miRTarBase - #MIRT596908


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pre-miRNA Information
pre-miRNA mmu-mir-188   
Genomic Coordinates chrX: 7247989 - 7248056
Synonyms Mirn188, mmu-mir-188, Mir188
Description Mus musculus miR-188 stem-loop
Comment The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies .
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-188-5p
Sequence 6| CAUCCCUUGCAUGGUGGAGGG |26
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Trim43b   
Synonyms EG666747, Gm8269
Description tripartite motif-containing 43B
Transcript NM_001170884   
Expression
Putative miRNA Targets on Trim43b
3'UTR of Trim43b
(miRNA target sites are highlighted)		 
>Trim43b|NM_001170884|3'UTR
   1 TCATAGGAATCCAGTATGCTAGTGCTTTTCTAGTACTTCTATGATAATGTGTCCCCTCTTTATTGTGATGGTTTGTGTAT
  81 GCTTGGCCAGGGGAGTGGCACTATTAGAATGTGTGGCCCGGTTGGAGTTGGTGAGTCACTGTGGGTGTGAGCTTTAAGAC
 161 TCTCATCTTAGCTGTGTGGAAGTCAGTCTTCCACTAGCAGCGTTCAGATGAAGATGTAGAACTCTCATCTGGGTCTTTAC
 241 CATGCCTACCTAGATATTGCCATGATCCCACTTTGATAATGGATTGAACCTCTAAACCTGAAGGCCAGCTCTAATTAAAT
 321 GTTGTCCTTTATAAGACTTGCCTTGGTCATGGTGTCTGTTAATAGCAGTAAAACCCTAACTAAGACATGTTAAAATGATA
 401 TTAAGGGATGGAGAGATGGCTCAGAGGTTAAGAGCACTGACTCTTGGTTAAGGGACTGTTCTTCTGAAGGTCCTGTGTTC
 481 AAATCCCCACAACCACATGGTGGCTCACACCCATCTGTAATGAGATCTGATGTCCTCTTCTGGTGTGTCTGAAGACAGCT
 561 ACAGTGTACTTACATATAATAAATAAATAAATTTAAAAAATATAAAATGATATTAAATGT
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' gggaggugGUACGUUCCCUAc 5'
                  :|| :||||||| 
Target 5' taaaatgaTAT-TAAGGGATg 3'
 391 - 410 144.00 -12.80
2 
miRNA  3' gggaGGUGGUAC-GUUCCCUAc 5'
              ||||: || :|| |||| 
Target 5' gatcCCACTTTGATAATGGATt 3'
 264 - 285 129.00 -11.10
3 
miRNA  3' ggGAGGUGGUAC--GUUCCCUac 5'
            ||   :| ||  :||||||  
Target 5' caCTGACTCTTGGTTAAGGGAct 3'
 435 - 457 125.00 -10.90
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 GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622574. RNA binding protein: AGO2. Condition:KO2 ...

- 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' gggaggugguacgUUCCCUAc 5'
                       ||||||| 
Target 5' -------------AAGGGAUg 3'
 		1 - 8
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 GSM622572
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT2
Location of target site NM_001170884 | 3UTR | AUUAAGGGAUGGAGAGAUGGCUCAGAGGUUAAGAGCACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM622574
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / KO2
Location of target site NM_001170884 | 3UTR | AAGGGAUGGAGAGAUGGCUCAGAGGUUAAGAGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
26 mmu-miR-188-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577496 Tmprss15 transmembrane protease, serine 15 2 2
MIRT578081 Olfr658 olfactory receptor 658 2 2
MIRT578672 Gramd1c GRAM domain containing 1C 2 2
MIRT579401 Akr1c14 aldo-keto reductase family 1, member C14 2 2
MIRT580024 Whsc1 nuclear receptor binding SET domain protein 2 2 2
MIRT580109 Ubp1 upstream binding protein 1 2 2
MIRT580224 Tspan12 tetraspanin 12 2 2
MIRT580832 Smg1 SMG1 homolog, phosphatidylinositol 3-kinase-related kinase (C. elegans) 2 2
MIRT580857 Slc8a1 solute carrier family 8 (sodium/calcium exchanger), member 1 2 2
MIRT581146 Senp1 SUMO1/sentrin specific peptidase 1 2 2
MIRT582353 Mtor mechanistic target of rapamycin (serine/threonine kinase) 2 2
MIRT582449 Mgat4a mannoside acetylglucosaminyltransferase 4, isoenzyme A 2 2
MIRT582819 Jarid2 jumonji, AT rich interactive domain 2 2 2
MIRT582910 Il21 interleukin 21 2 2
MIRT583609 Fam46d family with sequence similarity 46, member D 2 2
MIRT586883 Htr3b 5-hydroxytryptamine (serotonin) receptor 3B 2 2
MIRT591268 Lars2 leucyl-tRNA synthetase, mitochondrial 2 4
MIRT592753 Elovl1 elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1 2 2
MIRT593199 2900026A02Rik RIKEN cDNA 2900026A02 gene 2 2
MIRT593612 Ufd1l ubiquitin recognition factor in ER-associated degradation 1 2 2
MIRT596908 Trim43b tripartite motif-containing 43B 2 2
MIRT598555 Irs4 insulin receptor substrate 4 2 2
MIRT603460 Rhag Rhesus blood group-associated A glycoprotein 2 2
MIRT603740 Mrpl41 mitochondrial ribosomal protein L41 2 2
MIRT605144 Cecr6 cat eye syndrome chromosome region, candidate 6 2 2
MIRT734371 Nos1 nitric oxide synthase 1, neuronal 3 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-188 Reversine NULL 210332 Microarray C2C12 myoblast cells 24513286 2014 down-regulated
miR-188 Bio-Oss NULL NULL Microarray osteoblast-like cell line (MG63) 20224834 2010 down-regulated
miR-188 Nicotine approved 89594 Microarray Rat adrenal pheochromocytoma PC12 cell 18845019 2009 up-regulated
miR-188-5p Hesperidin NULL 10621 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-188-5p Narangin NULL 442428 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-188-5p Ginsenoside Rh2 NULL 119307 Microarray NSCLC cell line A549 23152132 2013 up-regulated

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