miRTarBase - #MIRT579796


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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 Zfp300   
Synonyms D930016N04Rik
Description zinc finger protein 300
Transcript NM_183185   
Expression
Putative miRNA Targets on Zfp300
3'UTR of Zfp300
(miRNA target sites are highlighted)		 
>Zfp300|NM_183185|3'UTR
   1 TAAAGTTAAAGAAAATGGAAATGCAAAAGGCAAGGGGAAATTGTGCTGTAGCTAGGGTGCTTTTCTAATCATATGACACA
  81 CTTGTCCTTAAAGATCAGCACCAGCCATATTGAGAGAAGAACATTCTGAGTAAAAGAAATAGGAAGATCTTATTTCTTAA
 161 AGAAAAGAACTTGGCCTCTGTACTTTTTTTTATCATGGATATATTGAATTATCATTTGTTATCAAAGAGGTTGTCAATGC
 241 TGAAATCTTTTCAAGTCTTCAATGTATAAAAGCTGTCAGTTGAAAAACAAACCTCATCATAAATGTGGGCATACATATAA
 321 AAAGAATTCAATTAATTAATTTCTCAGAAGTAAAGTAAAGGAAATATGTAAGTTTCCAAATTTCAAATACTCATAGAAAA
 401 CGTAAAAATAACGTTAGAAAAAGTGGTTTACCAAACAATTTTAAGTTAAATATTTAAATATAACCATTAAAGGAATATAT
 481 TACAAAATTCCAAATTATTTTAATAATCAGAACAATGTAAGAAAATACTACTAGAGTATCAAATCCAGTGTTAGGCAGTA
 561 ATAACAGTTGATAATGTCAATGTTTCCTCCCCAGCCTGATCTGGGAAGACTATAAGCTTCCAAGGACTATAAGATGCCTA
 641 ATAGGCTTTAGAAGACATGTTTTTGGCACAAATTCACCAGTGTTCATTTCTGCTGCTTTTAATTAATGCCTACCACATTC
 721 ATAATTTTGTCAATAGCCAGCATGGTAGCATCTTTTATGGACTCCCAGAGAGATGTGAAATTTGGTTATCTATCCCGGTT
 801 GGGGTGAAATAATGGAAAATTCCAGTTGACCTTAAGGAGGAGGTCTTGAACTCTCCTTGCCATGCAAGGACAGCTAGCTG
 881 TTTTACTGATCGTCTGTGTTTATTTTGATGAACGCTGAAAGCAAGGCTTTGGGTAACTGAGCCCTGACCATGGACTACAA
 961 AACAACATGAGCAACTACTTCATGAGAATAGCTACTTCCAATGGGACTGCCCAATAAAATGAGAGCAAATGGCAAGTAGT
1041 TAATAGCTGTGTTCAAGACACAGCCTGAAAACCAGGCATTCTGTAAAAAGAAATTATCACTTTGTGTGTCCTTTGAATTC
1121 TTTGTCTAAATTACAAGTCTGTCATTTTAAACTTTAGACTTAGATCATGAAAGAGATAATAGGAGGTTGGGGCTTAGAAT
1201 GGAAGTATGTTAGAGTATGTGGTAGAATGTGACTATTTTAAACTCTCATTGCACACTGTATTTTCTCTATTTAATTTAAT
1281 TCTCCCCGAAGAGGCCACAAATGTCTTAAATAAAGACCCTGTAGTGACCTAATCTGAAAATGATGCTTTTAAAGATAGGA
1361 CATCTTTCATATCCTTATACCCAACCCCTCTATCTCTAAATCTGTAATTGAATTTTTTTTTTTGGATGCAGGGTCTTTAT
1441 GTAGGCTAGGCTGCTTTATGGTTGTAATTTTATGCCATTGCCACCTAAGTGCTGGTATGACAGGCATGTACCACCATATA
1521 CATATCTTTTTTCAATTTTTTATTAGATATTTTCTTCATTTACATTTCAAAAGCTATTCTGAAAGTCCCCTATACCCTCC
1601 CCAACCCTGCTCCGCTACCCACCCACTCCCACTTCTTGGCCCTGGCATTCCCCTGTACTGGGGCATATAAAGTTTGCAAG
1681 ACCAAGGGGCCCCTCTTTCCATTGATGGCTGACTAGGCCATCTTCTGCTACATATGCTGCTAGAGACACAAGCCCTGGGG
1761 ATACTGGTTAGTTCATATTATTGTTCCATCTATAAGGTTGCAGAGTCCTTCAGCTCCTTGGGTGCTTTCTCTACCTCCTC
1841 CATTGGGGGCCCTGTGTTCAATCCAATAAATGACTATTAGCATCCACTTCGGTATTTGCCAGGCACTGGCATAGCCTCAC
1921 AAGAGATAGCTATATCAGGGTCCTTTCAGCAAAATCATGTTGGCATATGCAATAGTGTCTGGGTTTGGTGGTTGTGTACG
2001 GGATGGATTCCTGGGTGGGGCAGTCTATGGATGGTCTTTCCTTCCATCTTAGCTCTGAACTTTGTCTCTGTAACTCCTTC
2081 CATTGGGTATTTTGTTCCCCATTCTAAGAAGAAGCAAAGTAATCCACACTTTGGTCTACCTTCTTCTTGAGTTTCATGTG
2161 TTTTGCAAATTGTATCTTGGATATTCTAAGATTCTGGGCTAATATCCACTTATCAGTGAGTGCATTTCATGTGTGTTCAT
2241 TTGTGATTGGGTTACCTCACTCAGGATGATATCCTACAGATCGATCCATTTGCCTAGGAATTTGATGAATTCATTGTTTT
2321 TAATTGCTGAGTAGTACCCCATTGTGTAAATGTACCACCATTTCTGTATGCATTCCTCTGTCCAGGGACATCTGGGTTCT
2401 TTCCAACTTCTGGCTATTATAAATAAGGCTGCTATG
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' cauauugggcccGGUUUUCGAg 5'
                      :|||||||| 
Target 5' ttcatttacattTCAAAAGCTa 3'
 1555 - 1576 146.00 -8.80
2 
miRNA  3' cauauugggcccgGUUUUCGAg 5'
                       :||||||| 
Target 5' agtcttcaatgtaTAAAAGCTg 3'
 254 - 275 141.00 -6.30
3 
miRNA  3' cauAUUGGGCCC----GGUUUUCGAg 5'
             |:|:|:|||    |:| ||||| 
Target 5' gccTGATCTGGGAAGACTATAAGCTt 3'
 594 - 619 133.00 -16.40
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions C2C12
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 GSM1385342. RNA binding protein: 聽AGO2. Condition:C2C12_GM_Ago2_CLIP-Seq_myoblast HITS-CLIP data was present in GSM1385343. RNA binding protein: 聽AGO2. Condition:C2C12_DM_Ago2_CLIP-Seq_myotubes ...

- Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al., 2014, Cell.

Article - Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al.
- Cell, 2014
MicroRNAs are well known to mediate translational repression and mRNA degradation in the cytoplasm. Various microRNAs have also been detected in membrane-compartmentalized organelles, but the functional significance has remained elusive. Here, we report that miR-1, a microRNA specifically induced during myogenesis, efficiently enters the mitochondria where it unexpectedly stimulates, rather than represses, the translation of specific mitochondrial genome-encoded transcripts. We show that this positive effect requires specific miR:mRNA base-pairing and Ago2, but not its functional partner GW182, which is excluded from the mitochondria. We provide evidence for the direct action of Ago2 in mitochondrial translation by crosslinking immunoprecipitation coupled with deep sequencing (CLIP-seq), functional rescue with mitochondria-targeted Ago2, and selective inhibition of the microRNA machinery in the cytoplasm. These findings unveil a positive function of microRNA in mitochondrial translation and suggest a highly coordinated myogenic program via miR-1-mediated translational stimulation in the mitochondria and repression in the cytoplasm.
LinkOut: [PMID: 25083871]
CLIP-seq Support 1 for dataset GSM1385342
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_GM_Ago2_CLIP-Seq_myoblast
Location of target site NM_183185 | 3UTR | UUUUUAUUAGAUAUUUUCUUCAUUUACAUUUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1385343
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_DM_Ago2_CLIP-Seq_myotubes
Location of target site NM_183185 | 3UTR | UUUUAUUAGAUAUUUUCUUCAUUUACAUUUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
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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