miRTarBase - #MIRT582833


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pre-miRNA Information
pre-miRNA mmu-mir-677   
Genomic Coordinates chr10: 128085286 - 128085363
Synonyms Mirn677, mmu-mir-677, Mir677
Description Mus musculus miR-677 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-677-5p
Sequence 6| UUCAGUGAUGAUUAGCUUCUGA |27
Evidence Experimental
Experiments MPSS
Putative Targets

Gene Information
Gene Symbol Itgb3   
Synonyms CD61, GP3A, INGRB3
Description integrin beta 3
Transcript NM_016780   
Expression
Putative miRNA Targets on Itgb3
3'UTR of Itgb3
(miRNA target sites are highlighted)		 
>Itgb3|NM_016780|3'UTR
   1 TGAGACCATCTTCAGATGACGCCAGGACCGTGGGACTCTCTGCCATTATGTTTACAGAGGACATTTGTGTGTGTGTGGGT
  81 GTGTGGGTGTATGGGTGGGATTTGGGGCGTGGGTTGGGCTGGGCTGGAAGAATGTCAGTATGTGGGAATGTATCTCTCTG
 161 TGTGTACTTATGTGTGTGACGAGTGTGGGGAAATGTGTAATTTAAAACTTGTGATGTGTCTCACAGGCAGAGCTCCACAG
 241 CCTTTGTCCTCAGGGGCCCTCCCCAAAGGATTCTTCCTGCTTAGCTTGAGGGGGACTCATGATGCCCGGCAGGTGCTCAT
 321 TACCTCTGAGAAGCTAGCTTGCTTTGTCAGGCCATTCTCCCAGAAGAGAAGGGCAGGGCTGAGGTTCCCCAACCCCCATT
 401 CCAGAGGAAGTGGTGTCAAGTCTTGGTTCTATACCAACTTTGTAATTTTCCGGTTCTTGGGGCTGACTGTCAACAGCTGT
 481 GGTAGAAAGTGCTTGACGTTGAAGCTCAGCTGTATCGTCTGTGCCTCTGCCCACCTCCCTCCCTTCCTCAGGCTGATGGT
 561 GGAGTTAGGGGAGAATCGAGTCCTCAAGAGTTGCCTGTGGCTTTTGCCAGCACCTCAGTCCTGCTATGGCTCTCTCTCTC
 641 ATAAGGAAAGTCCTTGTCACCTGGCTCTTTGGCCTGTTAAGGGTGAGGATGGCAAGGCCACTCAGGGGTCATGCATGGCC
 721 TGGGGGGTGTGCCAGCACCTCCAAGATCATAATCACAGCCATTCAGAATTGCCTCATTGGTAGCTCTTCCCAGGAGATTT
 801 GTGAACATGTGTCATTGTGTCAACACCATCTCTTACCTCCTGCTTCTACACCCTGATGGCCACAGACTTGTGCTATGTGC
 881 TGAGACTCTCTCTCATGGTCAGATGCTATGGGCTGAGGCTCTCTCTCATGGTCAGATGCTATGGGCTGAGGCTCTCTCTC
 961 ATGGTCAGATGCTATGTGCTGAGGCTCTCTGTCATGGTCAGATGCTATGGGCTGAGGCTCTCTGTCATGGTCAGATGCTA
1041 TGGGCTGAGGCTCTCTGACATTGTCAGATGCTATGGGCTGAGGCTCTCTCTCATGGTCAGATGCTATGGGCTGAGGCTCT
1121 CTCTCATGGTCAGATGCTTTCTCCTCAGGGGAGAGTGCAGTGGTCAGAGCTGGAGGTCCATCCCCACTCTCCAGGCTTTC
1201 TGCTCCTCTTTCCGGGCACCTCCACACACCTCATCCTATGCCTCTGTGTGCTTGCTACACCCATCCATGGGGGTGCTTGT
1281 GTGTATCTACCTCTTCGGTGTCTTGTGAAGGAGTCCCCCGAGTCTCCCATGAGTCTGTTGAACAACGTGCCAGGGAGGAG
1361 TTGAAAGGCCAGTCAGAACTGCATGTGTGGCCTGTTCTCCTGTGGGCTGGACAACCTCATTTTATCTCAGCCTTTAATCT
1441 GGGAGGCCACAAGTGCAATTTTATTTTATTCCCTATGGGGACACCCAAAACTATGATGAGGCCCGATCACTCTAGAGGAG
1521 CACGTATATAAACATACTTGCATTATTATATTTATAATTTTGTATGATGACAAAGGAGAGCATAAAAAACCCCACACAGA
1601 GTGTGTGGCAAACATTCTTAGTAACTTGCCAGTCAGTGGCTGGGTCTGCAAGGGGCTTCCCTCTTCCTGGAAGCATGTGA
1681 AGATGGGTATGTGGACACACTGACCCTTTCTTGAAGAGGTTTCTCGACTGGGTTCTGGGTTCTGTTGGCCCAGCAAGCAT
1761 GGTTTGCTCTGCTGGCATTGACTTAGATCTAATGTTAAAAATCAGTGCTTACCACCCAGAGACAAGAGGCCTATAAACAG
1841 CATCTTGATGATCTGAGACCTGAGTCCTGGCCTCGGGATCGCTGTCAAAACACCTGAAAGTTAATTCAGAAAAGCCATTT
1921 CCCCCACCCCTCTGGAGTTCAATATTCTTTTGGATTTGGTAACTTGGAAAGTCTATTTCAAGTGTCACTATTCTTTTTTT
2001 CTGAAAGACAGGGTCTCATGTATCCCAGGATGGCTTTGAACTTGCTATGTAGCCAAGGTTGACTTGAACTTCTGATCCTT
2081 TTTCTACACTTCTCAGGTGCTACAATTACAGGCATGAGTTATCCTGCCTGGCTTATGCAGTGCTGGGAATAGAACCCAGG
2161 ACATCACACATGCTAGGCAAGAACATTACCAACTGATCTGTATTCCCAGCTTTAGTATCAACATCCTAAGATGCCGAGAG
2241 TAAATACGGTATCAAGCCTGCGGTCCAGATTCTGTGTGTGTATAAGGAGGCTGGAATGTTGACCAGTAGTAGAACAAGCA
2321 GTTAAGGAATGTCCTGGGTTTGATTCCCAGCACTGAAAACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT
2401 GTGTGTTTTGTGGGGGGAGAGGTGGTGTTGCTCCTGTTTGTCTTTCAGTTTCCAGACTGAATGCCTTGGCTTTCACGAGA
2481 GCAGATGCTATTCTTAGAACTTGTCTCAGCGAGTCTCATTCCTTCTCAGACTCCCTTCATCTTTTGTTAGTGGGTGCATC
2561 TGATGTAGCACTTAGTTTTTATCCAACTTGTTCTTTCTTGTTCACTCTGCATACAGTTGCATCTGCATACCAGGGAGGAC
2641 CTTCAGTAAGGAGTGGCTGATCCAGATGTTGGTGTGGTGAGCAGGCCTCGAGTACAGGAGAAAGCCAGCGACTGTCCGGT
2721 TGTGCCCTTGGGTTACTCTTGGCTTAGGTGGTGGGAGTACAGTAGAGGGACAGGGAAGATGGTCAGAGATCCATCCTTTA
2801 GCTACTGAGGCAGAGTCCGTGAGAGTAGAGTGGGGTTTTCTTTAGAGAAGACTGTTTAGATGAGGAAACTAGCAGGGAAG
2881 GAAGAAAATGTATTAGAAGAGTGAAAGGTGAGTAGGAATCTTGACGGTTTCTGGAATGAGGCTTGTGGTGCTTGGGCGGC
2961 AACGCCGGTCAGGACTCGGGCATATCTGTAGCTGTTCTCTCCGGAGGCTGAGGAACAGTCTGAGTGGTTTCCAGGGGATG
3041 AACATCTAAAATTGTGCTGGGAATGAATGCGCAGCACAGAGCGGCTGGGCCCGTTCTCTTACAGGTGGTTTCGGTCCAGT
3121 CTCTGTCTGAGGACAACAGGAAGAGACAGAGAATGCCTGGCAGGTAGCTCTGTTCCCGTTCTTTCCCTCAGAGACAGTCA
3201 TTCTGAAGCTGCCCACAGCAACATCAGAGTCTTTGTCCATTTTTGGTTGAAATTGCTTACGCGCCTTCCTGACACCCTCC
3281 CCACCTCCTCTGAGTTGTGTAACAGAGAATTAAATGTGCTTTCCAAAAAAAAAAAAAAAAAA
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' aguCUUCGAUUA---GUAGUGACUu 5'
             |:: :|:||   || |||||| 
Target 5' cctGGGTTTGATTCCCAGCACTGAa 3'
 2333 - 2357 127.00 -15.00
2 
miRNA  3' agUCUUCGAUUAGUAGUGACUu 5'
            | ::|||:|   || |||| 
Target 5' ctATGGGCTGAGGCTCTCTGAc 3'
 1038 - 1059 124.00 -9.50
3 
miRNA  3' agucuucgauuaguaGUGACUu 5'
                         |||||| 
Target 5' atgggtatgtggacaCACTGAc 3'
 1683 - 1704 120.00 -7.10
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 GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622573. RNA binding protein: AGO2. Condition:KO1 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 MIMAT0003451
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 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 ERR266286. RNA binding protein: AGO2. Condition:A_Liver partial hapatectomy 1h 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 ERR266295. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 1h 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.

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 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]
44 mmu-miR-677-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT580133 Ubap2l ubiquitin-associated protein 2-like 1 1
MIRT582833 Itgb3 integrin beta 3 1 4
MIRT583171 Grik3 glutamate receptor, ionotropic, kainate 3 1 3
MIRT583782 Elovl7 ELOVL family member 7, elongation of long chain fatty acids (yeast) 1 2
MIRT585951 Sin3a transcriptional regulator, SIN3A (yeast) 1 1
MIRT589768 Iws1 IWS1, SUPT6 interacting protein 1 1
MIRT591164 Mup19 major urinary protein 19 1 1
MIRT591170 Mup12 major urinary protein 12 1 1
MIRT591176 Mup10 major urinary protein 10 1 1
MIRT591807 Mup14 major urinary protein 14 1 1
MIRT592567 Mup17 major urinary protein 17 1 1
MIRT592608 Mup11 major urinary protein 11 1 1
MIRT593180 Clasp1 CLIP associating protein 1 1 1
MIRT594028 5430427O19Rik RIKEN cDNA 5430427O19 gene 1 1
MIRT595083 Zfp516 zinc finger protein 516 1 1
MIRT595535 Fign fidgetin 1 1
MIRT595555 Ubr3 ubiquitin protein ligase E3 component n-recognin 3 1 1
MIRT595557 Tcte1 t-complex-associated testis expressed 1 1 1
MIRT595562 Sptbn1 spectrin beta, non-erythrocytic 1 1 1
MIRT595569 Nrsn1 neurensin 1 1 1
MIRT595571 Mtf1 metal response element binding transcription factor 1 1 1
MIRT595579 Josd1 Josephin domain containing 1 1 1
MIRT595580 Fam101b refilin B 1 1
MIRT595587 4930444A02Rik protein-O-mannose kinase 1 1
MIRT595593 Ago1 argonaute RISC catalytic subunit 1 1 1
MIRT595602 Nbl1 neuroblastoma, suppression of tumorigenicity 1 1 1
MIRT595604 March8 membrane-associated ring finger (C3HC4) 8 1 1
MIRT595625 Nol7 nucleolar protein 7 1 1
MIRT595629 Gnptg N-acetylglucosamine-1-phosphotransferase, gamma subunit 1 1
MIRT595633 Ednra endothelin receptor type A 1 1
MIRT595649 B3galt5 UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 5 1 1
MIRT595667 Rxrb retinoid X receptor beta 1 1
MIRT595743 Ctdspl2 CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2 1 1
MIRT595789 Fignl2 fidgetin-like 2 1 1
MIRT595880 Gid4 GID complex subunit 4, VID24 homolog 1 1
MIRT595909 Tapt1 transmembrane anterior posterior transformation 1 1 1
MIRT595919 Trim9 tripartite motif-containing 9 1 1
MIRT595925 Efr3a EFR3 homolog A 1 1
MIRT595937 Acmsd amino carboxymuconate semialdehyde decarboxylase 1 1
MIRT595943 B3gnt5 UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 5 1 1
MIRT596004 Disp2 dispatched RND tramsporter family member 2 1 1
MIRT596008 Ceacam1 carcinoembryonic antigen-related cell adhesion molecule 1 1 1
MIRT596167 Ms4a15 membrane-spanning 4-domains, subfamily A, member 15 1 1
MIRT597273 Slc25a33 solute carrier family 25, member 33 1 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-677 N-ethyl-N-nitrosourea NULL 12967 Quantitative real-time PCR mouse liver 21029445 2010 up-regulated

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