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BaseInfo

ncRNA ID	ath-miR842
Species	Arabidopsis thaliana
Class	miRNA
Genome position	chr1:22577067-22577265 [+]
Reference genome	TAIR10
Source	miRBase
Length	21
Mature sequence(if miRNA)	128 - UCAUGGUCAGAUCCGUCAUCC - 148
Stem-loop(if miRNA)	----------------CA  A    UCAG G    -A   ACAUUUUCGAAAAGAGAGGCUAUAAGCGGGAUGAUGAAUCCGACCAUGAUGGUGUUGCAGAAAUUUA                   GU CCGU    G UGAC  GAA                                                                   U                   || ||||    | ||||  |||                                                                   G                   CA GGUA    C ACUG  UUC                                                                   U CUCGAAGUGAAAAGUUAA  -    UAAA A    GA   UUUUGUAUUCACCCUACUGCCUAGACUGGUACUACCACAAAGCUAGGGACCUGUUAUUGAUGUAGUA
Stem-loop sequence	CAGUACCGUUCAGGGUGACAGAAACAUUUUCGAAAAGAGAGGCUAUAAGCGGGAUGAUGAAUCCGACCAUGAUGGUGUUGCAGAAAUUUAUGUAUGAUGUAGUUAUUGUCCAGGGAUCGAAACACCAUCAUGGUCAGAUCCGUCAUCCCACUUAUGUUUUCUUAGGUCAACAAAUAUGGACAAUUGAAAAGUGAAGCUC

Targets Info

Target Acc	Alignment	Exception	Target Description	Target Gene Name	Target Type	Method
BT004998.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||||||||*||||| targets:60   GGAUGAUGGAUCUGAACAUGA   80 Target Full Sequence	2.5	Arabidopsis thaliana clone U20434 putative myrosinase binding protein (At5g38550) mRNA, complete cds	NA	coding protein	psRNATarget
NM_104704.2	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=|||||*|||||||| targets:87   GGAUGAUGGAUCCGACCAUGA   107 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein partial mRNA	Mannose-binding lectin superfamily protein(AT1G60130)	coding protein	psRNATarget
NM_001333881.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=|||||*|||||||| targets:153   GGAUGAUGGAUCCGACCAUGA   173 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein partial mRNA	Mannose-binding lectin superfamily protein(AT1G60130)	coding protein	psRNATarget
BX831695.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||||||||*||||| targets:152   GGAUGAUGGAUCUGAACAUGA   172 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH24ZD07 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
BT004048.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||||||||*||||| targets:160   GGAUGAUGGAUCUGAACAUGA   180 Target Full Sequence	2.5	Arabidopsis thaliana clone RAFL14-92-K15 (R20434) putative myrosinase binding protein (At5g38550) mRNA, complete cds	NA	coding protein	psRNATarget
NM_001344255.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||*||||||||||| targets:167   GGAUGAUGGUUCUGACCAUGA   187 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein mRNA	Mannose-binding lectin superfamily protein(AT5G38540)	coding protein	psRNATarget
NM_123216.6	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||||||||*||||| targets:237   GGAUGAUGGAUCUGAACAUGA   257 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein mRNA	Mannose-binding lectin superfamily protein(AT5G38550)	coding protein	psRNATarget
NM_001344254.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||*||||||||||| targets:192   GGAUGAUGGUUCUGACCAUGA   212 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein mRNA	Mannose-binding lectin superfamily protein(AT5G38540)	coding protein	psRNATarget
NM_001344256.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   ||||||=||||||||*||||| targets:237   GGAUGAUGGAUCUGAACAUGA   257 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein mRNA	Mannose-binding lectin superfamily protein(AT5G38550)	coding protein	psRNATarget
AK229108.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|||||=|||||*|||||||| targets:231   UGAUGAUGGAUCCGACCAUGA   251 Target Full Sequence	2.5	Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL16-39-D01	NA	coding protein	psRNATarget
NM_104554.4	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|||||=|||||*|||||||| targets:254   UGAUGAUGGAUCCGACCAUGA   274 Target Full Sequence	2.5	Arabidopsis thaliana Mannose-binding lectin superfamily protein mRNA	Mannose-binding lectin superfamily protein(AT1G57570)	coding protein	psRNATarget
AK221774.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|*||||||||||*||||||| targets:888   AGUUGACGGAUCUUACCAUGA   908 Target Full Sequence	2.5	Arabidopsis thaliana mRNA for elongation factor G, complete cds, clone: RAFL21-69-G05	NA	coding protein	psRNATarget
BK005771.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|*||||||||||*||||||| targets:1959   AGUUGACGGAUCUUACCAUGA   1979 Target Full Sequence	2.5	TPA_exp: Arabidopsis thaliana elongation factor G (sco1) mRNA, complete cds; nuclear gene for chloroplast product	NA	coding protein	psRNATarget
AY142646.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|*||||||||||*||||||| targets:1959   AGUUGACGGAUCUUACCAUGA   1979 Target Full Sequence	2.5	Arabidopsis thaliana unknown protein (At1g62750) mRNA, complete cds	NA	coding protein	psRNATarget
AY039936.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|*||||||||||*||||||| targets:1994   AGUUGACGGAUCUUACCAUGA   2014 Target Full Sequence	2.5	Arabidopsis thaliana unknown protein (At1g62750) mRNA, complete cds	NA	coding protein	psRNATarget
NM_104952.2	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   *|*||||||||||*||||||| targets:2085   AGUUGACGGAUCUUACCAUGA   2105 Target Full Sequence	2.5	Arabidopsis thaliana Translation elongation factor EFG/EF2 protein (SCO1), mRNA	Translation elongation factor EFG/EF2 protein(SCO1)	coding protein	psRNATarget
AY055790.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:345   CAAUGACGGAUCUGAACAUGC   365 Target Full Sequence	2.5	Arabidopsis thaliana F14P1.45/F14P1.45 mRNA, complete cds	NA	coding protein	psRNATarget
BX813589.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:223   CAAUGACGGAUCUGAACAUGC   243 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB26ZG05 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
AY052211.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:361   CAAUGACGGAUCUGAACAUGC   381 Target Full Sequence	2.5	Arabidopsis thaliana At1g19570/F14P1.45 mRNA, complete cds	NA	coding protein	psRNATarget
BX814160.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:356   CAAUGACGGAUCUGAACAUGC   376 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB5ZA02 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
BX817000.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:360   CAAUGACGGAUCUGAACAUGC   380 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTPGH80ZA05 of Hormone Treated Callus of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
BX813699.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:370   CAAUGACGGAUCUGAACAUGC   390 Target Full Sequence	2.5	Arabidopsis thaliana Full-length cDNA Complete sequence from clone GSLTFB34ZE03 of Flowers and buds of strain col-0 of Arabidopsis thaliana (thale cress)	NA	coding protein	psRNATarget
AY085426.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:383   CAAUGACGGAUCUGAACAUGC   403 Target Full Sequence	2.5	Arabidopsis thaliana clone 15122 mRNA, complete sequence	NA	coding protein	psRNATarget
AK117865.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:383   CAAUGACGGAUCUGAACAUGC   403 Target Full Sequence	2.5	Arabidopsis thaliana At1g19570 mRNA for putative GSH-dependent dehydroascorbate reductase 1, complete cds, clone: RAFL19-03-N19	NA	coding protein	psRNATarget
AY039590.1	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:387   CAAUGACGGAUCUGAACAUGC   407 Target Full Sequence	2.5	Arabidopsis thaliana F14P1.45/F14P1.45 mRNA, complete cds	NA	coding protein	psRNATarget
NM_101814.5	ncRNA:21   CCUACUGCCUAGACUGGUACU   1   **|||||||||||||*||||* targets:455   CAAUGACGGAUCUGAACAUGC   475 Target Full Sequence	2.5	Arabidopsis thaliana dehydroascorbate reductase (DHAR1), mRNA	dehydroascorbate reductase(DHAR1)	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: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).