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BaseInfo

ncRNA ID	novel_zma_miR3499
Species	Zea mays
Class	miRNA
Genome position	Chr5:99056974-99057033 [-]
Reference genome	RefGen_v4
Source	SRR2287031;SRR1997865
Length	24
Mature sequence(if miRNA)	37 - GGAUUGAAGGGGAUUGAGAUGGAA - 60
Stem-loop(if miRNA)	--                -   U      GG   GGAUUGAAGGGGAUUG AGA GGAAAU  A   |||||||||||||||| ||| ||||||   CCUAACUUCCCCUAAC UCU CCUUUA  C GC                C   -      AU
Stem-loop sequence	GGAUUGAAGGGGAUUGAGAUGGAAAUGGACUAAUUUCCUCUCCAAUCCCCUUCAAUCCCG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT038305.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||||||||||||||=|||||||| targets:610   UUCCAUCUCAAUCCCUUUCAAUCC   633 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0224P03 mRNA, complete cds	NA	coding protein	psRNATarget
XM_020541843.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||||||||||||||=|||||||| targets:1615   UUCCAUCUCAAUCCCUUUCAAUCC   1638 Target Full Sequence	1.5	PREDICTED: Zea mays putative actin family protein (LOC100191561), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU942844.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||||*||||||||=||||||||| targets:194   UUCCACCUCAAUCCUCUUCAAUCC   217 Target Full Sequence	2.5	Zea mays clone 1540330 mRNA sequence	NA	coding protein	psRNATarget
BT064472.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:1414   AUCCGUAUCAAUCCCCUUCAAUCC   1437 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0172D22 mRNA, complete cds	NA	coding protein	psRNATarget
BT040193.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:1458   AUCCGUAUCAAUCCCCUUCAAUCC   1481 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0070L08 mRNA, complete cds	NA	coding protein	psRNATarget
AY105910.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:1476   AUCCGUAUCAAUCCCCUUCAAUCC   1499 Target Full Sequence	1.0	Zea mays PCO106969 mRNA sequence	NA	coding protein	psRNATarget
NM_001148011.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:1490   AUCCGUAUCAAUCCCCUUCAAUCC   1513 Target Full Sequence	1.0	Zea mays uncharacterized LOC100273594 (AY105910), mRNA	NA	coding protein	psRNATarget
BT041454.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:1490   AUCCGUAUCAAUCCCCUUCAAUCC   1513 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0061I22 mRNA, complete cds	NA	coding protein	psRNATarget
BT055069.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||||||||| targets:969   AUCCGUAUCAAUCCCCUUCAAUCC   992 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0132H13 mRNA, complete cds	NA	coding protein	psRNATarget
EZ069159.1	ncRNA:24   AAGGUAGAG-UUAGGGGAAGUUAGG   1   ||||-||||-||||||||||||||| targets:57   UUCC-UCUCCAAUCCCCUUCAAUCC   80 Target Full Sequence	2.0	TSA: Zea mays contig04794, mRNA sequence	NA	coding protein	psRNATarget
XM_008658331.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||=|||||||||||||| targets:1691   AUCCGUAUCGAUCCCCUUCAAUCC   1714 Target Full Sequence	2.0	PREDICTED: Zea mays putative protein phosphatase 2C 46 (LOC103635969), mRNA	NA	coding protein	psRNATarget
XM_008654469.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||=|||||||||| targets:3113   AUCCGUAUCAAUCUCCUUCAAUCC   3136 Target Full Sequence	2.5	PREDICTED: Zea mays U-box domain-containing protein 35 (LOC103632728), mRNA	NA	coding protein	psRNATarget
HI409663.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:66   UUCCCCCUUAAUCCCCUUCAAUCC   89 Target Full Sequence	2.0	Sequence 7788 from Patent EP2074227	NA	coding protein	psRNATarget
JB170124.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:66   UUCCCCCUUAAUCCCCUUCAAUCC   89 Target Full Sequence	2.0	Sequence 7788 from Patent EP2559767	NA	coding protein	psRNATarget
LQ241793.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:66   UUCCCCCUUAAUCCCCUUCAAUCC   89 Target Full Sequence	2.0	Sequence 7788 from Patent EP2985353	NA	coding protein	psRNATarget
EZ055746.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||=||*|||||||||||*|||||| targets:74   UUUCACCUCAAUCCCCUCCAAUCC   97 Target Full Sequence	2.5	TSA: Zea mays contig56868, mRNA sequence	NA	coding protein	psRNATarget
AY110351.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||=||*|||||||||||*|||||| targets:40   UUUCACCUCAAUCCCCUCCAAUCC   63 Target Full Sequence	2.5	Zea mays CL33021_1 mRNA sequence	NA	coding protein	psRNATarget
EU961132.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:820   UUCCCCCUUAAUCCCCUUCAAUCC   843 Target Full Sequence	2.0	Zea mays clone 232865 phospholipid hydroperoxide glutathione peroxidase mRNA, complete cds	NA	coding protein	psRNATarget
BT040716.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:859   UUCCCCCUUAAUCCCCUUCAAUCC   882 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0120F10 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001147738.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:864   UUCCCCCUUAAUCCCCUUCAAUCC   887 Target Full Sequence	2.0	Zea mays putative glutathione peroxidase (LOC100273297), mRNA	NA	coding protein	psRNATarget
BT066291.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   ||||**||=||||||||||||||| targets:864   UUCCCCCUUAAUCCCCUUCAAUCC   887 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0176M03 mRNA, complete cds	NA	coding protein	psRNATarget
BT088155.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||=*||||||||||||*|||||| targets:1462   UUCUCUCUCAAUCCCCUCCAAUCC   1485 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0038D09 mRNA, complete cds	NA	coding protein	psRNATarget
HI406128.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||||||||*||||||||| targets:74   AUACAUCUCAAUCCACUUCAAUCC   97 Target Full Sequence	1.5	Sequence 4253 from Patent EP2074227	NA	coding protein	psRNATarget
JB166589.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||||||||*||||||||| targets:74   AUACAUCUCAAUCCACUUCAAUCC   97 Target Full Sequence	1.5	Sequence 4253 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238258.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||||||||*||||||||| targets:74   AUACAUCUCAAUCCACUUCAAUCC   97 Target Full Sequence	1.5	Sequence 4253 from Patent EP2985353	NA	coding protein	psRNATarget
NM_001348011.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:438   AUCCAUAUCAAUCCCCUCCAAUCC   461 Target Full Sequence	2.5	Zea mays hypothetical protein (LOC100277538), mRNA	NA	coding protein	psRNATarget
EU950098.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||||||||*||||||||| targets:773   AUACAUCUCAAUCCACUUCAAUCC   796 Target Full Sequence	1.5	Zea mays clone 461257 mRNA sequence	NA	coding protein	psRNATarget
BT062922.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:891   AUCCAUAUCAAUCCCCUCCAAUCC   914 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0007N17 mRNA, complete cds	NA	coding protein	psRNATarget
EU959055.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:839   AUCCAUAUCAAUCCCCUCCAAUCC   862 Target Full Sequence	2.5	Zea mays clone 209821 mRNA sequence	NA	coding protein	psRNATarget
EU959258.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:837   AUCCAUAUCAAUCCCCUCCAAUCC   860 Target Full Sequence	2.5	Zea mays clone 213262 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
EU959345.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:838   AUCCAUAUCAAUCCCCUCCAAUCC   861 Target Full Sequence	2.5	Zea mays clone 217290 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
XM_008666525.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||||*||||||||||*|||||| targets:910   AUCCAUAUCAAUCCCCUCCAAUCC   933 Target Full Sequence	2.5	PREDICTED: Zea mays mitochondrial import inner membrane translocase subunit TIM23-1 (LOC100282051), mRNA	NA	coding protein	psRNATarget
JB166405.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4069 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238077.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4072 from Patent EP2985353	NA	coding protein	psRNATarget
HI405947.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4072 from Patent EP2074227	NA	coding protein	psRNATarget
HI405944.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4069 from Patent EP2074227	NA	coding protein	psRNATarget
JB166408.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4072 from Patent EP2559767	NA	coding protein	psRNATarget
LQ238074.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||*|||*||||||||||=|||| targets:193   AUCCCUCUGAAUCCCCUUCGAUCC   216 Target Full Sequence	2.5	Sequence 4069 from Patent EP2985353	NA	coding protein	psRNATarget
EU942361.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||=|||||||*||||||||| targets:505   AUACAUUUCAAUCCACUUCAAUCC   528 Target Full Sequence	2.5	Zea mays clone 1487121 mRNA sequence	NA	coding protein	psRNATarget
EU968340.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||=|||||*||||||||| targets:710   AUACAUCUUAAUCCACUUCAAUCC   733 Target Full Sequence	2.5	Zea mays clone 319179 mRNA sequence	NA	coding protein	psRNATarget
XM_020539810.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:692   AUCCGUAUCAAUCCCCUCCAAUCC   715 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC109940330 (LOC109940330), mRNA	NA	coding protein	psRNATarget
EU959053.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   **||||*||||||||||*|||||| targets:837   MYCCAUAUCAAUCCCCUCCAAUCC   860 Target Full Sequence	2.5	Zea mays clone 209789 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
XM_008681984.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|*|||||||||||*||||||||= targets:1332   AUACAUCUCAAUCCACUUCAAUCU   1355 Target Full Sequence	2.5	PREDICTED: Zea mays caleosin (LOC100285543), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020545207.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:15   AUCCGUAUCAAUCCCCUCCAAUCC   38 Target Full Sequence	2.5	PREDICTED: Zea mays solute carrier family 25 member 44 (LOC100384216), mRNA	NA	coding protein	psRNATarget
XM_008673290.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:1973   AUCCGUAUCAAUCCCCUCCAAUCC   1996 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103648912 (LOC103648912), mRNA	NA	coding protein	psRNATarget
XM_020548987.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:1973   AUCCGUAUCAAUCCCCUCCAAUCC   1996 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103648913 (LOC103648913), mRNA	NA	coding protein	psRNATarget
EU956568.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:1623   AUCCGUAUCAAUCCCCUCCAAUCC   1646 Target Full Sequence	2.5	Zea mays clone 1566799 mRNA sequence	NA	coding protein	psRNATarget
XM_008658561.2	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   *|||=|*||||||||||*|||||| targets:294   AUCCGUAUCAAUCCCCUCCAAUCC   317 Target Full Sequence	2.5	PREDICTED: Zea mays mitogen-activated protein kinase kinase kinase 2 (LOC103636208), mRNA	NA	coding protein	psRNATarget
HI409817.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   **|||*||||||||||*||||||| targets:73   AACCACCUCAAUCCCCCUCAAUCC   96 Target Full Sequence	2.5	Sequence 7942 from Patent EP2074227	NA	coding protein	psRNATarget
LQ241947.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   **|||*||||||||||*||||||| targets:73   AACCACCUCAAUCCCCCUCAAUCC   96 Target Full Sequence	2.5	Sequence 7942 from Patent EP2985353	NA	coding protein	psRNATarget
JB170278.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   **|||*||||||||||*||||||| targets:73   AACCACCUCAAUCCCCCUCAAUCC   96 Target Full Sequence	2.5	Sequence 7942 from Patent EP2559767	NA	coding protein	psRNATarget
NM_001317055.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||=**||||=||||||||||||* targets:1497   UUCUCCCUCAGUCCCCUUCAAUCA   1520 Target Full Sequence	3.0	Zea mays Membrane metalloprotease ARASP chloroplastic (LOC100274122), mRNA	NA	coding protein	psRNATarget
BT042257.1	ncRNA:24   AAGGUAGAGUUAGGGGAAGUUAGG   1   |||=**||||=||||||||||||* targets:1497   UUCUCCCUCAGUCCCCUUCAAUCA   1520 Target Full Sequence	3.0	Zea mays full-length cDNA clone ZM_BFb0181O20 mRNA, complete cds	NA	coding protein	psRNATarget