miRTarBase - #MIRT581630


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pre-miRNA Information
pre-miRNA mmu-mir-350   
Genomic Coordinates chr1: 176772325 - 176772423
Synonyms Mirn350, mmu-mir-350, Mir350
Description Mus musculus miR-350 stem-loop
Comment Kim et al. cloned 40 new miRNAs from rat E18 primary cortical neurons .
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-350-3p
Sequence 61| UUCACAAAGCCCAUACACUUUC |82
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Prkaa1   
Synonyms AI194361, AI450832, AL024255, AMPKalpha1, C130083N04Rik
Description protein kinase, AMP-activated, alpha 1 catalytic subunit
Transcript NM_001013367   
Expression
Putative miRNA Targets on Prkaa1
3'UTR of Prkaa1
(miRNA target sites are highlighted)		 
>Prkaa1|NM_001013367|3'UTR
   1 ACCTAAAATTTTGCTTATTTCTTTGATGCAATAAGCATGCATAATAAATAATAGCCAAATACTTCCACTTACCAAGTTAT
  81 ATATATGTGTGTATATAACTGAGGATTGGCCTTTTGGAATGCAGTTTGCACAGGGACTGGAAAACGATTGATCGTTAAAA
 161 GCCTGATGTGCAGAATTGAATGAGGATCACTCTGTTATCCCGTATTCAGTAGGTACACACAGCGTAACACACACACAATG
 241 GACTGTAGGTCTCAAGCTTACTTGACTTTTGGCCATTTGAATTTGCTGTAACAGGTCTCAGTCGACCATAAATTTACCAT
 321 AAAGCCTTCACATATTAGTACATGTTGATGTATTTTATATTAGCTTCATGAATTTATTGAGTTGCCTGGAATCCTCATAG
 401 ACCTTATTAGATAATGCTGTTTTCTGGGCTCCTTAACTTCCAAAATAGCTACTAGTTTCCATTTTTGGTTACATTGTGAA
 481 CTATTTCCATATTCCTCTTAACATGCTATTTTTGTGTAGTAAGTCATTTCAGAGAGCAGTCTGGATTTAACATTTTTCTT
 561 TGGCTTGTGAGCCCCCAAAGCCCCAGAATTTATATGTTCAGACCCTCCAAGCCCTGAATTTACTTTTTCAGGTTTGCCCT
 641 TTTATATATGAAGTGCTGCTTTGGATCCAAGAGCCGAGTTGCTCACACTGTAGTGAATCGTGTTGCTTCTGTCAGTGCAC
 721 AGAGACGCTATCATGTCAGCCAGTGTTGAATGTCTTTGGTATTTTCTAAGCCAATCCAGTGCATAGAAAGGACAGTGTTT
 801 ATACGCTCTGAATGCTAGGATTGGGGTTTTAGCCCCTGATTTTATTCTGGACAATTTTTAAAGAAAGAAAAGTTGCAAGA
 881 ATTTAGTGACTGCATGTGTATTTACTACTTAGCTCCTACAACTACTGTTTGGCCATATTTGCTCTCTAGATCCACACATG
 961 TATAATATACAGATATGCACATATATTCGAGTATATGTTTGCTTTTATTCTGAACCACTGAGATGTTAAGGTATATATAT
1041 ATATATATATATACCAGCCCTGAATACTTCAGCACTTCCTAAAAATAATAATAATGTCCTTTAGAAACCTTCTGAAACCA
1121 TTATAAAATCAATAATTTCCAGATAGTGCCTGGTTTTCCAGATTAGCTGTAACTGCCCAGAATTCCATTTAAGTTACAGC
1201 CTGATTTTATTTGCAGTTCTTTAATCAGGTTAATAACACTATTTTGAAAAGATGTAGAAGAAATCCTTTCTTCAAACTGG
1281 CCAAGTTTATTTCAGGTTTTAATTCAAAATAATGAGTGGCTAAAGAAGTGTGATTTTTCTTCAATCTCTGATTTATATGC
1361 CTCTCTCCTTTTAGTGGTAGCATAGCATAATGGGTGTAAGTGAAGATTTAAGTCACGCTAGACAAAGCCGGTATTGTGTG
1441 AGCTAATAATTAATGTCATATTGGCCATATTTGGTTTCCTTTAAGTTTAGGAAATTGGTCAGAGGCTCTAGCCCAGTGGT
1521 GAGGCTGGGTCATCTCCAGCAACGTGAAACAAAATGCATTTTCTTTAAACATTAACCATCCCCCCTTTGTAAGAGAGACT
1601 TTTCCCCCCACTGCATTCATTTAAAAATATTTTGCCCCATCCCCAAACCTGTCCAGCACTTATGTAAGAACGCATTTGGA
1681 GGACATGATAGCTTGCATAAAAGATGACGCTATAGTTTATGCACTGATTTCCGGACAAAAATGATGCTTCTTTTTGTTCG
1761 GGGCTTGTTTTATTCAACTCCGAATTGAATGCTGTATAAAGTAATGGAGACTCCATTTACCTGAGTTCCTGACTGTATTT
1841 ATACCTGTGTGTTTGTGCCCTCTGTGTGGGGCTCCCTGATGTCACGTATGCTGTCTGAATGCAGCGCTGTATTCCCGCTG
1921 TGTAGAACAGAAGGCTGCATTTGTAAAGTTATAGATTTGTAAATAAAACTGAGGAATATCTCTATAAACTGTTGGGGGGA
2001 CGGGGCACAAAAGGAGGAGCCAACTAAATAGGACCTTCTAAAATTTGTTAATTTTGTAATCTTTGCTTCTTTTATAAGTT
2081 ATTCTGTGATTCCTTTTAGTTACCGAGTTTTATTTTGAAGACATTAAAATATTGCACTTGTATAAATAGTATGATAAATG
2161 CAGACTATTGCAGTCAAATTTTTTAAAAGCTAGGATATCTGAAATGACAACTTTCAGTTAAGTATGTCAAGCCCAGGACA
2241 GGATTTTCACAAATGTATTGTAGTTTGCAAATTCTTACACTGAAAATGTAAAGGGAGTCAATGCAAATGATTTTTAATCT
2321 TTTTTTTATTATCTTTTCAGCAATTTATATTTTCTTGTGATTTTATGCAACCATATTTTTACTTTGTCTTGACAACTGAA
2401 AGCTGTGTGATGTTTTTGACAGAAAAGTACTGTATACATAGTTTTAAATATAACAGATTTTGCTGATATGTAAAAATTTT
2481 GCCATTAAAGTTGATTTCTCATGAAAGGAACTTTTCTACCAAGTCGGGAGACGCAAGAGCTTAATATATCTAATTTAAAA
2561 TAATTTCACTGAAATAAACACCATTGCTTTTACTTTGATTCTATTTTTTTCTTAAGATGCTTTTATAGTGTTTGGGAGTT
2641 TTAGATAATTTTATATGAATTCTCTCCCTACCTTGCCCCATCCTTTGGATCTTTGATACCATTCACAAATAAACTCATGT
2721 GGCTGGGTGTGTAAAGATATGTACCCCAAGGGGCATCTTGGGAAAGAAAACCATAAATTCTTCTCCTTAACTCCTCCCTC
2801 TGCCTGTTCATTGTGGGCTCTGACATGATGAATGGAATGCCACACACAGCCTGACTGTAAGCCGTTGTTGGGAGGAGTCC
2881 ACCATTGTGGCTTATGTATGTTTGCCCAGAGTAACCTGATTTAGAAAGATGGCATAATAAAGAAAAAAGTTCGTTTTTCA
2961 TTTGTTA
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' cuuucACAUACCCGAAACACuu 5'
               |||:||   ||||||  
Target 5' ataccTGTGTG---TTTGTGcc 3'
 1841 - 1859 134.00 -8.20
2 
miRNA  3' cuUUC-ACAUACCCGAAACACUu 5'
            ||| |||:||   ||| ||| 
Target 5' gaAAGCTGTGTGATGTTTTTGAc 3'
 2398 - 2420 132.00 -10.60
3 
miRNA  3' cuuucAC-AUACCCGAAACACuu 5'
               || |||   :||||||  
Target 5' taacaTGCTAT---TTTTGTGta 3'
 499 - 518 126.00 -5.10
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 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' cuuucacauacccgaAACACUu 5'
                         |||||| 
Target 5' --------gguuacaUUGUGAa 3'
 		1 - 14
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]
27 mmu-miR-350-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT435011 Lars2 leucyl-tRNA synthetase, mitochondrial 1 2
MIRT577176 Tet1 tet methylcytosine dioxygenase 1 1 5
MIRT577951 Pole4 polymerase (DNA-directed), epsilon 4 (p12 subunit) 1 1
MIRT579173 Cd70 CD70 antigen 1 1
MIRT580234 Tsga10 testis specific 10 1 1
MIRT581630 Prkaa1 protein kinase, AMP-activated, alpha 1 catalytic subunit 1 1
MIRT584029 D230025D16Rik RIKEN cDNA D230025D16 gene 1 1
MIRT588424 Zbtb6 zinc finger and BTB domain containing 6 1 1
MIRT588528 Usp45 ubiquitin specific petidase 45 1 2
MIRT588917 Skor1 SKI family transcriptional corepressor 1 1 1
MIRT589679 Larp1 La ribonucleoprotein domain family, member 1 1 2
MIRT590168 Elp4 elongator acetyltransferase complex subunit 4 1 1
MIRT593065 Ehf ets homologous factor 1 1
MIRT593183 BC068281 WD repeat and coiled coil containing 1 4
MIRT595160 Cbfa2t3 core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human) 1 1
MIRT596758 Utp23 UTP23 small subunit processome component 1 1
MIRT596783 Ubxn2a UBX domain protein 2A 1 1
MIRT597289 Slc1a7 solute carrier family 1 (glutamate transporter), member 7 1 1
MIRT597494 Rbm41 RNA binding motif protein 41 1 1
MIRT600204 Ube2j2 ubiquitin-conjugating enzyme E2J 2 1 1
MIRT603448 Ric3 RIC3 acetylcholine receptor chaperone 1 1
MIRT604253 Cercam cerebral endothelial cell adhesion molecule 1 1
MIRT604915 Iqcj IQ motif containing J 1 1
MIRT605131 Cnnm3 cyclin M3 1 1
MIRT605214 Arnt aryl hydrocarbon receptor nuclear translocator 1 1
MIRT605697 Ifnar1 interferon (alpha and beta) receptor 1 1 1
MIRT606256 Polr1e polymerase (RNA) I polypeptide E 1 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-350 Hesperidin NULL 10621 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-350 5-aminoimidazole-4-carboxamide-1-β-d-ribofuranoside (AICAR) NULL 16078949 Microarray hepatocytes 23107762 2013 down-regulated
miR-350 Tamoxifen approved 2733526 Microarray rat liver 17343880 2007 down-regulated
miR-350 Ursodeoxycholic acid (UDCA) approved 31401 Microarray rat Liver 20689055 2010 down-regulated

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