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BaseInfo

ncRNA ID	zma-miR399j-3p
Species	Zea mays
Class	miRNA
Genome position	chr9:24367084-24367258 [-]
Reference genome	RefGen_v2
Source	miRBase
Length	21
Mature sequence(if miRNA)	2 - UGCCAAAGGAGAGUUGCCCUG - 22
Stem-loop(if miRNA)	---A            C       - AG       GUCA      CCAUCGACGACGGUUGCUUGGCUCUGCUAUGCUGUGUUCGUUCGU     GGCAGCUCUCCU UGGCAGG C  GCGCGCG    UCGUCG                                             C     |||||||||||| ||||||| |  |||||||    ||||||     CCGUUGAGAGGA ACCGUCC G  UGCGCGC    CGUACG                                             C CGUC            A       U CA       ---A      UGCGUACAAUGUGACGUUACGUACGUGCCGAUCGAUCGUGUGGUA
Stem-loop sequence	AGGCAGCUCUCCUCUGGCAGGCAGGCGCGCGGUCAUCGUCGCCAUCGACGACGGUUGCUUGGCUCUGCUAUGCUGUGUUCGUUCGUCCAUGGUGUGCUAGCUAGCCGUGCAUGCAUUGCAGUGUAACAUGCGUGCAUGCACGCGCGUACGUCCUGCCAAAGGAGAGUUGCCCUGC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
HI403440.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1565 from Patent EP2074227	NA	coding protein	psRNATarget
JB163901.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1565 from Patent EP2559767	NA	coding protein	psRNATarget
JB163593.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1257 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235570.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1565 from Patent EP2985353	NA	coding protein	psRNATarget
HI403132.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1257 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235262.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   ||||||||||||||||||||| targets:11   CAGGGCAACUCUCCUUUGGCA   31 Target Full Sequence	0.0	Sequence 1257 from Patent EP2985353	NA	coding protein	psRNATarget
EU949059.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   |||||||=||||||||||||| targets:71   CAGGGCAGCUCUCCUUUGGCA   91 Target Full Sequence	1.0	Zea mays clone 394906 mRNA sequence	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   =|||||||*|||||||||||| targets:255   UAGGGCAAAUCUCCUUUGGCA   275 Target Full Sequence	1.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   |*|||=||=|||||||||||| targets:652   CUGGGUAAUUCUCCUUUGGCA   672 Target Full Sequence	2.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   *=||||||*|||||||||||| targets:474   GGGGGCAAAUCUCCUUUGGCA   494 Target Full Sequence	1.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   |*||||||*|||||||||||| targets:432   CUGGGCAAAUCUCCUUUGGCA   452 Target Full Sequence	1.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
KT345709.1	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   =*||||||*|||||||||||| targets:565   UCGGGCAAAUCUCCUUUGGCA   585 Target Full Sequence	1.5	Zea mays putative PHO2 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   =|||||||*|||||||||||| targets:1159   UAGGGCAAAUCUCCUUUGGCA   1179 Target Full Sequence	1.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   |*|||=||=|||||||||||| targets:1556   CUGGGUAAUUCUCCUUUGGCA   1576 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   GUCCCGUUGAGAGGAAACCGU   1   *=||||||*|||||||||||| targets:1378   GGGGGCAAAUCUCCUUUGGCA   1398 Target Full Sequence	1.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   |*||||||*|||||||||||| targets:1336   CUGGGCAAAUCUCCUUUGGCA   1356 Target Full Sequence	1.5	PREDICTED: Zea mays putative ubiquitin-conjugating enzyme E2 24 (LOC100502171), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650020.2	ncRNA:21   GUCCCGUUGAGAGGAAACCGU   1   =*||||||*|||||||||||| targets:1469   UCGGGCAAAUCUCCUUUGGCA   1489 Target Full Sequence	1.5	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).