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BaseInfo

ncRNA ID	zma-miR399d-3p
Species	Zea mays
Class	miRNA
Genome position	chr3:189204037-189204161 [+]
Reference genome	RefGen_v2
Source	miRBase
Length	21
Mature sequence(if miRNA)	86 - UGCCAAAGGAGAGCUGCCCUG - 106
Stem-loop(if miRNA)	--U  A   --GA    CA   U UG        C      GAA    C  CU AG    AC   C    CA GGU    GAAU  CAG G  GCUCUCCU UGGCAU   GGCG GG  G  AGGC  GAA A    || |||    ||||  ||| |  |||||||| ||||||   |||| ||  |  ||||  |||    GU CCG    CUUA  GUC C  CGAGAGGA ACCGUA   CCGU CC  C  UCCG  CUU G AAC  C   AUUG    CC   C GU        A      --A    -  -- CU    GU   U
Stem-loop sequence	UCAAGGUGAGAAUCACAGUGUGGCUCUCCUCUGGCAUGAAGGCGCGGCUGAGAGGCACGAACAGUUUCUGGCCUUCCCCUGCCAAUGCCAAAGGAGAGCUGCCCUGCCAUUCGUUAGCCCUGCAA

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EU949059.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:71   CAGGGCAGCUCUCCUUUGGCA   91 Target Full Sequence	0.0	Zea mays clone 394906 mRNA sequence	NA	coding protein	psRNATarget
HI403132.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1257 from Patent EP2074227	NA	coding protein	psRNATarget
HI403440.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1565 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235570.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1565 from Patent EP2985353	NA	coding protein	psRNATarget
JB163593.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1257 from Patent EP2559767	NA	coding protein	psRNATarget
JB163901.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1565 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235262.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||||||*||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	1.0	Sequence 1257 from Patent EP2985353	NA	coding protein	psRNATarget
LQ235082.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1077 from Patent EP2985353	NA	coding protein	psRNATarget
JB163708.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1372 from Patent EP2559767	NA	coding protein	psRNATarget
JB163413.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1077 from Patent EP2559767	NA	coding protein	psRNATarget
HI403247.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1372 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235377.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1372 from Patent EP2985353	NA	coding protein	psRNATarget
HI402952.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:10   CAGUGCAGCUCUCCUCUGGCA   30 Target Full Sequence	2.5	Sequence 1077 from Patent EP2074227	NA	coding protein	psRNATarget
EU949135.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |||*|||||||||||*||||| targets:93   CAGUGCAGCUCUCCUCUGGCA   113 Target Full Sequence	2.5	Zea mays clone 397135 mRNA sequence	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   =||||||**|||||||||||| targets:255   UAGGGCAAAUCUCCUUUGGCA   275 Target Full Sequence	2.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   *=|||||**|||||||||||| targets:474   GGGGGCAAAUCUCCUUUGGCA   494 Target Full Sequence	2.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |*|||||**|||||||||||| targets:432   CUGGGCAAAUCUCCUUUGGCA   452 Target Full Sequence	2.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   =*|||||**|||||||||||| targets:565   UCGGGCAAAUCUCCUUUGGCA   585 Target Full Sequence	2.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   =||||||**|||||||||||| targets:1159   UAGGGCAAAUCUCCUUUGGCA   1179 Target Full Sequence	2.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   *=|||||**|||||||||||| targets:1378   GGGGGCAAAUCUCCUUUGGCA   1398 Target Full Sequence	2.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   |*|||||**|||||||||||| targets:1336   CUGGGCAAAUCUCCUUUGGCA   1356 Target Full Sequence	2.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUCGAGAGGAAACCGU   1   =*|||||**|||||||||||| targets:1469   UCGGGCAAAUCUCCUUUGGCA   1489 Target Full Sequence	2.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget

Reference

1	PMID:19936050 "A genome-wide characterization of microRNA genes in maize"; Zhang L, Chia JM, Kumari S, Stein JC, Liu Z, Narechania A, Maher CA, Guill K, McMullen MD, Ware D; PLoS Genet. 5:e1000716(2009).