AtridAMIRv0_Chr01g0076861 Artr1g07686 7686
4 59103599 59112730 + AtridAMIRv0_Chr04g0461511 Artr4g01896 1896
1 1757130 1758711 + g146477.t1 Bial1g00174 174
8 4159054 4161075 + g30799.t1 Bial8g00376 376
9 71279091 71284810 - g77024.t1 Bial9g02644 2644
13 2539079 2540660 + g64006.t1 Bial13g00227 227
20 1605283 1608192 + g139540.t1 Bial20g00141 141
4 89434461 89444342 - CtAH04T0235400.1 Cati4g03127 3127
7 4393759 4411212 + CtAH07T0035100.1 Cati7g00473 473
7 4426914 4430204 + CtAH07T0035200.1 Cati7g00474 474
12 2272156 2281449 + gnl|WGS:LEKV|Ccrd_000187.mRNA.1_mrna Ccar12g00183 183
13 3824137 3842675 + gnl|WGS:LEKV|Ccrd_016199.mRNA.1_mrna Ccar13g00318 318
13 3856954 3859035 + gnl|WGS:LEKV|Ccrd_016200.mRNA.1_mrna Ccar13g00319 319
2 104778068 104785696 - >KAJ9563857.1 Ceso2g04376 4376
8 66914895 66936608 - CmaNakai_Chr08g0731731 Chma8g01199 1199
16 211301445 211304454 - evm.model.scaffold_76.3 Chmo16g03223 3223
16 211516132 211528013 - evm.model.scaffold_76.17 Chmo16g03224 3224
17 229874727 229876639 - evm.model.scaffold_1419.46 Chmo17g03377 3377
17 230037006 230049111 - evm.model.scaffold_1419.51 Chmo17g03378 3378
18 233327412 233329272 - evm.model.scaffold_1054.45 Chmo18g02879 2879
18 233597456 233609869 - evm.model.scaffold_1054.59 Chmo18g02880 2880
6 114673995 114686077 + Cn0690210 Chna6g01844 1844
6 114937225 114939630 + Cn0690200 Chna6g01845 1845
2 38996637 38998345 - KAI3779117.1 Cich2g01169 1169
3 76076454 76080896 + KAI3516608.1 Cien3g02868 2868
3 76193121 76194879 + KAI3516611.1 Cien3g02871 2871
8 4571494 4574449 + KAI3497802.1 Cien8g00219 219
2 118743430 118743957 + D.indicum_Contig547_G00029.t1 Cind2g04267 4267
2 7635962 7637510 - h2tg000034l_1.g20745.t1 Cobi2g00609 609
5 78984292 78990346 - h2tg000020l_1.g9944.t1 Cobi5g02836 2836
12 1903542 1905279 + h2tg000030l_1.g18120.t1 Cobi12g00194 194
2 141306067 141307963 - h2tg000149l.g52081.t1 Dapi2g03728 3728
5 2688390 2693983 + h1tg000132l.g124175.t1 Dapi5g00118 118
8 3671496 3672907 + h1tg000025l.g56614.t1 Dapi8g00213 213
18 131247404 131249255 - h1tg000021l.g26554.t1 Dapi18g02903 2903
21 3397758 3403385 + h1tg000096l.g113400.t1 Dapi21g00162 162
24 2299955 2301324 - h1tg000067l.g106442.t1 Dapi24g00165 165
1 41677594 41680050 - XM_043753855.1 Ecan1g02733 2733
4 31313836 31323788 - XM_043768725.1 Ecan4g02019 2019
4 97976344 97986042 - evm.model.ctg771.12 Enbr4g02829 2829
5 8098985 8100703 - FliAMIRv0_Chr05g0124981 Fli5g00477 477
1 76757393 76759112 + FraAMIRv0_Chr01g0015971 Fra1g01600 1600
18 22612895 22614615 + FroAMIRv0_Chr18g0343301 Fro18g01571 1571
14 6282008 6283780 - FsoAMIRv0_Chr14g0344361 Fso14g00466 466
1 85479900 85481460 + FtrAMIRv0_Chr01g0024611 Ftr1g02464 2464
1 80500209 80502034 - GcoAMIRv0_Chr01g0016241 Glco1g01624 1624
1 80691385 80700217 - GcoAMIRv0_Chr01g0016261 Glco1g01626 1626
6 577764215 577772263 - GcoAMIRv0_Chr06g0439621 Glco6g05863 5863
8 7227674 7230877 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr08g0322411 Hean8g00419 419
12 23094912 23097371 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr12g0532901 Hean12g01075 1075
17 194288596 194310113 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr17g0831421 Hean17g04533 4533
22 20321798 20324314 + >Htub.h1tg000131l.g506.t1 Hetu22g00471 471
23 26507249 26510093 - >Htub.h1tg000843l.g133.t1 Hetu23g00511 511
24 24336849 24339698 + >Htub.h1tg000167l.g14.t1 Hetu24g00547 547
46 197888324 197889926 - >Htub.h1tg000449l.g210.t1 Hetu46g03336 3336
47 212712671 212714294 - >Htub.h1tg001680l.g392.t1 Hetu47g03391 3391
48 187995199 187996798 + >Htub.h2tg000112l.g345.t1 Hetu48g03172 3172
49 220938911 220951118 - >Htub.h1tg001001l.g552.t1 Hetu49g03821 3821
50 205775090 205790329 - >Htub.h1tg000531l.g306.t1 Hetu50g03508 3508
51 227108248 227114965 - >Htub.h1tg000558l.g112.t1 Hetu51g03882 3882
4 12309701 12313357 + CAI9278453.1 Laca4g00304 304
8 48423409 48426067 - CAI9296962.1 Laca8g01409 1409
3 15960272 15962145 + LmiAMIRv0_Chr03g0110621 Lomi3g01874 1874
4 24310933 24312793 - LmiAMIRv0_Chr04g0140941 Lomi4g01624 1624
10 12970733 12977032 + LmiAMIRv0_Chr10g0305271 Lomi10g01535 1535
4 20298008 20301499 + >KAJ0213991.1 Lssa4g00464 464
8 68995561 68998128 - >KAJ0194399.1 Lssa8g01682 1682
8 69752682 69758158 - >KAJ0193588.1 Lssa8g01688 1688
19 56870574 56873321 - KAD2393612.1 Mimi19g00915 915
1 115884329 115897836 + PdyAMIRv0_Chr01g0054801 Pdy1g05484 5484
1 115936833 115938452 + PdyAMIRv0_Chr01g0054821 Pdy1g05486 5486
2 3874701 3881880 - PdyAMIRv0_Chr02g0058211 Pdy2g00204 204
4 21854950 21860948 + PluAMIRv0_Chr04g0612971 Pslu4g03344 3344
5 95682910 95684741 - PluAMIRv0_Chr05g0877581 Pslu5g12900 12900
5 95704068 95713573 - PluAMIRv0_Chr05g0877601 Pslu5g12902 12902
4 21563929 21565747 - SinAMIRv0_Chr04g0091091 Sain4g00775 775
4 21668157 21683590 - SinAMIRv0_Chr04g0091101 Sain4g00776 776
9 216053012 216061863 + SinAMIRv0_Chr09g0250141 Sain9g04120 4120
4 5995550 5997250 - KAI3817309.1 Smso4g00456 456
4 18412681 18418907 - KAI3818208.1 Smso4g01355 1355
5 110006728 110008423 - KAI3816624.1 Smso5g02204 2204
21 4977580 4979930 - KAI3730694.1 Smso21g00488 488
21 13966449 13973377 - KAI3731526.1 Smso21g01320 1320
26 63047449 63049143 - KAI3696319.1 Smso26g02834 2834
1 33269171 33271955 + transfrag2523.t01 Soca1g02983 2983
9 21883371 21892210 + augustus02778.t01 Soca9g01943 1943
5 7848566 7851026 + Streb.5G003130.1 Stre5g00313 313
8 94974987 94977375 + Streb.8G028660.1 Stre8g02866 2866
8 62786937 62788431 + >KAK1416021.1 Taer8g02264 2264
5 89229284 89231974 + TkA05G359440.1 Tako5g02592 2592
3 105758799 105762120 - TbA03G004430.1 Tamo3g05006 5006
5 78494063 78499095 + TbA05G097180.1 Tamo5g03381 3381
1 305943 311685 + GSVIVT01012237001 Vivi1g00021 21
1 312339 317465 - GSVIVT01012236001 Vivi1g00022 22
1 334518 337539 - GSVIVT01012235001 Vivi1g00023 23
1 339375 341595 - GSVIVT01012234001 Vivi1g00024 24
1 342583 373752 - GSVIVT01012233001 Vivi1g00025 25
1 376807 378298 + GSVIVT01012232001 Vivi1g00026 26
1 381267 382921 - GSVIVT01012231001 Vivi1g00027 27
1 390750 395260 - GSVIVT01012230001 Vivi1g00028 28
1 397351 400531 + GSVIVT01012229001 Vivi1g00029 29
1 400560 418459 - GSVIVT01012228001 Vivi1g00030 30
       
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