miRTarBase - #MIRT594471


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pre-miRNA Information
pre-miRNA mmu-mir-682   
Genomic Coordinates chr13: 75645046 - 75645141
Synonyms Mirn682, mir-682, mmu-mir-682, Mir682
Description Mus musculus miR-682 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-682
Sequence 74| CUGCAGUCACAGUGAAGUCUG |94
Evidence Experimental
Experiments MPSS
Putative Targets

Gene Information
Gene Symbol Edil3   
Synonyms Del-1, Del1
Description EGF-like repeats and discoidin I-like domains 3
Transcript NM_001037987   
Other Transcripts NM_010103   
Expression
Putative miRNA Targets on Edil3
3'UTR of Edil3
(miRNA target sites are highlighted)		 
>Edil3|NM_001037987|3'UTR
   1 AGTGCGGGGCCGCACATCCCACAATGCTTTTCTTTATTTTCCTATAAGTATCTCCACGAAATGAACTGTGTGAAGCTGAT
  81 GGAAACTGCATTTGTTTTTTTCAAAGTGTTCAAATTATGGTAGGCTACTGACTGTCTTTTTAGGAGTTCTAAGCTTGCCT
 161 TTTTAATAATTTAATTTGGTTTCCTTTGCTCAACTCTCTTATGTAATATCACACTGTCTGTGAGTTACTCTTCTTGTTCT
 241 CTGAATTCTATAGATTGGTTGAAGTATAGTAGGCAAAGCAAGTCTTCTTTTTACAGCAAAACTTAAAAACAATCTCACAG
 321 TCATCAGATGGAAGGGTTAAGGGAGAACTTTGGTCACTATTCAATTAACTCTTATAAAATGTTACAATGTTAGCAATACA
 401 GTTTTTTGTTATGAATTTGATCATCTTGATTGTTTCCCTGTGTCTAATGCTGTTAGTATGTATTACAGAGACTTGGTGAA
 481 AATTATTTGATATGCAGGACCATTAATATGACAATTCTAGTTTTATTTTTTTCACTTACAATAAAATACTAAGTTCTTTA
 561 TGTTTAATTTTATATTATTTATATGCTACATAAACAGGCCAATATTCTTTGTCATTGCATTTTCTCCCTTTATTTACCTT
 641 AAAGTCCTGTTTTTATTTATAGACACAGAACATATATTAATATACGTTGAACATGATTGGATATCAGTAAATGCTTCTAT
 721 ATTAAACATTAATACATTGAATCTGAATTTTCATTTTTGAAGAAAGCTATATGCATTTCATTTCCAAAGGCTATCTGAGA
 801 TTCCCTTGTTACAGTTTAGTGAAAAAGAACAGAAAAACACTATGGCCCTTGAATTTAAATCTTCATTTCTTTGAGATAAC
 881 AGAATCACTATCTGTGTGTTTAATACACTAGCAAATGTATGTGAGCCTACTGCTGCACAGCTGGGCTAAGTGCACTCAAC
 961 AATTCTTTGCAAATTTCCACATTTCCTGTGAAATGAAAATTCCAATGCTGTTTAAAACCAGTGGTAGTTTCTGAAGAAAG
1041 CACATTGTAAAATTATTTGTGAGAAGCGACGTATTTACAAATGACAAAGTCATAAAACATCTTCAGGATGAAAATTGATT
1121 TTTATTTCTTTTGCTTCAAAGGTCTTAGAAAAACTAAGCAATTATCATAACAGTTTGTTATTGATAATGGAGGCATCATT
1201 GACATATGTCTCAAATTAAAGCTCACACTGCCTCCATAAATGTCCTACATACCTAATTTATAAGCTTAACACATATTTAT
1281 TTTATAAGGCTTTGACACAGAATTATTGGAGTTTTAAATTGAAGATCCAGGAAAGGAAAGGGTGGATGTGGATGAAATGC
1361 TAAAGAACTACACAACACTGCTATATTTTATTTTATTTTTGTCTTTAATATGTGTGCTGTATAAGCAAAGCCACTACTGT
1441 TATGTCCTGTCTGTTCACGTGTTCACAGCATCTCTCAATGATGTAAATATGAAGCAGTCTTCAATCACAGTGAAGAATTG
1521 AAAGTGAAAGTCAATCACATTACTGTTTTAAATGACAGCAAATTCATTGTTCTATGGTAACTGTCAGGCCAAATGTTTCT
1601 CCTTGCCCACCTGCTTACTGCAACAGATTTGTTAAAAATCTGTTGATTTTCAGCATATAAAATGCTGAATAATTTTTAAC
1681 ATTTTCCCAAAAGAAAACTGATATGCCCTCAATATTATTGTCCTAGAAAATGTTTTAAATTATTAATATAGAATATTTAA
1761 AATAGTATTTTTAATTAAAATAGTTATACATAGAATCACTTATGCCCTAAAGGTACATTTTCTGTCTTGCCATGGTCCTT
1841 GTTTCTATCAGTGATAACCATACTACTGAATTTGTAGCTGTTTTTCCTTGCAGATTCTTTATCCTTAATATAAAATTCCA
1921 GAAATTATGAATAATACGCTGTGCTGAAATACTTTTCAAAACTGTTCTTGATTTCATGTGGCACTGCTGGTACATGTTTA
2001 AAATTTGTTCTCCAAAGGAGTTGTTAGTAATGGTATCTGCTACTATTTACAAGGCTGGTGAGAGGCTTTCTCTTGCTTGT
2081 CCTCTTCCTCTCAGCTTCATGCGCTACCTACAGCATAGCTTACGCAATGGATATGCGTTTGTCCACAAGGGTGCTTGCAC
2161 AAAAATTAATGACATGTATTAGGGAGTAGCTTGTATCAGTGGCTTCAAGTCGAAACATGGAATTTTCATTTAGTTTTATT
2241 TGCAAGTAAAATTTTACAAACACACAACCTGGAATTCCCTACTCTTCACTATACTACATAATTATTATGAGATAATTTCA
2321 TTGTATAGAAGATTATGAATTAATTAGCTTTAAAAATATCAATTTCATGTATTTTATTCTAATCATTTGTCACAGACACT
2401 AATTCCAACTTTAGGGTTGACTTTCTCTCTGTGAATGTCTTCAGAAAGATAAGAATGGATCTTGAAGACCAGGCATTAAT
2481 GACTATATCTTTGCTAGACATCAAATTATGAAATATAACATTGAATGTTGTAGTCTGGTGTGTCTGTAAGGACAGAAATA
2561 ACTAAGATACACATAACTTTTGCAAACTTTCAAGCTGTGTAATATTCCAATGTTGTTGTTTTTTTTTTTGTAGATATACT
2641 TAAATCATGTAGGATGTTGTAAACTCAGTATGATCCTGTCTAGTCTTCAAACTTAAAATAAACTTTTGAAAAACTGTGCT
2721 ACTTTTGAAGTTGTGTTTTAAACATCTGTGTAAGAATGTACAAATTGTCTGTGGCTGCCCTTAACCTTCAACATATGATT
2801 AGCTTAATTTGTATTTATATAGATTAACTAAATGCACAAAGAAAAAGAGATTATAATTGTATAATTATTTTAAAATATAA
2881 GACTGCAAAAGTGGTTTTGCCAAGATTATAAAAATGTATAAATTTATCCATACCTTTTTATTTGCAGAGATTTTGCAAAA
2961 TATTAATAATCCAATTGTTTTCTCCAAATATATATTTAGAGTAGTATACTATAAGACTGATAAATCTATTATTATTCATA
3041 CAACATTTCTATTGCTTCTATTGTTCTTTCAAATTTATCATGCTCAGGAGTATATTGAAGGAAGCTGGTTGGTAATAAGC
3121 TACAATGTGACATGAATAATACATATTAGCCTCTAACTCCAGCTATTGCTTAATGAAAGTCTGAACATGTGGCTTCTTTA
3201 AGAACAGTCTTTTCTGGTTCTGTAGAAGCCACGAGTAAAAAGGGGATGTGTAACTCTAACACTTCAATATTTTCTTAGGA
3281 TTAAAAATTTAGAGTAAAACTAAAGATATTAAAAGTTGTTTTCTTCAAGCAGATCTCTGGTAGATCAAGTTTCATGGTTT
3361 TGTATACCAACATGTTCCTATCAAAGTAAATTTTAATATGAATGC
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' gucUGAAG--UGACA--CUGACGUc 5'
             |:||:  | | |  ||||||| 
Target 5' attATTTTAAAATATAAGACTGCAa 3'
 2864 - 2888 146.00 -11.20
2 
miRNA  3' gucUGAAGUGACACUGACGuc 5'
             | ||  |||||:||||  
Target 5' acaAATTGTCTGTGGCTGCcc 3'
 2760 - 2780 130.00 -17.10
3 
miRNA  3' gucUGAAGUGAC-------ACUGACGUc 5'
             || |:||||       |||| ||| 
Target 5' atcACATTACTGTTTTAAATGACAGCAa 3'
 1534 - 1561 126.00 -8.71
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0003459
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 GSM1013594. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013595. RNA binding protein: AGO2. Condition:CD4+ T cells ...

- Loeb GB; Khan AA; Canner D; Hiatt JB; et al., 2012, Molecular cell.

Article - Loeb GB; Khan AA; Canner D; Hiatt JB; et al.
- Molecular cell, 2012
MicroRNAs (miRNAs) are essential components of gene regulation, but identification of miRNA targets remains a major challenge. Most target prediction and discovery relies on perfect complementarity of the miRNA seed to the 3' untranslated region (UTR). However, it is unclear to what extent miRNAs target sites without seed matches. Here, we performed a transcriptome-wide identification of the endogenous targets of a single miRNA-miR-155-in a genetically controlled manner. We found that approximately 40% of miR-155-dependent Argonaute binding occurs at sites without perfect seed matches. The majority of these noncanonical sites feature extensive complementarity to the miRNA seed with one mismatch. These noncanonical sites confer regulation of gene expression, albeit less potently than canonical sites. Thus, noncanonical miRNA binding sites are widespread, often contain seed-like motifs, and can regulate gene expression, generating a continuum of targeting and regulation.
LinkOut: [PMID: 23142080]
CLIP-seq Support 1 for dataset GSM1013594
Method / RBP HITS-CLIP / AGO2
Cell line / Condition CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep8
Location of target site NM_001037987 | 3UTR | AUUUUAAAAUAUAAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23142080 / GSE41285
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1013595
Method / RBP HITS-CLIP / AGO2
Cell line / Condition CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep9
Location of target site NM_001037987 | 3UTR | UUUUAAAAUAUAAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23142080 / GSE41285
CLIP-seq Viewer Link
11 mmu-miR-682 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT584928 Aff1 AF4/FMR2 family, member 1 2 2
MIRT589627 Lrrc58 leucine rich repeat containing 58 2 2
MIRT591868 Gpr146 G protein-coupled receptor 146 2 6
MIRT593404 Stk10 serine/threonine kinase 10 2 2
MIRT594217 Ube2k ubiquitin-conjugating enzyme E2K 2 2
MIRT594471 Edil3 EGF-like repeats and discoidin I-like domains 3 2 2
MIRT594847 Npm3 nucleoplasmin 3 2 2
MIRT596228 Atp6ap2 ATPase, H+ transporting, lysosomal accessory protein 2 2 2
MIRT596965 Tmem88b transmembrane protein 88B 2 2
MIRT603532 Ptpre protein tyrosine phosphatase, receptor type, E 2 2
MIRT605428 Synrg synergin, gamma 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-682 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-682 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-682 Reversine NULL 210332 Microarray C2C12 myoblast cells 24513286 2014 up-regulated

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