MIRT591130 [miRNA, mmu-miR-5107-5p

miRTarBase - #MIRT591130

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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

Nwd1

Synonyms

A230063L24Rik

Description

NACHT and WD repeat domain containing 1

Transcript

NM_176940

Expression

Putative miRNA Targets on Nwd1

3'UTR of Nwd1
(miRNA target sites are highlighted)

>Nwd1|NM_176940|3'UTR
   1 AAGCCTACCAAGGCAGGGGCTTCAGTGACTTAGCCATGGCTCACCTGGTTGAAGCCAACTGACTCTCTCTGCTGGTGCCA
  81 TGTGGACCCCCCCTTCCCCTCAACCATCTTCCATTTTTCCTCATAGCTTTTTCTGTGGGTTCTGAAGGCCTACTTCCTTC
 161 AAGTGAGCAGCAGCCTGCATCTCCCACCTTACTCTAAGAACTTGGCTCAAAGGCTTGGCTCTGCCTCTTAGTTGTACTGG
 241 TGCAATTCTTATCCCTGAGCCAGTTACTAGCTGTGAGAGGATCTGAAATCATTGTAGGGACCAAGAGTGACCTTGTCAAA
 321 GTGTTGTGTGATGGAGAGTGAAAGACTGCTGGGATGTGATGGGTGCTGTCCTGTCTTCATAGCAGTGAGCCTCCAGTAAT
 401 AGCCCATAATCCATACTGCAAAGCCACACAGAGCATAGTTAAACACACAGCATAGTTAGTCTGTCTGCAGCTCCTGCTGT
 481 GAGACTCAAAATGGTGTGTAAAAAAAATCCTCCTAGGATCTGGTGGTGGCATAGCTTTCAATCCCAGCACTCAGGAGGCA
 561 GAGGCAGGAGGATTCCTGTGAGTTTGAGGCCAGCCTTAGGTTACATAGTAAGTTTCAGGACAGCCAGAGCTATGTAGAGA
 641 GAAAAGACTGGTGCTGGCTCAGGGCTTAAATCACCTTGCATCCCAGAATACAAGAACATTGTACACACTGTCACCAACCT
 721 GTAAGCCTAGCCTCAGGGAACAGGCTATTTTTGTTTCTTCCACTGCTGTGACTGAAAAACTCGACCAAAAGCAACTTAGA
 801 GGAGGAAATGGTTCATCTGGCTTTCACCCCCAGGCCACACACCCAGTTCTTTACTTAGGGAAGTCAGGGAACGAACTCAA
 881 GCAGGAACTGAAGGCAAGCCTGCTGGCTATTGCACACAGCATGACCTCTGACTAGGGGACTCAGCCGCGGTCATACAGCA
 961 GTGTCTCCGTCATTATCAATTAGTGATGGTCAAGAGACACCATGACCATGGCAAAGCAGTTAATGGGGTTGGGAGAACTG
1041 TTTATAGTTTCAAAGGCTTAGTCCACTGTCATCACGACAGGGAGCCTGGTGGCACACATGGCAGGCATGGTGCTGCAGGA
1121 ATAGCTGAAAGATATATCATGAGAATCCTTTTAAACAGTTCCCTCTCCGGTGGCCAGACACTCAAATATATATGCCTCTG
1201 GGAGCCATTCTCACTCAAGACACAAGCCTGAACCACAGAGGATGTAGTTTCTGCCGTTCTCCTGATTAGCTAAGCTTTTT
1281 CATAAGCCCCAGAACCACTTACCACTCACAGTGGGCTCCCTCCTCCATCAGCTAGCAGTCAAGACAATGCCCCATGGACA
1361 GGCCCACACACCAGTCTGACCTGGGCAACCCTTCAATTAAGACTTGCTTCTCAGGTGACTCTAGGCTATGTGAAGTTGAC
1441 AGTTAAAGCTAATAAGGTCATAGAGGATCCTGAGCATTCTGGCTAGCTAGCTAGACACATCTGTGAGCTCTGGGTTTGAT
1521 TAAGAGACCCTGCCACAATGAATAAGGTAGAAGAGAAGTCAATGATTATTCCTGACTCAACCTCATGCCTTCAGATACAC
1601 ATCACATGTACCCACATGGGTGCTCAGGCACACATGAACACTCATGATGCCCACACCAGCCTCCATGTGTAGCCAAAAGT
1681 GCTGGCACAGTCTTATCCTCCTGCCTCCATTTCCTGCTTGGACAACTATAACCACTGTGCCCAGCTAAGATGCTGTCTCA
1761 CTCAGTTCCCTGACACATCAGGACATGCTAGCATCTACCTGCTTTGCTGCCAGACCTTCTGCCTTGAAATGGCTTTCTCC
1841 ACAGTGCTCACAGCCATCTAGTGAGCCGGTCTTGTGCCTGGAGCCTTGCTACAGCCAGACCTTAGAGGTGAGAGGCCCCC
1921 TTCACGCCATGGGACACTAGACAGACTCAGTGAAAGCAGCAGTAGAAACAGCTTGTTTTTCTGTGTTGGATACAGAACCA
2001 GGACTTGAAGGCAAGTGCTATATCTCAAGCCATACCCTGAGCCCTTACTGGGGGAATCCAGGAAGGGGCTTTACTGCTCA
2081 GTCACATTCCAGCTTCAAAATGAGGCCTTTGAAGATACCTTGTTCAGTTACTTCCCAAATAAGGATTCCAATGCATGCTT
2161 TAGCAATTCTGAAAATGTTAGTGTCAAATTTTATTTTTTTAAAAAAATTACTGGTTATGGCAAACAGAGGTTGTGTGCAC
2241 CTTTAATCATAGCACTTGAGAGGCAGTGGCAGTGGCAGTGGCAGTGGCAGTGGCAGTGGCAGAAGCAGAGGCAGGCAGAT
2321 TTCTGAGATCAAGGCCAGCCTGGTCTACAAAGTGAGTTCAGGACAGCCAGGGCTATACAGAGAATTCCTGTCTCCAACAG
2401 CAGCAGCAGCAGCAGCAACAACAACAAAGGTCTGGAGAGATGGCTCAGCAGTTTGATCCATCTTAGCCCCCACATCAGAT
2481 GGCACACAAAAGGCCTTTTGGCCTTTGGAGATACCTGCCCAAACATACACACACACACACACACACACACACACAGAATT
2561 AAGATCAATATTTTTAAAAATTATGGGCCAATGAGCTGACTCAGTTGGTAACAGCACTTGCTACTCAGTCCCGATGGGCT
2641 GAGTTCAATCCCTGGCACTCAGAGAGTGGAAGTAGAGAGCCGACTTCAGAGTTGCTCTCTGACTCCACACATTCACTAAG
2721 GTAAGCACCATGGTGATGACACCCCCACCATGCACTCATATGCATACCAATAGTAGTAATAATATAATAACAATAAAATT
2801 AAAGATCTATTTTAAGCTGTAATTTAAAAATATATGCACATGTATTGAACAATAAAAAAAAAAAA

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' acAGGGACGG---AGGAGACGGGu 5' \|: \|\|\|\|\| \|:\|\|\|\|\|\|: Target 5' ctTTGCTGCCAGACCTTCTGCCTt 3'	1802 - 1825	143.00	-20.10
2	miRNA 3' acagggaCGGA-GGAGACGGGu 5' \|\|:\| \|\|\|\|\|\|\|: Target 5' ctcaaagGCTTGGCTCTGCCTc 3'	206 - 227	134.00	-14.90
3	miRNA 3' acaggGACGGAG-GAGACGGgu 5' \|\|\| \|\|\| \|\|\|\|\|\|: Target 5' gccaaCTGACTCTCTCTGCTgg 3'	54 - 75	128.00	-18.40

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 ERR266300. RNA binding protein: AGO2. Condition:B_Untreated ... - Schug J; McKenna LB; Walton G; Hand N; et al., 2013, BMC genomics.
Article	Dynamic recruitment of microRNAs to their mRNA targets in the regenerating liver. - 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]