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BaseInfo

ncRNA ID	zma-miR169i-5p
Species	Zea mays
Class	miRNA
Genome position	chr4:47241963-47242153 [+]
Reference genome	RefGen_v2
Source	miRBase
Length	21
Mature sequence(if miRNA)	21 - UAGCCAAGGAUGACUUGCCUG - 41
Stem-loop(if miRNA)	- A        GU  C  -U   -         U    U       U CU     -  CU C     U  -AA GAC    -  GU     C   -  AG G  G UGAGAGUG  AG UC  GGU AGCCAAGGA GACU GCCUGUG G  GGCCA CG  C CCUCA GC   G   CAUC UC  GUCGA CGA CG  C A  | ||||||||  || ||  ||| ||||||||| |||| ||||||| |  ||||| ||  | ||||| ||   |   |||| ||  ||||| ||| ||  |  C AUUCUCAC  UC AG  CCG UCGGUUCCU CUGA CGGGCAC C  CUGGU GC  G GGGGU CG   C   GUAG AG  UAGCU GCU GC  G G G C        --  -  UC   A         -    -       U -U     U  AU U     U  AAG --A    G  AG     A   A  GA C
Stem-loop sequence	GAUGAGAGUGGUAGCUCUGGUAGCCAAGGAUGACUUGCCUGUGUGCUGGCCACGCUCCCCUCAUGCAAGGACCAUCUCGUGUCGACCGACGAGCGAGCGAGCGAUCGAUCGAUGAGAGGAUGACGAAGCUUGGGGUGUACGUUGGUCUCUCACGGGCAGUCUCCUUGGCUAGCCCUGACUCACUCUUACCG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT054579.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||||||||||||||||| targets:545   CAGGCAAGUCAUCCUUGGCUA   565 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFc0162O11 mRNA, complete cds	NA	coding protein	psRNATarget
BT054579.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||=*||||||||||||| targets:372   CAGGCAGCUCAUCCUUGGCUA   392 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0162O11 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001152615.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||||||||||||||||| targets:545   CAGGCAAGUCAUCCUUGGCUA   565 Target Full Sequence	0.0	Zea mays uncharacterized LOC100279619 (LOC100279619), mRNA	NA	coding protein	psRNATarget
NM_001152615.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||=*||||||||||||| targets:372   CAGGCAGCUCAUCCUUGGCUA   392 Target Full Sequence	2.0	Zea mays uncharacterized LOC100279619 (LOC100279619), mRNA	NA	coding protein	psRNATarget
BT062831.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||||||||||| targets:304   UAGGCAAGUCAUCCUUGGCUA   324 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0354L14 mRNA, complete cds	NA	coding protein	psRNATarget
BT068645.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||||||||||| targets:932   UAGGCAAGUCAUCCUUGGCUA   952 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0360A11 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001176546.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||||||||||| targets:932   UAGGCAAGUCAUCCUUGGCUA   952 Target Full Sequence	0.0	Zea mays uncharacterized LOC100383927 (LOC100383927), mRNA	NA	coding protein	psRNATarget
LQ237936.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||=|||||||| targets:123   UAGGCAAGUCAUUCUUGGCUA   143 Target Full Sequence	1.5	Sequence 3931 from Patent EP2985353	NA	coding protein	psRNATarget
JB166267.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||=|||||||| targets:123   UAGGCAAGUCAUUCUUGGCUA   143 Target Full Sequence	1.5	Sequence 3931 from Patent EP2559767	NA	coding protein	psRNATarget
HI405806.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   =|||||||||||=|||||||| targets:123   UAGGCAAGUCAUUCUUGGCUA   143 Target Full Sequence	1.5	Sequence 3931 from Patent EP2074227	NA	coding protein	psRNATarget
JB166264.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||=*||||||||||||| targets:84   CAGGCAGCUCAUCCUUGGCUA   104 Target Full Sequence	2.0	Sequence 3928 from Patent EP2559767	NA	coding protein	psRNATarget
HI405803.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||=*||||||||||||| targets:84   CAGGCAGCUCAUCCUUGGCUA   104 Target Full Sequence	2.0	Sequence 3928 from Patent EP2074227	NA	coding protein	psRNATarget
LQ237933.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   ||||||=*||||||||||||| targets:84   CAGGCAGCUCAUCCUUGGCUA   104 Target Full Sequence	2.0	Sequence 3928 from Patent EP2985353	NA	coding protein	psRNATarget
XM_020548143.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |*||||||||||||||||||= targets:767   CCGGCAAGUCAUCCUUGGCUG   787 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC103648407 (LOC103648407), mRNA	NA	coding protein	psRNATarget
BT060668.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |*||||||||||||||||||= targets:1023   CCGGCAAGUCAUCCUUGGCUG   1043 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0031E01 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008645464.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:813   CAGGCAAUUCAUCCUUGGCUU   833 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X7, mRNA	NA	coding protein	psRNATarget
XM_008645463.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:914   CAGGCAAUUCAUCCUUGGCUU   934 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X6, mRNA	NA	coding protein	psRNATarget
XM_008645461.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:936   CAGGCAAUUCAUCCUUGGCUU   956 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008645462.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:946   CAGGCAAUUCAUCCUUGGCUU   966 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X5, mRNA	NA	coding protein	psRNATarget
AY110887.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:983   CAGGCAAUUCAUCCUUGGCUU   1003 Target Full Sequence	2.0	Zea mays CL807_1 mRNA sequence	NA	coding protein	psRNATarget
BT017464.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:979   CAGGCAAUUCAUCCUUGGCUU   999 Target Full Sequence	2.0	Zea mays clone EL01N0407G01.c mRNA sequence	NA	coding protein	psRNATarget
XM_008645460.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:996   CAGGCAAUUCAUCCUUGGCUU   1016 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008645459.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:1000   CAGGCAAUUCAUCCUUGGCUU   1020 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008645458.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:1013   CAGGCAAUUCAUCCUUGGCUU   1033 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU961977.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:1007   CAGGCAAUUCAUCCUUGGCUU   1027 Target Full Sequence	2.0	Zea mays clone 239433 nuclear transcription factor Y subunit A-3 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001155603.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||||||||* targets:1007   CAGGCAAUUCAUCCUUGGCUU   1027 Target Full Sequence	2.0	Zea mays nuclear transcription factor Y subunit A-3 (LOC100282696), mRNA	NA	coding protein	psRNATarget
JB163760.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||*|||||| targets:75   CAGGCAAAUCAUCCCUGGCUA   95 Target Full Sequence	2.5	Sequence 1424 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235429.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||*|||||| targets:75   CAGGCAAAUCAUCCCUGGCUA   95 Target Full Sequence	2.5	Sequence 1424 from Patent EP2985353	NA	coding protein	psRNATarget
HI403299.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |||||||*||||||*|||||| targets:75   CAGGCAAAUCAUCCCUGGCUA   95 Target Full Sequence	2.5	Sequence 1424 from Patent EP2074227	NA	coding protein	psRNATarget
EU950981.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:481   GUGGCAAUUCAUCCUUGGCUU   501 Target Full Sequence	2.0	Zea mays clone 677229 mRNA sequence	NA	coding protein	psRNATarget
EU950969.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   |**||*||||||||||||||| targets:814   CUAGCUAGUCAUCCUUGGCUA   834 Target Full Sequence	2.0	Zea mays clone 677139 mRNA sequence	NA	coding protein	psRNATarget
EU954616.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1123   GUGGCAACUCAUCCUUGGCUU   1143 Target Full Sequence	2.0	Zea mays clone 1474061 nuclear transcription factor Y subunit A-3 mRNA, complete cds	NA	coding protein	psRNATarget
EU964705.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1126   GUGGCAACUCAUCCUUGGCUC   1146 Target Full Sequence	2.0	Zea mays clone 280955 nuclear transcription factor Y subunit A-3 mRNA, complete cds	NA	coding protein	psRNATarget
BT036648.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1031   GUGGCAACUCAUCCUUGGCUC   1051 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0127N08 mRNA, complete cds	NA	coding protein	psRNATarget
BT066403.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1093   GUGGCAACUCAUCCUUGGCUC   1113 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0117G04 mRNA, complete cds	NA	coding protein	psRNATarget
BT038709.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1111   GUGGCAACUCAUCCUUGGCUU   1131 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0310L05 mRNA, complete cds	NA	coding protein	psRNATarget
BT018371.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1112   GUGGCAACUCAUCCUUGGCUU   1132 Target Full Sequence	2.0	Zea mays clone EL01N0306C05.d mRNA sequence	NA	coding protein	psRNATarget
BT018548.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1118   GUGGCAACUCAUCCUUGGCUC   1138 Target Full Sequence	2.0	Zea mays clone EL01N0438E07.d mRNA sequence	NA	coding protein	psRNATarget
NM_001153839.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1255   GUGGCAACUCAUCCUUGGCUU   1275 Target Full Sequence	2.0	Zea mays nuclear transcription factor Y subunit A-3 (LOC100280919), mRNA	NA	coding protein	psRNATarget
EU954602.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1255   GUGGCAACUCAUCCUUGGCUU   1275 Target Full Sequence	2.0	Zea mays clone 1472867 nuclear transcription factor Y subunit A-3 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008669055.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1123   GUGGCAACUCAUCCUUGGCUC   1143 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X6, mRNA	NA	coding protein	psRNATarget
XM_008669054.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1135   GUGGCAACUCAUCCUUGGCUC   1155 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_008669052.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1173   GUGGCAACUCAUCCUUGGCUC   1193 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008669050.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1185   GUGGCAACUCAUCCUUGGCUC   1205 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X1, mRNA	NA	coding protein	psRNATarget
AY109487.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1134   GUGGCAACUCAUCCUUGGCUC   1154 Target Full Sequence	2.0	Zea mays CL795_1 mRNA sequence	NA	coding protein	psRNATarget
NM_001139229.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1443   GUGGCAACUCAUCCUUGGCUC   1463 Target Full Sequence	2.0	Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), mRNA	NA	coding protein	psRNATarget
EU962352.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1443   GUGGCAACUCAUCCUUGGCUC   1463 Target Full Sequence	2.0	Zea mays clone 241983 nuclear transcription factor Y subunit A-3 mRNA, complete cds	NA	coding protein	psRNATarget
EU961865.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1423   GUGGCAAUUCAUCCUUGGCUU   1443 Target Full Sequence	2.0	Zea mays clone 238735 mRNA sequence	NA	coding protein	psRNATarget
XM_008653171.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1271   GUGGCAACUCAUCCUUGGCUU   1291 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100280919), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020546405.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1583   GUGGCAAUUCAUCCUUGGCUU   1603 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-7-like (LOC103644713), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008669053.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1495   GUGGCAACUCAUCCUUGGCUC   1515 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008669051.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1507   GUGGCAACUCAUCCUUGGCUC   1527 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100194182), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008653172.2	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:1771   GUGGCAACUCAUCCUUGGCUU   1791 Target Full Sequence	2.0	PREDICTED: Zea mays nuclear transcription factor Y subunit A-3 (LOC100280919), transcript variant X2, mRNA	NA	coding protein	psRNATarget
BT062487.1	ncRNA:21   GUCCGUUCAGUAGGAACCGAU   1   **|||||*||||||||||||* targets:2077   GUGGCAACUCAUCCUUGGCUU   2097 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0304C09 mRNA, complete cds	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).