AGRP Logo

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. We constructed a 219×23,647 macro-matrices.
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
Vivi19g00934 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00935 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00936 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00937 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00938 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00939 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00940 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00941 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00942 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Vivi19g00943 Arla1g00415 Armi1g00525 Sain12g00466 . Cati3g00578 Ccar2g01982 . . . . . . Pslu1g21418 Lomi1g00279 Lomi2g04378 Enbr6g01736 Ecan3g02125 Soca5g02535 . . . . . . Chmo13g00745 Chmo14g00736 Chmo15g00618 . Chna2g00601 Cind3g05117 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
1 71697297 71700352 + chr1g0064471 Aann1g02282 2282
7 215082314 215085583 + Aargg7g25430.1 Aary7g02543 2543
15 197896150 197899337 + Aargg15g25710.1 Aary15g02571 2571
2 151097092 151100045 - AtrifAMIRv0_Chr02g0176451 Amtr02g08049 8049
7 16579469 16583300 + AtrifAMIRv0_Chr07g0463581 Amtr07g01211 1211
1 10366556 10371049 - evm.model.000012F.548 Arla1g00415 415
8 8391261 8395540 - evm.model.000043F.412 Arla8g00360 360
1 11096610 11099823 - AmiAMIRv0_Chr01g0005251 Armi1g00525 525
8 91225711 91229829 + AmiAMIRv0_Chr08g0292371 Armi8g02406 2406
1 54852849 54855384 - AtridAMIRv0_Chr01g0018851 Artr1g01885 1885
3 59011601 59015265 + g135240.t1 Bial3g01695 1695
3 5946584 5956834 - CtAH03T0040500.1 Cati3g00578 578
7 68265068 68274575 + CtAH07T0233900.1 Cati7g03164 3164
2 66599970 66603527 + gnl|WGS:LEKV|Ccrd_011029.mRNA.1_mrna Ccar2g01982 1982
17 3056350 3062428 - gnl|WGS:LEKV|Ccrd_019596.mRNA.1_mrna Ccar17g00274 274
2 40210872 40213833 - ClaG1_Chr02g0089901 Chla2g01288 1288
6 42512212 42514579 + CmaNakai_Chr06g0530361 Chma6g01887 1887
13 35362122 35368038 + evm.model.scaffold_597.116 Chmo13g00745 745
14 33585270 33587828 + evm.model.scaffold_489.78 Chmo14g00736 736
15 32609493 32613003 + evm.model.scaffold_1740.148 Chmo15g00618 618
22 293708208 293711172 + evm.model.scaffold_448.435.1 Chmo22g04860 4860
23 286076104 286078981 + evm.model.scaffold_1107.64.1 Chmo23g04810 4810
24 289707187 289710046 + evm.model.scaffold_421.388 Chmo24g04820 4820
2 40979221 40983092 + Cn0067760 Chna2g00601 601
5 45732199 45734950 - Cn0367730 Chna5g00913 913
7 14700844 14704277 + KAI3708207.1 Cich7g00459 459
9 47364699 47367044 - KAI3497204.1 Cien9g02340 2340
1 357924594 357926863 + D.indicum_Contig40_G00087.t1 Cind1g03324 3324
3 335243330 335245756 - D.indicum_Contig707_G00003.t1 Cind3g05117 5117
12 29154790 29165490 - h2tg000030l_1.g16009.t1 Cobi12g02305 2305
12 95499063 95502996 + h2tg000104l.g32310.t1 Dapi12g01333 1333
17 46050245 46056694 - h1tg000013l.g170484.t1 Dapi17g01139 1139
3 32041960 32045541 + XM_043763461.1 Ecan3g02125 2125
5 30055935 30059604 + XM_043774901.1 Ecan5g01631 1631
6 61252395 61255189 + evm.model.ctg5390.4 Enbr6g01736 1736
8 20256964 20259541 + evm.model.ctg3404.3 Enbr8g00701 701
4 81791868 82183264 + FliAMIRv0_Chr04g0109401 Fli4g01357 1357
8 11482493 11489847 - FtrAMIRv0_Chr08g0230011 Ftr8g00924 924
7 575854001 575856369 + GcoAMIRv0_Chr07g0516311 Glco7g06846 6846
3 122586380 122590577 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr03g0113711 Hean3g02222 2222
13 15667271 15671598 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr13g0569531 Hean13g00367 367
7 73928248 73931525 - >Htub.h1tg004285l.g231.t1 Hetu7g01757 1757
8 69935201 69938537 - >Htub.h1tg001170l.g395.t1 Hetu8g01605 1605
10 118529782 118533010 - >Htub.h1tg001658l.g118.t1 Hetu10g02237 2237
11 119791209 119794482 - >Htub.h1tg000789l.g166.t1 Hetu11g02319 2319
12 115348315 115351586 - >Htub.h1tg000890l.g184.t1 Hetu12g02147 2147
9 134909687 134915407 - CAI9303883.1 Laca9g03289 3289
1 2345257 2348068 + LmiAMIRv0_Chr01g0002791 Lomi1g00279 279
2 49163415 49165940 - LmiAMIRv0_Chr02g0089111 Lomi2g04378 4378
5 31943171 31945610 - LmiAMIRv0_Chr05g0177781 Lomi5g02129 2129
11 27982786 27985069 - LmiAMIRv0_Chr11g0339261 Lomi11g01955 1955
9 187165514 187171293 - >KAJ0185021.1 Lssa9g03735 3735
14 21405746 21411522 - KAD4179020.1 Mimi14g01083 1083
9 41657134 41659611 + PdyAMIRv0_Chr09g0346451 Pdy9g01838 1838
1 153878940 153882251 - PluAMIRv0_Chr01g0213241 Pslu1g21418 21418
3 117388608 117391068 - PluAMIRv0_Chr03g0562091 Pslu3g16382 16382
12 10284484 10286601 - SinAMIRv0_Chr12g0360301 Sain12g00466 466
13 131026705 131031510 + SinAMIRv0_Chr13g0398821 Sain13g02326 2326
9 15945411 15948741 - KAI3804878.1 Smso9g00684 684
18 73678833 73682914 + KAI3755695.1 Smso18g01570 1570
5 27612003 27616564 - transfrag11160.t01 Soca5g02535 2535
2 139211100 139215061 + Streb.2G037170.1 Stre2g03717 3717
3 80279532 80284487 - >KAK1431077.1 Taer3g03110 3110
2 33939268 33939726 + TkA02G131070.1 Tako2g01438 1438
19 17216691 17216967 - GSVIVT01038061001 Vivi19g00934 934
19 17282803 17284294 - GSVIVT01038063001 Vivi19g00935 935
19 17401009 17407189 + GSVIVT01038068001 Vivi19g00936 936
19 17407195 17408381 - GSVIVT01038069001 Vivi19g00937 937
19 17422189 17427955 + GSVIVT01038072001 Vivi19g00938 938
19 17427977 17439967 + GSVIVT01038073001 Vivi19g00939 939
19 17459712 17467129 + GSVIVT01038075001 Vivi19g00940 940
19 17498253 17500391 + GSVIVT01038076001 Vivi19g00941 941
19 17501024 17510552 + GSVIVT01038077001 Vivi19g00942 942
19 17510564 17514626 + GSVIVT01038078001 Vivi19g00943 943
       
DecoBrowse