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BaseInfo

ncRNA ID	novel_zma_miR9164
Species	Zea mays
Class	miRNA
Genome position	Chr1:26274327-26274473 [-]
Reference genome	RefGen_v4
Source	SRR4237222;SRR5100248;SRR5100255
Length	24
Mature sequence(if miRNA)	1 - ACCGGACUGUCCGAUGCACCCGAC - 24
Stem-loop(if miRNA)	--A   G   C     U        UG         -          G  --------------      U --  A    UG    GGG GCA CGGAC GUCCGGUG  CACCGGACA UGUCCGGUGC CC              AACGGC C  CC GAUC  C    ||| ||| ||||| ||||||||  ||||||||| |||||||||| ||              |||||| |  || ||||    CCC CGU GCCUG CAGGCCAC  GUGGCCUGU ACAGGCCACG GG              UUGCCG G  GG CUGG  A CAG   A   A     U        GU         G          -  CUAAAGAAAGGAAU      C UC  -    CA
Stem-loop sequence	AGGGGGCACCGGACUGUCCGGUGUGCACCGGACAUGUCCGGUGCGCCAACGGCUCCCAGAUCUGCAACGGUCGGCUGCGCCGUUUAAGGAAAGAAAUCGGGCACCGGACAGUGUCCGGUGUGCACCGGACUGUCCGAUGCACCCGAC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT065201.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   ||||||||||*||||||||||||| targets:584   GUCGGGUGCACCGGACAGUCCGGU   607 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0032D05 mRNA, complete cds	NA	coding protein	psRNATarget
BT061123.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   ||||||||||*||||||||||||| targets:136   GUCGGGUGCACCGGACAGUCCGGU   159 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0108I22 mRNA, complete cds	NA	coding protein	psRNATarget
HI410113.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*||||||||||||| targets:144   GUCGAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2074227	NA	coding protein	psRNATarget
JB170574.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*||||||||||||| targets:144   GUCGAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2559767	NA	coding protein	psRNATarget
LQ242243.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*||||||||||||| targets:144   GUCGAGUGGUGCACCGGACAGUCCGGU   170 Target Full Sequence	1.0	Sequence 8238 from Patent EP2985353	NA	coding protein	psRNATarget
BT061141.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   ||||||*|||*||||||||||||| targets:495   GUCGGGCGCACCGGACAGUCCGGU   518 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0115B09 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001165868.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   ||||||*|||*||||||||||||| targets:495   GUCGGGCGCACCGGACAGUCCGGU   518 Target Full Sequence	2.0	Zea mays uncharacterized LOC100304434 (LOC100304434), mRNA	NA	coding protein	psRNATarget
NM_001174416.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |*=|||||||*||||||||||||| targets:587   GAUGGGUGCACCGGACAGUCCGGU   610 Target Full Sequence	1.0	Zea mays uncharacterized LOC100381596 (LOC100381596), mRNA	NA	coding protein	psRNATarget
NM_001174416.1	ncRNA:24   CAGC-------CCACGUAGCCUGUCAGGCCA   1   ||=|-------||||||*||||||||||||| targets:814   GUUGCUCCGCUGGUGCACCGGACAGUCCGGU   844 Target Full Sequence	1.0	Zea mays uncharacterized LOC100381596 (LOC100381596), mRNA	NA	coding protein	psRNATarget
BT061709.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |*=|||||||*||||||||||||| targets:587   GAUGGGUGCACCGGACAGUCCGGU   610 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0176K17 mRNA, complete cds	NA	coding protein	psRNATarget
BT061709.2	ncRNA:24   CAGC-------CCACGUAGCCUGUCAGGCCA   1   ||=|-------||||||*||||||||||||| targets:814   GUUGCUCCGCUGGUGCACCGGACAGUCCGGU   844 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0176K17 mRNA, complete cds	NA	coding protein	psRNATarget
BT086229.2	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*|||||||||=||| targets:402   GUCGAGUGGUGCACCGGACAGUCUGGU   428 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0134M03 mRNA, complete cds	NA	coding protein	psRNATarget
BT086229.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |*|*||||||*||||||||||||| targets:828   GCCUGGUGCACCGGACAGUCCGGU   851 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFc0134M03 mRNA, complete cds	NA	coding protein	psRNATarget
LQ241540.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   **|*||**||*||||||||||||| targets:10   CACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2985353	NA	coding protein	psRNATarget
JB169871.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   **|*||**||*||||||||||||| targets:10   CACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2559767	NA	coding protein	psRNATarget
HI409410.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   **|*||**||*||||||||||||| targets:10   CACUGGCACACCGGACAGUCCGGU   33 Target Full Sequence	3.0	Sequence 7535 from Patent EP2074227	NA	coding protein	psRNATarget
EU950973.1	ncRNA:24   CAG-CC-CACGUAGCCUGUCAGGCCA   1   |||-||-|||||*||||||||||||| targets:179   GUCCGGUGUGCACCGGACAGUCCGGU   204 Target Full Sequence	3.0	Zea mays clone 677173 mRNA sequence	NA	coding protein	psRNATarget
BT069074.2	ncRNA:24   CAGC--------CCACGUAGCCUGUCAGGCCA   1   ||||--------||||||*||||||||||||| targets:753   GUCGAGUGCCCUGGUGCACCGGACAGUCCGGU   784 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0158J22 mRNA, complete cds	NA	coding protein	psRNATarget
BT066811.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   *|||||*|||*||||||||||||| targets:483   AUCGGGCGCACCGGACAGUCCGGU   506 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0073A15 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175949.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   *|||||*|||*||||||||||||| targets:483   AUCGGGCGCACCGGACAGUCCGGU   506 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383289 (LOC100383289), mRNA	NA	coding protein	psRNATarget
XM_020546123.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   *|||||*|||*||||||||||||| targets:4377   AUCGGGCGCACCGGACAGUCCGGU   4400 Target Full Sequence	2.0	PREDICTED: Zea mays protein NUCLEAR FUSION DEFECTIVE 4-like (LOC103641819), mRNA	NA	coding protein	psRNATarget
LQ242061.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2985353	NA	coding protein	psRNATarget
HI409360.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2074227	NA	coding protein	psRNATarget
LQ241490.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2985353	NA	coding protein	psRNATarget
JB170392.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2559767	NA	coding protein	psRNATarget
JB169821.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 7485 from Patent EP2559767	NA	coding protein	psRNATarget
HI409931.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:11   GUCUGGGUGCACCGGACUGUCCGGU   35 Target Full Sequence	2.5	Sequence 8056 from Patent EP2074227	NA	coding protein	psRNATarget
BT066013.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |*|*||*|||*||||||||||||| targets:778   GCCUGGCGCACCGGACAGUCCGGU   801 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0155M15 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175715.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |*|*||*|||*||||||||||||| targets:778   GCCUGGCGCACCGGACAGUCCGGU   801 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383038 (LOC100383038), mRNA	NA	coding protein	psRNATarget
BT037301.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:855   GUCUGGGUGCACCGGACUGUCCGGU   879 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0161O03 mRNA, complete cds	NA	coding protein	psRNATarget
BT019242.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:632   GUCUGGGUGCACCGGACUGUCCGGU   656 Target Full Sequence	2.5	Zea mays clone Contig915.F mRNA sequence	NA	coding protein	psRNATarget
NM_001309905.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:1027   GUCUGGGUGCACCGGACUGUCCGGU   1051 Target Full Sequence	2.5	Zea mays uncharacterized LOC100216760 (LOC100216760), mRNA	NA	coding protein	psRNATarget
EU960150.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:1197   GUCUGGGUGCACCGGACUGUCCGGU   1221 Target Full Sequence	2.5	Zea mays clone 222169 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
BT064005.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:1286   GUCUGGGUGCACCGGACUGUCCGGU   1310 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0130B19 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175099.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:1286   GUCUGGGUGCACCGGACUGUCCGGU   1310 Target Full Sequence	2.5	Zea mays uncharacterized LOC100382353 (LOC100382353), mRNA	NA	coding protein	psRNATarget
NM_001176009.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:2163   GUCUGGGUGCACCGGACUGUCCGGU   2187 Target Full Sequence	2.5	Zea mays uncharacterized LOC100383353 (LOC100383353), mRNA	NA	coding protein	psRNATarget
BT066975.1	ncRNA:24   CAG-CCCACGUAGCCUGUCAGGCCA   1   |||-|||||||*|||||*||||||| targets:2163   GUCUGGGUGCACCGGACUGUCCGGU   2187 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0133B08 mRNA, complete cds	NA	coding protein	psRNATarget
BT068112.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   |||*||*|||*||||||||||||| targets:374   GUCUGGCGCACCGGACAGUCCGGU   397 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0045K13 mRNA, complete cds	NA	coding protein	psRNATarget
BT065921.2	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:500   GUCGCCUGGCGCACCGGACAGUCCGGU   526 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0044K19 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001175687.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:500   GUCGCCUGGCGCACCGGACAGUCCGGU   526 Target Full Sequence	2.0	Zea mays uncharacterized LOC100383005 (LOC100383005), mRNA	NA	coding protein	psRNATarget
EZ066204.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:86   GUCGCAUGGCGCACCGGACAGUCCGGU   112 Target Full Sequence	2.0	TSA: Zea mays contig01838, mRNA sequence	NA	coding protein	psRNATarget
BT061124.2	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   **||||*|||*||||||||||||| targets:330   CACGGGCGCACCGGACAGUCCGGU   353 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0108N24 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001165861.1	ncRNA:24   CAGCCCACGUAGCCUGUCAGGCCA   1   **||||*|||*||||||||||||| targets:330   CACGGGCGCACCGGACAGUCCGGU   353 Target Full Sequence	2.0	Zea mays uncharacterized LOC100304427 (LOC100304427), mRNA	NA	coding protein	psRNATarget
EZ108756.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:141   GUCGAUGGGCGCACCGGACAGUCCGGU   167 Target Full Sequence	2.0	TSA: Zea mays contig44415, mRNA sequence	NA	coding protein	psRNATarget
BT083610.2	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:470   GUCGCAUGGCGCACCGGACAGUCCGGU   496 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0019A02 mRNA, complete cds	NA	coding protein	psRNATarget
BT068871.2	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*|*||||||||||| targets:492   GUCGCCUGGUGCACCUGACAGUCCGGU   518 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0146G02 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001176621.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||||||*|*||||||||||| targets:492   GUCGCCUGGUGCACCUGACAGUCCGGU   518 Target Full Sequence	2.5	Zea mays uncharacterized LOC100384010 (LOC100384010), mRNA	NA	coding protein	psRNATarget
XM_008675750.2	ncRNA:24   CAGC--CCACGUAGCCUGUCAGGCCA   1   **||--||||||||||||||*||||| targets:1228   UCCGAUGGUGCAUCGGACAGACCGGU   1253 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC103650089 (LOC103650089), mRNA	NA	coding protein	psRNATarget
EU940974.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   ||||---||*|||*||||||||||||| targets:2535   GUCGACUGGCGCACCGGACAGUCCGGU   2561 Target Full Sequence	2.0	Zea mays clone 1225259 mRNA sequence	NA	coding protein	psRNATarget
BT038885.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   |||*---||||||*|||||=||||||| targets:929   GUCAAAUGGUGCACCGGACGGUCCGGU   955 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0337O17 mRNA, complete cds	NA	coding protein	psRNATarget
EU968231.1	ncRNA:24   CAGC---CCACGUAGCCUGUCAGGCCA   1   |||*---||||||*|||||=||||||| targets:1300   GUCAAAUGGUGCACCGGACGGUCCGGU   1326 Target Full Sequence	2.5	Zea mays clone 317172 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
EZ109126.1	ncRNA:24   CAGC--CCACGUAGCCUGUCAGGCCA   1   *|=|--||*|||*||||||||||||| targets:171   UUUGAUGGCGCACCGGACAGUCCGGU   196 Target Full Sequence	2.0	TSA: Zea mays contig44785, mRNA sequence	NA	coding protein	psRNATarget