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BaseInfo

ncRNA ID	ath-miR5640
Species	Arabidopsis thaliana
Class	miRNA
Genome position	chr1:1653221-1653624 [-]
Reference genome	TAIR10
Source	miRBase
Length	21
Mature sequence(if miRNA)	319 - UGAGAGAAGGAAUUAGAUUCA - 339
Stem-loop(if miRNA)	AA       --              U    UUAU    UUU        A   AC   U   U     G     AG  A        A      U       AUUUUAA   U     U    A  G         GCA            AAGU         A   AUUAG    ----   UGAUUCAAGCAUCUGAGUGUUCUAUC   GGUGAGG  AACAUGAACACCAG UACA    AAAC   CCUGUGUU CAA  UUA AUA UUGAU AGAGA  GA UUAGAUUC UGAAAA AUUAAUC       GGU AGUAG ACUU UU GCUGUUCUU   AAACCAAUGGUA    AUGUGAUGA ACC     AACU    UUU                          A   |||||||  |||||||||||||| ||||    ||||   |||||||| |||  ||| ||| ||||| |||||  || |||||||| |||||| |||||||       ||| ||||| |||| || |||||||||   ||||||||||||    ||||||||| |||     ||||    |||   CCACUCU  UUGUACUUGUGGUC AUGU    UUUG   GGACAUAA GUU  GAU UAU AACUA UCUCU  CU AAUCUAAG ACUUUU UGGUUAG       CCA UUAUC UGAA GA UGACAAGAA   UUUGGUUACCAU    UACACUACU UGG     GGUU    UCA                          G -C       GG              C    -CUU    UAC        A   CC   C   C     G     CA  C        G      C       ACAUAUG   C     C    -  G         AAC            ----         C   -----    UAUA   AGAAUUGAAUCUAACCGAGAUUGGGA
Stem-loop sequence	AAGGUGAGGAACAUGAACACCAGUUACAUUAUAAACUUUCCUGUGUUACAAACUUAUAUAUUUGAUGAGAGAAGGAAUUAGAUUCAUGAAAAUAUUAAUCAUUUUAAGGUUAGUAGUACUUAUUGGCUGUUCUUGCAAAACCAAUGGUAAAGUAUGUGAUGAAACCAUUAGAACUUUUUGAUUCAAGCAUCUGAGUGUUCUAUCAGAGGGUUAGAGCCAAUCUAAGUUAAGAACUAUAUUUGGGGUCUCAUCACAUUACCAUUGGUUUCAAAAGAACAGUGAGAAGUCCUAUUCACCGUAUACAGAUUGGUCUUUUCAGGAAUCUAACUCACUCUCUGAUCAACUAUCUAGCCUUGAAAUACAGGCAUGUUUUUCUGUACCUGGUGUUCAUGUUGGUCUCACCC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
NM_202904.2	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:1115   GGAAUCAAAUUCUUUCUCUCA   1135 Target Full Sequence	2.5	Arabidopsis thaliana methyl-coenzyme M reductase II subunit gamma, putative (DUF3741) (TRM20), mRNA	methyl-coenzyme M reductase II subunit gamma, putative (DUF3741)(TRM20)	coding protein	psRNATarget
AK317321.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:1082   GGAAUCAAAUUCUUUCUCUCA   1102 Target Full Sequence	2.5	Arabidopsis thaliana AT4G28760 mRNA, complete cds, clone: RAFL22-55-C23	NA	coding protein	psRNATarget
BX827379.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:1115   GGAAUCAAAUUCUUUCUCUCA   1135 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTLS47ZE02 of Adult vegetative tissue of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
NM_119020.3	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:1036   GGAAUCAAAUUCUUUCUCUCA   1056 Target Full Sequence	2.5	Arabidopsis thaliana methyl-coenzyme M reductase II subunit gamma, putative (DUF3741) (TRM20), mRNA	methyl-coenzyme M reductase II subunit gamma, putative (DUF3741)(TRM20)	coding protein	psRNATarget
AY051010.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:1001   GGAAUCAAAUUCUUUCUCUCA   1021 Target Full Sequence	2.5	Arabidopsis thaliana unknown protein (At4g28760) mRNA, complete cds	NA	coding protein	psRNATarget
AY113849.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   *|||||*|||||=|||||||| targets:732   GGAAUCAAAUUCUUUCUCUCA   752 Target Full Sequence	2.5	Arabidopsis thaliana unknown protein (At4g28760) mRNA, complete cds	NA	coding protein	psRNATarget
NM_115947.3	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   |*|*||||=|||||||||||| targets:196   UCACUCUAGUUCCUUCUCUCA   216 Target Full Sequence	2.5	Arabidopsis thaliana actin-related protein 7 (ARP7), mRNA	actin-related protein 7(ARP7)	coding protein	psRNATarget
AY099661.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   |*|*||||=|||||||||||| targets:106   UCACUCUAGUUCCUUCUCUCA   126 Target Full Sequence	2.5	Arabidopsis thaliana actin -like protein (At3g60830) mRNA, complete cds	NA	coding protein	psRNATarget
AY087739.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   |*|*||||=|||||||||||| targets:86   UCACUCUAGUUCCUUCUCUCA   106 Target Full Sequence	2.5	Arabidopsis thaliana clone 38096 mRNA, complete sequence	NA	coding protein	psRNATarget
BX823344.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   |*|*||||=|||||||||||| targets:86   UCACUCUAGUUCCUUCUCUCA   106 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTLS25ZD01 of Adult vegetative tissue of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
BX824746.1	ncRNA:21   ACUUAGAUUAAGGAAGAGAGU   1   |*|*||||=|||||||||||| targets:64   UCACUCUAGUUCCUUCUCUCA   84 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH6ZC12 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget

Reference

1	PMID:21940835 "High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis"; Breakfield NW, Corcoran DL, Petricka JJ, Shen J, Sae-Seaw J, Rubio-Somoza I, Weigel D, Ohler U, Benfey PN; Genome Res. 22:163-176(2012).