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BaseInfo

ncRNA ID	novel_zma_miR3553
Species	Zea mays
Class	miRNA
Genome position	Chr7:171462860-171462992 [+]
Reference genome	RefGen_v4
Source	SRR2287031
Length	24
Mature sequence(if miRNA)	1 - AAGGGCCCGUUCGGUUGUACCGGA - 24
Stem-loop(if miRNA)	--AA      -          A     -AUA   -CA     C     -    --CAUCAAAA    UA     GGGCCC GUUCGGUUGU CCGGA    AGC   GGAUU AUUCC AGCU          UCUA  U     |||||| |||||||||| |||||    |||   ||||| ||||| ||||          ||||  A     UCCGGG CAAGCCAACA GGCCU    UCG   CCUAA UAAGG UCGG          AGAU  A UAAA      A          A     AACC   AUG     U     A    CCUAAUGAAG    UA
Stem-loop sequence	AAGGGCCCGUUCGGUUGUACCGGAAUAAGCCAGGAUUCAUUCCAGCUCAUCAAAAUCUAUAUAAAUUAGAGAAGUAAUCCGGCUAGGAAUUAAUCCGUAGCUCCAAUCCGGAACAACCGAACAGGGCCUAAAU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
HI403008.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:107   UCCGGUACAACCGAACGGGCCCUU   130 Target Full Sequence	0.0	Sequence 1133 from Patent EP2074227	NA	coding protein	psRNATarget
JB163469.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:107   UCCGGUACAACCGAACGGGCCCUU   130 Target Full Sequence	0.0	Sequence 1133 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235138.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:107   UCCGGUACAACCGAACGGGCCCUU   130 Target Full Sequence	0.0	Sequence 1133 from Patent EP2985353	NA	coding protein	psRNATarget
LQ238426.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:116   UCCGGUACAACCGAACGGGCCCUU   139 Target Full Sequence	0.0	Sequence 4421 from Patent EP2985353	NA	coding protein	psRNATarget
JB166757.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:116   UCCGGUACAACCGAACGGGCCCUU   139 Target Full Sequence	0.0	Sequence 4421 from Patent EP2559767	NA	coding protein	psRNATarget
HI406296.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:116   UCCGGUACAACCGAACGGGCCCUU   139 Target Full Sequence	0.0	Sequence 4421 from Patent EP2074227	NA	coding protein	psRNATarget
BT041278.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:493   UCCGGUACAACCGAACGGGCCCUU   516 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0135F17 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020549609.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:1363   UCCGGUACAACCGAACGGGCCCUU   1386 Target Full Sequence	0.0	PREDICTED: Zea mays hypothetical protein (LOC100275396), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT055304.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:1649   UCCGGUACAACCGAACGGGCCCUU   1672 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFc0163J02 mRNA, complete cds	NA	coding protein	psRNATarget
BT054908.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:1706   UCCGGUACAACCGAACGGGCCCUU   1729 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFc0162B15 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008653051.2	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||||||| targets:1749   UCCGGUACAACCGAACGGGCCCUU   1772 Target Full Sequence	0.0	PREDICTED: Zea mays BTB/POZ domain-containing protein (LOC100278588), transcript variant X1, mRNA	NA	coding protein	psRNATarget
LQ235213.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1208 from Patent EP2985353	NA	coding protein	psRNATarget
JB163529.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||| targets:107   UCCGGUACAACCGAACGAGCCCUU   130 Target Full Sequence	1.5	Sequence 1193 from Patent EP2559767	NA	coding protein	psRNATarget
HI403083.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1208 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235198.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||| targets:107   UCCGGUACAACCGAACGAGCCCUU   130 Target Full Sequence	1.5	Sequence 1193 from Patent EP2985353	NA	coding protein	psRNATarget
HI403120.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||||*||||| targets:107   UCCGGUACAACCGAACGGACCCUU   130 Target Full Sequence	1.5	Sequence 1245 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235250.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||||*||||| targets:107   UCCGGUACAACCGAACGGACCCUU   130 Target Full Sequence	1.5	Sequence 1245 from Patent EP2985353	NA	coding protein	psRNATarget
HI403068.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||| targets:107   UCCGGUACAACCGAACGAGCCCUU   130 Target Full Sequence	1.5	Sequence 1193 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235190.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1185 from Patent EP2985353	NA	coding protein	psRNATarget
JB163581.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||||*||||| targets:107   UCCGGUACAACCGAACGGACCCUU   130 Target Full Sequence	1.5	Sequence 1245 from Patent EP2559767	NA	coding protein	psRNATarget
HI403060.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1185 from Patent EP2074227	NA	coding protein	psRNATarget
JB163544.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1208 from Patent EP2559767	NA	coding protein	psRNATarget
JB163521.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:107   UCCGGUACAACCGAACAGGCCCUU   130 Target Full Sequence	1.5	Sequence 1185 from Patent EP2559767	NA	coding protein	psRNATarget
BT062764.2	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||=|||* targets:886   UCCGGUACAACCGAACGGGUCCUA   909 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0343N04 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001174739.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||||=|||* targets:886   UCCGGUACAACCGAACGGGUCCUA   909 Target Full Sequence	2.5	Zea mays uncharacterized LOC100381966 (LOC100381966), mRNA	NA	coding protein	psRNATarget
XM_020546999.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:485   UCCGGUACAACCGAACAGGCCCUU   508 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020547000.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:485   UCCGGUACAACCGAACAGGCCCUU   508 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020546998.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:485   UCCGGUACAACCGAACAGGCCCUU   508 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020547015.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X18, mRNA	NA	coding protein	psRNATarget
XM_020547006.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X9, mRNA	NA	coding protein	psRNATarget
XM_020547004.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X7, mRNA	NA	coding protein	psRNATarget
XM_020547012.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X15, mRNA	NA	coding protein	psRNATarget
XM_020547005.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X8, mRNA	NA	coding protein	psRNATarget
XM_020547003.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X6, mRNA	NA	coding protein	psRNATarget
XM_020547001.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020547002.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||| targets:484   UCCGGUACAACCGAACAGGCCCUU   507 Target Full Sequence	1.5	PREDICTED: Zea mays disease resistance protein RPP13-like (LOC103645703), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020538562.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |=|||||||||||||||*|||||| targets:40   UUCGGUACAACCGAACGAGCCCUU   63 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC109939968 (LOC109939968), mRNA	NA	coding protein	psRNATarget
XM_020547701.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||=|||||||||||||*||||||| targets:8   UCUGGUACAACCGAACAGGCCCUU   31 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100281197 (si660042c08), transcript variant X1, mRNA	NA	coding protein	psRNATarget
JB163595.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1259 from Patent EP2559767	NA	coding protein	psRNATarget
JB163526.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||* targets:107   UCCGGUACAACCGAACAGGCCCUA   130 Target Full Sequence	2.5	Sequence 1190 from Patent EP2559767	NA	coding protein	psRNATarget
HI403134.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1259 from Patent EP2074227	NA	coding protein	psRNATarget
HI403065.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||* targets:107   UCCGGUACAACCGAACAGGCCCUA   130 Target Full Sequence	2.5	Sequence 1190 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235089.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1084 from Patent EP2985353	NA	coding protein	psRNATarget
LQ235264.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1259 from Patent EP2985353	NA	coding protein	psRNATarget
LQ235195.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||* targets:107   UCCGGUACAACCGAACAGGCCCUA   130 Target Full Sequence	2.5	Sequence 1190 from Patent EP2985353	NA	coding protein	psRNATarget
HI402959.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1084 from Patent EP2074227	NA	coding protein	psRNATarget
JB163420.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||||||||||||||||*|||||* targets:107   UCCGGUACAACCGAACGAGCCCUA   130 Target Full Sequence	2.5	Sequence 1084 from Patent EP2559767	NA	coding protein	psRNATarget
XM_008658796.2	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||* targets:2297   UCCGGUACAACCGAACAGGCCCUG   2320 Target Full Sequence	2.5	PREDICTED: Zea mays hypothetical protein (LOC103636441), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008658795.2	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   ||||||||||||||||*||||||* targets:2314   UCCGGUACAACCGAACAGGCCCUG   2337 Target Full Sequence	2.5	PREDICTED: Zea mays hypothetical protein (LOC103636441), transcript variant X1, mRNA	NA	coding protein	psRNATarget
AY110094.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||*|*|=|||||||||||||||| targets:161   UCCUGAAUAACCGAACGGGCCCUU   184 Target Full Sequence	2.0	Zea mays CL14316_-3 mRNA sequence	NA	coding protein	psRNATarget
XM_008666975.2	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   *||*||*=|||||||||||||||| targets:669   ACCAGUCUAACCGAACGGGCCCUU   692 Target Full Sequence	2.0	PREDICTED: Zea mays uncharacterized LOC103643815 (LOC103643815), mRNA	NA	coding protein	psRNATarget
EU941248.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||*|*||||*||||||||||||| targets:341   UCCUGGACAAACGAACGGGCCCUU   364 Target Full Sequence	2.0	Zea mays clone 1431203 mRNA sequence	NA	coding protein	psRNATarget
XM_020540976.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||*|*||||*||||||||||||| targets:4639   UCCUGGACAAACGAACGGGCCCUU   4662 Target Full Sequence	2.0	PREDICTED: Zea mays indole-3-acetaldehyde oxidase-like (LOC103631977), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ082256.1	ncRNA:24   AGGCCAUGUUGGCUUGCCCGGGAA   1   |||**|=|||*||||||||||||* targets:62   UCCUAUGCAAACGAACGGGCCCUA   85 Target Full Sequence	3.0	TSA: Zea mays contig17898, mRNA sequence	NA	coding protein	psRNATarget