miRTarBase - #MIRT582290


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pre-miRNA Information
pre-miRNA mmu-mir-7a-1   
Genomic Coordinates chr13: 58392779 - 58392886
Description Mus musculus miR-7a-1 stem-loop
Comment miR-7a (previously named miR-7) was predicted by computational methods using conservation between mouse, human and Fugu rubripes sequences . The ends of the miRNA may be offset with respect to previous annotations.
RNA Secondary Structure
pre-miRNA mmu-mir-7a-2   
Genomic Coordinates chr7: 78888277 - 78888373
Description Mus musculus miR-7a-2 stem-loop
Comment miR-7a (previously named miR-7) was predicted by computational methods using conservation between mouse, human and Fugu rubripes sequences . The ends of the miRNA may be offset with respect to previous annotations.
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-7a-5p
Sequence 19| UGGAAGACUAGUGAUUUUGUUGU |41
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Nav2   
Synonyms 5330421F07Rik, AU067780, BQ960892, HELAD1, POMFIL2, RAINB1, RAINB2, Unc53H2, mKIAA3015
Description neuron navigator 2
Transcript NM_001111016   
Other Transcripts NM_175272   
Expression
Putative miRNA Targets on Nav2
3'UTR of Nav2
(miRNA target sites are highlighted)		 
>Nav2|NM_001111016|3'UTR
   1 TGGAGACTCCCCCACTCTCCCTCGCTCCATCCCACCCCGCATCCTCCACTTCGTTCTGAAGATGACTTCCTGAGCCAGCC
  81 CTGGCTGCCACAGCCTTGAAGCCAGAGCAGAGTAGCGGGAGCAGGAACCCCTCCTCGTCCCTTGCTCTCTGCCCTCGCAT
 161 GAGCAGCCCAGGACCTCCCCTTCCGACAGTGACAACTGTACTAGCCTCTCTTCTACCCTCATCCTCGTTTTTTTTTTTGC
 241 CTTGTTGCCGTGACCTCCGTGAGACACTGAAAATACTTCATGGGAAAGGATCCTCACTGTTGAAATATAAAGGGTTTAAA
 321 TGGAAATTTTAAACGTAAGATTCCACTTGGTGCCCTGAAACCCAACAGCATCCCTCCACATACTACCCCCCAGACAGAAA
 401 AGACTAAACTCAACTTGGAAACACAGACAGCAGGGCTTACTCCCAGCACAGACCCCGCCAGTTTGGGTCTGGCCACCAGC
 481 ACCCCAGAGCCATGCCACCCACCCTCCATGGAAGAATTGGTGCTAACGAGGGCGCCTGCTTGGAGCGCCACCCAGGGACA
 561 CCCATACATCACATGTCTCTGTTTTCCACATGGTGCTCGCCTTCCCGAGAGGTATTCTGTCTATTCCAGTGCACCCCTCC
 641 CCCTGTTCCCGGCCCATCATCCCTCCCACCCACCCCCACCCCCACCCCCATGATCTGTGAGAGCAAGTGAAGATGCAAGA
 721 ATGTGAGTGAGCAGATGGGGCTAGCAACACAGAAAAGCGCGCCTGTTTCCTTCGTCTGTCTAAATGGTCAGGTTTCTGTC
 801 CGCAAACACTGTGTACTGTACAAGTAGTTCTTTGGAGAACTATCAACCCCTGCCTGTGTCTGCCTTTCTTCCTGGTTGAT
 881 TGTGAAGGCCCCTTTTCCCCAACCCCCACTCCCTTGACCAGAATTAGTCCTTTGGTGAAAGCAAGAACTAAGTAGAGTTT
 961 GCCTCCTCCCTCAGCCTGGGTTTTCAGTGTCCACTGTCACAGTTCTGGGCCCTCGACACCTCCTTCCGGGGTTGTGTGGG
1041 CATCCATATCCTTTCAGATAGAGGAGGACTAGTTCTCCTCCTGTGGGTGAGCCATGGACCTCGCCTTTCCTTCTTGTCTC
1121 TGAGAGCTGAGAACCCCACAGCATCACCTTGGGCACCCCAGACCCCAGTTGCAGGAGGAGTTGACGATGCCCCCTCACCA
1201 AAAGCTGGCACTTTCCTCAGATCCAATGTGACACAGCTTAGCCAGGGAGGGGCGGCCACCCTTCCCAGAAACCCGGCCAG
1281 CCGTGCCTCCGTCCCGATGAGCCTTGCCTGACCTCTTCGGTGCTGACCGCCCCCATGCAATGCCTTACTGGTTTTGTGCT
1361 GACCGTGTCCATTCACATGAGTGTTGTGCCTGCCTGGGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
1441 TGTGTGTGTGTGTGTGTGTCTTCCCCATCGAAGTAAACAGGGCTATAAGTCATCTATCCATGAAGAGAACACAAGTTGCC
1521 GACCTCTCATCTCAGAGAGTCATCTATGTGGATGTATGATTGGGGGGGGGGGAGGGGGAGGGAGGGAGGGAGAGAGAGAG
1601 AGAGAGAGAGAGAGAGAGAGAGATGTTTTTTAGGCTCCTATCGGTCTCCAGCCAACAAATTCACTGGACAGTGACCCCAC
1681 AAGTCCATTCAACCTTGCAAATTTGTACTCTAGGACACACCCCTCAGTGTGCCATGGCTTCAGCACACTGGTGTCCTCTT
1761 CACCGTATGGACATCTTTGAGCTCTTTGTGTTTTATAGAAACTTTCCTGGCCCCACCGAGGGTGTCTCTGTTAACGATCA
1841 GGGTTTTTAACCTCATCTTTGATGTTCCATTCTTGAACGTTTGTCTTTTTTTTTTTTTTTTTTTTTCTTACCCTAAGAGC
1921 TTGGCCCAAAACTGCTCGCTTTCTTTGGAATGGCACTGATTTTCTTCCTCATTGAAAGGAACAAGAATGTGTCCTGCTAA
2001 CTGGTAACTAGAAACATTTCCGTTCCCTGCTGTAAGCCCAGACCCAGCCTGCCTTTGCTACTAGTGTGGATGTGAGTGTG
2081 TCTTCTGTTGTTTTGTTTGTAATAAAAGTTTCAAACCACGTGTCTAGCCTGTGACCAGGGCCAAACCCTGAGCCTTCCAG
2161 TGCCCCTGAAGGGTAGCCCTTCTCAGTCTTGTCTCCCAGCAACGGCCGTACACTCTCATACTGTGAATTTGGGAGGTAGG
2241 AAAATCGAACCCCTCCTCAACATAGTTTTCTCAGTCACCTTAGGAGTACACCGCACCAACATTGCTTAAAACTGTTTCCT
2321 TAGCAACACCCTCTCCCCACTCTCCACGCCCAGATGTCTCTCCCAGCCCACCCAGGATCGCAACAGCAGCCTGTGTACCC
2401 ATTGCTGCCTGACTTGGTTCTGTAGCCCCAGAGTGCCTCCTGGCTCAGCCACCTTCCCGAAACACTGGGAAGTGGGGCTG
2481 TCTGAAAGGCACATTTCCGACTGGGTCATGATTTTCCTTTTAAGTTGCTCGACCTTGGACAAAATGACTTTGTACCCATT
2561 TAGAACTCTGTCTGCAATGCTTCCATTTTGCCTTTTTCTATAGATAGGCTACTTTTGAAATCCTATGCAATGCCGCTGCT
2641 GAGGTACCAGGGGGAGCCAAAAGTTTTCTTCCCAGGAGGCCAAGAATTCTACAGAAGTCCTTTTAACTTAAGGTTGGGGG
2721 TGGGGTGGGAGTGTGACAAGGGCAAGACTCACCCAGATCTTCCTCTGACCTTGGGGACATTTTAAATTTTATTGTTTAAT
2801 GCTCGACTTTAAAATTCTGTGTGCTCAAATTCCAACCCTGGCAAATCTACTTCAAAAGCAAAAACAGTCCAACTTTGCGG
2881 ATATCGAATGGGAGGTTTGCTGTTTTGACCTGCTTGTCTCGAGCCGAGCGGTTTATGAAACATGTTCTATAAGATGTACA
2961 TTTTTTTTTTCATTGTAACATAGAAATTGTAAATATTCGATGAAACTGCTGCATTTTGATGACTTTTTTCTAGCCATTTT
3041 TAAAGAGAAAACTAGGAATTGAGTATTTTGTGTACGGTATGTTCCCCACCACACCACCACCACCCCTCCATCCCTCTCCC
3121 CCCTCTATTTAATTCTCATTTGTCATCAGGTTTTTGGGTTTGAGAACAATCCGCTGGAGATCTGCCCCATGTCATAGAGA
3201 ATAAAGCTGATGATTGTACCAGTCTTAAATTATTCATGATCCAATAAACTTAATGCTTATTTATTCAAAAAAAAAAAAAA
3281 A
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' ugUUGU-UUUAGUGAUCAGAAGGu 5'
            | || | :|| || ||:|||| 
Target 5' acATCACATGTCTCT-GTTTTCCa 3'
 566 - 588 140.00 -13.50
2 
miRNA  3' uguuguuuuagugauCAGAAGGu 5'
                         ||||||| 
Target 5' tgtgtgtgtgtgtgtGTCTTCCc 3'
 1443 - 1465 140.00 -8.20
3 
miRNA  3' ugUUGUUUU-AGU-GAUC-AGAAGGu 5'
            ::|||:| ||| | || |||||| 
Target 5' agGGCAAGACTCACCCAGATCTTCCt 3'
 2739 - 2764 137.00 -15.40
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Brain (Mouse neocortex)
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 Chi_BrainC_130_50. RNA binding protein: AGO. Condition:Brain C 2A8 P13 130 KD ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
Experimental Support 2 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 ERR266292. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 48h ...

- 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 3 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]
41 mmu-miR-7a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT003971 Hells helicase, lymphoid specific 2 1
MIRT053031 Eif4e eukaryotic translation initiation factor 4E 2 1
MIRT053032 Rps6kb1 ribosomal protein S6 kinase, polypeptide 1 2 1
MIRT053033 Mapkap1 mitogen-activated protein kinase associated protein 1 2 1
MIRT053034 Mknk2 MAP kinase-interacting serine/threonine kinase 2 2 1
MIRT053035 Mknk1 MAP kinase-interacting serine/threonine kinase 1 2 1
MIRT577318 Zfp26 zinc finger protein 26 1 3
MIRT578104 Nup133 nucleoporin 133 1 1
MIRT579456 Acsm2 acyl-CoA synthetase medium-chain family member 2 1 1
MIRT581045 Sike1 suppressor of IKBKE 1 1 1
MIRT582290 Nav2 neuron navigator 2 1 3
MIRT583587 Fat3 FAT atypical cadherin 3 1 1
MIRT584159 Creb1 cAMP responsive element binding protein 1 1 1
MIRT586660 Mbp myelin basic protein 1 1
MIRT587038 Milr1 mast cell immunoglobulin like receptor 1 1 1
MIRT587579 Cpm carboxypeptidase M 1 1
MIRT587868 Btn1a1 butyrophilin, subfamily 1, member A1 1 3
MIRT589879 Hdac7 histone deacetylase 7 1 1
MIRT590087 Evi2b ecotropic viral integration site 2b 1 1
MIRT590957 Stxbp2 syntaxin binding protein 2 1 1
MIRT591080 Polr2l polymerase (RNA) II (DNA directed) polypeptide L 1 1
MIRT591342 Gla galactosidase, alpha 1 1
MIRT593125 Cry2 cryptochrome 2 (photolyase-like) 1 1
MIRT594875 Magt1 magnesium transporter 1 1 1
MIRT598790 Gmeb1 glucocorticoid modulatory element binding protein 1 1 1
MIRT599234 Dcaf10 DDB1 and CUL4 associated factor 10 1 1
MIRT600587 Nipal4 NIPA-like domain containing 4 1 1
MIRT600617 Mtfmt mitochondrial methionyl-tRNA formyltransferase 1 1
MIRT600913 Faim2 Fas apoptotic inhibitory molecule 2 1 1
MIRT600985 Ddx27 DEAD (Asp-Glu-Ala-Asp) box polypeptide 27 1 1
MIRT602025 Moap1 modulator of apoptosis 1 1 1
MIRT604224 Clca2 chloride channel accessory 3A2 1 1
MIRT604422 Acmsd amino carboxymuconate semialdehyde decarboxylase 1 1
MIRT604505 Trappc13 trafficking protein particle complex 13 1 1
MIRT731319 Sp1 trans-acting transcription factor 1 1 1
MIRT731320 Parp1 poly (ADP-ribose) polymerase family, member 1 1 1
MIRT731919 Nlrp3 NLR family, pyrin domain containing 3 1 1
MIRT732184 Herpud2 HERPUD family member 2 3 1
MIRT734898 Pax6 paired box 6 3 0
MIRT734899 Neurog2 neurogenin 2 3 0
MIRT734900 Neurod1 neurogenic differentiation 1 3 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-7a Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 up-regulated
miR-7a Chaihu Shugan San NULL NULL Microarray hippocampus 23947143 2013 up-regualted
miR-7a Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 down-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
mmu-miR-7a-5p Gefitinib 123631 NSC715055 approved sensitive Low Non-Small Cell Lung Cancer tissue and cell line

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