miRNA detail annotation

Sorghum Functional Genomics Database

miRNA detail information

1.miRNA detail image

2.Location informaition

Type	Chromosome	Start	End	Strand	SNP(TSS up 2kb)	SNP(gene body)
mature	chr09	45070201	45070221	-
precursor	chr09	45069956	45070224	-	more details in SorGSD	more details in SorGSD

3.miRNA sequence

>mature_sequence

AAGUCAUCAAAAUAAAAGUUG

>precursor_sequence

AAAAAGUCAUCAAAAUAAAAGUUGUAGAACUAGUCAAGAUCUCCCAUUUUUAUUUUAGUCAUUUUUUCAUAUGACAAAGUAAUAGUAACAUUGUUC
AUAAAUUUUACAUAUCUCUGAUAUAGUUUAUGAAACUAUAUGAGAGAUAUGUAAAAUUUAUGAACAAUGUUACUAUUACUUUGUCAGAUGAAUAAA
UGAUCAAAAUAAAAGUUGUAGAUCUUGAUGAGUUGUACAACUUGUAUAUUCAUGGCUUUAUCAACUAAAAUCAUUUA

4.Target gene

Target gene	Expectation	UPE	miRNA_aligned start-end	Target_aligned start-end	Aligned Fragment: miRNA-Target
Sobic.002G031100	3.0	20.272	21-1	4314-4334	GUUGAAAAUAAAACUACUGAA \|\|\|=\|\|\|\|=\|\|\|\|\|=\|\|\|*\|\| CAAUUUUUGUUUUGGUGAAUU
Sobic.002G031100	3.0	20.272	21-1	4409-4429	GUUGAAAAUAAAACUACUGAA \|\|\|=\|\|\|\|=\|\|\|\|\|=\|\|\|*\|\| CAAUUUUUGUUUUGGUGAAUU
Sobic.002G011900	2.5	9.797	21-1	91-111	GUUGAAAAUAAAACUACUGAA =\|\|\|\|\|\|\|\|\|\|\|\|\|=\|*\|=\|\| UAACUUUUAUUUUGGUCAUUU
Sobic.006G006600	3.0	16.456	21-1	1780-1800	GUUGAAAAUAAAACUACUGAA \|\|\|\|\|\|\|*=\|\|\|\|\|=\|\|==\|\| CAACUUUCGUUUUGGUGGUUU
Sobic.K006000	3.0	12.525	21-1	827-847	GUUGAAAAUAAAACUACUGAA ==\|\|\|\|*\|\|\|\|\|\|\|=\|\|==\|\| UGACUUGUAUUUUGGUGGUUU
Sobic.K006000	3.0	12.525	21-1	1316-1336	GUUGAAAAUAAAACUACUGAA ==\|\|\|\|*\|\|\|\|\|\|\|=\|\|==\|\| UGACUUGUAUUUUGGUGGUUU
Sobic.010G132900	3.0	10.269	21-1	1041-1061	GUUGAAAAUAAAACUACUGAA =\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|\| UAAGUUUUAUUUUGAUCAUUU
Sobic.010G132900	3.0	10.269	21-1	1917-1937	GUUGAAAAUAAAACUACUGAA =\|\|\|\|\|\|\|\|\|\|\|\|\|\|\|=\|\| UAAGUUUUAUUUUGAUCAUUU
Sobic.008G085300	3.0	14.918	20-1	1168-1187	UUGAAAAUAAAACUACUGAA =\|=\|\|\|\|=\|\|\|\|*\|\|\|\|=\|\| GAUUUUUGUUUUCAUGAUUU
Sobic.004G348100	3.0	20.737	21-1	991-1011	GUUGAAAAUAAAACUACUGAA \|\|\|\|\|\|\|=\|\|\|\|\|\|\|\|\|\|\| CAACUUUACUUUGGAUGACUU
Sobic.001G298300	3.0	14.384	20-1	1480-1500	UUGAAA-AUAAAACUACUGAA \|\|=\|\|\|*\|=\|\|\|\|\|\|\|\|\|\|\|\| AAUUUUCUGUUUUGAUGACUU
Sobic.001G385400	3.0	19.107	21-1	2219-2239	GUUGAAAAUAAAACUACUGAA ==\|=\|\|\|*=\|\|\|\|\|\|\|\|\|\|\|\| UGAUUUUGCUUUUGAUGACUU
Sobic.009G163100	3.0	21.215	20-1	2132-2151	UUGAAAAUAAAACUACUGAA \|\|=*\|\|\|=\|\|\|\|\|=\|\|\|\|\|\| AAUCUUUCUUUUGGUGACUU
Sobic.004G054100	3.0	18.844	20-1	2313-2332	UUGAAAAUAAAACUACUGAA \|=\|\|\|\|\|\|\|\|\|\|=\|\|\|==\|\| ACCUUUUAUUUUUAUGGUUU
Sobic.008G136700	3.0	21.67	20-1	2815-2834	UUGAAAAUAAAACUACUGAA \|\|\|\|\|\|\|\|\|\|\|=\|\|=\|\|\| AUCUUUUUUUUUGGUGGCUU
Sobic.008G136700	3.0	21.67	20-1	2894-2913	UUGAAAAUAAAACUACUGAA \|\|\|\|\|\|\|\|\|\|\|=\|\|=\|\|\| AUCUUUUUUUUUGGUGGCUU
Sobic.008G136700	3.0	21.67	20-1	3059-3078	UUGAAAAUAAAACUACUGAA \|\|\|\|\|\|\|\|\|\|\|=\|\|=\|\|\| AUCUUUUUUUUUGGUGGCUU
Sobic.002G230500	3.0	11.534	20-1	1272-1290	UUGAAAAUAAAACUACUGAA \|\|=\|\|\|\|\|\|\|\|\|*\|\|\|\|=\|\| AAUUUUUAUUUU-AUGAUUU

5.Secondary structure

6.GSE32458

null

7.GSE49879

AR2400 under different growth stage	log2(expression profile data)
leaf_38_AR2400	2.467
seedling_root_AR2400_ave	2.706
seedling_shoot_AR2400_ave	2.823
shoot_tip_38_AR2400	2.704
internode_61DAP_AR2400_T	2.767
internode_70DAP_AR2400_M	2.628
internode_61DAP_AR2400_B	2.607

Atlas under different growth stage	log2(expression profile data)
leaf_38_Atlas	2.718
seedling_root_Atlas	3.015
seedling_shoot_Atlas_ave	2.716
shoot_tip_38_Atlas	2.704
internode_61DAP_Atlas_T	2.598
internode_70DAP_Atlas_M	2.658
internode_61DAP_Atlas_B	2.786
pith_70DAP_Atlas_T	2.726
pith_70DAP_Atlas_M	2.825
pith_70DAP_Atlas_B	2.545
pith_60DAP_Atlas_ave	2.758
rind_70DAP_Atlas_T	2.588
rind_70DAP_Atlas_M	3.123
rind_70DAP_Atlas_B	2.717
rind_60DAP_Atlas_ave	2.752

Fremont under different growth stage	log2(expression profile data)
leaf_38_Fremont	2.881
seedling_root_Fremont_ave	2.736
seedling_shoot_Fremont_ave	2.799
shoot_tip_38_Fremont	2.888
internode_61DAP_Fremont_T	2.834
internode_70DAP_Fremont_M	2.739
internode_61DAP_Fremont_B	2.645

PI152611 under different growth stage	log2(expression profile data)
leaf_38_PI152611	2.674
seedling_root_PI152611	2.954
seedling_shoot_PI152611_ave	2.854
shoot_tip_38_PI152611	2.848
internode_61DAP_PI152611_T	2.725
internode_70DAP_PI152611_M	2.68
internode_61DAP_PI152611_B	2.77

PI455230 under different growth stage	log2(expression profile data)
leaf_38DAP_ PI455230	3.088
seedling_root_PI455230	2.586
seedling_shoot_PI455230_ave	2.777
shoot_tip_38DAP_ PI455230	2.528
internode_61DAP_PI455230	2.666
internode_70DAP_PI455230_M	2.619
internode_61DAP_PI455230_B	2.677
pith_70DAP_PI455230_M	2.744
pith_70DAP_PI455230_B	2.598
pith_60DAP_PI455230_ave	2.766
rind_70DAP_PI455230_T	2.54
rind_70DAP_PI455230_M	2.782
rind_70DAP_PI455230_B	2.645
rind_60DAP_PI455230_ave	2.653

R159 under different growth stage	log2(expression profile data)
leaf_38DAP_ R159	2.673
seedling_root_R159	2.673
seedling_shoot_R159_ave	2.777
shoot_tip_38DAP_ R159	2.692
internode_61DAP_R159_T	2.715
internode_61DAP_R159_B	2.743
pith_70DAP_R159_T	2.818
pith_70DAP_R159_B	2.632
pith_60DAP_R159	2.706
rind_70DAP_R159_T	2.729
rind_70DAP_R159_B	2.725
rind_60DAP_R159	2.999

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