miRTarBase - #MIRT606092


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pre-miRNA Information
pre-miRNA mmu-mir-125a   
Genomic Coordinates chr17: 17830812 - 17830879
Description Mus musculus miR-125a stem-loop
Comment The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies .
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-125a-5p
Sequence 6| UCCCUGAGACCCUUUAACCUGUGA |29
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Wdr25   
Synonyms B930090D16Rik
Description WD repeat domain 25
Transcript NM_177602   
Expression
Putative miRNA Targets on Wdr25
3'UTR of Wdr25
(miRNA target sites are highlighted)		 
>Wdr25|NM_177602|3'UTR
   1 CTGGCAACTGAGACCCTGCCCCTGGGTAGGCGGCCGGAGGTTAGGCTGCTCCCGAGAGCTGCTGGGCTTCAGTGACTCGG
  81 CTATAGCATGGGGGTGAGAAGCCGTCTCGGCGCAAGCGTGTGTTAGTAAAGGTGTTTGCCGAGTGACTGGTGGGTGACAC
 161 GCAATCAGTAAGCGTGTGCTCTGTATGGTTTGGTTGGTTGATTGGTCTTTTACTTGTTTGTTTGTTTTGTTTCTGGTTTT
 241 TCAAGACAGGGTTTCTCTGTGTAGCCCTGGTGGTCCTGGAACTCAGGCTGGCCTTGAACTCAGGGACCCACCTGCCTCTG
 321 CCTCCTGAGTGCTGAGATGAAAGGTGTGTGCCACCACGCCTGGTGTGGTTTTTCTTAATGTGATTTTGGCAATGAACACA
 401 TATTAGCAGTGTCTTCCTGCCTTCTTACTGCAGATAGGGGAGCTTGAGATGGGACTGTCACCTGCTGGTCCTTCGGACAG
 481 TGAGGCTCTGGGGCTTGTGACTGCCCAGGAGCTCAGTGCACCTCAGCGCCCCCCACCACCACCCCACTATAAGACACCAA
 561 CAACTGTGTTTCTTCCTACCCACCTCTGGTCCTCTAACTTGCTGCCTGCCCACTGCCAGGTGGGTGGTCTGTGGTGGGCA
 641 AAGCTATGCATCTGTCCTGAAGGAGTGCGAGGAGAAGCAGGGACTCAGAAGCACATAGAAGGAAGTGTGGCATGTAGGGA
 721 GTGGAACTGTTGGAAAGGATGACGAGGATTAGGAGGCGTGGCCTTGTGGGAGGAAGTGTGTCACTGGGGGTGGGCTTTGA
 801 GGTTTCAGAAGCTCACACCAGGTCCAGTGGATCTCTCTCCACCTTCAGATGAGGATGTAGAACTCTTAGCTACTGCTCCA
 881 GCGCCATGCCCGCACTCTGCCATGCTTCCTCCCACCATGATGATAATCTGAATGATGAACCTCTGAAACTGTAAACCCGC
 961 TTCAATTAAATGCTTTTTAAAATAA
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' agUGUCC--AAUUUCCCAGAGUCCCu 5'
            :| ||  ||:||    ||||||| 
Target 5' agGCTGGCCTTGAA----CTCAGGGa 3'
 285 - 306 150.00 -16.30
2 
miRNA  3' agugUCCAAUU--UCCCAGAGUCccu 5'
              |||  ||  |||| |||||   
Target 5' tgcgAGGAGAAGCAGGGACTCAGaag 3'
 666 - 691 126.00 -14.42
3 
miRNA  3' agUGUCCAAUUUCCCAGAGUCCCu 5'
            ||||  |:|:|   ||| ||| 
Target 5' ggACAG--TGAGG---CTCTGGGg 3'
 475 - 493 123.00 -15.70
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 ...

- Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' aguguccaauuucccaGAGUCCCu 5'
                          ||||||| 
Target 5' -------------gaaCUCAGGGa 3'
 		1 - 11
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]
CLIP-seq Support 1 for dataset GSM4751759
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 4
Location of target site NM_177602 | 3UTR | CUUGAACUCAGGGAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_177602 | 3UTR | CUUGAACUCAGGGAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751762
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 3
Location of target site NM_177602 | 3UTR | CUUGAACUCAGGGAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM622570
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT1A
Location of target site NM_177602 | 3UTR | GAACUCAGGGACCCACCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
28 mmu-miR-125a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT001716 Lin28a lin-28 homolog A (C. elegans) 1 1
MIRT005597 Trim71 tripartite motif-containing 71 4 3
MIRT006310 Cbx7 chromobox 7 2 1
MIRT006967 4632428N05Rik V-set immunoregulatory receptor 2 1
MIRT054177 Ptpn18 protein tyrosine phosphatase, non-receptor type 18 2 1
MIRT054178 Ptpn7 protein tyrosine phosphatase, non-receptor type 7 2 1
MIRT054179 Ppp1ca protein phosphatase 1, catalytic subunit, alpha isoform 2 1
MIRT054180 Ppp2ca protein phosphatase 2 (formerly 2A), catalytic subunit, alpha isoform 2 1
MIRT054570 Traf6 TNF receptor-associated factor 6 3 1
MIRT580227 Tspan12 tetraspanin 12 2 2
MIRT582368 Mtf1 metal response element binding transcription factor 1 2 2
MIRT582450 Mgat4a mannoside acetylglucosaminyltransferase 4, isoenzyme A 2 2
MIRT584884 Antxr2 anthrax toxin receptor 2 2 2
MIRT587193 Foxk1 forkhead box K1 2 2
MIRT588848 Snrnp40 small nuclear ribonucleoprotein 40 (U5) 2 2
MIRT591275 Lars2 leucyl-tRNA synthetase, mitochondrial 2 4
MIRT592914 Madd MAP-kinase activating death domain 2 2
MIRT594893 Il1rn interleukin 1 receptor antagonist 2 4
MIRT596427 Hif1an hypoxia-inducible factor 1, alpha subunit inhibitor 3 3
MIRT599142 Dqx1 DEAQ RNA-dependent ATPase 2 2
MIRT599717 Aph1c aph1 homolog C, gamma secretase subunit 2 2
MIRT600832 Gm14137 predicted gene 14137 2 2
MIRT604902 Jmy junction-mediating and regulatory protein 2 2
MIRT605441 Stat1 signal transducer and activator of transcription 1 2 2
MIRT606092 Wdr25 WD repeat domain 25 2 2
MIRT732537 Tnfrsf1b tumor necrosis factor receptor superfamily, member 1b 4 0
MIRT734700 VDR vitamin D receptor 2 0
MIRT734824 Sox11 SRY (sex determining region Y)-box 11 2 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-125a Budesonide approved 5281004 Microarray neonatal mice liver 20145010 2010 down-regulated
miR-125a Phenethyl isothiocyanate(PEITC) NULL 16741 Microarray neonatal mice lung 20145010 2010 down-regulated
miR-125a Chaihu Shugan San NULL NULL Microarray hippocampus 23947143 2013 down-regualted
miR-125a Perfluorooctane sulfonate NULL 74483 Microarray zebrafish embryos 20878907 2011 down-regulated
miR-125a Hydroxamic acid HDACi LAQ824 NULL NULL Microarray breast cancer cell line SKBr3 16452179 2006 up-regulated
miR-125a Enoxacin approved 3229 Quantitative real-time PCR HEK293 cells 18641635 2008 up-regulated
miR-125a 4-hydroxynonenal NULL 5283344 Microarray human leukemic HL-60 cell 19022373 2009 up-regulated
miR-125a Valproate approved 3121 Quantitative real-time PCR CD4+, CD25- T cells 20427269 2010 down-regulated
miR-125a Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-125a Enoxacin approved 3229 Northern blot HCT-116 and RKO colon cancer cell lines 21368194 2011 up-regulated
miR-125a Enoxacin approved 3229 Quantitative real-time PCR HCT-116 and RKO colon cancer cell lines 21368194 2011 up-regulated
miR-125a 5-aza-2'-deoxycytidine (5-Aza-CdR) approved 451668 Microarray breast cancer MDA-MB231 22076154 2011 down-regulated
miR-125a-5p Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 up-regulated
miR-125a-5p Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse liver 19270793 2009 down-regulated
miR-125a-5p Curcumin NULL 969516 Microarray HONE1 cells 24896104 2014 down-regulated
miR-125a-5p 5-Fluorouracil approved 3385 Microarray MCF-7 breast cancer cells 21506117 2011 down-regulated
miR-125a-5p Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-125a-5p Trastuzumab approved NULL Microarray SKBR3 cells. 22384020 2012 up-regulated
miR-125a-5p Glucocorticoid NULL NULL TaqMan low-density array Eosinophilic esophagitis 22815788 2012 up-regulated
miR-125a-5p Marine fungal metabolite 1386A NULL NULL Microarray MCF-7 breast cancer cells. 22159329 2012 down-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
mmu-miR-125a-5p Paclitaxel 36314 NSC125973 approved sensitive Low Colon Cancer tissue and cell line (HT-29)

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