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BaseInfo

ncRNA ID	novel_zma_miR9263
Species	Zea mays
Class	miRNA
Genome position	Chr10:132010885-132011064 [-]
Reference genome	RefGen_v4
Source	SRR4237223
Length	24
Mature sequence(if miRNA)	1 - GUCCAUAGAAACCAAACACCCCCU - 24
Stem-loop(if miRNA)	-   A              G               CCCUCUA       CUCU                  AA     U        AU    AU  GGG GUGUUUGGUUUCUA GGACUAAUUUUUAGU       UUUUCAU    UUUAGUCUCUAAAUUGCC  ACAUA GGACUAAA  AGAG  A  ||| |||||||||||||| |||||||||||||||       |||||||    ||||||||||||||||||  ||||| ||||||||  ||||  A  CCC CACAAACCAAAGAU CCUGAUUAAAAAUCA       AGAAGUA    AAAUCAGGGAUUUAACGG  UGUGU CCUGAUUU  UCUC  U U   C              A               ------C       ----                  CC     C        --    CC
Stem-loop sequence	GGGAGUGUUUGGUUUCUAGGGACUAAUUUUUAGUCCCUCUAUUUUCAUCUCUUUUAGUCUCUAAAUUGCCAAACAUAUGGACUAAAAUAGAGAUAAUCCCUCUUUUAGUCCCUGUGUCCGGCAAUUUAGGGACUAAAAUGAAGACACUAAAAAUUAGUCCAUAGAAACCAAACACCCCCU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EZ092607.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   ||||||||||||||||=||||||| targets:53   AGGGGGUGUUUGGUUUUUAUGGAC   76 Target Full Sequence	1.5	TSA: Zea mays contig28256, mRNA sequence	NA	coding protein	psRNATarget
EZ052166.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:747   AGGGGGUGUUUGGUUUCUAGGGAC   770 Target Full Sequence	1.5	TSA: Zea mays contig53286, mRNA sequence	NA	coding protein	psRNATarget
XM_020553397.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:547   AGGGGGUGUUUGGUUUCUAGGGAC   570 Target Full Sequence	1.5	PREDICTED: Zea mays SANT/MYB protein (LOC100284980), transcript variant X1, mRNA	NA	coding protein	psRNATarget
NM_001139183.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:810   AGGGGGUGUUUGGUUUCUAGGGAC   833 Target Full Sequence	1.5	Zea mays hypothetical protein (LOC100194130), mRNA	NA	coding protein	psRNATarget
BT036582.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:810   AGGGGGUGUUUGGUUUCUAGGGAC   833 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0124H18 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008650759.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1132   AGGGGGUGUUUGGUUUCUAGGGAC   1155 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   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1141   AGGGGGUGUUUGGUUUCUAGGGAC   1164 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   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1144   AGGGGGUGUUUGGUUUCUAGGGAC   1167 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   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1150   AGGGGGUGUUUGGUUUCUAGGGAC   1173 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   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1237   AGGGGGUGUUUGGUUUCUAGGGAC   1260 Target Full Sequence	1.5	Zea mays clone 1559264 mRNA sequence	NA	coding protein	psRNATarget
XM_008656457.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1640   AGGGGGUGUUUGGUUUCUAAGGAC   1663 Target Full Sequence	1.5	PREDICTED: Zea mays programmed cell death protein 2 (LOC103634523), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020542419.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:2139   AGGGGGUGUUUGGUUUCUAGGGAC   2162 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   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||| targets:1917   AGGGGGUGUUUGGUUUCUAGGGAC   1940 Target Full Sequence	1.5	PREDICTED: Zea mays CAB2 (LOC100281582), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EU942443.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   =||||||||||||||||||*|||| targets:460   GGGGGGUGUUUGGUUUCUAGGGAC   483 Target Full Sequence	1.5	Zea mays clone 1501876 mRNA sequence	NA	coding protein	psRNATarget
NM_001313850.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   =||||||||||||||||||*|||| targets:1134   GGGGGGUGUUUGGUUUCUAGGGAC   1157 Target Full Sequence	1.5	Zea mays voltage-gated potassium channel beta subunit (LOC100282429), mRNA	NA	coding protein	psRNATarget
BT088358.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   =||||||||||||||||||*|||| targets:1134   GGGGGGUGUUUGGUUUCUAGGGAC   1157 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0155C19 mRNA, complete cds	NA	coding protein	psRNATarget
BT085047.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   =||||||||||||||||||*|||| targets:1188   GGGGGGUGUUUGGUUUCUAGGGAC   1211 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFb0232J05 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001112512.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   ||*|||||||||||||||=||||| targets:1636   AGAGGGUGUUUGGUUUCUGUGGAC   1659 Target Full Sequence	1.5	Zea mays Aldose reductase (pco147797a), mRNA	NA	coding protein	psRNATarget
DQ244473.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||||||||||||||||*|||* targets:962   AGGGGGUGUUUGGUUUCUAGGGAA   985 Target Full Sequence	2.5	Zea mays clone 8025 mRNA sequence	NA	coding protein	psRNATarget
JB163508.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|||||||||||||||||*|||| targets:55   AAGGGGUGUUUGGUUUCUAGGGAC   78 Target Full Sequence	1.5	Sequence 1172 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235177.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|||||||||||||||||*|||| targets:55   AAGGGGUGUUUGGUUUCUAGGGAC   78 Target Full Sequence	1.5	Sequence 1172 from Patent EP2985353	NA	coding protein	psRNATarget
HI403047.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|||||||||||||||||*|||| targets:55   AAGGGGUGUUUGGUUUCUAGGGAC   78 Target Full Sequence	1.5	Sequence 1172 from Patent EP2074227	NA	coding protein	psRNATarget
XM_008676145.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   ||**|||||||||||||||||||| targets:825   AGUAGGUGUUUGGUUUCUAUGGAC   848 Target Full Sequence	0.0	PREDICTED: Zea mays 23 kDa jasmonate-induced protein-like (LOC103650571), mRNA	NA	coding protein	psRNATarget
BT018349.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||*|||||||||||||*|||| targets:555   AGGGGAUGUUUGGUUUCUAGGGAC   578 Target Full Sequence	2.5	Zea mays clone EL01T0403E10.c mRNA sequence	NA	coding protein	psRNATarget
XM_008667360.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   ||*||||||||||||||||*|||| targets:1141   AGUGGGUGUUUGGUUUCUAGGGAC   1164 Target Full Sequence	1.5	PREDICTED: Zea mays GNAT transcription factor (LOC103644167), mRNA	NA	coding protein	psRNATarget
XM_020543841.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|||||||||||||||||*|||| targets:915   AAGGGGUGUUUGGUUUCUAGGGAC   938 Target Full Sequence	1.5	PREDICTED: Zea mays lo1 pI allergen homolog 1 (lop1), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020550311.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|||||||||||||||||*|||| targets:2442   AAGGGGUGUUUGGUUUCUAGGGAC   2465 Target Full Sequence	1.5	PREDICTED: Zea mays zinc finger CCCH domain-containing protein 67-like (LOC103650585), mRNA	NA	coding protein	psRNATarget
XM_020546796.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||*|||||||||||||*|||| targets:3399   AGGGGAUGUUUGGUUUCUAGGGAC   3422 Target Full Sequence	2.5	PREDICTED: Zea mays F-box/LRR-repeat protein 15-like (LOC103643599), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020546795.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||*|||||||||||||*|||| targets:3474   AGGGGAUGUUUGGUUUCUAGGGAC   3497 Target Full Sequence	2.5	PREDICTED: Zea mays F-box/LRR-repeat protein 15-like (LOC103643599), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020546794.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||*|||||||||||||*|||| targets:3524   AGGGGAUGUUUGGUUUCUAGGGAC   3547 Target Full Sequence	2.5	PREDICTED: Zea mays F-box/LRR-repeat protein 15-like (LOC103643599), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020546793.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||||*|||||||||||||*|||| targets:3561   AGGGGAUGUUUGGUUUCUAGGGAC   3584 Target Full Sequence	2.5	PREDICTED: Zea mays F-box/LRR-repeat protein 15-like (LOC103643599), transcript variant X1, mRNA	NA	coding protein	psRNATarget
AY104339.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*|||||||||||||||| targets:1678   GGGAGGGUAUUUGGUUUCUAUGGAC   1702 Target Full Sequence	1.0	Zea mays PCO120561 mRNA sequence	NA	coding protein	psRNATarget
XM_020551471.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*|||||||||||||||| targets:2201   GGGAGGGUAUUUGGUUUCUAUGGAC   2225 Target Full Sequence	1.0	PREDICTED: Zea mays Outer envelope protein 64 chloroplastic (pco120561), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020551472.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*|||||||||||||||| targets:2203   GGGAGGGUAUUUGGUUUCUAUGGAC   2227 Target Full Sequence	1.0	PREDICTED: Zea mays Outer envelope protein 64 chloroplastic (pco120561), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_008678835.2	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*|||||||||||||||| targets:2376   GGGAGGGUAUUUGGUUUCUAUGGAC   2400 Target Full Sequence	1.0	PREDICTED: Zea mays Outer envelope protein 64 chloroplastic (pco120561), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008678837.2	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*|||||||||||||||| targets:2387   GGGAGGGUAUUUGGUUUCUAUGGAC   2411 Target Full Sequence	1.0	PREDICTED: Zea mays Outer envelope protein 64 chloroplastic (pco120561), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020547858.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   *||-||||||||||||||||*|||| targets:1535   UGGUGGGUGUUUGGUUUCUAGGGAC   1559 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100382535 (LOC100382535), transcript variant X3, mRNA	NA	coding protein	psRNATarget
EU941753.1	ncRNA:23   CCCCCACAAACCAAAGAUACCUG   1   ||||*|||||||||||||*|||| targets:1   GGGGAUGUUUGGUUUCUAGGGAC   23 Target Full Sequence	2.5	Zea mays clone 1469712 mRNA sequence	NA	coding protein	psRNATarget
HI403040.1	ncRNA:22   CCCCACAAACCAAAGAUACCUG   1   *||||||||||||||||*|||| targets:1   UGGGUGUUUGGUUUCUAGGGAC   22 Target Full Sequence	1.5	Sequence 1165 from Patent EP2074227	NA	coding protein	psRNATarget
JB163501.1	ncRNA:22   CCCCACAAACCAAAGAUACCUG   1   *||||||||||||||||*|||| targets:1   UGGGUGUUUGGUUUCUAGGGAC   22 Target Full Sequence	1.5	Sequence 1165 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235170.1	ncRNA:22   CCCCACAAACCAAAGAUACCUG   1   *||||||||||||||||*|||| targets:1   UGGGUGUUUGGUUUCUAGGGAC   22 Target Full Sequence	1.5	Sequence 1165 from Patent EP2985353	NA	coding protein	psRNATarget
XM_020542840.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*|*|||||||||||||||*|||| targets:967   AAGAGGUGUUUGGUUUCUAGGGAC   990 Target Full Sequence	1.5	PREDICTED: Zea mays hypothetical protein (LOC103636172), transcript variant X1, mRNA	NA	coding protein	psRNATarget
NM_001154575.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||*|*|||||||||||||*|||| targets:1856   AGGAGAUGUUUGGUUUCUAGGGAC   1879 Target Full Sequence	2.5	Zea mays uncharacterized LOC100281656 (si605087c09), mRNA	NA	coding protein	psRNATarget
EU957463.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||*|*|||||||||||||*|||| targets:1857   AGGAGAUGUUUGGUUUCUAGGGAC   1880 Target Full Sequence	2.5	Zea mays clone 1593330 selenium-binding protein-like mRNA, complete cds	NA	coding protein	psRNATarget
XM_008646834.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*||||*||||||||||||*|||| targets:4242   AAGGGGAGUUUGGUUUCUAGGGAC   4265 Target Full Sequence	2.5	PREDICTED: Zea mays hypothetical protein (LOC103626423), mRNA	NA	coding protein	psRNATarget
BT055601.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   **||||||*||||||||||*|||| targets:782   UAGGGGUGCUUGGUUUCUAGGGAC   805 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0063A22 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001153051.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   **||||||*||||||||||*|||| targets:782   UAGGGGUGCUUGGUUUCUAGGGAC   805 Target Full Sequence	2.5	Zea mays NAD(P)-binding Rossmann-fold superfamily protein (LOC100280114), mRNA	NA	coding protein	psRNATarget
EU976720.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*||||*||||||||||| targets:2329   GGGAGGGUAUUUGAUUUCUAUGGAC   2353 Target Full Sequence	2.5	Zea mays clone 988464 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001152135.1	ncRNA:24   UCC-CCCACAAACCAAAGAUACCUG   1   =||-||||*||||*||||||||||| targets:2329   GGGAGGGUAUUUGAUUUCUAUGGAC   2353 Target Full Sequence	2.5	Zea mays Outer envelope protein 64 chloroplastic (pco120561), mRNA	NA	coding protein	psRNATarget
JB163513.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1177 from Patent EP2559767	NA	coding protein	psRNATarget
LQ235182.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1177 from Patent EP2985353	NA	coding protein	psRNATarget
JB163502.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1166 from Patent EP2559767	NA	coding protein	psRNATarget
HI403041.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1166 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235171.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1166 from Patent EP2985353	NA	coding protein	psRNATarget
JB163516.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1180 from Patent EP2559767	NA	coding protein	psRNATarget
HI403052.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1177 from Patent EP2074227	NA	coding protein	psRNATarget
LQ235185.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1180 from Patent EP2985353	NA	coding protein	psRNATarget
HI403055.1	ncRNA:20   CCACAAACCAAAGAUACCUG   1   |||||||||||||||*|||| targets:1   GGUGUUUGGUUUCUAGGGAC   20 Target Full Sequence	1.5	Sequence 1180 from Patent EP2074227	NA	coding protein	psRNATarget
EU967404.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*||*|||||||||||||||*||= targets:999   AAGGAGUGUUUGGUUUCUAUAGAU   1022 Target Full Sequence	2.5	Zea mays clone 302545 GTPase activating protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001138696.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |*||*|||||||||||||||*||= targets:999   AAGGAGUGUUUGGUUUCUAUAGAU   1022 Target Full Sequence	2.5	Zea mays uncharacterized LOC100193590 (umc2776), mRNA	NA	coding protein	psRNATarget
EU975071.1	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |**||*|||||||||||||*|||| targets:658   AAAGGAUGUUUGGUUUCUAAGGAC   681 Target Full Sequence	2.5	Zea mays clone 466620 mRNA sequence	NA	coding protein	psRNATarget
XM_008655750.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |**||*|||||||||||||*|||| targets:2410   AAAGGAUGUUUGGUUUCUAAGGAC   2433 Target Full Sequence	2.5	PREDICTED: Zea mays PHD finger protein MALE STERILITY 1-like (LOC103643406), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT065747.2	ncRNA:24   UCCCCCACAAACCAAAGAUACCUG   1   |||***|||||||||||||*|||| targets:759   AGGUCAUGUUUGGUUUCUAGGGAC   782 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0062G24 mRNA, complete cds	NA	coding protein	psRNATarget