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BaseInfo

ncRNA ID	novel_zma_miR3261
Species	Zea mays
Class	miRNA
Genome position	Chr5:28275659-28275735 [+]
Reference genome	RefGen_v4
Source	SRR2089715;SRR2287159;SRR2089705
Length	21
Mature sequence(if miRNA)	57 - AGAUUAUAUAAUCUGGGCAGA - 77
Stem-loop(if miRNA)	--  G    C                     A     A   UG CCAG UUAUAUAAUCUCACUUAUUUU AACUA C   || |||| ||||||||||||||||||||| ||||| A   AC GGUC AAUAUAUUAGAGUGAAUAAAA UUGAU C AG  G    U                     C     U
Stem-loop sequence	UGGCCAGCUUAUAUAAUCUCACUUAUUUUAAACUAACACUUAGUUCAAAAUAAGUGAGAUUAUAUAAUCUGGGCAGA

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT038229.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||||=||||||||||||||| targets:1077   UCUGCUCAGAUUAUAUAAUCU   1097 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0218I20 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001143614.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||||=||||||||||||||| targets:1050   UCUGCUCAGAUUAUAUAAUCU   1070 Target Full Sequence	1.0	Zea mays Proline-rich protein 2 (LOC100217260), mRNA	NA	coding protein	psRNATarget
BT087765.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||||=||||||||||||||| targets:1050   UCUGCUCAGAUUAUAUAAUCU   1070 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0192M13 mRNA, complete cds	NA	coding protein	psRNATarget
EU945446.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||=|||||||||||||||| targets:441   UCUGUCCAGAUUAUAUAAUCU   461 Target Full Sequence	1.0	Zea mays clone 273503 mRNA sequence	NA	coding protein	psRNATarget
BT085555.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |=|||=||||||||||||||| targets:1748   UUUGCUCAGAUUAUAUAAUCU   1768 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0032K01 mRNA, complete cds	NA	coding protein	psRNATarget
BT085555.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*|=||||||||||||||* targets:1976   ACUACUCAGAUUAUAUAAUCC   1996 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFc0032K01 mRNA, complete cds	NA	coding protein	psRNATarget
BT085555.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *=**=|||||||||||||||| targets:2032   AUAAUCCAGAUUAUAUAAUCU   2052 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFc0032K01 mRNA, complete cds	NA	coding protein	psRNATarget
BT084023.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |=||||||||||||||||||* targets:436   UUUGCCCAGAUUAUAUAAUCA   456 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0066F23 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008664498.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||=|||||||||||||* targets:21   UCUGCCUAGAUUAUAUAAUCC   41 Target Full Sequence	2.0	PREDICTED: Zea mays uncharacterized LOC103641129 (LOC103641129), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008653731.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||||=||||||||||||||* targets:683   UCUGCUCAGAUUAUAUAAUCC   703 Target Full Sequence	2.0	PREDICTED: Zea mays Os07g0120600-like protein (LOC103631895), mRNA	NA	coding protein	psRNATarget
DQ245842.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||||=||||||||||||||* targets:606   UCUGCUCAGAUUAUAUAAUCC   626 Target Full Sequence	2.0	Zea mays clone 20787 mRNA sequence	NA	coding protein	psRNATarget
AY111520.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||=|||||||||||||* targets:348   UCUGCCUAGAUUAUAUAAUCC   368 Target Full Sequence	2.0	Zea mays CL1539_8 mRNA sequence	NA	coding protein	psRNATarget
XM_008661345.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:3270   UCUGCCCAGAUUAUAUAACCU   3290 Target Full Sequence	1.5	PREDICTED: Zea mays ubiquitin carboxyl-terminal hydrolase 9-like (LOC103638427), mRNA	NA	coding protein	psRNATarget
EU945179.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:859   UCUGCCCAGAUUAUAUAACCU   879 Target Full Sequence	1.5	Zea mays clone 243633 mRNA sequence	NA	coding protein	psRNATarget
AY104747.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:912   UCUGCCCAGAUUAUAUAACCU   932 Target Full Sequence	1.5	Zea mays PCO066213 mRNA sequence	NA	coding protein	psRNATarget
EZ065605.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:279   UCUGCCCAGAUUAUAUAACCU   299 Target Full Sequence	1.5	TSA: Zea mays contig01238, mRNA sequence	NA	coding protein	psRNATarget
JB167258.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4922 from Patent EP2559767	NA	coding protein	psRNATarget
HI406797.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4922 from Patent EP2074227	NA	coding protein	psRNATarget
JB167237.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4901 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238927.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4922 from Patent EP2985353	NA	coding protein	psRNATarget
HI406776.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4901 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238906.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||||||||||||||||||*|| targets:10   UCUGCCCAGAUUAUAUAACCU   30 Target Full Sequence	1.5	Sequence 4901 from Patent EP2985353	NA	coding protein	psRNATarget
XM_008682894.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |*||=|||||||||||||||| targets:4987   UAUGUCCAGAUUAUAUAAUCU   5007 Target Full Sequence	1.0	PREDICTED: Zea mays transducin family protein / WD-40 repeat family protein (si618080f12(37)), transcript variant X5, mRNA	NA	coding protein	psRNATarget
HI407056.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*=|||||||||||||||| targets:19   UCUAUCCAGAUUAUAUAAUCU   39 Target Full Sequence	2.0	Sequence 5181 from Patent EP2074227	NA	coding protein	psRNATarget
JB167517.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*=|||||||||||||||| targets:19   UCUAUCCAGAUUAUAUAAUCU   39 Target Full Sequence	2.0	Sequence 5181 from Patent EP2559767	NA	coding protein	psRNATarget
LQ239186.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*=|||||||||||||||| targets:19   UCUAUCCAGAUUAUAUAAUCU   39 Target Full Sequence	2.0	Sequence 5181 from Patent EP2985353	NA	coding protein	psRNATarget
XM_008651828.2	ncRNA:21   AGACG-GGUCUAAUAUAUUAGA   1   |=|||-|=|||||||||||||| targets:296   UUUGCGCUAGAUUAUAUAAUCU   317 Target Full Sequence	3.0	PREDICTED: Zea mays pentatricopeptide repeat-containing protein At1g15510, chloroplastic (LOC103630763), mRNA	NA	coding protein	psRNATarget
XM_008664166.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*||||||||||||||||* targets:1943   UCUCCCCAGAUUAUAUAAUCC   1963 Target Full Sequence	2.0	PREDICTED: Zea mays trigger factor-like protein TIG, Chloroplastic (LOC103640683), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT069856.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*||||||||||||||||* targets:637   UCUACCCAGAUUAUAUAAUCC   657 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0305N24 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175758.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*==||||||||||||||| targets:2348   UCUAUUCAGAUUAUAUAAUCU   2368 Target Full Sequence	3.0	Zea mays Transducin/WD40 repeat-like superfamily protein (LOC100383087), mRNA	NA	coding protein	psRNATarget
BT066158.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*==||||||||||||||| targets:2348   UCUAUUCAGAUUAUAUAAUCU   2368 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFc0040P17 mRNA, complete cds	NA	coding protein	psRNATarget
EU976590.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |*||==||||||||||||||| targets:1698   UGUGUUCAGAUUAUAUAAUCU   1718 Target Full Sequence	2.0	Zea mays clone 984325 mRNA sequence	NA	coding protein	psRNATarget
EU976590.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*=|||||||||||||||* targets:1638   UCUCUCCAGAUUAUAUAAUCC   1658 Target Full Sequence	3.0	Zea mays clone 984325 mRNA sequence	NA	coding protein	psRNATarget
AY106954.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*==||||||||||||||| targets:1767   UCUAUUCAGAUUAUAUAAUCU   1787 Target Full Sequence	3.0	Zea mays PCO143990 mRNA sequence	NA	coding protein	psRNATarget
BT016291.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||*==||||||||||||||| targets:631   UCUAUUCAGAUUAUAUAAUCU   651 Target Full Sequence	3.0	Zea mays clone Contig124 mRNA sequence	NA	coding protein	psRNATarget
BT034217.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |*||==||||||||||||||| targets:630   UAUGUUCAGAUUAUAUAAUCU   650 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0032A11 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001137382.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |*||==||||||||||||||| targets:630   UAUGUUCAGAUUAUAUAAUCU   650 Target Full Sequence	2.0	Zea mays uncharacterized LOC100191958 (LOC100191958), mRNA	NA	coding protein	psRNATarget
XM_020542399.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |**|==||||||||||||||| targets:1344   UAAGUUCAGAUUAUAUAAUCU   1364 Target Full Sequence	3.0	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008657578.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |**|==||||||||||||||| targets:1344   UAAGUUCAGAUUAUAUAAUCU   1364 Target Full Sequence	3.0	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008657579.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |**|==||||||||||||||| targets:1339   UAAGUUCAGAUUAUAUAAUCU   1359 Target Full Sequence	3.0	PREDICTED: Zea mays acyl-coenzyme A thioesterase 13 (LOC103635012), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020542309.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*=|=|||||||||||||| targets:726   ACUCUCUAGAUUAUAUAAUCU   746 Target Full Sequence	3.0	PREDICTED: Zea mays hypothetical protein (LOC103636392), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT054786.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*=|=|||||||||||||| targets:625   ACUCUCUAGAUUAUAUAAUCU   645 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFb0052F08 mRNA, complete cds	NA	coding protein	psRNATarget
EU971425.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   ||**|=||||||||||||||| targets:483   UCCACUCAGAUUAUAUAAUCU   503 Target Full Sequence	3.0	Zea mays clone 364446 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
XM_008646613.2	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*|=||||||||||||||* targets:911   ACUACUCAGAUUAUAUAAUCC   931 Target Full Sequence	3.0	PREDICTED: Zea mays uncharacterized LOC103626209 (LOC103626209), transcript variant X3, mRNA	NA	coding protein	psRNATarget
EZ104714.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   |||**|||||||||||||||* targets:52   UCUAGCCAGAUUAUAUAAUCC   72 Target Full Sequence	3.0	TSA: Zea mays contig40371, mRNA sequence	NA	coding protein	psRNATarget
BT060620.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*||*|||||||||||||* targets:1534   CCUUCCAAGAUUAUAUAAUCC   1554 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFb0025D23 mRNA, complete cds	NA	coding protein	psRNATarget
EU965201.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*||*|||||||||||||* targets:1654   CCUUCCAAGAUUAUAUAAUCC   1674 Target Full Sequence	3.0	Zea mays clone 284448 pepsin A mRNA, complete cds	NA	coding protein	psRNATarget
NM_001156481.1	ncRNA:21   AGACGGGUCUAAUAUAUUAGA   1   *||*||*|||||||||||||* targets:1654   CCUUCCAAGAUUAUAUAAUCC   1674 Target Full Sequence	3.0	Zea mays uncharacterized LOC100283580 (cl5383_1), mRNA	NA	coding protein	psRNATarget