pre-miRNA Information
pre-miRNA mmu-mir-466h   
Genomic Coordinates chr2: 10514891 - 10514971
Description Mus musculus miR-466h stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-466h-5p
Sequence 11| UGUGUGCAUGUGCUUGUGUGUA |32
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Slc1a2   
Synonyms 1700091C19Rik, 2900019G14Rik, AI159670, Eaat2, GLT-1, GLT1, MGLT1
Description solute carrier family 1 (glial high affinity glutamate transporter), member 2
Transcript NM_001077514   
Other Transcripts NM_001077515 , NM_011393   
Expression
Putative miRNA Targets on Slc1a2
3'UTR of Slc1a2
(miRNA target sites are highlighted)
>Slc1a2|NM_001077514|3'UTR
   1 TGACCCGATTCTCAGCCAATTCTTGAATAAACTCCCCAGCGTATCTTATGGTAAAAGATGCTCTCTAAACAGGCTTCCTT
  81 TACAAAAGGAAAAGATGCATATGTTTCTATGTTTACTTAATCTGTTAGCTGAGGCATAGAGGAGCTGTGTACACCCGTGA
 161 TGATAGGCACCGTGCTGTGTCTTTGCCAAATAATGCTTTATAACTGTCTAATTTTCTTACTTGTGTTATTGTTTGAATGG
 241 ACGCTGCTGGAGAAACTACTTTGAATGGAAGACGTGTTCTTGCCAGCTTCCTTTTGTCTCAGTGCAACACTGTGGATGCT
 321 ATTTTTTTTCCAAGGGGACAGGATGAAAGCAGTGTGGTACCCTCCAGGGACTTAAGACAACGAGCACACATGTGCTGTCT
 401 TCCTTAAAGTGTTCATGGCTCACCTTGTTCTACACAAAAGATTCTGCTTGAAGCTTCTAGAATTACCTCCCCTCCAGCCT
 481 GTAGAGAGTTGGCACCTACATTGATTGAAAGCATCTGCCTGGGGGAACTCTGACAACTTACCTTTTTGTGCACTGTCTAA
 561 GTAGAATGTTTCAGAGTTTCATGGGTGCCCATACTCTGAAATGCAGGTGACCATAAAGGCCACAGCTCTGCCTTTCTGTG
 641 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
 721 AGATGTGTGTGTGTGAAAAATGTGAAATTTCAAATTTGAAAATGATCTAGGAATCATTTGCATATTACCACTGTATACCT
 801 TGAGGAAAGTGAAGGAGCATAGTCAACTTGAATTTTAGTCAGAATTAAATATTCCAATTCTCTTGTTTGACTTGCATTCG
 881 TAGAGCATATTGAACTCAAGTGTGATGATCTGATCTGGTTTTTTGTTCCACCCATAGATTCTCACTTGAGTTCCTCACCG
 961 AAAGATATTTCTAACACCCAAGTCACTTCCATCACATCCTTGTCTGCTTATATGGCTGAGCACTTCAGCTTCCTCACATT
1041 AAGAGACACACGTTGGCTATGACTCTTTTCCTATCATCCTGGTATATATCTAATATGTAGAAAGTGTTTGTTATATTAAA
1121 GCACATGAAAAATATCACAAAACACAAAAGTTCTTTGGTGAGAAGGGAACAGAAACCACACATGTATATAAAATCCTATA
1201 AAGGTTCCTATGACAGAGGCCAGGCAGCCTCAAACCATCAGATGGGGACCAAGAACGGCTCTACACAACTTTCCAGATAG
1281 AATCCTTTCCGGGGACTGTGAAAGTCTGAAGGAATAAATAATATAATTGGCACAGCATGAGGGTTTGCCTGTGGTAGGCA
1361 GCCAACGAATCCTTAATGATGGGTTGTGCAAGCTAAAATTGTGGATGTCTCTATTATTATCTTCTGTTGAAGAATGCACA
1441 GTATTTTCCTAAGATCCTGGGTTTAACGGTTAGCGGGGAACTGGAACCACTGAAAAACAAAACAAATTCAACTTGAAGGA
1521 GTGTCGGAACCCAAGCCATCAGTCAGGGCATGTGTGTCCTCTGAAGCAGGCAGAGCTGAGGAGACGTTCATAAGCAGTAA
1601 TAGGACCCATTGCCTCTGAAGAAGGGCACGGGGCCATCGTTTCTCCTCTTAGCCCCTCTTGTGACTTCTCTCCTTCAAAT
1681 CAGACAGCTCAGACACATACAAAAGACAAGAGATTCCTGTTGCTTTATCTCATGAACCCTAACTGTTTTTAAACAAGGAT
1761 CACTATTGAGCAGTATTAAATGAATTAGTTTGTTCTGTTTCAGGTTTTGACTTTTGAAACAAGGTCTTTTTATGTAGCCC
1841 AGAATGGCTTCAAACTCTCACACCTACTGCTCAGCCTCGGTTCTAAGATCACAGGTGGGCACCACTGCATCGGCTGGCAG
1921 AACTCTTGTTTATACTTTTCTGAGAGACAGTGAACAGGGTAGCAGTGACCAGCTGTGAAACCCTGAAGGAAGACAAGAAG
2001 GGCCAAAGGGATTCTGCTCAGCTGTGGAACTATTCTAGATAGCCTGTAAGTGGTACCCCAGGGCTCTCCTATGCTGAGTA
2081 GATGTATCTAGGCAAGGCATCAGGAGCATGCTGGGTTTTGCTGTGTTGGGGAGGGAAAGGCCATTCCATACAATGAGTCT
2161 CCCCATACAAGAAGAAACAAGGCCACGTGGGTACTTGAACATTGCTCTTTTCTTAAAAGCACTCACAGGATGACAGTGTT
2241 TGTCATCTCAGATTCTGCCTGAAAATCTTTCTAATTTGTTTTATCTTCACCACCCCCCCCCCAGCAGTCCTGTTAGCTTA
2321 TGTAAAGAAGACAGAGCTTTCAGGAGAACAAAGGCACATTATTTCTCAAGTCAGGTTTTGCTGACTACATATGCTGTCTC
2401 AAGAGAATATGCTAGGGAAATCACATTTACTGAAAATTTAATAATTTTTATTTAAAATAAATAATTTATCAAATTGGAGA
2481 CTTCCCTAAGAAATCTAGAATGTGATGGAATTGACATAGTACTGTGTCTTGCTTTTGTAAGCCTTGTTAACCCTTTCCAT
2561 GCCCATTGGAGATTCCCTTGCCTAGAAAAGGTGCAGGAAGCTGAAGAAAAAAAAAACAGATACAGAGTGTGTTCTAGTAG
2641 CCTTAGTCTAAATAGGGTACCTGTCACCGTGTGTGTATTAATAGAGCCATCGTAGATCTGAATGTCCATAATGATGATTA
2721 ATCTTTTATGTGTAGTTCTCTCTCTGCCTCTGTCTCTGTCTCTCCCTTTCATATGCACACACACACACACACACACACAC
2801 ACACACACACACACACACACACACAGAACATGTGTGTCACATACACTAACTCCAGGAACCAGGGAGGTTTGTGTATTGGG
2881 GCTTTGGCAGTGCTATTCCTGTAACGGATTCAGTTAATACTTACAAAGAATCAAAATCATTTCAGAAAAAACAAACAAGT
2961 GAGCAGACGTTCATCTTCCCTGTCTCGTCCTTTCCCTATAAGAAGTAAGACAAATCATCATTTTATTAACTGCTGAGTAA
3041 AACTCAACAAAGTCAATTCAGCCAGTGAACAGCATGGTTGTTTCGAAGGTAAAATTTCACTGTGGGCTTCTGAGGGTGGC
3121 GGGACACCAGAGAATCCAGGCAGCCATCAGGACCTAAGCACACAAAACCTCAGTAAAGGCCTGTAGGTGATTTTAGGACC
3201 ATGAGATCACTACTGATTTGGTTTTTGAGCTTTTTTTTGGGGGGGGGGTGGTAATAAAAGCCTGTGTGGCCTCATTGCCT
3281 GTGGAAAGTTTTATGTTCTATAAAAGACAGCTAGCCTTTTCTCCTCACTAGTCACTAGTTAGTTCGGACATTTACAGAGC
3361 AAAGGAAGGACTCCAGAATGTCTCCAGATGAAAACGAAGAAAGCACGGAACTGTGTATGAGGAATTCAGTTTATGGATCA
3441 GTCCCTGCTGGGGGATGCTGGGATCTCAGTGGTTCGCTGATTAGGGTCAACTATGGCTAGAAAATCATGGCACATAGAAG
3521 TGCACGTAGTCAGACACCCTTCAGAGAGTTGAAAGGCCTCAGAAGAAAACCCAACCCTGCCTTGCTGCTGTGAGTAATCT
3601 TCCCTTTGTTCTCCGAAGTAAAATCTTATTATAATGTTCACTTTTGTCAGGGTCTAGGCTCTTGCCTATGCATTATTTTC
3681 CTCATGCAACAAAGCAATAAACCCAAGTAGGTATTCGCATGCTCAGGCTCCGATAAACAAGCCGGAGCAGCTCAGGCCTC
3761 CTTTGATGACTAAAATGGCAGTGGTTACAACCCCGGGGCAACCTGCCCGGTTTGCTGCTCTCTTTAAGGACCAATCTGTC
3841 TGCCCTGCTTTTTTTTTTTTTTCTTTTCTGCTTATTCTGCAGCTGAACTCATGATCTATCAGGCAGGACGAAGGACCAGA
3921 TGGGATTTTCTAGTACTGGGATACTTTCAGGGCTTCAGGGTCCAAGGGTCTTAAGGAGATAAGGTTAGCGTCTGAAGCAA
4001 GGGTTTCCTAAACCAAGTTGTCACTTGAAGATTCATGGTCACCGCATCTACAGTAGTCTCTGGTTAAACCCAAAAGAAGG
4081 ATTACTGAGTGCCAACCCAGCCAGGTGGCAACTGTGACAGCTAATTTTCCGTGGGTGGAGTGAGATAAAGTCTCATCAAG
4161 AACACCAACCAGCTTAGGATTTTCCCTAAAACTCTCTTCCCAGTTCACTGCCCTCGCCCTTCCCTTTCCTTTCGTTTCAT
4241 TGCTTAAGAGACTGCTTAGTAAGTGGCCAAATAGTTAAGAGGGGGTTGGCTTGGAAGCAGATAACAGGAGATCTTAACTA
4321 TCAGTAATAGCCAGTCTCACCGCCTCACACCATAATCAGGCAATGACACAGAGATGTTTAAAAACAACGTGGCTTGGGAG
4401 AGGAAACATTTGATTAAGACACTCCCCATCTGTAGCTGTAAGGCTCACACAGCCACTGTGTGCCCAGGTTTCTTGCACTT
4481 CCTTCTGAAATGAGAAGGAACTGGACCAACTGCAGTTTTCTAATCTCCTTCCATCTTACTGTTCTCAAACATGACTTATT
4561 TATATTGTAAGTTTGAAAGACACACAAAATGAATATTCAATTTAGGTGTTTCCTTGTCCATGATGAGAAAACTCCAACTC
4641 AAGCTTCCATTCATTCCATACTTTACAAGCTTGGAGAGTGGCCACAGTAACCCAGTTTCCAGCATTCAGACATCAGTAAA
4721 TATCCTTTGGTTAAAATCCCTATTCCCCAAACTCACTGTTCTCACGGAAGTGGTGATTTTGCTCAGGGAAATGTTCTGCA
4801 ACATCACCGTGAGGGACCAGACACCTGGAGTCTGAATTTTGAGATCTTGCATCATACCTGCTGTAGCAACAGAGCCCACT
4881 CCAAATTCTCAGCCCACATCATTTTCCCCAAACAGTCCTAATTGCCAACCCTGTGTGGGAATTTGGGAGCCTCTGGCAAA
4961 CAAGCTTGAACACTCCTGACATTTGGTGCAAGATTTACACAACAGCAACTGTCTCCACACACCTTTCCCGCCAAGTACAT
5041 GCAGACGTATACATCCATTCTGCGCCTTCCCCCACCCCCGCCCCCACCCCCGCCCCCTGGAGAGAGGATTTGATTGATTT
5121 CATTAGAAAGTTCTCCTCTTGATTTACATGCATAACAGACAGCACATCATTGGGAGAGATGCTGTCACTTATAAGAACGG
5201 AGTTTTCCCATTTGCCCCATGTCCGTCCATGTTCACAGAGTGTCTAAGTCATTACAGCAGAGAGGGTGGCTGCACCTAAC
5281 CTTCCCTGGTTCTGTATAAAAGGTCATAGCTTGCATTTTTTGCTCTCTGACCAAATTTCAACCAGAGTTAAATGGATGTA
5361 TTTAGTGTGGTGAACATCTTCATTGCCAGAAAAGATTTCAGCTCTTCAAATTTGAGGGAGTATAGCCAGTTGGGAAAGGG
5441 CTAATTATTGTTAGTGGTGATGGTGGTTGGGTTTTTTTCTCCTCTCAAGGTGACAGAAGATCTATGGTGAGAGCAGAAAG
5521 ATGTTTCTTAATTGACCTACTTAAGGTCACTGCAGAAAAGGGGGAGAAGTCCAGAAGGTCCTGGGAGATTGGGTTCACAC
5601 TAACACTCTGAATCATTTCTGATCAGTTTTTTTTTTTTTTTCTATGCTGAATCTTGTCTTATCCTATGATCCAGTTACCA
5681 GTTTTGGTATTTTTAAGTCTTTCTCATTGTATTTTGGGGAATTTTTAGGCTGAGAATAAAATCTACTATTGGAACAGACC
5761 TGTGCTCTGCAGAGGCATCACGTGACCCAGACAACGGGTGGCAGAATATCTGGGTTCCCCTGGAGACACCCCCAACCCCT
5841 GGGTGAGCTTTAGAACCTAACAACAGACTGTTATCCTTATCACCATCCTCTGGGACATGGGGGATGATGCAGTCAGAGCC
5921 TTGCTACTTCTGGGCTTTGTTTCTCTCTATGGCAACCATTTTATCCTGCCTGGAAATGGCTTCCTGCCCTACGTGGAGAG
6001 CAGGCACACTTACAGCCAAGGAAGTGGTCAAACAGATCCCTAAGTTCTCTCCATGCTACAACAAATTCCCTAATACACAC
6081 AACCAGAAACTCAGCTCCTGGGTGGCTTAGTACCCACAAGGTCACTTTCCTGTTCTAAGAGCCTTCGGTATCCAGATTCT
6161 TCTACAAACCACCTCAACTCTTTCCTCTTTCTTCCCTCCTCCATAAAATCTCAGCATCCCACCCCCACATTGCACAACAG
6241 TGATCAGATCAGCTGGTCACTATAGAGATTTGTATATATTAAAACAAACCTACTTTTTGGAGAATTTTTTGTATATTCTT
6321 TTCTATTTGTTTTCTACAAATTGAGGACAGAGCTGGCAAACTGTGAATCTAATTTTATCTTGATGCCAGCAGATATATTT
6401 TAGCTTCCTGGTATGAATCTATGTTACTAGGGACACCATATCACCCTCTGATCAGTATTGCACCTCCAATCTACAAAGTT
6481 AGTTTGGCCCAATCTTACATTCTCTCTTCCACAAATCCCCAAATTTCTTTGCTATTATTTATACAGAGAATATTTATAGT
6561 CCTGGATATTACAAGTTTTAATGTTAATTTAACTTTTAATAACATTACACATTTGTATCTACTCTTCAAAAATCATAAAG
6641 ACTCAGAGTAGGCTGATATAGTCTCTTTGGTATCTGTAATTTTTTCAGACAGATATTTTCTTATGATATTTTCTATAAAA
6721 CCACATAGATAGAAGTATAGCTAATTAGAGCACACATTTCTATAGCAATTTGGGGTATCAACTGTTTCCTGAGCATACAG
6801 ACACATTTGAGAAATTTTGGAACTCAGTCCTTAATGATGCAATGAATAACTTGACCAAACTCAGAACGAAGAATTGCTTA
6881 AGCCCCTTAGGTAGTTAGCATATACAACTGAACAGTTAATCCTTCAGCATCAAGGAATGGTGCTGACTGCTGTTTCCCGA
6961 CACCAGTTCTTGTTTGCCCAATGGACCTTTCTAATTTTATTTTTCTATAAGAAGAATAAAGGCCGGTGCTAATAGCGGGA
7041 CCGCTTCTCTATCAGAATCTCCCATGCATTTCTAGATGTTTATGTGAAAATTGGCCCTAATGAAACAGAGTAGCAAAGAC
7121 TGAGGATGGTTAGGAAGAAAAGAATTCAGGACAGGTTTGGTGCAGTTTTAAGTCTTGCCAAGCAAAATGATAGCAAAACC
7201 TCACATTGTTATATGAATTGAACATATATTTTTAAGAAGAAATGAAAGACAACATATTTTTAGTACCCATTCAGAATCCA
7281 TGCTGTATCCCTGGGGGCGGGGCAGAGCTGGGAGTTAGAGGCATACTGAGATTATTTAGCATAAACTCAAATACTTTATC
7361 CTCAGGTAGGCAACAAACTTATGTAACCTTCCCACAAGGTAAACCAGTAGCCACGGAAAACACAAGGTGTCTTTTCTCCA
7441 CCGAACACACACTCTGCAATGGTGGGAGGACTGGTATTTTACTGTGTTTGAAAGAATAGCCTGTTACATAGATGACATAG
7521 TAGGATGTATTCAAACCCGCTCCTCATTAAGCGAACAGATTAGCTGTGCCCTCAACTGGCTACGATTGTATCTGTTTTCA
7601 CCGCTAGCTATCAGAGCATGAGTTTCTTGTGTGTACACGCTGATACTTGGTTCACGCATGAAGACAGTGCCTATGCACTT
7681 TGTGTAGCTATCATGTAGGTATTTGTGTGTAATTTCAGTGAAACAATGTATAGACGTAATTTAATGTAACTGTTTTTCTT
7761 GGCTGTTTATCTAAATGCAGTAGATATGTCGGTTGCCGTTTGGAAACCTTCCTTTGCAGTCTTAGGTGTCGTCTAAGAGT
7841 TATTTCTCGTTCTCAATGTGACCTGAGTGAAGAACTTAACCTATGAAACCCCTGTACTCATGATTGTTTGCAAATCTCTG
7921 AGTCCAGCACCTTTGTAAATACAGCCCCGAGGAGGAATGGGGGTGAATGTGTTTCCTGTTACTCAGTGAAATATCAGCCT
8001 ACGCCTGCATCATTCCCACTCAGTGCACCAGTGGAACTTGTGGTTACCAAGTCTGAGGGAGGTTTAGAATGAAGACACTC
8081 GTCTCTCCTCCCTCACTGGTGGACTGGGCTTAAAGAGACAGAAAAAAAAATCAAAAAGTCCATCTCCTCTTCATACTCAA
8161 ATCATGTCTTCTGGGGGAAGGGTCAACCTCTCTGGTTGTCAGATCTTCACTTGATGGTGACCTTCATCATGGCCTAAACA
8241 TCATGGCCTGAAGAACCTTGTTACCTTTGACTTCCCGAGTTGGAGTACAAGAATGTTTTTATTGATTAGTAGTCATGCAG
8321 GTGAGCCTGAGCCTCCCCCGAAAGCACAGTTCTGGCAGCAAATTGCACACCTGTGAGAGAACAACAGAGTACTAGAAGCA
8401 CACGAAGGCTCAGGGCCAGCAACAGCCAGGGGCCAGCAATGGTTGAGGACCAGCAAAGGCCAGTGGTCAACCTTGGCATT
8481 GGCAGAGGACCAACCTTTGATGGACTGATCTTGAGTATGTGACAGGAGGCTGATCTCCTCTACTCAGCCTGCTCTGCTTG
8561 CCTGTGTGGAGTAGGTGGAGATGAGATTAACAATGGCAATTAGATGTGATTTTGCGAACTGCATTCTCACTAAATACCAT
8641 ACTTTGTAGTTCCTGTAACCCCTCTCTTCCCCACAAAGACAGAAGAAACAGCAATGTGCTCGAGAGTACCCCTCCCTTTC
8721 CTCACAGATCATTGAGAGGTGAAGCAAGCACACTCATTTTCAGGGGCTTCCCCAGATGTGTGGAGTGAGGGGATATGGTG
8801 ACTGTGCCCTTCAAATTATGGATGAAAAAAAAAAAAGTACAGAAGGGAAGGAGACTTTAGGCAGGATTATTTTTGAATGA
8881 AAGATCAGATTAATGTTTTCCCTTCCGCTCACAGTCCCCGTTGGTCTGGTGTCATGTAGCATAGTGCGTCTATAGCACAT
8961 GGTATTTAAAGACTAATGAATGCAAAGAGACTAATTTGGGGGCTGTTTCTTATATATGGTACTAGGAAATGCCTTGTTGG
9041 CAAAGCACACCTTGGGTAGTTGAGATCTCCTGTGTTCGTCTTTAGCTTTCCTTGTGATGTAGACTCATGACTGTAACATT
9121 TCATGTGTAAAATAACTGGATATTCTTCATATGATGGAAATAACCTGTGAATTCAATCTTTCACTAAGTGTTTTAACTAC
9201 TGTGTATATATATCTCTCTCATCAATAAATGTAGATTGCAATTTCTCTTT
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' auguguguucGUGUACGUGUGu 5'
                    ||:|||||||| 
Target 5' ctctccctttCATATGCACACa 3'
2760 - 2781 156.00 -17.60
2
miRNA  3' auGUGU---GUUCGU-GU---ACGUGUGu 5'
            ||||   | :||| ||   ||||||| 
Target 5' agCACAGTTCTGGCAGCAAATTGCACACc 3'
8343 - 8371 156.00 -15.60
3
miRNA  3' auGUGUGUUCGUGUACGUGUGu 5'
            |:| ||||:||||||| || 
Target 5' ccCGC-CAAGTACATGCAGACg 3'
5027 - 5047 147.00 -24.30
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 ERR266281. RNA binding protein: AGO2. Condition:A_Liver partial hapatectomy 48h HITS-CLIP data was present in ERR266295. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 1h HITS-CLIP data was present in ERR266300. RNA binding protein: AGO2. Condition:B_Untreated ...

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

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]
Experimental Support 2 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 ...

- 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 ERR266281
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Liver partial hapatectomy 48h
Location of target site NM_001077514 | 3UTR | AUAUGCACACACACACACACACACACACACACACAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset ERR266295
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Liver partial hapatectomy 1h
Location of target site NM_001077514 | 3UTR | CAUAUGCACACACACACACACACACACACACACACA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset ERR266300
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Untreated
Location of target site NM_001077514 | 3UTR | CAUAUGCACACACACACACACACACACACACACACACACACACACACACACACACAGAACAUGUGUGUCACA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1385342
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_GM_Ago2_CLIP-Seq_myoblast
Location of target site NM_001077514 | 3UTR | UCAUAUGCACACACACACACACACACACACACACACACAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
87 mmu-miR-466h-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577339 Zfp157 zinc finger protein 157 2 2
MIRT577488 Tns4 tensin 4 2 6
MIRT578067 Oxsm 3-oxoacyl-ACP synthase, mitochondrial 2 2
MIRT578343 Ltf lactotransferrin 2 2
MIRT578743 Gm4841 predicted gene 4841 2 4
MIRT578822 Fermt1 fermitin family member 1 2 2
MIRT579127 Chrnd cholinergic receptor, nicotinic, delta polypeptide 2 2
MIRT579135 Chrna1 cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) 2 2
MIRT579305 BC021785 major facilitator superfamily domain containing 4B5 2 4
MIRT579417 Agtrap angiotensin II, type I receptor-associated protein 2 2
MIRT579732 Zfp92 zinc finger protein 92 2 4
MIRT579978 Wrn Werner syndrome RecQ like helicase 2 4
MIRT581035 Sim1 single-minded homolog 1 (Drosophila) 2 4
MIRT581532 Pten phosphatase and tensin homolog 2 2
MIRT582312 Nab1 Ngfi-A binding protein 1 2 4
MIRT582843 Itga9 integrin alpha 9 2 4
MIRT582976 Igf2 insulin-like growth factor 2 2 4
MIRT583470 Foxk1 forkhead box K1 2 4
MIRT584662 B4galt6 UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6 2 4
MIRT585220 Zfp488 zinc finger protein 488 2 4
MIRT585299 Zfp26 zinc finger protein 26 2 2
MIRT585311 Zfp248 zinc finger protein 248 2 4
MIRT585835 Slc6a17 solute carrier family 6 (neurotransmitter transporter), member 17 2 4
MIRT586077 Rhobtb1 Rho-related BTB domain containing 1 2 2
MIRT586329 Pgm5 phosphoglucomutase 5 2 4
MIRT587381 Dzip3 DAZ interacting protein 3, zinc finger 2 2
MIRT587611 Cml2 N-acetyltransferase 8 (GCN5-related) family member 2 2 2
MIRT587631 Clec7a C-type lectin domain family 7, member a 2 8
MIRT587725 Cd28 CD28 antigen 2 2
MIRT587758 Cd200r1 CD200 receptor 1 2 2
MIRT588012 Akap7 A kinase (PRKA) anchor protein 7 2 2
MIRT588296 1700019G17Rik N-acetyltransferase 8 (GCN5-related) family member 4 2 2
MIRT588555 Uhrf1bp1l UHRF1 (ICBP90) binding protein 1-like 2 2
MIRT588689 Tet2 tet methylcytosine dioxygenase 2 2 2
MIRT588893 Slc1a2 solute carrier family 1 (glial high affinity glutamate transporter), member 2 2 4
MIRT589021 Rnf11 ring finger protein 11 2 2
MIRT589101 Rasal2 RAS protein activator like 2 2 4
MIRT590106 Etv3 ets variant 3 2 2
MIRT590170 Elovl6 ELOVL family member 6, elongation of long chain fatty acids (yeast) 2 4
MIRT590929 Tacr2 tachykinin receptor 2 2 2
MIRT591061 Ptpre protein tyrosine phosphatase, receptor type, E 2 4
MIRT591144 Nsun3 NOL1/NOP2/Sun domain family member 3 2 2
MIRT591210 Mdm2 transformed mouse 3T3 cell double minute 2 2 2
MIRT591429 Car10 carbonic anhydrase 10 2 4
MIRT591502 Acot2 acyl-CoA thioesterase 2 2 4
MIRT591557 Zfp449 zinc finger protein 449 2 2
MIRT591632 Ubtf upstream binding transcription factor, RNA polymerase I 2 4
MIRT591952 Ceacam1 carcinoembryonic antigen-related cell adhesion molecule 1 2 2
MIRT591973 Ap1ar adaptor-related protein complex 1 associated regulatory protein 2 2
MIRT592040 Tnfrsf13c tumor necrosis factor receptor superfamily, member 13c 2 2
MIRT592091 Smo smoothened, frizzled class receptor 2 2
MIRT592109 Slc25a12 solute carrier family 25 (mitochondrial carrier, Aralar), member 12 2 2
MIRT592174 Oxtr oxytocin receptor 2 2
MIRT592217 Map3k7 mitogen-activated protein kinase kinase kinase 7 2 2
MIRT592224 Magee2 melanoma antigen, family E, 2 2 6
MIRT592250 Lcp2 lymphocyte cytosolic protein 2 2 4
MIRT592267 Kcnj16 potassium inwardly-rectifying channel, subfamily J, member 16 2 2
MIRT592390 Trp53i11 transformation related protein 53 inducible protein 11 2 6
MIRT592420 Stxbp5l syntaxin binding protein 5-like 2 2
MIRT592441 Snx12 sorting nexin 12 2 2
MIRT592515 Npr3 natriuretic peptide receptor 3 2 2
MIRT592626 Mbnl3 muscleblind like splicing factor 3 2 4
MIRT592703 Gfra2 glial cell line derived neurotrophic factor family receptor alpha 2 2 2
MIRT592746 Epas1 endothelial PAS domain protein 1 2 2
MIRT592765 Dmd dystrophin, muscular dystrophy 2 4
MIRT592843 Akap2 A kinase (PRKA) anchor protein 2 2 2
MIRT592989 Cacna2d2 calcium channel, voltage-dependent, alpha 2/delta subunit 2 2 2
MIRT593003 Bend4 BEN domain containing 4 2 2
MIRT593228 Fndc3a fibronectin type III domain containing 3A 2 2
MIRT593415 Neurod2 neurogenic differentiation 2 2 4
MIRT593453 Rab11fip1 RAB11 family interacting protein 1 (class I) 2 2
MIRT593482 Havcr2 hepatitis A virus cellular receptor 2 2 2
MIRT593517 Csf2ra colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage) 2 2
MIRT594037 2810006K23Rik RIKEN cDNA 2810006K23 gene 2 2
MIRT594129 Fam104a family with sequence similarity 104, member A 1 1
MIRT595670 Rxrb retinoid X receptor beta 2 2
MIRT595701 Fndc7 fibronectin type III domain containing 7 2 2
MIRT596268 Bnc2 basonuclin 2 2 2
MIRT596281 Slc6a8 solute carrier family 6 (neurotransmitter transporter, creatine), member 8 2 2
MIRT598763 Gpr68 G protein-coupled receptor 68 2 2
MIRT601111 Btrc beta-transducin repeat containing protein 2 2
MIRT601202 Arhgef9 CDC42 guanine nucleotide exchange factor (GEF) 9 2 2
MIRT603151 Ubxn8 UBX domain protein 8 2 2
MIRT603192 Trim65 tripartite motif-containing 65 2 2
MIRT604581 Trim71 tripartite motif-containing 71 2 2
MIRT605447 St18 suppression of tumorigenicity 18 2 2
MIRT605591 Ncam1 neural cell adhesion molecule 1 2 2

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