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BaseInfo

ncRNA ID	novel_zma_miR4856
Species	Zea mays
Class	miRNA
Genome position	Chr7:108949767-108949914 [-]
Reference genome	RefGen_v4
Source	SRR2287163
Length	24
Mature sequence(if miRNA)	1 - AGAAAAUGAACUAAUUUCCGUUGG - 24
Stem-loop(if miRNA)	--AAA     A            UC   A  -                  U      UA           C          GGAAA UUAGUUUAUUUU  CUU GA AAAAUAGGAAUCCCUUGG AAAAUG  GUUCCCAAACU GCCCU      ||||| ||||||||||||  ||| || |||||||||||||||||| ||||||  ||||||||||| ||||U      CCUUU AAUCAAGUAAAA  GAA CU UUUUAUCCUUAGGGAACU UUUUAC  CAAGGGUUUGA CGGGA GGUUG     -            GA   -  A                  U      UA           U
Stem-loop sequence	AAAGGAAAAUUAGUUUAUUUUUCCUUAGAAAAAUAGGAAUCCCUUGGUAAAAUGUAGUUCCCAAACUCGCCCUUAGGGCUAGUUUGGGAACAUCAUUUUUUCAAGGGAUUCCUAUUUUAUCAAGAGAAAAUGAACUAAUUUCCGUUGG

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
XM_008654469.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||=||||||||||||||||||* targets:3520   CCAAUGGAAAUUAGUUCAUUUUCC   3543 Target Full Sequence	1.0	PREDICTED: Zea mays U-box domain-containing protein 35 (LOC103632728), mRNA	NA	coding protein	psRNATarget
BT084259.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:959   CCAAAGGAAAUUAGUUCAUUUUCC   982 Target Full Sequence	1.0	Zea mays full-length cDNA clone ZM_BFb0094M03 mRNA, complete cds	NA	coding protein	psRNATarget
EU967093.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:955   CCAAAGGAAAUUAGUUCAUUUUCC   978 Target Full Sequence	1.0	Zea mays clone 299427 hypothetical protein mRNA, complete cds	NA	coding protein	psRNATarget
NM_001150806.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1005   CCAAAGGAAAUUAGUUCAUUUUCC   1028 Target Full Sequence	1.0	Zea mays Tyrosine specific protein phosphatase-like (LOC100277156), mRNA	NA	coding protein	psRNATarget
XM_020544943.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1421   CCAAGGGAAAUUAGUUCAUUUUCC   1444 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100273625 (IDP475), transcript variant X5, mRNA	NA	coding protein	psRNATarget
XM_020544942.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1464   CCAAGGGAAAUUAGUUCAUUUUCC   1487 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100273625 (IDP475), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020544940.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1465   CCAAGGGAAAUUAGUUCAUUUUCC   1488 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100273625 (IDP475), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008680878.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1554   CCAAGGGAAAUUAGUUCAUUUUCC   1577 Target Full Sequence	1.0	PREDICTED: Zea mays E3 ubiquitin protein ligase RIE1 (LOC103654076), mRNA	NA	coding protein	psRNATarget
XM_020544939.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1508   CCAAGGGAAAUUAGUUCAUUUUCC   1531 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100273625 (IDP475), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020544941.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*||||||||||||||||||* targets:1594   CCAAGGGAAAUUAGUUCAUUUUCC   1617 Target Full Sequence	1.0	PREDICTED: Zea mays uncharacterized LOC100273625 (IDP475), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020545978.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:658   CCGAGGGAAAUUAGUUCAUUUUUU   681 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100303977 (LOC100303977), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020545979.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:659   CCGAGGGAAAUUAGUUCAUUUUUU   682 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100303977 (LOC100303977), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020545753.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:916   CCGAGGGAAAUUAGUUCAUUUUUU   939 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X10, mRNA	NA	coding protein	psRNATarget
XM_008665037.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:921   CCGAGGGAAAUUAGUUCAUUUUUU   944 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_008665038.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:923   CCGAGGGAAAUUAGUUCAUUUUUU   946 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_008665040.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:1615   CCGAGGGAAAUUAGUUCAUUUUUU   1638 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X8, mRNA	NA	coding protein	psRNATarget
XM_020545752.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||=|*|||||||||||||||||=| targets:2236   CCGAGGGAAAUUAGUUCAUUUUUU   2259 Target Full Sequence	1.5	PREDICTED: Zea mays uncharacterized LOC100274490 (LOC100274490), transcript variant X9, mRNA	NA	coding protein	psRNATarget
XM_020541969.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*|||||||||||||||||=* targets:787   CCAAGGGAAAUUAGUUCAUUUUUC   810 Target Full Sequence	2.5	PREDICTED: Zea mays RING/U-box superfamily protein (AY109699), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020540939.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   =|||*|||||||||||||||||-|| targets:3764   UCAAGGGAAAUUAGUUCAUUUUACU   3788 Target Full Sequence	3.0	PREDICTED: Zea mays leucine-rich repeat receptor-like serine/threonine-protein kinase At1g17230 (LOC109940759), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EU946703.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*|*|||||||||=||||||| targets:420   CCAAGGAAAAUUAGUUUAUUUUCU   443 Target Full Sequence	2.5	Zea mays clone 322886 mRNA sequence	NA	coding protein	psRNATarget
XM_008658779.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   *|||*|||||||||||||||||-|| targets:1895   ACAAGGGAAAUUAGUUCAUUUUUCU   1919 Target Full Sequence	3.0	PREDICTED: Zea mays uncharacterized LOC103636424 (LOC103636424), mRNA	NA	coding protein	psRNATarget
EZ071949.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||*|*||||||||||||||||* targets:97   CCAAGGAAAAUUAGUUCAUUUUCC   120 Target Full Sequence	2.0	TSA: Zea mays contig07586, mRNA sequence	NA	coding protein	psRNATarget
XM_020552563.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||**|||||||||||||||||* targets:405   CCAAGAGAAAUUAGUUCAUUUUCC   428 Target Full Sequence	2.0	PREDICTED: Zea mays probable alpha,alpha-trehalose-phosphate synthase [UDP-forming] 10 (LOC103653427), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EZ517194.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |=||**||||||||||||||||=| targets:352   CUAAGAGAAAUUAGUUCAUUUUUU   375 Target Full Sequence	2.5	TSA: Zea mays cultivar W22 CL602Contig1.betc, mRNA sequence	NA	coding protein	psRNATarget
EZ108805.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |=||*|*|||||||||||||||=| targets:431   CUAAGGAAAAUUAGUUCAUUUUUU   454 Target Full Sequence	2.5	TSA: Zea mays contig44464, mRNA sequence	NA	coding protein	psRNATarget
EU948823.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |=||*|*|||||||||||||||=| targets:734   CUAAGGAAAAUUAGUUCAUUUUUU   757 Target Full Sequence	2.5	Zea mays clone 386492 mRNA sequence	NA	coding protein	psRNATarget
XM_008669099.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||*|*|||||||||=||||||| targets:152   UCAAAGAAAAUUAGUUUAUUUUCU   175 Target Full Sequence	2.5	PREDICTED: Zea mays Serine racemase (LOC100216615), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020542483.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   ==||-|||||||||||||||||-|| targets:3137   UUAA-GGAAAUUAGUUCAUUUUUCU   3160 Target Full Sequence	3.0	PREDICTED: Zea mays protein TPR1-like (LOC103634695), transcript variant X4, mRNA	NA	coding protein	psRNATarget
XM_020542482.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   ==||-|||||||||||||||||-|| targets:3626   UUAA-GGAAAUUAGUUCAUUUUUCU   3649 Target Full Sequence	3.0	PREDICTED: Zea mays protein TPR1-like (LOC103634695), transcript variant X3, mRNA	NA	coding protein	psRNATarget
XM_020542481.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   ==||-|||||||||||||||||-|| targets:3638   UUAA-GGAAAUUAGUUCAUUUUUCU   3661 Target Full Sequence	3.0	PREDICTED: Zea mays protein TPR1-like (LOC103634695), transcript variant X2, mRNA	NA	coding protein	psRNATarget
XM_020542480.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAA-GA   1   ==||-|||||||||||||||||-|| targets:3674   UUAA-GGAAAUUAGUUCAUUUUUCU   3697 Target Full Sequence	3.0	PREDICTED: Zea mays protein TPR1-like (LOC103634695), transcript variant X1, mRNA	NA	coding protein	psRNATarget
EZ113293.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |=||*|*||||||||||||||||* targets:142   CUAAGGAAAAUUAGUUCAUUUUCC   165 Target Full Sequence	2.0	TSA: Zea mays contig48954, mRNA sequence	NA	coding protein	psRNATarget
BT016725.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |||**|||||||||||||||||=* targets:897   CCAUGGGAAAUUAGUUCAUUUUUC   920 Target Full Sequence	2.5	Zea mays clone Contig558 mRNA sequence	NA	coding protein	psRNATarget
BT037017.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   *|||**||||||||||||||||=| targets:1180   ACAAGAGAAAUUAGUUCAUUUUUU   1203 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFb0151L07 mRNA, complete cds	NA	coding protein	psRNATarget
NM_001143008.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   *|||**||||||||||||||||=| targets:1180   ACAAGAGAAAUUAGUUCAUUUUUU   1203 Target Full Sequence	2.5	Zea mays Calmodulin-like protein 2 (LOC100216594), mRNA	NA	coding protein	psRNATarget
BT069727.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||**|||||||||||||||||* targets:1868   UCAAGUGAAAUUAGUUCAUUUUCC   1891 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFb0212A11 mRNA, complete cds	NA	coding protein	psRNATarget
BT033849.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||**|||||||||||||||||* targets:1879   UCAAGUGAAAUUAGUUCAUUUUCC   1902 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0124J21 mRNA, complete cds	NA	coding protein	psRNATarget
BT066363.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||**|||||||||||||||||* targets:1900   UCAAGUGAAAUUAGUUCAUUUUCC   1923 Target Full Sequence	2.0	Zea mays full-length cDNA clone ZM_BFc0028E18 mRNA, complete cds	NA	coding protein	psRNATarget
XM_008657216.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||**|||||||||||||||||* targets:1961   UCAAGUGAAAUUAGUUCAUUUUCC   1984 Target Full Sequence	2.0	PREDICTED: Zea mays gamma-tubulin 1 (tubg1), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_008676590.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |=||*|*||||||||||||||||* targets:4045   CUAAGGAAAAUUAGUUCAUUUUCC   4068 Target Full Sequence	2.0	PREDICTED: Zea mays Asparagine synthase family protein (si683017d09), transcript variant X1, mRNA	NA	coding protein	psRNATarget
XM_020548086.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||**|||*|||||||||||||| targets:1274   CCAAGAGAAUUUAGUUCAUUUUCU   1297 Target Full Sequence	2.0	PREDICTED: Zea mays protein PELOTA 1 (LOC103645815), transcript variant X2, mRNA	NA	coding protein	psRNATarget
EU963475.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ***|||||=|||||||||||||*| targets:1385   GAUACGGAGAUUAGUUCAUUUUGU   1408 Target Full Sequence	2.5	Zea mays clone 263071 homeotic protein knotted-1 mRNA, complete cds	NA	coding protein	psRNATarget
AY104920.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ==||**||||||||||=||||||| targets:1457   UUAAGAGAAAUUAGUUUAUUUUCU   1480 Target Full Sequence	2.5	Zea mays PCO100740 mRNA sequence	NA	coding protein	psRNATarget
NM_001351109.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ||||**|||*|||||||||||||| targets:1530   CCAAGAGAAUUUAGUUCAUUUUCU   1553 Target Full Sequence	2.0	Zea mays protein PELOTA 1 (LOC103645815), mRNA	NA	coding protein	psRNATarget
XM_008683147.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   **||=|||||*||||||||||||* targets:1593   AAAAUGGAAACUAGUUCAUUUUCA   1616 Target Full Sequence	2.0	PREDICTED: Zea mays putative homeodomain-like transcription factor superfamily protein (LOC100272444), transcript variant X3, mRNA	NA	coding protein	psRNATarget
HI407023.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ==||*|*||||||||||||||||* targets:54   UUAAGGAAAAUUAGUUCAUUUUCC   77 Target Full Sequence	2.0	Sequence 5148 from Patent EP2074227	NA	coding protein	psRNATarget
LQ239153.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ==||*|*||||||||||||||||* targets:54   UUAAGGAAAAUUAGUUCAUUUUCC   77 Target Full Sequence	2.0	Sequence 5148 from Patent EP2985353	NA	coding protein	psRNATarget
JB167484.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   ==||*|*||||||||||||||||* targets:54   UUAAGGAAAAUUAGUUCAUUUUCC   77 Target Full Sequence	2.0	Sequence 5148 from Patent EP2559767	NA	coding protein	psRNATarget
EU965731.1	ncRNA:24   GGUU---GCCUUUAAUCAAGUAAAAGA   1   ||||---=||||*||||||||||||*| targets:571   CCAAGGAUGGAAUUUAGUUCAUUUUAU   597 Target Full Sequence	2.5	Zea mays clone 288359 mRNA sequence	NA	coding protein	psRNATarget
AY105297.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||*||||*|||*|||||||||| targets:962   UCAAGGGAAUUUAAUUCAUUUUCU   985 Target Full Sequence	2.5	Zea mays PCO116858 mRNA sequence	NA	coding protein	psRNATarget
XM_008647026.2	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   =|||*||||*|||*|||||||||| targets:1497   UCAAGGGAAUUUAAUUCAUUUUCU   1520 Target Full Sequence	2.5	PREDICTED: Zea mays uncharacterized LOC103626622 (LOC103626622), mRNA	NA	coding protein	psRNATarget
EU952024.1	ncRNA:24   GGU--UGCCUUUAAUCAAGUAAAAGA   1   ==|--|||||||*||||||||||*|| targets:707   UUAGCACGGAAAGUAGUUCAUUUACU   732 Target Full Sequence	2.5	Zea mays clone 1065023 mRNA sequence	NA	coding protein	psRNATarget
EU973119.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |*||*|||||||||*||||||||* targets:1397   CAAAGGGAAAUUAGCUCAUUUUCC   1420 Target Full Sequence	2.5	Zea mays clone 393646 mRNA sequence	NA	coding protein	psRNATarget
NM_001196460.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |*||*|||||||||*||||||||* targets:1399   CAAAGGGAAAUUAGCUCAUUUUCC   1422 Target Full Sequence	2.5	Zea mays Mosaic virus helicase domain-binding protein (LOC100501804), mRNA	NA	coding protein	psRNATarget
BT086269.1	ncRNA:24   GGUUGCCUUUAAUCAAGUAAAAGA   1   |*||*|||||||||*||||||||* targets:1399   CAAAGGGAAAUUAGCUCAUUUUCC   1422 Target Full Sequence	2.5	Zea mays full-length cDNA clone ZM_BFc0140P03 mRNA, complete cds	NA	coding protein	psRNATarget