miRTarBase - #MIRT595819


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pre-miRNA Information
pre-miRNA mmu-mir-465b-1   
Genomic Coordinates chrX: 66829202 - 66829280
Description Mus musculus miR-465b-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA mmu-mir-465b-2   
Genomic Coordinates chrX: 66835764 - 66835842
Description Mus musculus miR-465b-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-465b-5p
Sequence 11| UAUUUAGAAUGGUGCUGAUCUG |32
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Arl4a   
Synonyms AI467555, Arl4
Description ADP-ribosylation factor-like 4A
Transcript NM_001039515   
Other Transcripts NM_007487   
Expression
Putative miRNA Targets on Arl4a
3'UTR of Arl4a
(miRNA target sites are highlighted)		 
>Arl4a|NM_001039515|3'UTR
   1 ATGGCAGTACCTTTTATATTGGTGTGGAATAGGTTTTCCTGGGTCTGATTTCTGACAAGCTGAAGAGTGTCTACAGCCTG
  81 GTTTGCCTGTCTGCCCTCATGGATGCTATTAAAGCTTTGTTTTGTTGAACAGTCAGATACCCAACTCTGTTGCCTTGTGG
 161 AAGATGAGTCAATGCAATGCTTCTTAAAGTGGTCTCTTCTCCCTGACCCACAAATCTTTTGGTACTACCATTTTGGGAAG
 241 TCAAAAAAGGCTAGTAATTGACCAGAAAACAATTTTGTGGAAATTTGACCTGAAGTTAGTGAAATAAAACTTTGAAGAGT
 321 GTATGCCCTAGTGTTTTGTGCTTGTATCTTTTGGGGGGAAGCCTTTGCCAAGAAATTGCAAACGAGGCTTTGTAAACACA
 401 AAATGCTAATGAATGGAAATGTTAAGGGAGATCAGTGTGTACACATGCACACACAGCTAAGTTGAACACGCTGCGATAAG
 481 AAGGAAGTATTTTTTCTGGAGGTTTTGACAAGGTGGTTTTTAACGTTATTCTGGAAACAATTTAATGCTATCTCTTTAAT
 561 TCTAGAAAATGTTTAATTTAGTTGGTCTAGCATTAATTAAAATATTTGGGGTATATTCAAGTGCATGGGTTAGTTTTCCT
 641 GACAAGCATGTTTTGGTGTATAGTTTTTAGAAATAGCTATGCATCTGTCTACACAGGTTTAAAACAACATTTTGGGGTCT
 721 TGGAGCTATTGTAGAAATAGTTCATTGTCAGAAGCGCACTATTACTTGAACCTAAAAAATGACTGATGTAAATATGAGTA
 801 TGTTGACTAAATACATATGCTTGAATACATGAATGGATTTATAGAGAAAGTGGTGGTGAATTCAGTTAGAGGGAATTACT
 881 GTAATACATAGTCTCTAAATGATCTAGTTAAAAGATACTTGTTTTGTTACTATTTACCGGATGGAAACGGATTTTTTTCA
 961 TATATTTTTGTAGCATTTTGGGAGAAATGAAAGCTTTATAATTACTTGATACACCGTGGAATGAAAATGTAAGGTACCTT
1041 TCAGTATGTGCTCTGAGCTTTAATTTTTTTTGTTAATTGGCTGAACAGTATTTCCAGAGCTTCCTAGCTCTGGTTGTAGG
1121 AAGAAATGGTACAGTAGTGCAGATAGCAATTAGGAGCCTAGAAAATGAACGGGAGAAGTAGCAAAGCCATTTTAAGACAA
1201 TTAACTGGTGCTGTTTCTTCTGTAATAAAAACAAAATGAAATTACAAGGAGGGGAGAGCTTTCATTTTTCTCTCCAGGAA
1281 GACTTATTTCCAGAAATCACATACAGCAAATCAGCATGTTTCCTATGTTTGAAGCCAACAGCTGTTTGTACTGAAATCAC
1361 CAAAGGAAGTGCACTTTGCTAACAGGACTCGGTTTGATTTTTGAGCTTTTACTTTTTTTTTTCTTTTCAGTGACACAGGT
1441 GAATTTTTGGAACTTTGATTCTTGTTACAAAATGACGTAGCACCCAGTGGAGCGTCCATGTCAAATGTGCCTGTGTTAGG
1521 AGTAGAGCTGTGGAGAATAGTTACCAATAAACAGCTGGAGGCATTAGGATAACAATCTCACTTGGAGTTTATATGTATTT
1601 CCACTTCTGTAGCTTTTAATTAGATGTGTAAGAAGAACGTTTATCAGCTGGAATGTTTAGTTTTATACTAGTGTGGATTT
1681 TCTCTGGTGAGGTTTCCACAGAAGGCTAGTTTCTGGGGGTTCACCCCACCCCCACCCCACCCTTTACTGAGTTCAGTATT
1761 CTCCCCCAAATCCCTAGTCTTGATGGGATCATAAAGCTGGTTTTCCTCAATTCTAAATCAGTGTAAATTTTCACTCTGCT
1841 TTTAACTGGGAGGCAGATCTCTGAGTTCAAGGACAGCCAGGGATACATAAAGAGACCCTGTCTCAAACAAAACAAAACAA
1921 AACAAAAGTTTGTGTTCACTAGCTCTTGACCCTTGTTCTGTACCTTAGAATTGGACCATCAAGTCCATGTTGTTCTTATT
2001 TATAGAACAGCAAAATGGCCATTGCATAAATTGTATTTATGTGAGCCACTTCAATTAAAAATTTAAGTTCAAAATGTATA
2081 TCACCTATTAAAGCTATTAATCACATAAGCTAATGAATCTATGTAGGTTTTTAATTTTAAGTTAAAAAGTATCCTTTTTC
2161 AAAGTATATTTGTCTTTTTAAAGTGTCAGGGATCAAACTCTGGGCCTCCTGTATGTGAAGCAGTCATCAATGAACTACAT
2241 CTCCCAACACCTAAAGTGTATTTCTAAAATAGTTAACTGTATTGGAAATGAGTTGGTTTATACAAAGTATTAATTGGGTT
2321 AAACATTCTAATTTAAAATTACTACTAGCAAGCAAAGTTTTAAAATATCCTTTGATACTTAAAGAGTCATATATCCAAAC
2401 TTATGCTAAAATAGATTATAAATGTTATGGTTTAGCCTAGATAAATTCATTAATAATCATAAAATCCTTACAGGAAGCTA
2481 AAAACTGCAGTGTTAGGATATGTAGATGGAAGTCAATGACTACTAGTCTGTAGGTAACTGGATGATAGCTTAAGAATGAG
2561 AGTAAAGGGCACATAATTAGAATGTTTTGGTACGAGTTGGGATTATGGGTACAATGGGTGCTTGCCTATCAGGTACAGGG
2641 CTCTGGGTTTGAGTGCTAGCACTGCAAAGGAAAAATAAATCACTTACCAGAATGGCTTGTTTAGAAGAGTTTAATTGTTT
2721 ATAGTGGCCATGAGAGAAATCTGGTATAGTGTATCAGTGTTCTATTTAATGTAATGGTTTTATCATATAAACGATGATTT
2801 TAGCGGTAACAAAACACAAAATGTTTCTTCAAAATAAATTAATGCAACTTGGA
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' guCUAGUCGUGGUAAGAUUUAu 5'
            | |:  | | ||||||||| 
Target 5' tgGTTTTCCTCAATTCTAAATc 3'
 1798 - 1819 156.00 -8.20
2 
miRNA  3' gucuagucGUGGUA-AGAUUUAu 5'
                  ||: :| ||||||| 
Target 5' ctgtaataCATAGTCTCTAAATg 3'
 879 - 901 146.00 -6.70
3 
miRNA  3' guCUAGUCGUGGUAAGAUUUAu 5'
            |:|:|  | |||||||| | 
Target 5' tgGGTTA--AACATTCTAATTt 3'
 2315 - 2334 132.00 -9.22
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0004871
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 GSM1013588. RNA binding protein: AGO2. Condition:CD4+ T cells ...

- Loeb GB; Khan AA; Canner D; Hiatt JB; et al., 2012, Molecular cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' gucuagucguggUAAGAUUUAu 5'
                      ||||||||| 
Target 5' -----------aAUUCUAAAUc 3'
 		1 - 11
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]
CLIP-seq Support 1 for dataset GSM1013588
Method / RBP HITS-CLIP / AGO2
Cell line / Condition CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep2
Location of target site NM_001039515 | 3UTR | AAUUCUAAAUCAGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23142080 / GSE41285
CLIP-seq Viewer Link
20 mmu-miR-465b-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577525 Tirap toll-interleukin 1 receptor (TIR) domain-containing adaptor protein 2 2
MIRT578754 Gm11559 predicted gene 11559 2 2
MIRT579162 Cdc37 cell division cycle 37 2 2
MIRT579594 4930563E22Rik RIKEN cDNA 4930563E22 gene 2 2
MIRT579612 4930430F08Rik RIKEN cDNA 4930430F08 gene 2 2
MIRT581043 Sim1 single-minded homolog 1 (Drosophila) 2 2
MIRT581080 Setd7 SET domain containing (lysine methyltransferase) 7 2 2
MIRT582170 Nkain3 Na+/K+ transporting ATPase interacting 3 2 4
MIRT582548 Map3k1 mitogen-activated protein kinase kinase kinase 1 2 2
MIRT585015 Gid4 GID complex subunit 4, VID24 homolog 1 2
MIRT585344 Ybey ybeY metallopeptidase 2 2
MIRT585447 Veph1 ventricular zone expressed PH domain-containing 1 2 2
MIRT585686 Tbc1d24 TBC1 domain family, member 24 2 2
MIRT588451 Ybx1 Y box protein 1 2 4
MIRT592143 Ppp1r1c protein phosphatase 1, regulatory (inhibitor) subunit 1C 2 2
MIRT593133 Thrb thyroid hormone receptor beta 2 4
MIRT594592 Tfap2b transcription factor AP-2 beta 1 1
MIRT595797 Dapk1 death associated protein kinase 1 2 2
MIRT595819 Arl4a ADP-ribosylation factor-like 4A 2 2
MIRT598673 Hltf helicase-like transcription factor 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-465b-5p Ethanol NULL 702 Quantitative real-time PCR CIE10 22141737 2012 up-regulated

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