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BaseInfo

ncRNA ID	novel_zma_miR5493
Species	Zea mays
Class	miRNA
Genome position	Chr4:11396818-11396942 [+]
Reference genome	RefGen_v4
Source	SRR1618883;SRR4237220;SRR4237221;SRR4237223;SRR4237224;SRR5099742;SRR5105959;SRR5105961
Length	24
Mature sequence(if miRNA)	102 - AUUGGGGUAGAACCGAACAAGCCU - 125
Stem-loop(if miRNA)	--            -AU UU                 A    A  G UAGGGAUUG    GGA   GCUUGUUCGGUU   U  CAAUCCAUAUGGAUUGA GGGG UU A         AAGU   U   ||||||||||||   |  ||||||||||||||||| |||| || |         ||||   CGAACAAGCCAA   G  GUUAGGUAUACCUAACU CCCC AA U         UUCA   U UC            GAU GG                 C    A  G UAAGAGUCA    GUU
Stem-loop sequence	GCUUGUUCGGUUAUUUUCAAUCCAUAUGGAUUGAAGGGGAUUGAUAGGGAUUGAAGUGGAUUUUGACUUACUGAGAAUUGAAACCCCCUCAAUCCAUAUGGAUUGGGGUAGAACCGAACAAGCCU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
EU961636.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   1   |||||||||||||||||||||||| targets:1038   AGGCUUGUUCGGUUCUACCCCAAU   1061 Target Full Sequence	0.0	Zea mays clone 237217 mRNA sequence	NA	coding protein	psRNATarget
EZ061352.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   1   =||||||||||||||||||||||| targets:354   GGGCUUGUUCGGUUCUACCCCAAU   377 Target Full Sequence	0.0	Zea mays hypothetical protein (LOC100277538), mRNA	NA	coding protein	psRNATarget
EU972046.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   1   =||||||||||||||||||||||| targets:918   GGGCUUGUUCGGUUCUACCCCAAU   941 Target Full Sequence	0.0	Zea mays clone 1380292 mRNA sequence	NA	coding protein	psRNATarget
XM_008666525.2	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   1   =|||||||||||||*||||||||| targets:783   GGGCUUGUUCGGUUYUACCCCAAU   806 Target Full Sequence	1.5	Zea mays clone 209821 mRNA sequence	NA	coding protein	psRNATarget
EU965203.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   1   =|||||||||||||||||||||=| targets:798   GGGCUUGUUCGGUUCUACCCCAGU   821 Target Full Sequence	1.5	Zea mays threonine endopeptidase (LOC100283581), mRNA	NA	coding protein	psRNATarget
EU956568.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   1   =||||||||||||||||||=|||| targets:1539   GGGCUUGUUCGGUUCUACCUCAAU   1562 Target Full Sequence	1.5	Zea mays clone 1566799 mRNA sequence	NA	coding protein	psRNATarget
XM_020549355.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   1   =|||||||||||||*||||||||| targets:1402   GGGCUUGUUCGGUUAUACCCCAAU   1425 Target Full Sequence	1.5	Zea mays PCO106969 mRNA sequence	NA	coding protein	psRNATarget
NM_001148011.2	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   1   =|||||||||||||*||||||||| targets:1416   GGGCUUGUUCGGUUAUACCCCAAU   1439 Target Full Sequence	1.5	Zea mays uncharacterized LOC100273594 (AY105910), mRNA	NA	coding protein	psRNATarget
BT041454.1	ncRNA:24   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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   UCCGAACAAGCCAAGAUGGGGUUA   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
HI406643.1	ncRNA:24   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|||||||||*|||||||||||| targets:6   AGAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2074227	NA	coding protein	psRNATarget
LQ238773.1	ncRNA:24   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|||||||||*|||||||||||| targets:6   AGAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2985353	NA	coding protein	psRNATarget
JB167104.1	ncRNA:24   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|||||||||*|||||||||||| targets:6   AGAGCUUGUUCGUUUCUACCCCAAU   30 Target Full Sequence	1.5	Sequence 4768 from Patent EP2559767	NA	coding protein	psRNATarget
XM_008658561.2	ncRNA:24   UCC-GAACAAGCCAAGAUGGGGUUA   1   |||-|*||||||||||||||=|||| targets:209   AGGUCAUGUUCGGUUCUACCUCAAU   233 Target Full Sequence	1.5	PREDICTED: Zea mays mitogen-activated protein kinase kinase kinase 2 (LOC103636208), mRNA	NA	coding protein	psRNATarget
XM_020548481.1	ncRNA:24   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1274   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1304   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1368   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1378   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1381   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1388   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1398   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1439   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1475   AGCGUUUGUUCGGUUCUUCCCCAAA   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   UC-CGAACAAGCCAAGAUGGGGUUA   1   ||-|=||||||||||||*||||||* targets:1682   AGCGUUUGUUCGGUUCUUCCCCAAA   1706 Target Full Sequence	2.5	Zea mays clone 1570344 mRNA sequence	NA	coding protein	psRNATarget
EZ081763.1	ncRNA:24   UCC-GAACAAGCCAAGAUGGGGUUA   1   |||-|*||||||||||||||*|||| targets:43   AGGUCAUGUUCGGUUCUACCACAAU   67 Target Full Sequence	1.5	TSA: Zea mays contig17404, mRNA sequence	NA	coding protein	psRNATarget