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BaseInfo

ncRNA ID	novel_zma_miR5580
Species	Zea mays
Class	miRNA
Genome position	Chr1:283158390-283158509 [+]
Reference genome	RefGen_v4
Source	SRR2638137;SRR2647221;SRR2647343;SRR2647385;SRR2647386;SRR2647387;SRR2647388;SRR2647389;SRR2647390;SRR2647391;SRR2647467
Length	24
Mature sequence(if miRNA)	1 - AGAGCUAGUUUGGAAACUCAAAUU - 24
Stem-loop(if miRNA)	--AGA       U             A   UU AA   C    GA U     UA     GA      GCUAGUU GGAAACUCAAAUU CUU  G  AUU GAAG  A UGAGG  GAGAU  A      ||||||| ||||||||||||| |||  |  ||| ||||  | |||||  |||||      CGAUCAA CCUUUGAGUUUAG GAA  U  UAA CUUC  U ACUCU  CUUUA  C AAUCA       -             A   GG GC   -    UC C     UC     AU
Stem-loop sequence	AGAGCUAGUUUGGAAACUCAAAUUACUUUUGAAAUUCGAAGGAAUUGAGGUAGAGAUGAACUAAUUUCCUUCUCACUCUCUUCAAUCGUGGAAGAGAUUUGAGUUUCCAACUAGCACUAA

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
XM_020550081.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||||||||||||||||||||||| targets:2430   AAUUUGAGUUUCCAAACUAGCUCU   2453 Target Full Sequence	0.0	PREDICTED: Zea mays uncharacterized LOC109944788 (LOC109944788), mRNA	NA	coding protein	psRNATarget
XM_008676335.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||||||||||||||||||||| targets:4404   GAUUUGAGUUUCCAAACUAGCUCU   4427 Target Full Sequence	0.0	PREDICTED: Zea mays Serine/arginine repetitive matrix protein 2 isoform 4 (LOC103650763), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008676333.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||||||||||||||||||||| targets:4391   GAUUUGAGUUUCCAAACUAGCUCU   4414 Target Full Sequence	0.0	PREDICTED: Zea mays Serine/arginine repetitive matrix protein 2 isoform 4 (LOC103650763), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008676336.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||||||||||||||||||||| targets:4377   GAUUUGAGUUUCCAAACUAGCUCU   4400 Target Full Sequence	0.0	PREDICTED: Zea mays Serine/arginine repetitive matrix protein 2 isoform 4 (LOC103650763), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008679616.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||||||||||||||||||*|| targets:1220   GAUUUGAGUUUCCAAACUAGCCCU   1243 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC103652675 (LOC103652675), mRNA	NA	coding protein	psRNATarget
NM_001196732.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||||*|||||=|||||||||||| targets:1004   AAUUUCAGUUUUCAAACUAGCUCU   1027 Target Full Sequence	2.5	Zea mays bronze 2 (LOC100502255), mRNA	NA	coding protein	psRNATarget
BT087550.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||||*|||||=|||||||||||| targets:1004   AAUUUCAGUUUUCAAACUAGCUCU   1027 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0106O02 mRNA, complete cds	NA	coding protein	psRNATarget
EZ069159.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||||||||||||||||||*|| targets:88   GAUUUGAGUUUCCAAACUAGCCCU   111 Target Full Sequence	1.5	TSA: Zea mays contig04794, mRNA sequence	NA	coding protein	psRNATarget
XM_008670635.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   *|||||||||||*||||||||||| targets:89   CAUUUGAGUUUCAAAACUAGCUCU   112 Target Full Sequence	1.5	PREDICTED: Zea mays ABC transporter I family member 1 (LOC103645914), mRNA	NA	coding protein	psRNATarget
NM_001351827.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |=*|||||||||=||||||||||* targets:1421   AGCUUGAGUUUCUAAACUAGCUCA   1444 Target Full Sequence	2.5	Zea mays uncharacterized LOC100280098 (LOC100280098), mRNA	NA	coding protein	psRNATarget
BT064433.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |=*|||||||||=||||||||||* targets:1311   AGCUUGAGUUUCUAAACUAGCUCA   1334 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0168J15 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008676159.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||*|||||||||||||||*|| targets:2664   GAUUUAAGUUUCCAAACUAGCCCU   2687 Target Full Sequence	2.5	PREDICTED: Zea mays VIN3-like protein 1 (LOC103650592), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020550313.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||||*|||||||||||||||*|| targets:2344   GAUUUAAGUUUCCAAACUAGCCCU   2367 Target Full Sequence	2.5	PREDICTED: Zea mays VIN3-like protein 1 (LOC103650592), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EU960900.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|*||||||=|||||||||||| targets:650   AAAUAGAGUUUUCAAACUAGCUCU   673 Target Full Sequence	1.5	Zea mays clone 229464 cell growth defect factor 2 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001155347.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|*||||||=|||||||||||| targets:650   AAAUAGAGUUUUCAAACUAGCUCU   673 Target Full Sequence	1.5	Zea mays cell growth defect factor 2 (LOC100282436), mRNA	NA	coding protein	psRNATarget
EU955577.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   *||*|||||||||||||||||*|| targets:2116   UAUAUGAGUUUCCAAACUAGCCCU   2139 Target Full Sequence	1.5	Zea mays clone 1537616 kelch motif family protein mRNA, complete cds	NA	coding protein	psRNATarget
EU955577.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   **|*|||||||||||||||||*|| targets:2157   UCUAUGAGUUUCCAAACUAGCCCU   2180 Target Full Sequence	1.5	Zea mays clone 1537616 kelch motif family protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001154017.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   *||*|||||||||||||||||*|| targets:2115   UAUAUGAGUUUCCAAACUAGCCCU   2138 Target Full Sequence	1.5	Zea mays kelch motif family protein (LOC100281098), mRNA	NA	coding protein	psRNATarget
NM_001154017.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   **|*|||||||||||||||||*|| targets:2156   UCUAUGAGUUUCCAAACUAGCCCU   2179 Target Full Sequence	1.5	Zea mays kelch motif family protein (LOC100281098), mRNA	NA	coding protein	psRNATarget
XM_020537826.1	ncRNA:24   UUAAACUC-AAAGGUUUGAUCGAGA   1   ||*|*|||-|||||||||||||||| targets:22   AAAUAGAGAUUUCCAAACUAGCUCU   46 Target Full Sequence	2.0	PREDICTED: Zea mays uncharacterized LOC103625780 (LOC103625780), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020537827.1	ncRNA:24   UUAAACUC-AAAGGUUUGAUCGAGA   1   ||*|*|||-|||||||||||||||| targets:22   AAAUAGAGAUUUCCAAACUAGCUCU   46 Target Full Sequence	2.0	PREDICTED: Zea mays uncharacterized LOC103625780 (LOC103625780), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008654469.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|||||*||||||||||||*|| targets:3570   AAAUUGAGCUUCCAAACUAGCCCU   3593 Target Full Sequence	2.5	PREDICTED: Zea mays U-box domain-containing protein 35 (LOC103632728), mRNA	NA	coding protein	psRNATarget
XM_020545752.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:2288   AAU--GAGUUGCCAAACUAGCUCU   2309 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X9, mRNA	NA	coding protein	psRNATarget
XM_008665040.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:1667   AAU--GAGUUGCCAAACUAGCUCU   1688 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X8, mRNA	NA	coding protein	psRNATarget
NM_001150806.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|||||||*||||||||||*|| targets:1055   AAAUUGAGUUCCCAAACUAGCCCU   1078 Target Full Sequence	2.5	Zea mays Tyrosine specific protein phosphatase-like (LOC100277156), mRNA	NA	coding protein	psRNATarget
EU967093.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|||||||*||||||||||*|| targets:1005   AAAUUGAGUUCCCAAACUAGCCCU   1028 Target Full Sequence	2.5	Zea mays clone 299427 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
BT084259.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|||||||*||||||||||*|| targets:1009   AAAUUGAGUUCCCAAACUAGCCCU   1032 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0094M03 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008665038.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:975   AAU--GAGUUGCCAAACUAGCUCU   996 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008665037.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:973   AAU--GAGUUGCCAAACUAGCUCU   994 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020545753.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:968   AAU--GAGUUGCCAAACUAGCUCU   989 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X10, mRNA	NA	coding protein	psRNATarget
XM_020545979.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:711   AAU--GAGUUGCCAAACUAGCUCU   732 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100303977 (LOC100303977), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020545978.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   |||--|||||*||||||||||||| targets:710   AAU--GAGUUGCCAAACUAGCUCU   731 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100303977 (LOC100303977), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008666283.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ==**|||||||||||||||||*|| targets:3391   GGGAUGAGUUUCCAAACUAGCCCU   3414 Target Full Sequence	1.5	PREDICTED: Zea mays protein indeterminate-domain 16 (LOC103643131), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008666284.2	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ==**|||||||||||||||||*|| targets:3308   GGGAUGAGUUUCCAAACUAGCCCU   3331 Target Full Sequence	1.5	PREDICTED: Zea mays protein indeterminate-domain 16 (LOC103643131), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020544094.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|*|=||||||||||||||*|| targets:1306   AAAUAGGGUUUCCAAACUAGCCCU   1329 Target Full Sequence	2.5	PREDICTED: Zea mays 3-ketoacyl-CoA synthase 6 (LOC103638222), mRNA	NA	coding protein	psRNATarget
EU951374.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   ||*|*|=||||||||||||||*|| targets:414   AAAUGGGGUUUCCAAACUAGCCCU   437 Target Full Sequence	2.5	Zea mays clone 697858 mRNA sequence	NA	coding protein	psRNATarget
JB167567.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||*|*|||||||||||||||*|| targets:93   GAUGUAAGUUUCCAAACUAGCCCU   116 Target Full Sequence	2.5	Sequence 5231 from Patent EP2559767	NA	coding protein	psRNATarget
HI407106.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||*|*|||||||||||||||*|| targets:93   GAUGUAAGUUUCCAAACUAGCCCU   116 Target Full Sequence	2.5	Sequence 5231 from Patent EP2074227	NA	coding protein	psRNATarget
LQ239236.1	ncRNA:24   UUAAACUCAAAGGUUUGAUCGAGA   1   =||*|*|||||||||||||||*|| targets:93   GAUGUAAGUUUCCAAACUAGCCCU   116 Target Full Sequence	2.5	Sequence 5231 from Patent EP2985353	NA	coding protein	psRNATarget