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BaseInfo

ncRNA ID	novel_zma_miR3965
Species	Zea mays
Class	miRNA
Genome position	Chr1:24309265-24309329 [-]
Reference genome	RefGen_v4
Source	SRR2287159;SRR2287160;SRR2287162
Length	24
Mature sequence(if miRNA)	42 - AUGUGUUGAGGUGGAUUGAGGUAU - 65
Stem-loop(if miRNA)	--AUGU         G    A       A          GUUGAGGUG AUUG GGUAUAA UUAA       ||||||||| |||| ||||||| |||U       CAAUUUCAC UAAU CCAUAUU AAUU UGCAUG         A    C       G
Stem-loop sequence	AUGUGUUGAGGUGGAUUGAGGUAUAAAUUAAUUUAAGUUAUACCCUAAUACACUUUAACGUACGU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
AY110392.1	ncRNA:24   UAUG---GAGUUAGGUGGAGUUGUGUA   1   ||||---|||||||||||||||||||| targets:149   AUACACCCUCAAUCCACCUCAACACAU   175 Target Full Sequence	0.0	Zea mays CL7038_2 mRNA sequence	NA	coding protein	psRNATarget
LQ235328.1	ncRNA:24   UAUG--GAGUUAGGUGGAGUUGUGUA   1   =|||--|||||||||||||||||||| targets:60   GUACAACUCAAUCCACCUCAACACAU   85 Target Full Sequence	0.0	Sequence 1323 from Patent EP2985353	NA	coding protein	psRNATarget
JB163659.1	ncRNA:24   UAUG--GAGUUAGGUGGAGUUGUGUA   1   =|||--|||||||||||||||||||| targets:60   GUACAACUCAAUCCACCUCAACACAU   85 Target Full Sequence	0.0	Sequence 1323 from Patent EP2559767	NA	coding protein	psRNATarget
HI403198.1	ncRNA:24   UAUG--GAGUUAGGUGGAGUUGUGUA   1   =|||--|||||||||||||||||||| targets:60   GUACAACUCAAUCCACCUCAACACAU   85 Target Full Sequence	0.0	Sequence 1323 from Patent EP2074227	NA	coding protein	psRNATarget
HI402937.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   ||||*|||||||||=||||||||| targets:61   AUACAUCAAUCCACUUCAACACAU   84 Target Full Sequence	1.5	Sequence 1062 from Patent EP2074227	NA	coding protein	psRNATarget
JB163398.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   ||||*|||||||||=||||||||| targets:61   AUACAUCAAUCCACUUCAACACAU   84 Target Full Sequence	1.5	Sequence 1062 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235067.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   ||||*|||||||||=||||||||| targets:61   AUACAUCAAUCCACUUCAACACAU   84 Target Full Sequence	1.5	Sequence 1062 from Patent EP2985353	NA	coding protein	psRNATarget
EU941642.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||||||||||||||||=|||| targets:10   ACACCUCAAUCCACCUCAAUACAU   33 Target Full Sequence	1.5	Zea mays clone 1468727 mRNA sequence	NA	coding protein	psRNATarget
NM_001156128.2	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||||||||||||||||=|||| targets:883   ACACCUCAAUCCACCUCAAUACAU   906 Target Full Sequence	1.5	Zea mays protein SFT2 (LOC100283226), mRNA	NA	coding protein	psRNATarget
BT085755.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||||||||||||||||=|||| targets:883   ACACCUCAAUCCACCUCAAUACAU   906 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0057I16 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001291617.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |**||||||||||=|||||||||| targets:811   AGCCCUCAAUCCAUCUCAACACAU   834 Target Full Sequence	1.5	Zea mays enhancer of rudimentary-like protein (LOC100383755), mRNA	NA	coding protein	psRNATarget
BT068211.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |**||||||||||=|||||||||| targets:811   AGCCCUCAAUCCAUCUCAACACAU   834 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0077D08 mRNA, complete cds	NA	coding protein	psRNATarget
EU963259.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |**||||||||||=|||||||||| targets:1054   AGCCCUCAAUCCAUCUCAACACAU   1077 Target Full Sequence	1.5	Zea mays clone 259966 enhancer of rudimentary mRNA, complete cds	NA	coding protein	psRNATarget
XM_008672302.2	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |||*|*|||||||||||||||||| targets:2495   AUAACACAAUCCACCUCAACACAU   2518 Target Full Sequence	1.0	PREDICTED: Zea mays protein SHORT-ROOT 1 (LOC103647790), mRNA	NA	coding protein	psRNATarget
LQ235616.1	ncRNA:24   UAUG-GAGUU-AGGUGGAGUUGUGUA   1   *|||-|||||-||||||||||||||| targets:56   UUACACUCAAAUCCACCUCAACACAU   81 Target Full Sequence	2.0	Sequence 1611 from Patent EP2985353	NA	coding protein	psRNATarget
JB163947.1	ncRNA:24   UAUG-GAGUU-AGGUGGAGUUGUGUA   1   *|||-|||||-||||||||||||||| targets:56   UUACACUCAAAUCCACCUCAACACAU   81 Target Full Sequence	2.0	Sequence 1611 from Patent EP2559767	NA	coding protein	psRNATarget
HI403486.1	ncRNA:24   UAUG-GAGUU-AGGUGGAGUUGUGUA   1   *|||-|||||-||||||||||||||| targets:56   UUACACUCAAAUCCACCUCAACACAU   81 Target Full Sequence	2.0	Sequence 1611 from Patent EP2074227	NA	coding protein	psRNATarget
JB163916.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*||*|=||||||||||||||||| targets:60   ACACAUUAAUCCACCUCAACACAU   83 Target Full Sequence	1.0	Sequence 1580 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235585.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*||*|=||||||||||||||||| targets:60   ACACAUUAAUCCACCUCAACACAU   83 Target Full Sequence	1.0	Sequence 1580 from Patent EP2985353	NA	coding protein	psRNATarget
LQ235196.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||*|||||||||||||=|||| targets:61   ACACCCCAAUCCACCUCAAUACAU   84 Target Full Sequence	2.5	Sequence 1191 from Patent EP2985353	NA	coding protein	psRNATarget
HI403455.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*||*|=||||||||||||||||| targets:60   ACACAUUAAUCCACCUCAACACAU   83 Target Full Sequence	1.0	Sequence 1580 from Patent EP2074227	NA	coding protein	psRNATarget
HI403066.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||*|||||||||||||=|||| targets:61   ACACCCCAAUCCACCUCAAUACAU   84 Target Full Sequence	2.5	Sequence 1191 from Patent EP2074227	NA	coding protein	psRNATarget
JB163527.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|||*|||||||||||||=|||| targets:61   ACACCCCAAUCCACCUCAAUACAU   84 Target Full Sequence	2.5	Sequence 1191 from Patent EP2559767	NA	coding protein	psRNATarget
HI403262.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1387 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235393.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1388 from Patent EP2985353	NA	coding protein	psRNATarget
HI403263.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1388 from Patent EP2074227	NA	coding protein	psRNATarget
JB163724.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1388 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235392.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1387 from Patent EP2985353	NA	coding protein	psRNATarget
JB163723.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|=|*|||||||||||||||||| targets:62   ACAUCCCAAUCCACCUCAACACAU   85 Target Full Sequence	1.0	Sequence 1387 from Patent EP2559767	NA	coding protein	psRNATarget
JB167199.1	ncRNA:24   UA-UGGAGUUAGGUGGAGUUGUGUA   1   ||-|=|*|||||||||||||=|||| targets:63   AUGAUCCCAAUCCACCUCAAUACAU   87 Target Full Sequence	2.5	Sequence 4863 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238868.1	ncRNA:24   UA-UGGAGUUAGGUGGAGUUGUGUA   1   ||-|=|*|||||||||||||=|||| targets:63   AUGAUCCCAAUCCACCUCAAUACAU   87 Target Full Sequence	2.5	Sequence 4863 from Patent EP2985353	NA	coding protein	psRNATarget
HI406738.1	ncRNA:24   UA-UGGAGUUAGGUGGAGUUGUGUA   1   ||-|=|*|||||||||||||=|||| targets:63   AUGAUCCCAAUCCACCUCAAUACAU   87 Target Full Sequence	2.5	Sequence 4863 from Patent EP2074227	NA	coding protein	psRNATarget
EU963895.1	ncRNA:24   UA-UGGAGUUAGGUGGAGUUGUGUA   1   ||-|=|*|||||||||||||=|||| targets:979   AUGAUCCCAAUCCACCUCAAUACAU   1003 Target Full Sequence	2.5	Zea mays clone 273839 protein SFT2 mRNA, complete cds	NA	coding protein	psRNATarget
BT085111.1	ncRNA:24   UAUGGAGUUAGGUGGAGUUGUGUA   1   |*|==*|||||||||||||=|||| targets:1191   AAAUUCCAAUCCACCUCAAUACAU   1214 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0292J13 mRNA, complete cds	NA	coding protein	psRNATarget
BT083733.2	ncRNA:24   UA-UGGAGUUAGGUGGAGUUGUGUA   1   ||-|=||||*|||||||||||||*| targets:8   AUCAUCUCAUUCCACCUCAACACUU   32 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0033E22 mRNA, complete cds	NA	coding protein	psRNATarget