miRTarBase - #MIRT604065


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pre-miRNA Information
pre-miRNA mmu-mir-208a   
Genomic Coordinates chr14: 54949060 - 54949142
Description Mus musculus miR-208a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-208a-5p
Sequence 15| GAGCUUUUGGCCCGGGUUAUAC |36
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Eno2   
Synonyms AI837106, D6Ertd375e, Eno-2, NSE
Description enolase 2, gamma neuronal
Transcript NM_013509   
Expression
Putative miRNA Targets on Eno2
3'UTR of Eno2
(miRNA target sites are highlighted)		 
>Eno2|NM_013509|3'UTR
   1 TCCCCTTCCCCCAACCCCGCTTGCCTGAACGCGGGAACATCTCATTCTCCTGGAGCCTCTTTCTTGCTGCCCTGACCTGC
  81 CATAGTCACTCTGATACCCTGAGCCCCAAGTCACCCAGAACACCTCGACTCACCGCTCCTGCTGTTCTTGGCTTCCACAA
 161 CCCCCCTTGCTCTCTCTGCTCTTCCTCCTCTCTGGGCCCCATTTTTGGGGGGATTCAGTCTTCCCACTTTCCCTTCTATT
 241 CTCTCTTCTCTTTAAAAAAAAATTATGAAGATTAGAAGGGGGTCCACAGAAGAATCCTCAGTGTCTGACAGGAGCTTCAG
 321 GATTGGTGTGTTGGGGTGTTTAAAGTGGGGTCACGGGCATGAGTGTTTCAGTGCTTACCATGGTGTGTATAAGCCTTGAA
 401 CTATGCATAGAACTGGAGTTTGGGGAGTGCTGGATGTGTGGTCATGCTTGGTTGAGGCTTTAGTGTATGTGTTTACATAC
 481 ACAAGCACAGTTTGTTTGTTTGCTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTCTCAGCTGGTC
 561 AGTCAGCCATCTCCTGTAACTCTCCAGTCTGAAAGTGACCTAACTTGACAGGACTAGGCACCCCTATTCCATGTGGCTTC
 641 ATTCCAAGATGACCCAGGATGGGGATTTTGCTAGCATGGGAAGGGGAACAGAAAAGGGCCTTAGCAATTGCTTCATTCGG
 721 TGCACTAACCGAAGCTCGGAACTTTACAGAATGGGGCTGTGGACCTGGGGAGGCTTTTCTCCTCTAACCCTCTCCCCAGC
 801 CCTAGGCTCCTCCGTCTTTCTCCGGCTGCACCAGAGCGCTGCCTCACTCCCCTGCGCCATGTCCCACAGTTGCCACCATC
 881 TCCGTGGCTTTGAAATGACCACCACCATTAAAGTCTGAATCACAGCGCACCACCCCTTGTCTGAGGACTCTTACTCTCTG
 961 CTCCATGTGAGAGGACGAAGAGAAACGACTGGATATTGGCGATCCTAGGTAGCAGATCAGGGGAGGGCTCAAAAAGCGGC
1041 AAGCCACTGAACTCATGACCAAGTTTGCAGCATTGCTGGTGATGTGGGATCCGTGGGGTTTTTGTTTCCCAAGACAGGGT
1121 TTCTACGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCTCCAAGTTTACAGAGATCCGCCTGCTTC
1201 TGCCTCCCGAGTGCTGGGATTAAAAGCTTGTACCACCACAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' cauauugGGCCC-GGUUUUCGAg 5'
                 |:||| ::||||||| 
Target 5' ccgagtgCTGGGATTAAAAGCTt 3'
 1207 - 1229 155.00 -16.70
2 
miRNA  3' cauauugggCCCGG--UUUUCGag 5'
                   ||||:  ||||||  
Target 5' atcaggggaGGGCTCAAAAAGCgg 3'
 1016 - 1039 131.00 -12.09
3 
miRNA  3' caUAUUGGG---CCCG----GUUUUCGAg 5'
            | ||:||   | |:    ||::|||| 
Target 5' gaAGAATCCTCAGTGTCTGACAGGAGCTt 3'
 289 - 317 118.00 -12.30
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions mESCs
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM622570. RNA binding protein: AGO2. Condition:WT1A HITS-CLIP data was present in GSM622572. RNA binding protein: AGO2. Condition:WT2 ...

- Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' cauauugGGCCC-GGUUUUCGag 5'
                 |:||| ::||||||  
Target 5' ccgagugCUGGGAUUAAAAGC-- 3'
 		19 - 39
Article - Leung AK; Young AG; Bhutkar A; Zheng GX; et al.
- Nature structural & molecular biology, 2011
MicroRNAs (miRNAs) are 19-22-nucleotide noncoding RNAs that post-transcriptionally regulate mRNA targets. We have identified endogenous miRNA binding sites in mouse embryonic stem cells (mESCs), by performing photo-cross-linking immunoprecipitation using antibodies to Argonaute (Ago2) followed by deep sequencing of RNAs (CLIP-seq). We also performed CLIP-seq in Dicer(-)/(-) mESCs that lack mature miRNAs, allowing us to define whether the association of Ago2 with the identified sites was miRNA dependent. A significantly enriched motif, GCACUU, was identified only in wild-type mESCs in 3' untranslated and coding regions. This motif matches the seed of a miRNA family that constitutes ~68% of the mESC miRNA population. Unexpectedly, a G-rich motif was enriched in sequences cross-linked to Ago2 in both the presence and absence of miRNAs. Expression analysis and reporter assays confirmed that the seed-related motif confers miRNA-directed regulation on host mRNAs and that the G-rich motif can modulate this regulation.
LinkOut: [PMID: 21258322]
CLIP-seq Support 1 for dataset GSM4751756
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 1
Location of target site NM_013509 | 3UTR | CUGGGAUUAAAAGCUU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM622570
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT1A
Location of target site NM_013509 | 3UTR | GAGUGCUGGGAUUAAAAGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM622572
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT2
Location of target site NM_013509 | 3UTR | UCCGCCUGCUUCUGCCUCCCGAGUGCUGGGAUUAAAAGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
30 mmu-miR-208a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577883 Qpct glutaminyl-peptide cyclotransferase (glutaminyl cyclase) 2 2
MIRT579319 B3galnt1 UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 1 2 2
MIRT579650 2510002D24Rik RIKEN cDNA 2510002D24 gene 2 2
MIRT579796 Zfp300 zinc finger protein 300 2 2
MIRT580636 Suz12 suppressor of zeste 12 homolog (Drosophila) 2 4
MIRT581361 Reep3 receptor accessory protein 3 2 6
MIRT581857 Pik3r1 phosphoinositide-3-kinase regulatory subunit 1 2 2
MIRT583433 Frmd6 FERM domain containing 6 2 4
MIRT584342 Cdyl2 chromodomain protein, Y chromosome-like 2 2 2
MIRT586902 Hist2h2be histone cluster 2, H2be 2 2
MIRT589714 Kitl kit ligand 2 2
MIRT591273 Lars2 leucyl-tRNA synthetase, mitochondrial 2 4
MIRT593811 Lztfl1 leucine zipper transcription factor-like 1 2 2
MIRT593895 Edaradd EDAR (ectodysplasin-A receptor)-associated death domain 2 2
MIRT594222 Trim8 tripartite motif-containing 8 2 2
MIRT594501 Clmn calmin 2 2
MIRT594507 Cd99l2 CD99 antigen-like 2 2 2
MIRT594522 Bicd2 bicaudal D homolog 2 (Drosophila) 2 2
MIRT594566 4930563D23Rik RIKEN cDNA 4930563D23 gene 2 2
MIRT594769 Tmem132c transmembrane protein 132C 2 2
MIRT594821 Pknox1 Pbx/knotted 1 homeobox 2 2
MIRT594967 Tmem255a transmembrane protein 255A 1 1
MIRT595117 Prtg protogenin 2 2
MIRT595124 Maml3 mastermind like 3 (Drosophila) 2 2
MIRT595307 Gpr35 G protein-coupled receptor 35 2 2
MIRT595351 Fgfr1op2 FGFR1 oncogene partner 2 2 2
MIRT595874 Csmd1 CUB and Sushi multiple domains 1 2 2
MIRT596155 Opn5 opsin 5 2 2
MIRT604065 Eno2 enolase 2, gamma neuronal 2 2
MIRT604938 Gprc5b G protein-coupled receptor, family C, group 5, member B 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-208a (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-208a Tert-butyl hydroperoxide (t-BHP) NULL 6410 Microarray mouse auditory cells 20510889 2010 down-regulated
miR-208a Sulfonyl-hydrazone-1 (SHZ) NULL NULL Quantitative real-time PCR Murine broblast-derived Induced pluripotent stem cells 21445862 2011 up-regulated
miR-208a 1,2,6-Tri-O-galloyl-beta-D-glucopyranose NULL NULL Microarray HepG2 hepatocarcinoma cells. 22506400 2011 down-regulated

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