miRTarBase - #MIRT600663


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pre-miRNA Information
pre-miRNA mmu-mir-493   
Genomic Coordinates chr12: 109580233 - 109580315
Synonyms Mirn493, mmu-mir-493, Mir493
Description Mus musculus miR-493 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-493-3p
Sequence 51| UGAAGGUCCUACUGUGUGCCAGG |73
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol March5   
Synonyms 1810015H18Rik, 2310008I22Rik, 2700055A20Rik, 5730499H23Rik, E130202O05Rik, MARCH-V, MITOL, Marchv, Rnf153
Description membrane-associated ring finger (C3HC4) 5
Transcript NM_027314   
Other Transcripts NM_001164336 , NM_001164337   
Expression
Putative miRNA Targets on March5
3'UTR of March5
(miRNA target sites are highlighted)		 
>March5|NM_027314|3'UTR
   1 AACTGACTTCTGGTTGTTCTGAGGCCTCTCATCCTGACGAGTCTGTTGTGTTCTGATTCCATCATTAATGCGCTAGTGGA
  81 GACTTGTGACGCTGCTCCTATATTCTAAGAGATACAATAAAGCACGCAGGGCCGGGGCAAGCCGCCCAGTAATCACGGAC
 161 CTAAGGACACGCGTCAGCTCTGTCATTTGTATGTTCTACTTTTATGGCAGTCGGCTAAACCATTATTTTAGCATGGGAAA
 241 CCTGAGTTTGTTCATATTTTTCCAGACAAGAATGTAAAGATAAAACTGTACAAACATTAAAAGTGGACATGTTTTATTCT
 321 GACGCCTCTTTTGTATATACTCAGTTCAGTGTTTTCTTAGGAATAGCAACTCGATGAAGGAACTGTGAGGGCTTTTCTCA
 401 TTGGTGTAATTGATTGTATGCTACAAAGGAGCCTCTGTTAACAGGAGGAAGTGTAAACTAGTTCTGAATAAATAACAAAC
 481 CCAGAAATGTATGTCAGCATTGAAGTGATTATCTGAACAAAAGAGATTTTGTTTTCTTTTCCTAAACCCATGTGACATCT
 561 CAGATGTGAAGGGTCAGTTTCCAGGGCTTCCAAAGCACTTTTTCACTATTAAACTTTATTTATGCAATGTTGACATCTCA
 641 TAGTTCATAGTGTACTTTTGACTCGTAGTCGTCCTGTGTGTGTGGTGTGAGGGTGTGTGTGTGAGCGGGGAAGGGGACTT
 721 CAGAAAGAAGGTAGGAGGGAGGGAAGCAGAGGATAGTGATAGGGAAATGAGGTGGAAGGCCCTTTTATCACTTAGTATGT
 801 TTTTAAATTTGTATTTCTACAAATTAGAACTACTGATTCATAGGTTAAGCAGAGAACAACTTGCAAAAAATGATAATAAA
 881 ATTATTGGGTTTCTGTTGATTCCGTTATTCAGATATTTGTTAACTGGCTCCCACTTACCTAGTCACTGTGCAGGTGCTAT
 961 GGGATAGAGTTGGGGAACTTGTTCAGAGAGTCTGCAGTCTAATAGAACAAGCACTGATTGAACCCAAGGGAGCTCTTGAA
1041 TATCAGTGAGGTAATTATGGAGTATTGATCAGGGTCATTGGTTTCCACTTTATCTGTTTATAGGATAGCCAATACTGTTT
1121 TTAGGGTATCTTGTTTTTGAATCAGGGTCTCTAGCATAGCTAACCTCAGACTTCCTGTGTATCTGAAGGTGGCCTTGAGC
1201 TCCTGATCCCTGAGCCTCCTAACTACAGGTGAGCACCACAACACCTGCTTTTCTAACTTAATGCTGTGGATTGAACCTAG
1281 GGCCTTACACATGCTAGGTATACACTACATCACCAGCCCTCCTTTTAGATTTTAGTTGTCATATTAAGGGGGCGATCTCC
1361 TTACTAGTCATTGTTTAACTAGTTTTATATTCATTGTTCAAAAGCAATTATTTAGGTCATGTTTAATAGTGACCATTACA
1441 ATGTTCAGCAATCTGATTAGAATGAAAAATTTTTTTTAAAGATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTC
1521 TTCAGACACTCCAGAAGAGGGAGTCAGATCTCATTATGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCC
1601 GGACCTTCGGAAGAACAGTCGGGTGCTCTTACCCGCTGAGCCATCTCACCAGCCCCTAGAATGAAAATTTTTAAAGTTTA
1681 AAAAATAATGCTGTTCACAGTATATGATGCATGATAATGCTCCCCCTTTCTGCGAAATGGATACTTCTCTTTAGAAGTGT
1761 AACAAATATAGATTGAGCTGTGTTAGATTGTAAATAAATATTTTAGTAAAGACTGGTATCTTTCTCTAGGTTGGTTATCT
1841 CAGTTTTGAGTTTTACGGTGTCTGTGGGAATGACTCTTTTGAACATCCAGAGTTGTAATTATCTAGGGTATAAGGGGCAA
1921 TTTGACTGAGTTAACCTTAACACTGCTGTTATTCTGTAGAGAAAATGTGAACCCTGATTATATATAAAAATAACTAAGAT
2001 CTACAGCTGTAATTATGAAATTGGCTTCCATCATTGCCAGTGTGAAAATATATATATTCTGACATTTCCTGGATACTCCT
2081 GTTAAGTTGAGCAGCTTTTACACAGCCACAAGCCCTCAGCTCCCTGTGTACTACTTTAATTTCCGGGGTGGTGGTGGGGG
2161 GTGGGGAGCTGCTTGGATCGATCTATTGGCATCAAGGCCCGTGAAGGCAGAGGTTTATAGAGCTATGGGGAGGGAGCCAC
2241 ACTTGTCTGCAGTCCAGAGTGAACACTAGCCCTGCTGCATTTGAACACCACATGACAGGCCTCCCTGGAACCACAAATCA
2321 AAAGACATGGGCAGACTGAAAGCTGAATAGGTTACGTTGAGCTCCCATCAAGTTTTAGTAGCTGTAGTGTATAACCTTGG
2401 CCAGGTGGCTATTCAGCCACAGTTACGTTCATCTCTAAAATGCAAGTCACACCTAGACACTTTCTAGGATTTGGTTGAGA
2481 AAAGACAGGTACTTTCGGCCTCAGTAGCTCCTAAAGGTGGTCGTCCCATCTAGGACAGGGCAGTAACCAAGGGTAGGGCC
2561 CTCGAGGACAGAGCCAGCACAGACTTGAGGATTTGTGAGTATGCTGTTCTCCGATTTTCTTTCTTTTTCTTCCTTCCTTC
2641 CTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTCTTTTTGTCCTAGAAATGTCACATTTAAACCTTTTTTTAA
2721 AAAAATTAGAATTCAGTGATTAGTAAAATTCTATTGTAGAAGTTAACTCCATCTAAGTTGGCTGAAAATGTTCATTACTT
2801 ACCAAATGGTTGAAGAATATATAATTAAGTGGCTTCATTAGTCACTGCCTTGCTAATTTTGCTGTATTTTTTTTTCTAAT
2881 TCCTTGTTTTTAATATAGAAAACTCAATACTGGCTGAAATAGGTTGAATAAACAATTTTTATGCTCTCTAA
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' ggACCGU--GUGUCA-UCCUGGAAGu 5'
            ||| |  :: | |  |||||||| 
Target 5' gcTGGGATTTGAACTCCGGACCTTCg 3'
 1584 - 1609 147.00 -20.26
2 
miRNA  3' ggaCCGUGUGUCAU-----CCUGGAagu 5'
             | |:| |||||     ||||||   
Target 5' caaGCCGCCCAGTAATCACGGACCTaag 3'
 138 - 165 124.00 -14.62
3 
miRNA  3' ggACC--GUGUGUCAUCCUGGAAgu 5'
            |||  :: ||  ||||:||||  
Target 5' tgTGGATTGAAC-CTAGGGCCTTac 3'
 1265 - 1288 122.00 -15.50
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
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]
16 mmu-miR-493-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT578138 Noc3l NOC3 like DNA replication regulator 1 1
MIRT585573 Tpmt thiopurine methyltransferase 1 2
MIRT585645 Tmco3 transmembrane and coiled-coil domains 3 1 1
MIRT585997 Sfrp1 secreted frizzled-related protein 1 1 2
MIRT586928 H2-T24 histocompatibility 2, T region locus 24 1 2
MIRT588281 Saysd1 SAYSVFN motif domain containing 1 1 2
MIRT597205 Snhg11 small nucleolar RNA host gene 11 1 1
MIRT597340 Sec23ip Sec23 interacting protein 1 1
MIRT598077 Neu3 neuraminidase 3 1 1
MIRT598944 Ggps1 geranylgeranyl diphosphate synthase 1 1 1
MIRT600663 March5 membrane-associated ring finger (C3HC4) 5 1 1
MIRT600853 Gas2l3 growth arrest-specific 2 like 3 1 1
MIRT601713 Rnf168 ring finger protein 168 1 1
MIRT601980 Nanog Nanog homeobox 1 1
MIRT604236 Chrna1 cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) 1 1
MIRT606762 Zdhhc3 zinc finger, DHHC domain containing 3 1 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-493 1,2,6-Tri-O-galloyl-beta-D-glucopyranose NULL NULL Microarray HepG2 hepatocarcinoma cells. 22506400 2011 up-regulated
miR-493 Dexamethasone approved 5743 Microarray adrenals and granulosa cells 24205079 2014 down-regulated
miR-493 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-493 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-493 (S)-3,5-dihydroxyphenylglycine (DHPG) NULL 443586 Quantitative real-time PCR mouse brain 22309833 2012 up-regulated
miR-493-3p Diethylstilbestrol approved 448537 Microarray mammosphere-derived epithelial cells (MDEC) 19549897 2009 up-regulated

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