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BaseInfo

ncRNA ID	novel_zma_miR543
Species	Zea mays
Class	miRNA
Genome position	Chr4:7230807-7230891 [+]
Reference genome	RefGen_v4
Source	SRR1583943;SRR1583944;SRR2638137;SRR2647221;SRR2647343;SRR2647385;SRR2647386;SRR2647388;SRR2647389;SRR2647390;SRR2647391;SRR2647467
Length	24
Mature sequence(if miRNA)	62 - UUCCAAUCUCAUUCAAUCCAUGUG - 85
Stem-loop(if miRNA)	--U                   --------    UU     CCAAC    GUGGAUUGAGUGGGAUUGG        UGGG  UAAGU     C    |||||||||||||||||||        ||||  |||||     A    UACCUAACUUACUCUAACC        AUUC  AUUCA     A GUG                   UUUUUUUA    UU     AACUG
Stem-loop sequence	UGUGGAUUGAGUGGGAUUGGUGGGUUUAAGUCCAACCAAGUCAAACUUAUUCUUAAUUUUUUUCCAAUCUCAUUCAAUCCAUGUG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
JB166302.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||||||||||||||| targets:26   CACAUGGAUUGAAUGAGAUUGGAA   49 Target Full Sequence	0.0	Sequence 3966 from Patent EP2559767	NA	coding protein	psRNATarget
LQ237971.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||||||||||||||| targets:26   CACAUGGAUUGAAUGAGAUUGGAA   49 Target Full Sequence	0.0	Sequence 3966 from Patent EP2985353	NA	coding protein	psRNATarget
HI405841.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||||||||||||||| targets:26   CACAUGGAUUGAAUGAGAUUGGAA   49 Target Full Sequence	0.0	Sequence 3966 from Patent EP2074227	NA	coding protein	psRNATarget
BT069115.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||||||||||||||| targets:464   CACAUGGAUUGAAUGAGAUUGGAA   487 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0186N21 mRNA, complete cds	NA	coding protein	psRNATarget
EU951448.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||=|||||||||||| targets:682   CACAUGGAUUGGAUGAGAUUGGAA   705 Target Full Sequence	1.5	Zea mays clone 701961 mRNA sequence	NA	coding protein	psRNATarget
BT069961.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||=|||||||||||| targets:47   CACAUGGAUUGGAUGAGAUUGGAA   70 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0347H16 mRNA, complete cds	NA	coding protein	psRNATarget
BT018903.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   |||||||||||||||=|||||||| targets:1966   CACAUGGAUUGAAUGGGAUUGGAA   1989 Target Full Sequence	1.5	Zea mays clone EL01T0208C03.d mRNA sequence	NA	coding protein	psRNATarget
HI406849.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:16   CAUAUGGAUUGGAUGAGAUUGGAA   39 Target Full Sequence	1.5	Sequence 4974 from Patent EP2074227	NA	coding protein	psRNATarget
JB167310.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:16   CAUAUGGAUUGGAUGAGAUUGGAA   39 Target Full Sequence	1.5	Sequence 4974 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238979.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:16   CAUAUGGAUUGGAUGAGAUUGGAA   39 Target Full Sequence	1.5	Sequence 4974 from Patent EP2985353	NA	coding protein	psRNATarget
BT062183.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:183   CAUAUGGAUUGGAUGAGAUUGGAA   206 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0224O15 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008667120.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:885   CAUAUGGAUUGGAUGAGAUUGGAA   908 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100501429 (LOC100501429), mRNA	NA	coding protein	psRNATarget
XM_008678390.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:1748   CAUAUGGAUUGGAUGAGAUUGGAA   1771 Target Full Sequence	1.5	PREDICTED: Zea mays RNA-binding motif protein, X-linked 2 (LOC100282627), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008678388.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:1764   CAUAUGGAUUGGAUGAGAUUGGAA   1787 Target Full Sequence	1.5	PREDICTED: Zea mays RNA-binding motif protein, X-linked 2 (LOC100282627), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU957033.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:1335   CAUAUGGAUUGGAUGAGAUUGGAA   1358 Target Full Sequence	1.5	Zea mays clone 1581039 mRNA sequence	NA	coding protein	psRNATarget
EU957741.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||=|||||||||||| targets:1336   CAUAUGGAUUGGAUGAGAUUGGAA   1359 Target Full Sequence	1.5	Zea mays clone 1613489 mRNA sequence	NA	coding protein	psRNATarget
BT040331.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||||||||||||*||| targets:1735   CACAUGGAUUGAAUGAGAUUAGAA   1758 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0083E04 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001157801.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||||||||||||*||| targets:1772   CACAUGGAUUGAAUGAGAUUAGAA   1795 Target Full Sequence	1.5	Zea mays Flavonoid 3-monooxygenase (LOC100273153), mRNA	NA	coding protein	psRNATarget
HI406747.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||||||=|||||||* targets:10   CAUAUGGAUUGAAUGGGAUUGGAU   33 Target Full Sequence	2.5	Sequence 4872 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238877.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||||||=|||||||* targets:10   CAUAUGGAUUGAAUGGGAUUGGAU   33 Target Full Sequence	2.5	Sequence 4872 from Patent EP2985353	NA	coding protein	psRNATarget
JB167208.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||||||=|||||||* targets:10   CAUAUGGAUUGAAUGGGAUUGGAU   33 Target Full Sequence	2.5	Sequence 4872 from Patent EP2559767	NA	coding protein	psRNATarget
HI405896.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=|||||||||=||||||||||* targets:16   CAUAUGGAUUGAGUGAGAUUGGAU   39 Target Full Sequence	2.5	Sequence 4021 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238026.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=|||||||||=||||||||||* targets:16   CAUAUGGAUUGAGUGAGAUUGGAU   39 Target Full Sequence	2.5	Sequence 4021 from Patent EP2985353	NA	coding protein	psRNATarget
JB166357.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=|||||||||=||||||||||* targets:16   CAUAUGGAUUGAGUGAGAUUGGAU   39 Target Full Sequence	2.5	Sequence 4021 from Patent EP2559767	NA	coding protein	psRNATarget
NM_001149888.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||||||=|||||||* targets:657   CAUAUGGAUUGAAUGGGAUUGGAU   680 Target Full Sequence	2.5	Zea mays uncharacterized LOC100275986 (LOC100275986), mRNA	NA	coding protein	psRNATarget
EU959169.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=||||||||||||=|||||||* targets:657   CAUAUGGAUUGAAUGGGAUUGGAU   680 Target Full Sequence	2.5	Zea mays clone 211416 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
XM_008658927.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==|||||||||||||||||||* targets:333   CAUGUGGAUUGAAUGAGAUUGGAU   356 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC103636575 (LOC103636575), mRNA	NA	coding protein	psRNATarget
BT088422.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=|||||||||=||||||||||* targets:301   CAUAUGGAUUGAGUGAGAUUGGAU   324 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0189N22 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001196996.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||=|||||||||=||||||||||* targets:301   CAUAUGGAUUGAGUGAGAUUGGAU   324 Target Full Sequence	2.5	Zea mays uncharacterized LOC100502518 (LOC100502518), mRNA	NA	coding protein	psRNATarget
XM_008674362.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:498   CACAUGGAUUAGAUGAGAUUGGAA   521 Target Full Sequence	2.5	PREDICTED: Zea mays Membrane magnesium transporter (LOC100276290), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU975230.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:503   CACAUGGAUUAGAUGAGAUUGGAA   526 Target Full Sequence	2.5	Zea mays clone 485079 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU973494.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:515   CACAUGGAUUAGAUGAGAUUGGAA   538 Target Full Sequence	2.5	Zea mays clone 399694 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU942657.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:175   CACAUGAAUUGGAUGAGAUUGGAA   198 Target Full Sequence	2.5	Zea mays clone 1527578 mRNA sequence	NA	coding protein	psRNATarget
NM_001291558.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:639   CACAUGGAUUAGAUGAGAUUGGAA   662 Target Full Sequence	2.5	Zea mays Membrane magnesium transporter (LOC100276290), mRNA	NA	coding protein	psRNATarget
EU964394.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:640   CACAUGGAUUAGAUGAGAUUGGAA   663 Target Full Sequence	2.5	Zea mays clone 278539 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU976922.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||||||*=|||||||||||| targets:676   CACAUGGAUUAGAUGAGAUUGGAA   699 Target Full Sequence	2.5	Zea mays clone 993749 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU949831.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:953   CACAUGAAUUGGAUGAGAUUGGAA   976 Target Full Sequence	2.5	Zea mays clone 447574 mRNA sequence	NA	coding protein	psRNATarget
XM_008666493.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:3420   CACAUGAAUUGGAUGAGAUUGGAA   3443 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103643333 (LOC103643333), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020546709.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:3406   CACAUGAAUUGGAUGAGAUUGGAA   3429 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103643333 (LOC103643333), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008666491.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:3688   CACAUGAAUUGGAUGAGAUUGGAA   3711 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103643333 (LOC103643333), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008666492.2	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||||||*||||=|||||||||||| targets:3693   CACAUGAAUUGGAUGAGAUUGGAA   3716 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103643333 (LOC103643333), transcript variant X2, mRNA	NA	coding protein	psRNATarget
HI409890.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:8   CAUGUGGAUUGAGUGAGAUUGGAU   31 Target Full Sequence	2.5	Sequence 8015 from Patent EP2074227	NA	coding protein	psRNATarget
JB170351.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:8   CAUGUGGAUUGAGUGAGAUUGGAU   31 Target Full Sequence	2.5	Sequence 8015 from Patent EP2559767	NA	coding protein	psRNATarget
LQ242020.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:8   CAUGUGGAUUGAGUGAGAUUGGAU   31 Target Full Sequence	2.5	Sequence 8015 from Patent EP2985353	NA	coding protein	psRNATarget
JB166348.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:29   CAUGUGGAUUGAGUGAGAUUGGAU   52 Target Full Sequence	2.5	Sequence 4012 from Patent EP2559767	NA	coding protein	psRNATarget
HI405887.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:29   CAUGUGGAUUGAGUGAGAUUGGAU   52 Target Full Sequence	2.5	Sequence 4012 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238017.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:29   CAUGUGGAUUGAGUGAGAUUGGAU   52 Target Full Sequence	2.5	Sequence 4012 from Patent EP2985353	NA	coding protein	psRNATarget
JB166301.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 3965 from Patent EP2559767	NA	coding protein	psRNATarget
LQ237970.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 3965 from Patent EP2985353	NA	coding protein	psRNATarget
LQ238010.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 4005 from Patent EP2985353	NA	coding protein	psRNATarget
JB166341.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 4005 from Patent EP2559767	NA	coding protein	psRNATarget
HI405840.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 3965 from Patent EP2074227	NA	coding protein	psRNATarget
HI405880.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:27   CAUGUGGAUUGAGUGAGAUUGGAU   50 Target Full Sequence	2.5	Sequence 4005 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238016.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:30   CAUGUGGAUUGAGUGAGAUUGGAU   53 Target Full Sequence	2.5	Sequence 4011 from Patent EP2985353	NA	coding protein	psRNATarget
JB166347.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:30   CAUGUGGAUUGAGUGAGAUUGGAU   53 Target Full Sequence	2.5	Sequence 4011 from Patent EP2559767	NA	coding protein	psRNATarget
HI405886.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:30   CAUGUGGAUUGAGUGAGAUUGGAU   53 Target Full Sequence	2.5	Sequence 4011 from Patent EP2074227	NA	coding protein	psRNATarget
EU942632.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:193   CAUGUGGAUUGAGUGAGAUUGGAU   216 Target Full Sequence	2.5	Zea mays clone 1525411 mRNA sequence	NA	coding protein	psRNATarget
BT086633.1	ncRNA:24   GUG--UACCUAACUUACUCUAACCUU   1   =||--||||||||=|||||||||||| targets:390   UACCUAUGGAUUGGAUGAGAUUGGAA   415 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFa0068P14 mRNA, complete cds	NA	coding protein	psRNATarget
EU957313.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:671   CAUGUGGAUUGAGUGAGAUUGGAU   694 Target Full Sequence	2.5	Zea mays clone 1588341 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001149687.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:671   CAUGUGGAUUGAGUGAGAUUGGAU   694 Target Full Sequence	2.5	Zea mays uncharacterized LOC100275644 (LOC100275644), mRNA	NA	coding protein	psRNATarget
AY109413.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:1583   CAUGUGGAUUGAGUGAGAUUGGAU   1606 Target Full Sequence	2.5	Zea mays CL2362_1 mRNA sequence	NA	coding protein	psRNATarget
EU962683.1	ncRNA:24   GUGUACCUAACUUACUCUAACCUU   1   ||==||||||||=||||||||||* targets:1548   CAUGUGGAUUGAGUGAGAUUGGAU   1571 Target Full Sequence	2.5	Zea mays clone 244714 mRNA sequence	NA	coding protein	psRNATarget
BT063416.1	ncRNA:24   GUG--UACCUAACUUACUCUAACCUU   1   =||--||||||||=|||||||||||| targets:2015   UACCUAUGGAUUGGAUGAGAUUGGAA   2040 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0061L20 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008674604.2	ncRNA:24   GUG--UACCUAACUUACUCUAACCUU   1   =||--||||||||=|||||||||||| targets:2216   UACCUAUGGAUUGGAUGAGAUUGGAA   2241 Target Full Sequence	1.5	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020549704.1	ncRNA:24   GUG--UACCUAACUUACUCUAACCUU   1   =||--||||||||=|||||||||||| targets:2223   UACCUAUGGAUUGGAUGAGAUUGGAA   2248 Target Full Sequence	1.5	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020549703.1	ncRNA:24   GUG--UACCUAACUUACUCUAACCUU   1   =||--||||||||=|||||||||||| targets:2283   UACCUAUGGAUUGGAUGAGAUUGGAA   2308 Target Full Sequence	1.5	PREDICTED: Zea mays protein kinase domain containing protein (LOC100281444), transcript variant X1, mRNA	NA	coding protein	psRNATarget