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BaseInfo

ncRNA ID	novel_zma_miR5347
Species	Zea mays
Class	miRNA
Genome position	Chr8:163615457-163615608 [-]
Reference genome	RefGen_v4
Source	SRR1618882
Length	24
Mature sequence(if miRNA)	1 - AGUCUCUAGAAACCAAACACCCCU - 24
Stem-loop(if miRNA)	-  A                                   A        C                    CAAAUA  GG GUGUUUGGUUUCUAGGGACUAAUUUUUAGUCCCUC AUUUUAUU UAUUUUAGUUCCUAAAUUGU      U  || ||||||||||||||||||||||||||||||||||| |||||||| ||||||||||||||||||||      U  CC CACAAACCAAAGAUCUCUGAUUAAAAAUCAGGGAG UAAAAUAA AUAAAAUCAAGGAUUUAACG      G U  C                                   G        U                    AUCUAU
Stem-loop sequence	GGAGUGUUUGGUUUCUAGGGACUAAUUUUUAGUCCCUCAAUUUUAUUCUAUUUUAGUUCCUAAAUUGUCAAAUAUUGUAUCUAGCAAUUUAGGAACUAAAAUAUAAUAAAAUGGAGGGACUAAAAAUUAGUCUCUAGAAACCAAACACCCCU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
LQ235177.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||||||=|||| targets:56   AGGGGUGUUUGGUUUCUAGGGACU   79 Target Full Sequence	1.5	Sequence 1172 from Patent EP2985353	NA	coding protein	psRNATarget
JB163508.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||||||=|||| targets:56   AGGGGUGUUUGGUUUCUAGGGACU   79 Target Full Sequence	1.5	Sequence 1172 from Patent EP2559767	NA	coding protein	psRNATarget
HI403047.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||||||=|||| targets:56   AGGGGUGUUUGGUUUCUAGGGACU   79 Target Full Sequence	1.5	Sequence 1172 from Patent EP2074227	NA	coding protein	psRNATarget
XM_020543841.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||||||=|||| targets:916   AGGGGUGUUUGGUUUCUAGGGACU   939 Target Full Sequence	1.5	PREDICTED: Zea mays lo1 pI allergen homolog 1 (lop1), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU956677.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||||||| targets:2008   GGGGGUGUUUGGUUUCUAGAGACU   2031 Target Full Sequence	0.0	Zea mays clone 1570443 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
XM_020550311.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||||||=|||| targets:2443   AGGGGUGUUUGGUUUCUAGGGACU   2466 Target Full Sequence	1.5	PREDICTED: Zea mays zinc finger CCCH domain-containing protein 67-like (LOC103650585), mRNA	NA	coding protein	psRNATarget
EU942443.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:461   GGGGGUGUUUGGUUUCUAGGGACU   484 Target Full Sequence	1.5	Zea mays clone 1501876 mRNA sequence	NA	coding protein	psRNATarget
EZ052166.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:748   GGGGGUGUUUGGUUUCUAGGGACU   771 Target Full Sequence	1.5	TSA: Zea mays contig53286, mRNA sequence	NA	coding protein	psRNATarget
XM_020553397.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:548   GGGGGUGUUUGGUUUCUAGGGACU   571 Target Full Sequence	1.5	PREDICTED: Zea mays SANT/MYB protein (LOC100284980), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT036582.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:811   GGGGGUGUUUGGUUUCUAGGGACU   834 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0124H18 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001139183.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:811   GGGGGUGUUUGGUUUCUAGGGACU   834 Target Full Sequence	1.5	Zea mays hypothetical protein (LOC100194130), mRNA	NA	coding protein	psRNATarget
NM_001313850.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1135   GGGGGUGUUUGGUUUCUAGGGACU   1158 Target Full Sequence	1.5	Zea mays voltage-gated potassium channel beta subunit (LOC100282429), mRNA	NA	coding protein	psRNATarget
BT088358.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1135   GGGGGUGUUUGGUUUCUAGGGACU   1158 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0155C19 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008650759.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1133   GGGGGUGUUUGGUUUCUAGGGACU   1156 Target Full Sequence	1.5	PREDICTED: Zea mays MADS-box transcription factor 30 (LOC103629660), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008650758.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1142   GGGGGUGUUUGGUUUCUAGGGACU   1165 Target Full Sequence	1.5	PREDICTED: Zea mays MADS-box transcription factor 30 (LOC103629660), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008650753.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1145   GGGGGUGUUUGGUUUCUAGGGACU   1168 Target Full Sequence	1.5	PREDICTED: Zea mays MADS-box transcription factor 30 (LOC103629660), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008650754.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1151   GGGGGUGUUUGGUUUCUAGGGACU   1174 Target Full Sequence	1.5	PREDICTED: Zea mays MADS-box transcription factor 30 (LOC103629660), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EU956227.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1238   GGGGGUGUUUGGUUUCUAGGGACU   1261 Target Full Sequence	1.5	Zea mays clone 1559264 mRNA sequence	NA	coding protein	psRNATarget
BT085047.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1189   GGGGGUGUUUGGUUUCUAGGGACU   1212 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0232J05 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020542419.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:2140   GGGGGUGUUUGGUUUCUAGGGACU   2163 Target Full Sequence	1.5	PREDICTED: Zea mays ADP,ATP carrier protein 2, chloroplastic (LOC103637385), mRNA	NA	coding protein	psRNATarget
XM_020545045.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||=|||| targets:1918   GGGGGUGUUUGGUUUCUAGGGACU   1941 Target Full Sequence	1.5	PREDICTED: Zea mays CAB2 (LOC100281582), transcript variant X2, mRNA	NA	coding protein	psRNATarget
AY104317.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||||||||||*|||||||| targets:1592   AGGGGUGUUUGGUUUAUAGAGACU   1615 Target Full Sequence	1.5	Zea mays PCO132144 mRNA sequence	NA	coding protein	psRNATarget
XM_008667360.2	ncRNA:24   UC-CCCACAAACCAAAGAUCUCUGA   1   ||-|||||||||||||||||=|||| targets:1141   AGUGGGUGUUUGGUUUCUAGGGACU   1165 Target Full Sequence	1.5	PREDICTED: Zea mays GNAT transcription factor (LOC103644167), mRNA	NA	coding protein	psRNATarget
LQ238744.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||*|||||||| targets:126   GGGGGUGUUUGGUUUAUAGAGACU   149 Target Full Sequence	1.5	Sequence 4739 from Patent EP2985353	NA	coding protein	psRNATarget
JB167075.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||*|||||||| targets:126   GGGGGUGUUUGGUUUAUAGAGACU   149 Target Full Sequence	1.5	Sequence 4739 from Patent EP2559767	NA	coding protein	psRNATarget
HI406614.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||*|||||||| targets:126   GGGGGUGUUUGGUUUAUAGAGACU   149 Target Full Sequence	1.5	Sequence 4739 from Patent EP2074227	NA	coding protein	psRNATarget
EZ060524.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =||||||||||||||||||*|||| targets:40   GGGGGUGUUUGGUUUCUAGUGACU   63 Target Full Sequence	1.5	TSA: Zea mays contig61646, mRNA sequence	NA	coding protein	psRNATarget
XM_020542840.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   ||*||||||||||||||||=|||| targets:968   AGAGGUGUUUGGUUUCUAGGGACU   991 Target Full Sequence	1.5	PREDICTED: Zea mays hypothetical protein (LOC103636172), transcript variant X1, mRNA	NA	coding protein	psRNATarget
NM_001153051.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||*|||||||||||=|||| targets:783   AGGGGUGCUUGGUUUCUAGGGACU   806 Target Full Sequence	2.5	Zea mays NAD(P)-binding Rossmann-fold superfamily protein (LOC100280114), mRNA	NA	coding protein	psRNATarget
BT055601.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||||*|||||||||||=|||| targets:783   AGGGGUGCUUGGUUUCUAGGGACU   806 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0063A22 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008646834.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||||*|||||||||||||=|||| targets:4243   AGGGGAGUUUGGUUUCUAGGGACU   4266 Target Full Sequence	2.5	PREDICTED: Zea mays hypothetical protein (LOC103626423), mRNA	NA	coding protein	psRNATarget
LQ235170.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *|||||||||||||||||=|||| targets:1   UGGGUGUUUGGUUUCUAGGGACU   23 Target Full Sequence	1.5	Sequence 1165 from Patent EP2985353	NA	coding protein	psRNATarget
JB163501.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *|||||||||||||||||=|||| targets:1   UGGGUGUUUGGUUUCUAGGGACU   23 Target Full Sequence	1.5	Sequence 1165 from Patent EP2559767	NA	coding protein	psRNATarget
HI403040.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *|||||||||||||||||=|||| targets:1   UGGGUGUUUGGUUUCUAGGGACU   23 Target Full Sequence	1.5	Sequence 1165 from Patent EP2074227	NA	coding protein	psRNATarget
XM_020547858.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   =*|||||||||||||||||=|||| targets:1537   GUGGGUGUUUGGUUUCUAGGGACU   1560 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100382535 (LOC100382535), transcript variant X3, mRNA	NA	coding protein	psRNATarget
NM_001150110.1	ncRNA:24   UC-CCCACAAACCAAAGAUCUCUGA   1   ||-||||||||||||||||||||*| targets:534   AGAGGGUGUUUGGUUUCUAGAGAAU   558 Target Full Sequence	1.5	Zea mays hypothetical protein (LOC103639532), mRNA	NA	coding protein	psRNATarget
EU961152.1	ncRNA:24   UC-CCCACAAACCAAAGAUCUCUGA   1   ||-||||||||||||||||||||*| targets:534   AGAGGGUGUUUGGUUUCUAGAGAAU   558 Target Full Sequence	1.5	Zea mays clone 232918 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
JB163513.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1177 from Patent EP2559767	NA	coding protein	psRNATarget
HI403041.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1166 from Patent EP2074227	NA	coding protein	psRNATarget
HI403052.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1177 from Patent EP2074227	NA	coding protein	psRNATarget
JB163516.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1180 from Patent EP2559767	NA	coding protein	psRNATarget
JB163502.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1166 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235185.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1180 from Patent EP2985353	NA	coding protein	psRNATarget
LQ235171.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1166 from Patent EP2985353	NA	coding protein	psRNATarget
HI403055.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1180 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235182.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   ||||||||||||||||=|||| targets:1   GGUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1177 from Patent EP2985353	NA	coding protein	psRNATarget
AY104678.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   ||||*|||||*||||||||||||| targets:1465   AGGGAUGUUUUGUUUCUAGAGACU   1488 Target Full Sequence	1.0	Zea mays PCO081661 mRNA sequence	NA	coding protein	psRNATarget
NM_001111805.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   ||||*|||||*||||||||||||| targets:1476   AGGGAUGUUUUGUUUCUAGAGACU   1499 Target Full Sequence	1.0	Zea mays uncharacterized LOC542191 (TIDP2941), mRNA	NA	coding protein	psRNATarget
XM_020538341.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||*|||||||||||||||*|||| targets:2132   AGGUGUGUUUGGUUUCUAGUGACU   2155 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized vacuolar membrane protein YML018C-like (LOC109939917), mRNA	NA	coding protein	psRNATarget
XM_020538340.1	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   |||*|||||||||||||||*|||| targets:2132   AGGUGUGUUUGGUUUCUAGUGACU   2155 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized vacuolar membrane protein YML018C-like (LOC109939916), transcript variant X2, mRNA	NA	coding protein	psRNATarget
JB163556.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1220 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235225.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1220 from Patent EP2985353	NA	coding protein	psRNATarget
HI403095.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1220 from Patent EP2074227	NA	coding protein	psRNATarget
HI402957.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1082 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235087.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1082 from Patent EP2985353	NA	coding protein	psRNATarget
JB163418.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||||*|||| targets:1   GAGGUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1082 from Patent EP2559767	NA	coding protein	psRNATarget
XM_008675724.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   *|||*|*||||||||=|||||||| targets:1072   CGGGAUAUUUGGUUUUUAGAGACU   1095 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103650056 (LOC103650056), mRNA	NA	coding protein	psRNATarget
LQ235180.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||=|||| targets:1   GAUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1175 from Patent EP2985353	NA	coding protein	psRNATarget
JB163511.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||=|||| targets:1   GAUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1175 from Patent EP2559767	NA	coding protein	psRNATarget
HI403050.1	ncRNA:21   CCACAAACCAAAGAUCUCUGA   1   |*||||||||||||||=|||| targets:1   GAUGUUUGGUUUCUAGGGACU   21 Target Full Sequence	1.5	Sequence 1175 from Patent EP2074227	NA	coding protein	psRNATarget
HI402995.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *||*||||||||||||||*|||| targets:1   AGGAUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1120 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235125.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *||*||||||||||||||*|||| targets:1   AGGAUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1120 from Patent EP2985353	NA	coding protein	psRNATarget
JB163456.1	ncRNA:23   CCCCACAAACCAAAGAUCUCUGA   1   *||*||||||||||||||*|||| targets:1   AGGAUGUUUGGUUUCUAGUGACU   23 Target Full Sequence	1.5	Sequence 1120 from Patent EP2559767	NA	coding protein	psRNATarget
XM_008645546.2	ncRNA:24   UCCCCACAAACCAAAGAUCUCUGA   1   *|||*|||||*|||||||*||||| targets:1829   CGGGAUGUUUAGUUUCUAAAGACU   1852 Target Full Sequence	2.5	PREDICTED: Zea mays catalytic/ hydrolase (LOC100284064), transcript variant X1, mRNA	NA	coding protein	psRNATarget