miRTarBase - #MIRT580259


—
pre-miRNA Information
pre-miRNA mmu-mir-466e   
Genomic Coordinates chr2: 10479088 - 10479171
Synonyms mmu-mir-466e, Mir466e
Description Mus musculus miR-466e stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-466e-5p
Sequence 12| GAUGUGUGUGUACAUGUACAUA |33
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Trim12c   
Synonyms 9230105E10Rik, Trim12-2
Description tripartite motif-containing 12C
Transcript NM_001146007   
Other Transcripts NM_175677   
Expression
Putative miRNA Targets on Trim12c
3'UTR of Trim12c
(miRNA target sites are highlighted)		 
>Trim12c|NM_001146007|3'UTR
   1 CATTTGCCTGTTTACTTGCAGGGTCTCTGGCTCTGATATGTATGTCCATTTGCCTGAGCTCATCGTACCATTTTCTCTCT
  81 CTTTTTTTTTTTCCTGACTCTAGTCTTTCTGTGTGAATGTCTTTCATTGGTAAAAAAGGATATATTCATTTCTCTAGGTC
 161 AGATTCTTCTCAGTTTCTTTCAGTTTTGTTTTGTTTTAGATGAGAATAGTAAATCACTTCCCATTTGGTCAAGGAAAAGT
 241 GCCTGAGTGCTCATTGTGTAAGATAACACTGCTGCAAAGTTCTCTTATTCTTCATGCCAGAGGTGGAAGCCAAGGCCTTG
 321 TGCATGGTGAGGAGGTGCTCCACCCCTGAGGAGGTGCTCCACCACTGAGCTAATTACCTCAGCTCTGTCAGTTCTCTATA
 401 ACTTCATCCTGCATATCAATGAAAGAAGATTAAAGAAAGTTCAACAACTTGTCCATTCATTCTGAAAATTATAGGTAGGA
 481 ATCTGTGGTTAAGAAATGCACCCTTAGCTGTAGGCCAGTTTTACCAGGATGCATCTTCATCAAAGAATGAAGGAGAAGCA
 561 TCACAATGAGGCACACTGTGTTCTTGCTCAGGCGTCATGTGTTCCCAAAGTAGAATGATCAGGGAATGTTAATATGGCCC
 641 CTGCTCATAGATGACATGCGAGTTTATGAAGCATTCCATATTTTTGAAGAGCATTGATAGTCTAAATCATGTTAGAGAGG
 721 AGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGAAGGGA
 801 AGGAAAGGAAAGGAAAGGAAGAAAGAAAGAAAGCTAAAGAAGATACTGTGTTCGGAAGGGAAGGGAAGAAAGAAAGAAAG
 881 AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA
 961 AGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGCTAAAGAAGATACTGTGTTCAGAGTATCTGAGCTCCAGTCATAGTT
1041 CCAAACGTGTCAGCAGTGGCAGTGTGACTATGCTTATTTTCGTACTCTGCCTCAAGCCAGTATGAGAAATGGGCCAGTGG
1121 GAAATAGTCCTTGTCAACAAGCCTGAGCACTTGAGTTCAATTCCCTGCACCTGACTTCCACACATATGTTGTAGCATGTA
1201 GAGGCCCAGACATGTACACAAACACAAATTGTGTAAATATAATTTTTTTCATGAAAAGAAACTAGGTAAGGGTAGAGCAT
1281 CCACTGAATTATATCAGTGTTTATTCTGTTAATTACTGTGAGATACATGCTGTGTTATAGTGTCCCATGAAACCATGGGA
1361 AAATAAACAAGGGTTAGCTTTCCTGAAGTCTTATTACTAGTCCCTTAAATAACAATTATCATTACCTGACCATTCCGCTT
1441 TTTTATGGAGGGGTGTGTGTGTATTCTTAGTGATCACTTTCTTTAGTCACAATAAAGACCCCAAATGAATAAGGTACCAT
1521 GTGTGTATATATATACACATATATACACACACACATATATATATCAACTACTAAATTGTTATATTCATTTTATTTTTAGT
1601 AATAATGGCAGTAATAAATTTATCTTTTGGTATATTGTAAAACATAAATAAGAGTTATTACTAAGATTTACATTGTTTCA
1681 GGCATGTGACTGGCAGTCCAGTATGGTGTCTTATTCCTTTGGGAAACCTTATCACTGTGACTAAATTAAATGATCATTAA
1761 GACCCTGTATCAGAACCTTGCATGGGAGCTCATACCTGCCGTGCTGCATCTGGGAAGTTGTGGCAGGAAGATTGCTCTGT
1841 ATTTGAAGCCAACCTTGTATACAGAGTAAGACCCTGTTTAACATAATAAAGAATATATATTGGTTTATTACTCCATTATG
1921 TTTTAAGAAATGGAATGACTATATTGCAGAACTGCAGGTTTTTGATTGTTTTTACAATTTATAATTCTTTTGTCTACTAC
2001 AAATAAATGCTCGTAACTTCA
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' auacAUGUACAUGUGUGUGUAg 5'
              ||:||  |||||||||| 
Target 5' cacaTATATACACACACACATa 3'
 1536 - 1557 170.00 -16.20
2 
miRNA  3' auACAUGUACAUG--UGUGUGUAg 5'
            || || || ||   ||||||| 
Target 5' ccTGCACCTG-ACTTCCACACATa 3'
 1164 - 1186 153.00 -9.30
3 
miRNA  3' auacaUGUACAUG----UGUGUGUAg 5'
               ||||||||    ||||| || 
Target 5' cccagACATGTACACAAACACAAATt 3'
 1205 - 1230 139.00 -17.12
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.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' auACAUGUACAUGUGUGUGUAg 5'
            ||||:|| ||:|||||:|| 
Target 5' ugUGUAUAUAUAUACACAUAUa 3'
 		16 - 37
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_001146007 | 3UTR | GUGUAUAUAUAUACACAUA
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_001146007 | 3UTR | GAAUAAGGUACCAUGUGUGUAUAUAUAUACACAUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
145 mmu-miR-466e-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT410978 Ado 2-aminoethanethiol (cysteamine) dioxygenase 2 2
MIRT417624 Lifr leukemia inhibitory factor receptor 2 2
MIRT432330 Igf2 insulin-like growth factor 2 2 4
MIRT577332 Zfp157 zinc finger protein 157 2 2
MIRT577683 Slc39a14 solute carrier family 39 (zinc transporter), member 14 2 6
MIRT577854 Rassf5 Ras association (RalGDS/AF-6) domain family member 5 2 2
MIRT578123 Nqo2 N-ribosyldihydronicotinamide quinone reductase 2 2 2
MIRT578174 Neu1 neuraminidase 1 2 2
MIRT578293 Mavs mitochondrial antiviral signaling protein 2 2
MIRT578540 Htr1f 5-hydroxytryptamine (serotonin) receptor 1F 2 2
MIRT578635 Gtf2h2 general transcription factor II H, polypeptide 2 2 2
MIRT578659 Gramd1c GRAM domain containing 1C 2 2
MIRT578883 Fam107a family with sequence similarity 107, member A 2 6
MIRT578911 Entpd1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT579075 Cox15 cytochrome c oxidase assembly protein 15 2 4
MIRT579095 Cnih3 cornichon family AMPA receptor auxiliary protein 3 2 4
MIRT579133 Chrna1 cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) 2 2
MIRT579301 BC021785 major facilitator superfamily domain containing 4B5 2 2
MIRT579361 Aplnr apelin receptor 2 2
MIRT580013 Whsc1l1 nuclear receptor binding SET domain protein 3 2 4
MIRT580126 Ubn2 ubinuclein 2 2 2
MIRT580259 Trim12c tripartite motif-containing 12C 2 2
MIRT580358 Tmem26 transmembrane protein 26 2 2
MIRT580397 Tmem170b transmembrane protein 170B 2 2
MIRT580836 Smarca2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 2 2
MIRT581003 Six4 sine oculis-related homeobox 4 2 2
MIRT581112 Sept3 septin 3 2 2
MIRT581333 Rgs8 regulator of G-protein signaling 8 2 2
MIRT581426 Rasal2 RAS protein activator like 2 2 2
MIRT581434 Rasa2 RAS p21 protein activator 2 2 2
MIRT581473 Rabgap1 RAB GTPase activating protein 1 2 2
MIRT581601 Prkcd protein kinase C, delta 2 2
MIRT581808 Plag1 pleiomorphic adenoma gene 1 2 2
MIRT581914 Pgm3 phosphoglucomutase 3 2 2
MIRT582069 Onecut2 one cut domain, family member 2 2 2
MIRT582600 Lrrc40 leucine rich repeat containing 40 2 2
MIRT582752 Klf8 Kruppel-like factor 8 2 2
MIRT583022 Htt huntingtin 2 2
MIRT583260 Gnb4 guanine nucleotide binding protein (G protein), beta 4 2 4
MIRT583313 Gfod1 glucose-fructose oxidoreductase domain containing 1 2 2
MIRT583618 Fam46a family with sequence similarity 46, member A 2 2
MIRT583813 Eif2s1 eukaryotic translation initiation factor 2, subunit 1 alpha 2 2
MIRT583908 Drp2 dystrophin related protein 2 2 2
MIRT584442 Ccdc85a coiled-coil domain containing 85A 2 2
MIRT584656 B4galt6 UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6 2 2
MIRT584859 Appl1 adaptor protein, phosphotyrosine interaction, PH domain and leucine zipper containing 1 2 2
MIRT584912 Akap10 A kinase (PRKA) anchor protein 10 2 2
MIRT585294 Zfp26 zinc finger protein 26 2 2
MIRT585429 Wars2 tryptophanyl tRNA synthetase 2 (mitochondrial) 2 2
MIRT585487 Txlnb taxilin beta 2 2
MIRT585694 Tbc1d24 TBC1 domain family, member 24 2 2
MIRT585739 Steap2 six transmembrane epithelial antigen of prostate 2 2 2
MIRT585878 Slc22a8 solute carrier family 22 (organic anion transporter), member 8 2 8
MIRT585907 Slc17a5 solute carrier family 17 (anion/sugar transporter), member 5 2 2
MIRT585960 Sike1 suppressor of IKBKE 1 2 6
MIRT586177 Ptprr protein tyrosine phosphatase, receptor type, R 2 2
MIRT586589 Mrgpre MAS-related GPR, member E 2 2
MIRT586806 Ints8 integrator complex subunit 8 2 2
MIRT586919 Heatr2 dynein, axonemal assembly factor 5 2 4
MIRT586945 Gstt3 glutathione S-transferase, theta 3 2 2
MIRT587123 Gfpt1 glutamine fructose-6-phosphate transaminase 1 2 2
MIRT587151 Gcnt4 glucosaminyl (N-acetyl) transferase 4, core 2 (beta-1,6-N-acetylglucosaminyltransferase) 2 2
MIRT587239 Nxpe3 neurexophilin and PC-esterase domain family, member 3 1 1
MIRT587482 D630045J12Rik RIKEN cDNA D630045J12 gene 2 8
MIRT587489 D630003M21Rik RIKEN cDNA D630003M21 gene 2 2
MIRT587602 Cml2 N-acetyltransferase 8 (GCN5-related) family member 2 2 2
MIRT587664 Cdk7 cyclin-dependent kinase 7 2 2
MIRT587741 Cd28 CD28 antigen 2 2
MIRT587752 Cd200r1 CD200 receptor 1 2 2
MIRT587775 Ccpg1 cell cycle progression 1 2 2
MIRT587839 Casp8 caspase 8 2 4
MIRT587959 Asah2 N-acylsphingosine amidohydrolase 2 2 2
MIRT588288 1700019G17Rik N-acetyltransferase 8 (GCN5-related) family member 4 2 2
MIRT588355 Zfp518b zinc finger protein 518B 2 2
MIRT588392 Zeb2 zinc finger E-box binding homeobox 2