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BaseInfo

ncRNA ID	zma-miR159a-3p
Species	Zea mays
Class	miRNA
Genome position	chr8:10392580-10392825 [+]
Reference genome	RefGen_v2
Source	miRBase
Length	21
Mature sequence(if miRNA)	207 - UUUGGAUUGAAGGGAGCUCUG - 227
Stem-loop(if miRNA)	UCGAUGCUU      -U  A           A   U     U  AG     UUC   -A    U   U C   G    U     GUUC    UAU         ----U    UG AUAUAUGUAAUC          UGGGUU  GA GCGGAGCUCCU UCA UCCAA GA  GGUCG   CGA  GGGC GGU C GCU CUCG UCAUG    CCAC   CCUAUCUCA     CAUG  U            C          ||||||  || ||||||||||| ||| ||||| ||  |||||   |||  |||| ||| | ||| |||| |||||    ||||   |||||||||     ||||  |            A          ACCUAG  CU CGUCUCGAGGG AGU AGGUU CU  CCGGU   GUU  CCCG CCA G CGA GAGC AGUAC    GGUG   GGAUAGAGU     CUCU  C            U --CCUCCCC      UC  A           A   U     U  CG     --C   CC    -   C U   G    C     GUUU    UUC         UUCUG    -- UUUGGGAGGGGG
Stem-loop sequence	UCGAUGCUUUGGGUUUGAAGCGGAGCUCCUAUCAUUCCAAUGAAGGGUCGUUCCGAAGGGCUGGUUCCGCUGCUCGUUCAUGGUUCCCACUAUCCUAUCUCAUCAUGUGUAUAUAUGUAAUCCAUGGGGGAGGGUUUCUCUCGUCUUUGAGAUAGGCUUGUGGUUUGCAUGACCGAGGAGCUGCACCGCCCCCUUGCUGGCCGCUCUUUGGAUUGAAGGGAGCUCUGCAUCCUGAUCCACCCCUCC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
XM_020544365.1	ncRNA:21   GUC---UCGAGGGAAGUUAGGUUU   1   |||---|||||||||||||||||| targets:873   CAGUCGAGCUCCCUUCAAUCCAAA   896 Target Full Sequence	3.0	PREDICTED: Zea mays transcription factor MYB29 (LOC103638687), mRNA	NA	coding protein	psRNATarget
XM_020544355.1	ncRNA:21   GUC---UCGAGGGAAGUUAGGUUU   1   |||---|||||||||||||||||| targets:873   CAGUCGAGCUCCCUUCAAUCCAAA   896 Target Full Sequence	3.0	PREDICTED: Zea mays transcription factor MYB29 (LOC103638690), mRNA	NA	coding protein	psRNATarget
JX469944.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |||||*|||||||=||||||| targets:905   CAGAGAUCCCUUCGAUCCAAA   925 Target Full Sequence	2.5	Zea mays subsp. mays clone UT3205 MYB-type transcription factor mRNA, partial cds	NA	coding protein	psRNATarget
XM_008649904.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |||||*|||||||=||||||| targets:1096   CAGAGAUCCCUUCGAUCCAAA   1116 Target Full Sequence	2.5	PREDICTED: Zea mays putative MYB DNA-binding domain superfamily protein (LOC100383604), transcript variant X1, mRNA	NA	coding protein	psRNATarget
NM_001176252.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |||||*|||||||=||||||| targets:1133   CAGAGAUCCCUUCGAUCCAAA   1153 Target Full Sequence	2.5	Zea mays putative MYB DNA-binding domain superfamily protein (LOC100383604), mRNA	NA	coding protein	psRNATarget
BT067757.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |||||*|||||||=||||||| targets:1133   CAGAGAUCCCUUCGAUCCAAA   1153 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0153H03 mRNA, complete cds	NA	coding protein	psRNATarget
EU968889.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   *||||||||||||=||||||* targets:80   AAGAGCUCCCUUCGAUCCAAU   100 Target Full Sequence	2.5	Zea mays clone 324744 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU958700.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   *||||||||||||=||||||* targets:96   AAGAGCUCCCUUCGAUCCAAU   116 Target Full Sequence	2.5	Zea mays clone 1710224 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU958546.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   *||||||||||||=||||||* targets:96   AAGAGCUCCCUUCGAUCCAAU   116 Target Full Sequence	2.5	Zea mays clone 1701645 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EU968724.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   *||||||||||||=||||||* targets:121   AAGAGCUCCCUUCGAUCCAAU   141 Target Full Sequence	2.5	Zea mays clone 323714 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
KY110963.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ||||||*||||||||*||||| targets:650   CAGAGCACCCUUCAAGCCAAA   670 Target Full Sequence	2.5	Zea mays SPOROCYTELESS-like EAR-containing protein 1 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008651610.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ||||||*||||||||*||||| targets:734   CAGAGCACCCUUCAAGCCAAA   754 Target Full Sequence	2.5	PREDICTED: Zea mays hypothetical protein (LOC103630561), mRNA	NA	coding protein	psRNATarget
EU969836.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ||||||*||||||||*||||| targets:772   CAGAGCACCCUUCAAGCCAAA   792 Target Full Sequence	2.5	Zea mays clone 336272 mRNA sequence	NA	coding protein	psRNATarget
HQ858750.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:977   UGGAGCUCCCUUCACUCCAAG   997 Target Full Sequence	2.5	Zea mays clone UT1459 MYBGA transcription factor mRNA, partial cds	NA	coding protein	psRNATarget
BT038569.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:1140   UGGAGCCCCCUUCAGUCCAAA   1160 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0287F20 mRNA, complete cds	NA	coding protein	psRNATarget
BT063828.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1102   UGGAGCUCCCUUCACUCCAAG   1122 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0110K24 mRNA, complete cds	NA	coding protein	psRNATarget
EU970886.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1195   UGGAGCUCCCUUCACUCCAAG   1215 Target Full Sequence	2.5	Zea mays clone 353123 transcription factor GAMYB mRNA, complete cds	NA	coding protein	psRNATarget
BT062692.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1241   UGGAGCUCCCUUCACUCCAAG   1261 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0334D20 mRNA, complete cds	NA	coding protein	psRNATarget
EU973271.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:1292   UGGAGCCCCCUUCAGUCCAAA   1312 Target Full Sequence	2.5	Zea mays clone 395942 transcription factor GAMYB mRNA, complete cds	NA	coding protein	psRNATarget
NM_001254909.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:1360   UGGAGCCCCCUUCAGUCCAAA   1380 Target Full Sequence	2.5	Zea mays transcription factor GAMYB (LOC100285651), mRNA	NA	coding protein	psRNATarget
NM_001137160.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1268   UGGAGCUCCCUUCACUCCAAG   1288 Target Full Sequence	2.5	Zea mays MYBGA transcription factor (LOC100191731), mRNA	NA	coding protein	psRNATarget
BT033925.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1268   UGGAGCUCCCUUCACUCCAAG   1288 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0044D10 mRNA, complete cds	NA	coding protein	psRNATarget
BT069226.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:1358   UGGAGCCCCCUUCAGUCCAAA   1378 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0370J04 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008673816.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||||||||||*|||||= targets:1370   UGGAGCUCCCUUCACUCCAAG   1390 Target Full Sequence	2.5	PREDICTED: Zea mays MYBGA transcription factor (LOC100191731), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT065979.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:1976   UGGAGCCCCCUUCAGUCCAAA   1996 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0129D18 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020542180.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==||||*|||||||=|||||| targets:2019   UGGAGCCCCCUUCAGUCCAAA   2039 Target Full Sequence	2.5	PREDICTED: Zea mays transcription factor GAMYB (LOC100285651), transcript variant X1, mRNA	NA	coding protein	psRNATarget
KJ727532.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==|||||||||||||*||||* targets:869   UGGAGCUCCCUUCAAACCAAU   889 Target Full Sequence	2.5	Zea mays clone pUT5392 MYB transcription factor (MYB129) mRNA, partial cds	NA	coding protein	psRNATarget
NM_001148578.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==|||||||||||||*||||* targets:1044   UGGAGCUCCCUUCAAACCAAU   1064 Target Full Sequence	2.5	Zea mays putative MYB DNA-binding domain superfamily protein (MYB129), mRNA	NA	coding protein	psRNATarget
BT042537.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==|||||||||||||*||||* targets:1044   UGGAGCUCCCUUCAAACCAAU   1064 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0325G13 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008666784.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==|||||||||||||*||||* targets:1403   UGGAGCUCCCUUCAAACCAAU   1423 Target Full Sequence	2.5	PREDICTED: Zea mays protein rough sheath 2-like (LOC103643621), mRNA	NA	coding protein	psRNATarget
XM_008683317.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   ==|||||||||||||*||||* targets:1472   UGGAGCUCCCUUCAAACCAAU   1492 Target Full Sequence	2.5	PREDICTED: Zea mays putative MYB DNA-binding domain superfamily protein (MYB129), transcript variant X1, mRNA	NA	coding protein	psRNATarget
KY110964.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:488   CGGAGCCCCCUUCAAACCAAA   508 Target Full Sequence	2.5	Zea mays SPOROCYTELESS-like EAR-containing protein 2 mRNA, complete cds	NA	coding protein	psRNATarget
AY106289.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:877   CGGAGCCCCCUUCAAACCAAA   897 Target Full Sequence	2.5	Zea mays PCO115173 mRNA sequence	NA	coding protein	psRNATarget
XM_008675325.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1142   CGGAGCCCCCUUCAAACCAAA   1162 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_008675324.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1129   CGGAGCCCCCUUCAAACCAAA   1149 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008675323.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1142   CGGAGCCCCCUUCAAACCAAA   1162 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008675322.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1142   CGGAGCCCCCUUCAAACCAAA   1162 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008675327.2	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1145   CGGAGCCCCCUUCAAACCAAA   1165 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X7, mRNA	NA	coding protein	psRNATarget
XM_020551245.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1146   CGGAGCCCCCUUCAAACCAAA   1166 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020551246.1	ncRNA:21   GUCUCGAGGGAAGUUAGGUUU   1   |=||||*||||||||*||||| targets:1149   CGGAGCCCCCUUCAAACCAAA   1169 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC100278132 (LOC100278132), transcript variant X6, 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).