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BaseInfo

ncRNA ID	novel_zma_miR2842
Species	Zea mays
Class	miRNA
Genome position	Chr1:32817118-32817242 [-]
Reference genome	RefGen_v4
Source	SRR2089713;SRR2089714;SRR2089715;SRR1997866;SRR2089707
Length	24
Mature sequence(if miRNA)	1 - AUUGGGGUAGAACCGAACAAGCAG - 24
Stem-loop(if miRNA)	--            -AU UU                GA    AUUGA   GGAUUGUGAGAGAUU   GCUUGUUCGGUU   U  CAAUCCAUAUGGAUUG  GGGG     UAC               U   ||||||||||||   |  ||||||||||||||||  ||||     |||               U   CGAACAAGCCAA   G  GUUAGGUAUACCUAAC  CUCC     AAA               G GA            GAU GG                AC    -----   AUUAGAGAUAAUUCA
Stem-loop sequence	GCUUGUUCGGUUAUUUUCAAUCCAUAUGGAUUGGAGGGGAUUGAUACGGAUUGUGAGAGAUUUUGACUUAAUAGAGAUUAAAACCUCCACAAUCCAUAUGGAUUGGGGUAGAACCGAACAAGCAG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EZ061352.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:107   GGGCUUGUUCGGUUCUACCCCAAU   130 Target Full Sequence	0.0	TSA: Zea mays contig62474, mRNA sequence	NA	coding protein	psRNATarget
NM_001348011.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:354   GGGCUUGUUCGGUUCUACCCCAAU   377 Target Full Sequence	0.0	Zea mays hypothetical protein (LOC100277538), mRNA	NA	coding protein	psRNATarget
EU972046.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:693   GGGCUUGUUCGGUUCUACCCCAAU   716 Target Full Sequence	0.0	Zea mays clone 373861 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
BT062922.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:835   GGGCUUGUUCGGUUCUACCCCAAU   858 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFc0007N17 mRNA, complete cds	NA	coding protein	psRNATarget
EU959258.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:781   GGGCUUGUUCGGUUCUACCCCAAU   804 Target Full Sequence	0.0	Zea mays clone 213262 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
EU959053.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:781   GGGCUUGUUCGGUUCUACCCCAAU   804 Target Full Sequence	0.0	Zea mays clone 209789 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
EU959345.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:782   GGGCUUGUUCGGUUCUACCCCAAU   805 Target Full Sequence	0.0	Zea mays clone 217290 mitochondrial import inner membrane translocase subunit tim23 mRNA, complete cds; nuclear gene for mitochondrial product	NA	coding protein	psRNATarget
EU953075.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:918   GGGCUUGUUCGGUUCUACCCCAAU   941 Target Full Sequence	0.0	Zea mays clone 1380292 mRNA sequence	NA	coding protein	psRNATarget
EU961636.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:1038   AGGCUUGUUCGGUUCUACCCCAAU   1061 Target Full Sequence	0.0	Zea mays clone 237217 mRNA sequence	NA	coding protein	psRNATarget
XM_008666525.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:854   GGGCUUGUUCGGUUCUACCCCAAU   877 Target Full Sequence	0.0	PREDICTED: Zea mays mitochondrial import inner membrane translocase subunit TIM23-1 (LOC100282051), mRNA	NA	coding protein	psRNATarget
XM_008672211.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:880   GGGCUUGUUCGGUUCUACCCCAAU   903 Target Full Sequence	0.0	PREDICTED: Zea mays uncharacterized LOC100277216 (LOC100277216), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008673290.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:1899   GGGCUUGUUCGGUUCUACCCCAAU   1922 Target Full Sequence	0.0	PREDICTED: Zea mays uncharacterized LOC103648912 (LOC103648912), mRNA	NA	coding protein	psRNATarget
XM_020548987.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:1899   GGGCUUGUUCGGUUCUACCCCAAU   1922 Target Full Sequence	0.0	PREDICTED: Zea mays uncharacterized LOC103648913 (LOC103648913), mRNA	NA	coding protein	psRNATarget
XM_008672210.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||||||| targets:1672   GGGCUUGUUCGGUUCUACCCCAAU   1695 Target Full Sequence	0.0	PREDICTED: Zea mays uncharacterized LOC100277216 (LOC100277216), transcript variant X1, mRNA	NA	coding protein	psRNATarget
BT055069.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   =*|||||||||||||||||||||| targets:886   UGGCUUGUUCGGUUCUACCCCAAU   909 Target Full Sequence	0.0	Zea mays full-length cDNA clone ZM_BFb0132H13 mRNA, complete cds	NA	coding protein	psRNATarget
BT064935.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||||||=||||| targets:747   GGGCUUGUUCGGUUCUACUCCAAU   770 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0035J15 mRNA, complete cds	NA	coding protein	psRNATarget
EU959055.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:783   GGGCUUGUUCGGUUYUACCCCAAU   806 Target Full Sequence	1.5	Zea mays clone 209821 mRNA sequence	NA	coding protein	psRNATarget
EU965203.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||||||||||=| targets:798   GGGCUUGUUCGGUUCUACCCCAGU   821 Target Full Sequence	1.5	Zea mays clone 284456 threonine endopeptidase mRNA, complete cds	NA	coding protein	psRNATarget
NM_001156482.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||||||||||=| targets:798   GGGCUUGUUCGGUUCUACCCCAGU   821 Target Full Sequence	1.5	Zea mays threonine endopeptidase (LOC100283581), mRNA	NA	coding protein	psRNATarget
EU956568.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||||||||||=|||| targets:1539   GGGCUUGUUCGGUUCUACCUCAAU   1562 Target Full Sequence	1.5	Zea mays clone 1566799 mRNA sequence	NA	coding protein	psRNATarget
LQ238773.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||*|||||||||||| targets:7   GAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2985353	NA	coding protein	psRNATarget
HI406643.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||*|||||||||||| targets:7   GAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2074227	NA	coding protein	psRNATarget
JB167104.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||*|||||||||||| targets:7   GAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2559767	NA	coding protein	psRNATarget
XM_020549355.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||*|||||||||||| targets:848   GGGCUUGUUCGAUUCUACCCCAAU   871 Target Full Sequence	1.5	PREDICTED: Zea mays succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial (LOC109944584), mRNA	NA	coding protein	psRNATarget
BT064472.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1340   GGGCUUGUUCGGUUAUACCCCAAU   1363 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0172D22 mRNA, complete cds	NA	coding protein	psRNATarget
BT040193.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1384   GGGCUUGUUCGGUUAUACCCCAAU   1407 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0070L08 mRNA, complete cds	NA	coding protein	psRNATarget
AY105910.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1402   GGGCUUGUUCGGUUAUACCCCAAU   1425 Target Full Sequence	1.5	Zea mays PCO106969 mRNA sequence	NA	coding protein	psRNATarget
NM_001148011.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1416   GGGCUUGUUCGGUUAUACCCCAAU   1439 Target Full Sequence	1.5	Zea mays uncharacterized LOC100273594 (AY105910), mRNA	NA	coding protein	psRNATarget
BT041454.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1416   GGGCUUGUUCGGUUAUACCCCAAU   1439 Target Full Sequence	1.5	Zea mays full-length cDNA clone ZM_BFc0061I22 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008658331.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **||||||||||||*||||||||| targets:1607   GGGCUUGUUCGGUUAUACCCCAAU   1630 Target Full Sequence	1.5	PREDICTED: Zea mays putative protein phosphatase 2C 46 (LOC103635969), mRNA	NA	coding protein	psRNATarget
XM_008654469.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|||||||||*|||||||||||| targets:3029   GGGCUUGUUCGUUUCUACCCCAAU   3052 Target Full Sequence	1.5	PREDICTED: Zea mays U-box domain-containing protein 35 (LOC103632728), mRNA	NA	coding protein	psRNATarget
XM_020548481.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1275   GCGUUUGUUCGGUUCUUCCCCAAA   1298 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X8, mRNA	NA	coding protein	psRNATarget
XM_020548480.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1305   GCGUUUGUUCGGUUCUUCCCCAAA   1328 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X7, mRNA	NA	coding protein	psRNATarget
XM_020548478.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1369   GCGUUUGUUCGGUUCUUCCCCAAA   1392 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020548482.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1379   GCGUUUGUUCGGUUCUUCCCCAAA   1402 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X9, mRNA	NA	coding protein	psRNATarget
XM_020548476.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1382   GCGUUUGUUCGGUUCUUCCCCAAA   1405 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020548479.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1389   GCGUUUGUUCGGUUCUUCCCCAAA   1412 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X6, mRNA	NA	coding protein	psRNATarget
XM_020548475.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1399   GCGUUUGUUCGGUUCUUCCCCAAA   1422 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020548477.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1440   GCGUUUGUUCGGUUCUUCCCCAAA   1463 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020548474.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1476   GCGUUUGUUCGGUUCUUCCCCAAA   1499 Target Full Sequence	2.5	PREDICTED: Zea mays hsp70 nucleotide exchange factor FES1-like (LOC103647347), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EU956672.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   **|=||||||||||||*||||||* targets:1683   GCGUUUGUUCGGUUCUUCCCCAAA   1706 Target Full Sequence	2.5	Zea mays clone 1570344 mRNA sequence	NA	coding protein	psRNATarget
XM_008658561.2	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   ***|*||||||||||||||=|||| targets:210   GGUCAUGUUCGGUUCUACCUCAAU   233 Target Full Sequence	1.5	PREDICTED: Zea mays mitogen-activated protein kinase kinase kinase 2 (LOC103636208), mRNA	NA	coding protein	psRNATarget
EZ081763.1	ncRNA:24   GACGAACAAGCCAAGAUGGGGUUA   1   ***|*||||||||||||||*|||| targets:44   GGUCAUGUUCGGUUCUACCACAAU   67 Target Full Sequence	1.5	TSA: Zea mays contig17404, mRNA sequence	NA	coding protein	psRNATarget