miRTarBase - #MIRT589603


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pre-miRNA Information
pre-miRNA mmu-mir-302a   
Genomic Coordinates chr3: 127545496 - 127545564
Description Mus musculus miR-302a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-302a-3p
Sequence 44| UAAGUGCUUCCAUGUUUUGGUGA |66
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Luc7l2   
Synonyms 4930471C18Rik, AA522013, AU015269, CGI59, Cgi74
Description LUC7-like 2 (S. cerevisiae)
Transcript NM_001170849   
Other Transcripts NM_001170848 , NM_138680   
Expression
Putative miRNA Targets on Luc7l2
3'UTR of Luc7l2
(miRNA target sites are highlighted)		 
>Luc7l2|NM_001170849|3'UTR
   1 AGTGCCGATCAGAGGATGCGGAGCTACCTTTATGTTTTAGCCTTTTGTTTCTTATGTTACTTATGCTTAGATTATTGGCT
  81 TGAAACCTGCACCTGATATATTGATATGTACTCAATTGTAGGTGTATACATTTTTTTCTGATTGTATGAGTAGTTCATGC
 161 ACAGTTAATGCATGAGCCGGAGTAAGAAATTGAAGCCAGTATGTGCAGAGGTTATTGCTTTTCTTTACTTGGAATGTTGG
 241 GGAGACGGGAGGGATGCTGATAAAAACTATTTTATAGGCAAATAATTTTAGGTACTAATACTCTTGAGGGTTGTAGGGGA
 321 TTTTGTTTATTTGTTTTCCAATATGTATTAACAAATAGGGACTCTGAGAAGTCCTTTCATTAAAAGCATTGTTTAGCTTT
 401 GTTTGCCTGTTTTCCACATTTTGGTGCACTTCTAAAGAGCAAACCGATTCTGCTATGTTGTTTAATCCACAGTATAAATC
 481 ATACATTTTCATGTTCACCTTTAGTGTAATGGGAATATTCTGAGTTTGGAGGAAGCTACAAAACACCTTAGTATAGCAGG
 561 AAACTTCAAAAGATGCAATGAGAGCAGACATTAATTATATAGTGAGAGCTAACAAAGGGTTAGAATATAGTGGAGCTGTT
 641 TAATTCCCAAAATTCAGGTCACATAATCCTATGGAGCATAAACTATACTTAAAATTACTTTTTCCCTCCTTGACAACTAT
 721 TATTAGGTAAATATAGGAGAAAAACTCGGAAACCCTAGTTACTAGTCTTAAATTTTCTTTGGCTTACTCCACATAAATTA
 801 AACCCACAGAAAGCTGACAAAATCTTTGTTAGACTGAGTTACCCTTTCCCTGAAATCACAAGCTGAGTTTCTTAATAGGC
 881 TTTCAATCAGCTTTTTATTTTGTGTATTTCTGTCTATGTTCTTAGTAGCCCTTAAAGTGATTTTTAACTAGGTAGGGATT
 961 TGTGTGTGTGTGTGTGTGTGTGTGTCCTTGTGTCTCTGTGTGTGTCTGTTGGGGGGAGGGCTTGCGGGAGAGGTCAGGAG
1041 GCCAAGCTCTTGAGTAGCTCAAATTGACCTCATATTCATCCTTTAGCCTCAGCTTCCTCTTGAGTGCTGGGATTATAGGT
1121 ATATGACACCCTGCCTGGCTTTATGAATTAGATACTTTCCTCTGTGCTAGGCTTGTTAAAAAATAGCCAAGTAATAGTAG
1201 TGTATATAAACAACCATTTTTATGTTGCTCTATGGAGTTTTCTGTGTGGGAGAATACTTAGCCACAGATTATAAAGTGAT
1281 AAACTGAATATCATAGGATAAATAACATAAATTTAGATGAGGAAAATTTTCAGAAAGATTCTTTAAAACTGGTTTGAGGT
1361 AATGGATCAGGCTTGAATAACTGGTTGTAATTAAACAAGTATGGAAATACCTGTAGGCTTCTTACATTTCAAAACTGGGT
1441 TTGTCCTCAGTGCAGTGGCCAGAAACATTTTTTTTTTGGTAGTGTTCTTTATGATTCTAAATCTGCACACTAAATCTGAG
1521 AATCGGGTGGTTTAGGCAATAAAGGATCTAGCTGATTCTTGTGTTGACCTGCTCAGCTGTCATTTTTCTGATGTTTATCT
1601 TACTTGTCTTTATTGGTGATGGAGATGGGAGGGGTGGGTGGGAAGTCTGTCCTATCACTGTGTCATCCTGAGGCTTCCTG
1681 AACTTGGGAAGTTTAGTTATATAGGAAAACTTCCCACCATATTCAGCATGTTCAAAAGAGGATTATTTTTGTAAAATTAT
1761 TAAAAATTTTGCTTTTCTCAAGAGTATTTCATATCTTTGAATTCAAATTACTTTTAAAACATCATTGTTTTTAACAAAAA
1841 AGCAAATGATTACTTGTTATTTCAAATATATAACATCAAATTATTGTTATATATGTGAGTTTAGTTTTTGATGGTAAAAA
1921 AAGTCCATTAAAAGTCTTGGCAGTTTGCTGTTTTCTTGCCCTTGCTGTGAAGTACTTATATCTCTGTTACTACAAGTAGG
2001 TTGTCTATATGAACCTTGTCTTGGCAACAGTTCCCATAGGTCAGTGAGGACCTTCAGCAATTTTGTGCTTTTGGGGGTGT
2081 TCTGTCCTATAGTAGACTTCAAAGTCACACTACTTGGGTTCAGAATTCTTTGCCAAATAATTTAATTACATCCCGTTGTT
2161 TTTCCATATTTCATTAGAGATAATAGAGACATTTGGCTTATTAGGCTTTCACTAGTAACAAGTAACAAATGGTGTGTAGG
2241 AGGATATTTGTAATCTTGTACAAACATTAGTTCATGTCTTTGTTCTTTTTCAGTTATCACTGACCTCAGGGACTTGCCAG
2321 CATCTAATGTCATGTTCTTAGTGATCATTTCTATCATTAATAGAAGCTTTGAAGATGGCTTGTGTAGACTTGGAATGTGG
2401 TTATTATTATTTTTCCTTGTATAATGCTTATTAAGCAGGGGCTCCTGAAATGATAACTTTTGAGGGGCTGAGGCTCAGGA
2481 GGCTTGTCATAAATTGAGGCCAGCTTGGGCTAGGGAGAGAGAACTTGATTCCAAAAACAAAAGGGGAAAAAGGCTTATAT
2561 AACTTCAAGTAGAATGCTTGAAATTGGTGTTGATTTTTCAAGCTTTTTAAATCTTAATTTCTGTTGCCATAGTTTTGTAT
2641 TACGACAAAGTATTTGAAAACAATTTGTGGGCTGGTGAGATGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCGAAGG
2721 TCCGAAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAATGAGATCTGACTCCCTCTTCTGGAGTGTCT
2801 GAAGACAGCTCAGTGTACTTATATACAATAAAAATAAATAAATCTTTAAAAAAAATAAATAAAGTGAAAAGTTTAAAAAA
2881 AAAAAAAGAAAACAATTTGTGAGAAGGAAGGTCTTTATTTTTAGCTCACACTTTTGTGAAGTGAAAATGAGATTTCAGTT
2961 CATGGCCACTTTTTTGTTGTTGTTTTTTTTAAGACAGGGTTTCTCTGTATATCCCTGGCTGTCCTGGAACTCTGTAGACC
3041 AGGCTGGCCTCGAACTCAGAAATCCGCCCGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTACCACCACGCCCGGC
3121 TCATGGCCACTTTTGAATTGTTTCTGGGCCCATGCCTAACCAGAACACCATGGCATAGAGAACAAAGAACCAGGTAGAAG
3201 TTATAATAAAATAGACCCCTCTTGACCTGTTTCCTCCTGCCAGAAACCACCTCCTAATGGCTGTTTAGCTATGAACTTAC
3281 AGTGGGTTAATTCAGCGGTTGTACCATCTTTATGAGCTAGCCACCTTTATCTGTAGCACCATCACCAGTTTCAAGTCTTC
3361 AACAGTACATGAGCCTTTTGGACTGTTTTATATTCAAACTATAATACTCTCCTTATCTATATTTTTCAAACTGGTTATAG
3441 TAGTATTTTTTATCTTGCCTTATGTTTTTCTGAAAGTATTGTGTTTTCTGGGTTAGTAGCATGCAAACATAGCATATTGA
3521 GATCCAACTTTAAACTCCAACTTTAAAAAAAAATAAGTATTATGCAGGACTTGGCAGTGCCTCTGATTATAATTCTAACC
3601 TTGATTGAGATAAATTATGTATAAACATTCTGTACCACCTGTAAAGAACTAAATAAATGTGATATTTGTTGTTAATTCAT
3681 TTTAGGTGTTGAAAAGTATATATTCTATGCTAACCAATATAGTTAGGTTCTACATAA
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' agugguuuuguAC-CUUCGUGAAu 5'
                     || ||||:|||| 
Target 5' cttgcccttgcTGTGAAGTACTTa 3'
 1955 - 1978 136.00 -14.30
2 
miRNA  3' aguGGUUUUGUACCUUCGUGAAu 5'
             ||| | : |||  |||||| 
Target 5' tttCCACATTTTGG-TGCACTTc 3'
 411 - 432 127.00 -11.70
3 
miRNA  3' agUGGUUUUGUACCUUCGUGAAu 5'
            |::| :|||   |||:|:|| 
Target 5' gtATTACGACA---AAGTATTTg 3'
 2637 - 2656 126.00 -8.90
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions mESCs
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 GSM622570. RNA binding protein: AGO2. Condition:WT1A HITS-CLIP data was present in GSM622571. RNA binding protein: AGO2. Condition:WT1B HITS-CLIP data was present in GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622574. RNA binding protein: AGO2. Condition:KO2 ...

- Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology.

Article - Leung AK; Young AG; Bhutkar A; Zheng GX; et al.
- Nature structural & molecular biology, 2011
MicroRNAs (miRNAs) are 19-22-nucleotide noncoding RNAs that post-transcriptionally regulate mRNA targets. We have identified endogenous miRNA binding sites in mouse embryonic stem cells (mESCs), by performing photo-cross-linking immunoprecipitation using antibodies to Argonaute (Ago2) followed by deep sequencing of RNAs (CLIP-seq). We also performed CLIP-seq in Dicer(-)/(-) mESCs that lack mature miRNAs, allowing us to define whether the association of Ago2 with the identified sites was miRNA dependent. A significantly enriched motif, GCACUU, was identified only in wild-type mESCs in 3' untranslated and coding regions. This motif matches the seed of a miRNA family that constitutes ~68% of the mESC miRNA population. Unexpectedly, a G-rich motif was enriched in sequences cross-linked to Ago2 in both the presence and absence of miRNAs. Expression analysis and reporter assays confirmed that the seed-related motif confers miRNA-directed regulation on host mRNAs and that the G-rich motif can modulate this regulation.
LinkOut: [PMID: 21258322]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0000380
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 GSM1013577. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013582. 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]
Experimental Support 3 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 ERR266287. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 36h HITS-CLIP data was present in ERR266292. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 48h HITS-CLIP data was present in ERR266298. RNA binding protein: AGO2. Condition:A_Untreated 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.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' agugguuuuguaccuucGUGAAu 5'
                           ||||| 
Target 5' -----------------CACUUg 3'
 		1 - 6
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 4 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]
73 mmu-miR-302a-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT054363 Lats2 large tumor suppressor 2 4 1
MIRT054577 Ccnd1 cyclin D1 4 1
MIRT578213 Myl6b myosin, light polypeptide 6B 1 1
MIRT579773 Zfp568 zinc finger protein 568 1 1
MIRT579903 Zbtb41 zinc finger and BTB domain containing 41 1 1
MIRT582206 Nfatc3 nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3 1 1
MIRT589603 Luc7l2 LUC7-like 2 (S. cerevisiae) 1 4
MIRT592531 Mup7 major urinary protein 7 1 1
MIRT592581 Mup13 major urinary protein 13 1 1
MIRT595334 Galnt4 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 4 1 1
MIRT596464 Fam168b family with sequence similarity 168, member B 1 1
MIRT596522 Zfp882 zinc finger protein 882 1 1
MIRT596544 Zfp866 zinc finger protein 866 1 1
MIRT596766 Usp45 ubiquitin specific petidase 45 1 1
MIRT596795 Ubxn2a UBX domain protein 2A 1 1
MIRT596925 Tprkb Tp53rk binding protein 1 1
MIRT597148 Stxbp4 syntaxin binding protein 4 1 1
MIRT597693 Ppp2r3d protein phosphatase 2 (formerly 2A), regulatory subunit B'', delta 1 1
MIRT598003 Npy1r neuropeptide Y receptor Y1 1 1
MIRT598028 Nol10 nucleolar protein 10 1 1
MIRT598114 Ncl nucleolin 1 1
MIRT598150 Mtif2 mitochondrial translational initiation factor 2 1 1
MIRT598303 Mc1r melanocortin 1 receptor 1 1
MIRT598345 Mau2 MAU2 sister chromatid cohesion factor 1 1
MIRT598390 Magt1 magnesium transporter 1 1 1
MIRT598435 Lpl lipoprotein lipase 1 1
MIRT598657 Hpgds hematopoietic prostaglandin D synthase 1 1
MIRT598871 Glyctk glycerate kinase 1 1
MIRT598885 Glrx2 glutaredoxin 2 (thioltransferase) 1 1
MIRT599161 Diap2 diaphanous related formin 2 1 1
MIRT599255 Tmem245 transmembrane protein 245 1 1
MIRT599414 Chek2 checkpoint kinase 2 1 1
MIRT599539 Car5b carbonic anhydrase 5b, mitochondrial 1 1
MIRT599747 Anapc16 anaphase promoting complex subunit 16 1 1
MIRT599850 Adarb1 adenosine deaminase, RNA-specific, B1 1 1
MIRT599896 Acat1 acetyl-Coenzyme A acetyltransferase 1 1 1
MIRT599919 A830018L16Rik RIKEN cDNA A830018L16 gene 1 1
MIRT600228 Trim56 tripartite motif-containing 56 1 1
MIRT600269 Tns4 tensin 4 1 1
MIRT600435 Samd8 sterile alpha motif domain containing 8 1 1
MIRT600863 Gad2 glutamic acid decarboxylase 2 1 1
MIRT600876 Gabpb2 GA repeat binding protein, beta 2 1 1
MIRT600951 Elf1 E74-like factor 1 1 1
MIRT601038 Cntn2 contactin 2 1 1
MIRT601252 Abl2 v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene) 1 1
MIRT601369 Ybey ybeY metallopeptidase 1 1
MIRT601493 Tmlhe trimethyllysine hydroxylase, epsilon 1 1
MIRT601936 Ogdh oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide) 1 1
MIRT601974 Nav1 neuron navigator 1 1 1
MIRT602014 Mpp7 membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7) 1 1
MIRT602186 Hyal1 hyaluronoglucosaminidase 1 1 1
MIRT602216 Hecw1 HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1 1 1
MIRT602228 H2-T3 histocompatibility 2, T region locus 3 1 1
MIRT602245 Grm1 glutamate receptor, metabotropic 1 1 1
MIRT602367 Fbxl3 F-box and leucine-rich repeat protein 3 1 1
MIRT602425 Ercc4 excision repair cross-complementing rodent repair deficiency, complementation group 4 1 1
MIRT602490 Dkc1 dyskeratosis congenita 1, dyskerin 1 1
MIRT602596 Chrnb4 cholinergic receptor, nicotinic, beta polypeptide 4 1 1
MIRT602684 Camk4 calcium/calmodulin-dependent protein kinase IV 1 1
MIRT602761 Asxl2 additional sex combs like 2 (Drosophila) 1 1
MIRT603033 Chic1 cysteine-rich hydrophobic domain 1 1 1
MIRT603526 Pwwp2a PWWP domain containing 2A 1 1
MIRT603813 Kif5b kinesin family member 5B 1 1
MIRT603883 Il10rb interleukin 10 receptor, beta 1 1
MIRT604185 Cxcl11 chemokine (C-X-C motif) ligand 11 1 1
MIRT605161 C030039L03Rik zinc finger protein 607B 1 1
MIRT605480 Slc6a2 solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2 1 1
MIRT605613 Mpv17 MpV17 mitochondrial inner membrane protein 1 1
MIRT605789 Ddx11 DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 1 1
MIRT605806 Emc8 ER membrane protein complex subunit 8 1 1
MIRT605843 Cd300a CD300A molecule 1 1
MIRT731069 Nr2f2 nuclear receptor subfamily 2, group F, member 2 3 1
MIRT734874 FOXO1 forkhead box O1 3 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-302a Catechin approved 9064 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-302a Glucose NULL 5793 Microarray endothelial cells 24394957 2014 up-regulated

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