miRTarBase - #MIRT579594


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pre-miRNA Information
pre-miRNA mmu-mir-465b-1   
Genomic Coordinates chrX: 66829202 - 66829280
Description Mus musculus miR-465b-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA mmu-mir-465b-2   
Genomic Coordinates chrX: 66835764 - 66835842
Description Mus musculus miR-465b-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-465b-5p
Sequence 11| UAUUUAGAAUGGUGCUGAUCUG |32
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol 4930563E22Rik   
Synonyms -
Description RIKEN cDNA 4930563E22 gene
Transcript NM_001163728   
Expression
Putative miRNA Targets on 4930563E22Rik
3'UTR of 4930563E22Rik
(miRNA target sites are highlighted)		 
>4930563E22Rik|NM_001163728|3'UTR
   1 AGTGCCAAAGGTCCTTAGCCAGGACTGAAGAGTTGCCAGCCAGCCATCTTCCAGGAGAACCGAGCATCTTTGGTTTCATG
  81 GAAAGAACCCATAAATCAGTGTAAGAAACAGGCTGTGGTTTCTGGGGGCTGTTAACATGTATTGACATTGCAGCACCTTA
 161 GACCATCCTGTTGTTGACCCCAGTGTGCTATTAACTTGAAGCCAGCACAGAAGGTTTCAGACTGGTAGTGCAGTATAAAC
 241 CTGGCTGATGGACAATGAGATTCTTTGAGTCTCTACACCAGGTAAGTTTTATAGTCTTAGGTCACTCTAGGATGTGTTGA
 321 CGACTTGAAATTTGCAAAGAGGGGCCAAACTTGTCATGATTCTTGACCGCTGGCCTGATCATATACCTGCTTGAAACCTA
 401 CAGGGCAAGGTATCATCTTTCATACATTATTAATTGGCCTTTATTAATACTTATATTTCATTATACATTTTCTCATGTTG
 481 TCATACATAGTATTCCACCCACACTTAAAAAATTAAATCAGGGGGTATAGGAAAAAACAGGACAATTAATAAACAATCAA
 561 TAAAACCATTAATAATCTTGGAAGGGAAAGTAAAGAAGAAGCCATGACACTTGGCCTGAGGCGTGAGATTGACAGGATGG
 641 TAACTGAGTATTACTGCATGCTAGGTAGTAGTTAGAGCATGGCAGCTAGAGCAGTGGAAAAGACTAGGATCTTCCTCTAA
 721 TGAAGAGACATGCAACAAAGGGGAAAGTAAGACAACATGCTGTTGTATTCCCGCGAAGGAAAGGCTGTCTGTCTTGTGGT
 801 AGAGAGTAGGGAACTCTTTAGAGAATATGGTCAGGGAAAGCCTTGCTGATTACATTTGGTCCGAGATTTGTGTGAGTGGA
 881 CAGTGAGCCATATCAGGATCTAGAGGGAAGTGCATTCTAGACAGAAGGGAAAGTCTACATTTTTTTTAAAAATCAAAGAT
 961 GTTTATGTAAGAGAAAGATCAGTTAGTATATGAGAGCGTGGTATAAGGAAGAAAACAAAAAGGAGGAAGATGCCACTTCA
1041 TATAGAGTCTTGGAAATCTTCTGGGATTACAGTAAAGAGCTTGAATTTTATTCTGAGATCATCAAAAGAATTTAGTGCAA
1121 GGGAGCAAAGTGCGTATTGCAGTTTACAGTTTAGAACTACCTCTCCATCGAAGTTGCATTGGTAACCGAGTTGGGAATGA
1201 TTTTGTCTCCAGAAGTGTGTGTGTTTGGGGCAGCGTGGAAGGTGCTCCTGCTTGCCTCAAGTGCCTAGTAGCCAGGGATG
1281 CTGCTAACATCTTATGGTGCCCAGGTCAACACCCTGTCCCTCCTCCAACAAAGAATCGCTGTGCTGAGAAAGGCAAGTCA
1361 TTGGTGAAGTTGAGAAACATTGAGGTTTCTAGCAACTTTGCTAGAGGGTGGTGCACTAAGCAAACCCCTGACTTCTGCAT
1441 AGCAGAATTGCGGAAAAGCCTGAAAGACAGTCATGGAAGTGTGTTCAGAGCATCTTCCGGTGAGGAACAAAAGCAAGCGT
1521 TCTCAGAGGAAGAGGATGTGTTGCTCTGTAAGGAACCCTCTCTCTAGCCTGCTTTAATAATGCATGTGCTACTTGCCACT
1601 AGAACAGAAGGCTGCAGATGCTGATTCTGCAGGACTCCTCATGAGTCAGAGCACTTACTACTTCCAGGCACTAATTTAGT
1681 CCCAGGGAGTGTACTGGACTGTCCCCGCAGAATGGGGGCGCAGGTCAGAAGAAATGTCATAACTGCTAAAGATGTTGATG
1761 TTATAACTACCATCACTACCCCAAGGCTACCTGAATGCCTGTCTGCCTCACAGAACTGCTAGTATCAAAGAATTAGCTAA
1841 TAGCAAAGAATTGTCAGTTTTTTCCAGTTTACTAATTCTTTTTAATATGGCCAACTGTGCCTTAAATAAACAGATAAAAA
1921 AACAAACAAAGCAGTTGCTTCTCTTTGTGTTCCTCATTATCTTCTTGTTGCAAAAGTGGTATGTGTCTAATGTAACAAAA
2001 TAAATCAACATAACAGTTAATACGATATTATATTTCCTGTCCATTACTAGCCTGGAAATAATGTCAGAGATGTGTTTGTC
2081 TGTCCAGACCTTTCTCCATTAGTGACTGCTTCTGTTTCCTCTTTTAGTAGTATTTGGAAGACTGGCTGAATGTGACTCTG
2161 GGAAAGCCAGGCGCCTGCTTCTGGATCGTTGATGCTTCAGGAAGGGCGTGGGAAGGATCCTGGTAGATTCCCTGTGGTCC
2241 TGGTCTTATTTTTATCTAGGATTCTTCCTCCATATTTCACTTATTCATGTTCCAAGAGAGAGAGAGAGAGAGAGAGAGAG
2321 AGAGAGAGAGAGAGAGAATGAATGTAATGAAACACCTTTGCCATAAATCTATATTATACATTCCACAGCTTCAAAATGAC
2401 AGTGTACATCAATGAAGGTAATTGTTGATGTACCCATTGTACTTTGTAAATGTGTGTGTTACTGTTAGCCATGCTGTGTG
2481 TCTTCCTCATCGTTCTCTGTAGGAAATAGAGCTGCTGTACCTGGCATGTGTTACACAGTGTTAAAGACAGCATGTGCAAC
2561 AATAATAAATGAAGAGTAATATTCTCCATTTGCAGTCGAGAAAGCCTTTAATGGCACAGTCTAATAATTGGATTTATTGT
2641 GCTGGGTAATAGTTGTGTCTTGCCTTCAGCTGTGTCAGCCAGGTTAGTTTAAAAAAAAAAAACTAAATAAATGTAAGTTC
2721 TTGTAAAGAA
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' gucUAGUCGUGGUAAGAUUUAu 5'
             ||: |:||: || ||||| 
Target 5' cccATT-GTACT-TTGTAAATg 3'
 2433 - 2452 125.00 -5.90
2 
miRNA  3' gucuagUCGUGGUAAGAUUUau 5'
                ||:: |||||||:|  
Target 5' gagggaAGTG-CATTCTAGAca 3'
 903 - 923 123.00 -10.20
3 
miRNA  3' gucUAGUCG---UGGUAAGAUUUau 5'
             :|||||   :::| |:||||  
Target 5' tgtGTCAGCCAGGTTAGTTTAAAaa 3'
 2671 - 2695 123.00 -7.83
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.

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_001163728 | 3UTR | GGUUAGUUUAAAAAAAAAAAACU
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_001163728 | 3UTR | GGUUAGUUUAAAAAAAAAAAACU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
20 mmu-miR-465b-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577525 Tirap toll-interleukin 1 receptor (TIR) domain-containing adaptor protein 2 2
MIRT578754 Gm11559 predicted gene 11559 2 2
MIRT579162 Cdc37 cell division cycle 37 2 2
MIRT579594 4930563E22Rik RIKEN cDNA 4930563E22 gene 2 2
MIRT579612 4930430F08Rik RIKEN cDNA 4930430F08 gene 2 2
MIRT581043 Sim1 single-minded homolog 1 (Drosophila) 2 2
MIRT581080 Setd7 SET domain containing (lysine methyltransferase) 7 2 2
MIRT582170 Nkain3 Na+/K+ transporting ATPase interacting 3 2 4
MIRT582548 Map3k1 mitogen-activated protein kinase kinase kinase 1 2 2
MIRT585015 Gid4 GID complex subunit 4, VID24 homolog 1 2
MIRT585344 Ybey ybeY metallopeptidase 2 2
MIRT585447 Veph1 ventricular zone expressed PH domain-containing 1 2 2
MIRT585686 Tbc1d24 TBC1 domain family, member 24 2 2
MIRT588451 Ybx1 Y box protein 1 2 4
MIRT592143 Ppp1r1c protein phosphatase 1, regulatory (inhibitor) subunit 1C 2 2
MIRT593133 Thrb thyroid hormone receptor beta 2 4
MIRT594592 Tfap2b transcription factor AP-2 beta 1 1
MIRT595797 Dapk1 death associated protein kinase 1 2 2
MIRT595819 Arl4a ADP-ribosylation factor-like 4A 2 2
MIRT598673 Hltf helicase-like transcription factor 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-465b-5p Ethanol NULL 702 Quantitative real-time PCR CIE10 22141737 2012 up-regulated

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