miRTarBase - #MIRT593543


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pre-miRNA Information
pre-miRNA mmu-mir-5107   
Genomic Coordinates chr18: 60812076 - 60812163
Description Mus musculus miR-5107 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-5107-5p
Sequence 11| UGGGCAGAGGAGGCAGGGACA |31
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Cep170b   
Synonyms AI466840, AW555464, Kiaa0284, mKIAA0284
Description centrosomal protein 170B
Transcript NM_001024602   
Expression
Putative miRNA Targets on Cep170b
3'UTR of Cep170b
(miRNA target sites are highlighted)		 
>Cep170b|NM_001024602|3'UTR
   1 GCTGTGAGGCGGGCAAGGCCAGCCTTCTTCTGCGCGTGTGTCCTGTGCATCCATCCCACGGCCCACCTGCCTGGCTGCAG
  81 GAGGTTCTCTGTGAAAACCCTGTATGTGCCATAGCCCCATGGATGGGTGCCTCCCATTTCCAGACCCTCCTCAGCCAGCA
 161 CCTGAACCACTTCATCCAGCCCATGGCGCCCCCACCTCCACAGGCCTCCCAGCCTAGCCCCTGGGGTGTCCACTGCCAAG
 241 GGCCAGCTGGTGAGGCCCCATATTCACCTCCTGTCAATCACCATTGTTTTTGTTGGTAGCTTTAAAGGAAAGAGTACATT
 321 GCTCCCTTGCAGGAACTTGCAGGCCCCGCTTAGGTCCAGGCCCAGCCTGGGAGGCCCCGTCTCATCCCTATGTGCTGGCT
 401 TGAGGCCAGACAGAGAAAGGAGCTGGACCCTGGGGCCAGTCAGTGCCAAACACAGGAGCTGGATGGGTTTGGCATGTCCC
 481 CAAACTGCCCAGGAAGGAGGCCACTTGCCTTGTGGCTCCTACTGAGTCCACGGCCGGAGCTGCTGCAGAGTCCATCAACC
 561 TGGGCAGACGAGTGGTTCTAAGTCCTTGGTGCCAACACAACTGCCAAACCCACTGAGTTTGGGTACTGTCCCAGCAAGCT
 641 CTCCTGAGTGGATTCATCCCAGCTAGGGACACTGGGCTTCCTTACAGTGGGGCTGGGTGTAGCTAGGTGGGCCAGCAATC
 721 CCGTTGGTTGTGGCGAGTGCTTTACCAGAGTGGCAGAAAGAGATTTGGAAGCTCCTGGCTTTGTGATCTAAACCATGTAC
 801 CTGCCCCTGCCGTCCCAGATGGTGCGGGCAGGAAGTGGTAACTGCAGCAGGCTCCTGCGGCCCGATCCGTTGCGGAGGCC
 881 TGGCAGGGACAGGCTCACTACTGGTTATGCTTTCTCAGGATTTGTGCGGCTGGGGCCTGCCAGGTGAGCAGGGTAGCTGC
 961 CCTGCTGCTGCCCCTTGCTGATGCTTCTGGAGGCACTAAGCCAAAGAGCCCGGTGGCTGGAGTGGGATGGGGACAGTCCC
1041 TTATTGACCAGGCTGGCATGGGTGTGCTCTGGGACCTGCCTGATGTGTGTGTGGGCGTTGCTCCTGAACAGGACCTGTCT
1121 GCTGGGAGAGGTAGCTGCAGCGGGGGGCCCAGAGCCCAGGGGTAGCATGGGTCTCCCTGTTTACACTTAGCTGATAGAGT
1201 CATGCACGGGTCCTGTGTGCCTCTGCCCAGCCCACCTGATGTTTACGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGT
1281 GTGTGTGTGTGTGTGTGTGTGTGTAGAGCTTGCTGTTTGTCTGGAGGAGGTGCCAGCTCAGCCTGTTGGCTGCTCCGCCT
1361 GCATGTCCCACACATTGCCCACAGCCTGCTCCCTGTAAGTAAACGGCTGTCCTGCAGAGTCCATGCCTCCCACCCTTGGT
1441 CATCACTGTGTAATTTTTTTTTTTTAATGCACAAATTGGTGTTCCTCTCCATACTTAGTTCCTCTGTCACTTTAGCCTTC
1521 AACCCGGCATTGGTACTGTACATGCCTGGCTTCTGAAGGTATCTCTGTACATTGTTCTCAGGCGGTCTTGTGGATGTCTT
1601 TCAGGAAATGGTTATTTTATATGATTTGTCATGAAATTTGTTCTAATAAATCATTCCTCCACGTGGCAGCACACCAGTG
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' acaGGGACGGA-GGAGACGGGu 5'
             :||||: | ||||||||| 
Target 5' gggTCCTGTGTGCCTCTGCCCa 3'
 1208 - 1229 166.00 -29.20
2 
miRNA  3' acagGGACGG-AGGAGACGGGu 5'
              || ||| ||:||||| | 
Target 5' aaggCCAGCCTTCTTCTGCGCg 3'
 15 - 36 133.00 -21.30
3 
miRNA  3' acaggGAC-GGAGGA-GACGGGu 5'
               ||| ||| || |||||| 
Target 5' ggtagCTGCCCTGCTGCTGCCCc 3'
 952 - 974 132.00 -23.40
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 ...

- 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]
19 mmu-miR-5107-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT580707 St3gal5 ST3 beta-galactoside alpha-2,3-sialyltransferase 5 1 3
MIRT591130 Nwd1 NACHT and WD repeat domain containing 1 1 1
MIRT593345 Zxdc ZXD family zinc finger C 1 2
MIRT593543 Cep170b centrosomal protein 170B 1 1
MIRT593619 Ttn titin 1 1
MIRT594096 Nfia nuclear factor I/A 1 1
MIRT596029 Vps9d1 VPS9 domain containing 1 1 1
MIRT596091 St6galnac3 ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 3 1 1
MIRT596632 Zfp36l1 zinc finger protein 36, C3H type-like 1 1 1
MIRT597038 Tgm3 transglutaminase 3, E polypeptide 1 1
MIRT597495 Rbm34 RNA binding motif protein 34 1 1
MIRT599643 Bbs1 Bardet-Biedl syndrome 1 (human) 1 1
MIRT601679 Sco1 SCO1 cytochrome c oxidase assembly protein 1 1
MIRT601859 Pin1 protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting 1 1 1
MIRT602130 Kctd12b potassium channel tetramerisation domain containing 12b 1 1
MIRT602616 Cenpl centromere protein L 1 1
MIRT602636 Cd93 CD93 antigen 1 1
MIRT604533 Zmat3 zinc finger matrin type 3 1 1
MIRT604994 Foxk1 forkhead box K1 1 1

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