miRTarBase - #MIRT592753


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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 Elovl1   
Synonyms AA407424, BB151133, Ssc1
Description elongation of very long chain fatty acids (FEN1/Elo2, SUR4/Elo3, yeast)-like 1
Transcript NM_001039175   
Other Transcripts NM_001039176 , NM_019422   
Expression
Putative miRNA Targets on Elovl1
3'UTR of Elovl1
(miRNA target sites are highlighted)		 
>Elovl1|NM_001039175|3'UTR
   1 GAAGCATGGCCTAGACATTGCCCACCTAAGTGCCTCAGGACTGCACCTTGGGCAGCATCCACAAGTGTCCTCTCTACCTA
  81 CACCCGTGACCAGGGCTCTGTGGTCAGGACTGAGCAGGCGGACTGGCTCTCCCCTCCCCACAGCTGGTCCACAGGGGCCA
 161 CTGTTCCCATCCCTTCTCCCAGCCAGCTCCAGGGATGTGGCCTCACTGCTGTCTGCCACCAGAACTGGAGGCTGAAAGGG
 241 CTGGACACTTACTTCCCCCTCCCTGCCTTAAACTTGGGAGAGGAACACTCAGGGCTGGCCGGCACGCACCCGGGTCTTGT
 321 GGCCTTTCTCCTCACACTGAAGAGGTCAGCAATAATCTGTCACTGTGGACTCAGGCTCCCTTCTCACTCCACATGGAAGC
 401 ATGAGCTTCGGGCCAAAGGTCAGAATGGGCAGGCAGCAGGCCTGGAAGTCAGGCTGTGCGCTCACTTGTGTCTTAATTAA
 481 AGTGACGGGAAACCACTGAGATTGTGTGTGTGTGTAAATGAGGTGCGGGACACAGCTTTAGCTCTGGCTTGTTTACAAAC
 561 AAAAGGGATGGGTGGTAGTGCATGCGGTAATTCCAGCTCCTGGGGAGGGTACAAAGCAGGAAGCTCAAAAGAGCCTGAAC
 641 CCTGTCTCAAAAGAAAAATGATGCTCAGTAGGCAGGGCTCTGGGTTTGGTCCCCTAAACTACAAAAATAATATAAAAAGG
 721 GGGGTTGCCAAGTCTAGCTCTAGTCAGAGTAGGGGAAGCATGTAGGAAGGATGCTGGGACATAAGGAAGATACGAACTTT
 801 ATTAGAAAAAATAAAATAAAAACAAGAAAGGAAAAAAAAAAAAAAAAAA
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' gggAGGUGGUACG--UUCCCUAc 5'
             |::| ||  |  ||||||| 
Target 5' ttgTTTA-CAAACAAAAGGGATg 3'
 549 - 570 143.00 -14.80
2 
miRNA  3' ggGAGG--UGGUAC--GUUCCCUAc 5'
            ||||  :||| |  | |||||| 
Target 5' ttCTCCCAGCCA-GCTCCAGGGATg 3'
 174 - 197 126.00 -22.20
3 
miRNA  3' ggGAGGU-GGU-ACGUUCCCUac 5'
            |||:| :||  |:|:||||  
Target 5' agCTCTAGTCAGAGTAGGGGAag 3'
 736 - 758 123.00 -17.10
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Liver
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 ERR266298. RNA binding protein: AGO2. Condition:A_Untreated ...

- Schug J; McKenna LB; Walton G; Hand N; et al., 2013, BMC genomics.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gggagguggUACGUUCCCUAc 5'
                   :|||| | |:| 
Target 5' ugggugguaGUGCAUGCGGUa 3'
 		1 - 21
Article - Schug J; McKenna LB; Walton G; Hand N; et al.
- BMC genomics, 2013
BACKGROUND: Validation of physiologic miRNA targets has been met with significant challenges. We employed HITS-CLIP to identify which miRNAs participate in liver regeneration, and to identify their target mRNAs. RESULTS: miRNA recruitment to the RISC is highly dynamic, changing more than five-fold for several miRNAs. miRNA recruitment to the RISC did not correlate with changes in overall miRNA expression for these dynamically recruited miRNAs, emphasizing the necessity to determine miRNA recruitment to the RISC in order to fully assess the impact of miRNA regulation. We incorporated RNA-seq quantification of total mRNA to identify expression-weighted Ago footprints, and developed a microRNA regulatory element (MRE) prediction algorithm that represents a greater than 20-fold refinement over computational methods alone. These high confidence MREs were used to generate candidate 'competing endogenous RNA' (ceRNA) networks. CONCLUSION: HITS-CLIP analysis provide novel insights into global miRNA:mRNA relationships in the regenerating liver.
LinkOut: [PMID: 23597149]
CLIP-seq Support 1 for dataset ERR266298
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Untreated
Location of target site NM_001039175 | 3UTR | UGGGUGGUAGUGCAUGCGGUAAUUCCAGCUCCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
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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