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BaseInfo

ncRNA ID	ath-miR824-5p
Species	Arabidopsis thaliana
Class	miRNA
Genome position	chr4:12625094-12625782 [+]
Reference genome	TAIR10
Source	miRBase
Length	21
Mature sequence(if miRNA)	35 - UAGACCAUUUGUGAGAAGGGA - 55
Stem-loop(if miRNA)	U         U  A   -----------    UG    U               U             UUUUGUUUAC     -  C -     G       A    UAAGA      --AU   - ---A       -----------AACAUA    GUUCGACAUACCAUACUACCCUUUUUAAAACUAUCCUAUAUGUUUGAUGCUAGCAUAGCGUAAUUUUGUGUUCUCAUGGUGCAGCAGGGUUAGUUUAUUGUGUACCUCUAGAUAUAUAUUCUCUUGCUGCGUAGGGUUCCCAAGCUGCCAAAAACUUUUAAAAAUUAGUGAUCUGUUCCCCAAACCCCCAUUCAAUAAGAAAGG  AUCACCAUU GU CUU           GAGU  UCUC CAUGUCUAGACCAUU GUGAGAAGGGAGU          ACCAA UA C CCCCA UCUCUAA UUUG     AGUAUU    GCU C    AUUAAGG                 GCUA                                                                                                                                                                                                            U  ||||||||| || |||           ||||  |||| ||||||||||||||| |||||||||||||          ||||| || | ||||| ||||||| ||||     ||||||    ||| |    |||||||                 ||||  UAGUGGUAA CA GAA           CUCA  GGAG GUGUAGAUCUGGUAG UACUCUUCCCUUA          UGGUU GU G GGGGU AGGGGUU AAAU     UUAUAA    CGA G    UGGUUCC                 CUAA                                                                                                                                                                                                            C -         -  A   AUGGAGGUACU    GU    C               C             -------UAU     U  A A     G       A    CUAUG      GAAU   U GUAC       ACAUUUACUAAAAUAUA    AACUCUUAGCCGAACCUGAUCAAGCUUAUGUUUAUUUUUUUCAAUACAUACGUUGUAGACCUUUUCAGUACUUACUUGAAUUAGCUGAAUGAAGAUAUGGAUUGAAGACUUCCUAGUCUGAAAGUAUCCCAUUGAUUAAUUGAUUUUGUCAUUUGGGUUUCUUCGUUCCUGUCGAGAUUAUCGACACUGACACUCGAUGUCCAU
Stem-loop sequence	UAUCACCAUUUGUACUUGAGUUGUCUCUCAUGUCUAGACCAUUUGUGAGAAGGGAGUUUUUGUUUACACCAAUACCCCCCAGUCUCUAAAUUUGUAAGAAGUAUUAUGCUCAAUUAAGGAACAUAGCUAGUUCGACAUACCAUACUACCCUUUUUAAAACUAUCCUAUAUGUUUGAUGCUAGCAUAGCGUAAUUUUGUGUUCUCAUGGUGCAGCAGGGUUAGUUUAUUGUGUACCUCUAGAUAUAUAUUCUCUUGCUGCGUAGGGUUCCCAAGCUGCCAAAAACUUUUAAAAAUUAGUGAUCUGUUCCCCAAACCCCCAUUCAAUAAGAAAGGUCUACCUGUAGCUCACAGUCACAGCUAUUAGAGCUGUCCUUGCUUCUUUGGGUUUACUGUUUUAGUUAAUUAGUUACCCUAUGAAAGUCUGAUCCUUCAGAAGUUAGGUAUAGAAGUAAGUCGAUUAAGUUCAUUCAUGACUUUUCCAGAUGUUGCAUACAUAACUUUUUUUAUUUGUAUUCGAACUAGUCCAAGCCGAUUCUCAAAAUCAUAUAAAAUCAUUUACACCUUGGUCAUGGUAGCUAAGAAUAUUGUAUCUAAAAUUGGGGAGUGGGGAGAUGUUUGGUUAUAUUCCCUUCUCAUCGAUGGUCUAGAUGUGCGAGGUGACUCUCAUGGAGGUAAAGAACAAUGGUGAU

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
NM_001341669.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||||||||||||||||||||| targets:127   UCCCUUCUCACAAAUGGUCUA   147 Target Full Sequence	0.0	Arabidopsis thaliana hypothetical protein partial mRNA	hypothetical protein(AT4G24413)	coding protein	psRNATarget
NM_001339846.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:2046   UCUCUUCUCACAAAUGGUCUA   2066 Target Full Sequence	1.0	Arabidopsis thaliana AGAMOUS-like 16 (AGL16), mRNA	AGAMOUS-like 16(AGL16)	coding protein	psRNATarget
NM_001339848.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:1610   UCUCUUCUCACAAAUGGUCUA   1630 Target Full Sequence	1.0	Arabidopsis thaliana AGAMOUS-like 16 (AGL16), mRNA	AGAMOUS-like 16(AGL16)	coding protein	psRNATarget
NM_001339845.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:1019   UCUCUUCUCACAAAUGGUCUA   1039 Target Full Sequence	1.0	Arabidopsis thaliana AGAMOUS-like 16 (AGL16), mRNA	AGAMOUS-like 16(AGL16)	coding protein	psRNATarget
NM_115583.6	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:926   UCUCUUCUCACAAAUGGUCUA   946 Target Full Sequence	1.0	Arabidopsis thaliana AGAMOUS-like 16 (AGL16), mRNA	AGAMOUS-like 16(AGL16)	coding protein	psRNATarget
NM_001339847.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:650   UCUCUUCUCACAAAUGGUCUA   670 Target Full Sequence	1.0	Arabidopsis thaliana AGAMOUS-like 16 (AGL16), mRNA	AGAMOUS-like 16(AGL16)	coding protein	psRNATarget
AF312662.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:521   UCUCUUCUCACAAAUGGUCUA   541 Target Full Sequence	1.0	Arabidopsis thaliana MADS-box protein AGL16 (AGL16) mRNA, partial cds	NA	coding protein	psRNATarget
AY141209.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:682   UCUCUUCUCACAAAUGGUCUA   702 Target Full Sequence	1.0	Arabidopsis thaliana MADS-box protein AGL16-II mRNA, complete cds	NA	coding protein	psRNATarget
BT030046.1	ncRNA:21   AGGGAAGAGUGUUUACCAGAU   1   ||=|||||||||||||||||| targets:589   UCUCUUCUCACAAAUGGUCUA   609 Target Full Sequence	1.0	Arabidopsis thaliana At3g57230 mRNA, complete cds	NA	coding protein	psRNATarget

Reference

1	PMID:17182867 "A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana"; Rajagopalan R, Vaucheret H, Trejo J, Bartel DP; Genes Dev. 20:3407-3425(2006).
2	PMID:17299599 "High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes"; Fahlgren N, Howell MD, Kasschau KD, Chapman EJ, Sullivan CM, Cumbie JS, Givan SA, Law TF, Grant SR, Dangl JL, Carrington JC; PLoS One. 2:e219(2007).
3	PMID:17704216 "MicroRNA-mediated regulation of stomatal development in Arabidopsis"; Kutter C, Schob H, Stadler M, Meins F Jr, Si-Ammour A; Plant Cell. 19:2417-2429(2007).
4	PMID:19815687 "Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis"; Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW; J Exp Bot. 61:165-177(2010).