miRTarBase - #MIRT578439


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pre-miRNA Information
pre-miRNA mmu-mir-1906-1   
Genomic Coordinates chr12: 109544541 - 109544620
Description Mus musculus miR-1906-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA mmu-mir-1906-2   
Genomic Coordinates chrX: 88759474 - 88759553
Synonyms mmu-mir-1906, Mir1906
Description Mus musculus miR-1906-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-1906
Sequence 48| UGCAGCAGCCUGAGGCAGGGCU |69
Evidence Experimental
Experiments Microarray
Putative Targets

Gene Information
Gene Symbol Irgq   
Synonyms AF322649, FKSG27, Irgq1
Description immunity-related GTPase family, Q
Transcript NM_153134   
Expression
Putative miRNA Targets on Irgq
3'UTR of Irgq
(miRNA target sites are highlighted)		 
>Irgq|NM_153134|3'UTR
   1 GGTGTGCGGTGGGGCTTGGGGTGTCTGGTGACTGGTTTTGGCCCCACAGCCTCTGAGATTAAGAAGTGACGTTTTGTTAT
  81 TCAAACCCGGAGACTTGAAGGAGACTGACATCTCGTTGAAACGTGAGATTTACAGTCACCCGATTTCCTAGGTACTGAAT
 161 GGGAGTAGGGTCTATGCGCCAGAAGTGTGTCATCCAGATACCAATGCAGTAAAGGGAGTTGAGGGCCTGGGACTCAGTAG
 241 AAATGGGAGCTTCTTGGCGTCCCGCTGACACCTGGTCATGGATCTCTAGAAGCCTTGATCCCTGCCTGCCTGTGAGCGAA
 321 ACTGCGGGGAGATAGAAGCCTTGGAGTGCTGGCTCCCAAAAGGAAAGAAGTATAAGTTACCTGATGAAAGAACAGATTTT
 401 TGTGGGAGCTGTGAGAGCCTTAGGAAAAGTCTGGTTCCTAAGAAGGCTGTGGTTGCCATTTCTTAGGTGGCAGGAAGCCC
 481 TGTGGAGACCAGGGGCCTGCTGGAGACCCTTTAGTCTCTTGGAGTGCAGAAGATTGTCAGTCATTTGCTCTCCAAAGCTT
 561 TGGTGTGGACGATAATGATCCACAACATTGAAGGGAAGGGACAAGGGAGTGTGTGGGTAAGGTTGTCTTCTGACAGCTAG
 641 AGCCTAGGAATGGGGTCTTTAGGGTATGGAAGATTAGAAACCCACACTTGGAAATACTTCCCGTGGGATCCTGGCAGCTG
 721 CCTCTCCGAGCTTTACTGGGAAGGTGTGACTACCCCCATTTTATAGGTGCTGGGTGATTCAGGGTCTCTGGCATGCACGC
 801 TCCTGTTTCTCTTTATTACTGGTTTCTTCTGTCATATGGACCTTAACTGCAGGGCCTCAAAGTGATGGGCTCCTGCTGTA
 881 GCAGTCTATGTGGTTTTTCTGCATGACCTCTTCTGATTTCTCCCAAGACACCTGCTGCTGGTCCACATAGGATGCTGCTG
 961 CTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGGGGTCCCCCTCAGGATAGCTAGGTAGGCCTT
1041 TGATGCCGTGGGAAAGTGCCTGGAGGGAGGCATAGGCAGAAACCACATCGCTGTCAGTTTTGTAGCTTTGTGCAGGTAGG
1121 ACCACGGGGTTCAGAGATGCAGGCCAAAGGCTCATCAACACAGCGGGACAGTGTGTGGCCTGGCCCTGCCTCTTCTCCAT
1201 TTTCAGCCCATCTCCAGCAAGCCTGATGCCAAGGTCCCACCTCAGGACTTATGCATTTTCTGGTTTTCTGTGGGACACTC
1281 TGCCTCCCTGTCTTTTTTTGAGATAGGGTCCTCATCTGTCAGGTCTCCCCGAAATGGCTCTATGGTCACCCAAAGTAGCT
1361 TGCATTGATCCTGCCACATGGTAGTCCCTGTAGTGAACATTACTACCAATGGCTGTATTCTCATTCTCTCACTTGCCTGT
1441 TCGTTGGCTCTTGCTCCTTGCTTGTCTTTCTCTTGGGTGTACCCTAGCACCCAGAGCAGTGCCTGACACACAGTAGGTGC
1521 CTAGTATTTATTTTCTTAGTTTACTGGTCACTGGCACATGGCCTGGAATTCAGGTTGTCATAATCTTGTTACAAAGAGGG
1601 AGAGAAGCAAGCACCTGGTGGGAGAGCGAACGGTAGCAGCAGCTTGGCCGCTGTCACTACATGAACGAGGGCCATGTATT
1681 TTCACCTGGTCGATGAAAGGACTGGGCTAGACCCATAAGAGCTTCTGAGGGCTAATCAGAAGCCTGCACAGCTGGGCTTT
1761 GCTCCCATCTAACCCTGAACTCTCACCTCTGACACCATCCGCCCTACGAGGAGGCACCTTATTCGGGCGTTCATGCCTGT
1841 AATCCCCGCACCTCCGGTTGACACAGGAGAATTTGAAATTTAAGGCAGTCTTCGGTGAGAGAGGATTGCAGGCCTGTAAG
1921 CTATGCGCCTGTTCCCACTAGAGTCTAGACGGGCCTTGAACTCCACACGGTCTGGAGCCAGCCTGATACTAAGTCCTTGA
2001 TGCTTGGGTTGGCCAGCTTTGGCCCTGCCTCAGCCTCCCCAGTGCCGGGATTATGACTCTAAACCATCCTAGATCAGCCT
2081 GACACTCTTTTCACTAAATCATCAGAACCAATGTGTTCCTACACCCAAGCACACCTCATCACACAATACACCTAATTGGA
2161 AATACTTGAACTGATCAATGGAGGGCCCAATTCACATACCCGTGTTTCAATTATATCGATAAGTTCCCCCCAATCATGGG
2241 GTTTTGATCAGTGCCTCACATATTAAAGGCAAACACTCTGCTGGAACCATGTACCTAGCCCTGTGCTGGGCTGCAGGTAG
2321 GGTTCTGGGCAGGGGCTCTACCACTGAGCCACGCCCCCAGCCCCTCACTGGGGGATTCTAGGCAGGGGCTCTACCACTGA
2401 GCCACGCCCCCAGCCCCTCACTGGGGGATTCTAGGCAGGGGCTCCACCACTGAGCTACATCATATTTCAAGACAAGGTCT
2481 CACTAAGTTGCTTGGGCTGTCCTTGAACTCACTTTATTCCAGACAGGCCTTGGAATTTGGGATCCTAACCCCTCAGCCTC
2561 CCAAGTAACTGGGATCACAGGCCTGCCTCACCTCCTGGCTTAGTAGTTTTCCCTGAACCTGTGATGTTCCAGTGGGTCAA
2641 GTACAAATAGAATCTGAGATGGATTTCCCCCCCCCCTCGGTGGCTTTATCCACATACTTGGATCATAGTTCAACAATACA
2721 GTCTATTGTGAAAAATCATAACAGCATGAAAGTGAGACATTGCAACCACATTTGGGAAGCTGAGAAATCTTTGTTTCACC
2801 CCAGGACCACAGCGCTATGGAATAGTGTTTCAAACAGTAGGTTTCCTCGCCTCATTTAACATAGTCTAGGCACTCCTCCA
2881 CAGCCATGTCCAGGGTGAACGTAAATTCTGTCAGTTAATATTAACCATCACAGCAGGCATCTAAGAACTTGCTCTGTTAC
2961 ATGTGCACATGTGTGGCTAAGCATGCACACACTGGCATGTGAATGTGCTCACACACATACCCAGCTCCCAGGTACTGCAG
3041 CCCCCTCTGAGAAGCTTGACACTCAAATGCTACTCCTCTACTGCCTGGGCCCCACTTCCCTTGGTCTGGCTACAGTAACA
3121 GCCAAACTCGGTCTCCTATTAAGTGTCCTGAGCTCTCTAAACCCTCCATGTCTTTTCTGGTATTTTGACATAGCTTAGGC
3201 TTGCCTTCACCTCGGCATGTAGCTGGTGATGGCCTTGAAATCCTGATCCTCCTGCCTGCATCTCTCCAGTGCCAGGGTCA
3281 GGCACGTGGCATGATGCCCTGCTCTCACTGTGGCTTGCTTTGGTGCCACCTGGCATCCCCGTCCTGTGCTTTGCTGCTCT
3361 CCCTTCTTGAGGCAGGAGGCCCATGCTAGATGCATCGAAGGAGCATATTGTAGCCATTGTGTGTGTCCTGGTCAGCTCCA
3441 TAAACTTGTACAGGGCACTTTTGTGTTTTGTGATTCCTTGCCCATTTTTGTTCTGTTACTTGAGATAGAGGATCCAGGCT
3521 GTCTCAAACACTTGGCGCCAGGTGCTTCTCCGGTCCTAGCCTCTCCTTGTCCTGGGTTACAGGTAGAGGTGGCTGCCTTT
3601 TAAACTATGATCTCCCACCCCCACCCCTGAGATAGGGCCTTACTCTACAGCTCTGGGCGTCTAAAGAGCTGGGATTACAG
3681 GTGTAAATGACTACATATGTTGCCCATACAATCTTTTGTTAGGATTTTCAGGCTTTTCCAGAATGTAAGCAAAGCAGATA
3761 GCCAGGCCCCTGGAAGCCTCCAAATAGGAAAGGTTCAGTCTCCCTCGTCACAGGCCACCTGCTGCCAGCAGGGTGCTCCC
3841 ATGAGGCACCTCGGGTCTGAAAGAGCCTGGGCGCAGGAACTCTGGGAAATGTCAGTCCTCCATGCTGGAATTGCAGCTAC
3921 ACAATCTTGGCATTGCCCTTGAAAGACGAGCAGGTTTCAAACGTTGGTGAATGGATGAGGTGCCCTCCTCAACATGGAGA
4001 GAGTCTCACACTTCTGGCTCATGAAGGAGCTGTCTGTTGGAATGTGGGGGACAAATCTGTCTGGTAATCCTGTGGTGTGT
4081 TTTGGAAAAAAGAATAAAAGGGTAGGAATGCTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' ucGGGA-CGGAGUCC----GACGACGu 5'
            |||| |:| ||||    ||||||| 
Target 5' ctCCCTCGTCACAGGCCACCTGCTGCc 3'
 3800 - 3826 166.00 -24.90
2 
miRNA  3' ucggGAC--GGAGU---C--CGACGACGu 5'
              |||  || ||   |  |||||||| 
Target 5' gctgCTGGTCCACATAGGATGCTGCTGCt 3'
 934 - 962 150.00 -19.90
3 
miRNA  3' ucgGGACGGAGUCC----GACGACGu 5'
             ::| :| || |    ||||||| 
Target 5' tgaTTTCTCCCAAGACACCTGCTGCt 3'
 914 - 939 145.00 -14.10
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Brain (Mouse neocortex)
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 Chi_BrainB_130_50. RNA binding protein: AGO. Condition:Brain B 2A8 P13 130 KD ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
Experimental Support 2 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' ucgggacggaguccgACGACGu 5'
                         |||||: 
Target 5' ---------------UGCUGUg 3'
 		1 - 7
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]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0007872
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 GSM1013576. 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' ucgggacggaguccGACGACGu 5'
                        ||||||: 
Target 5' --------------CUGCUGUg 3'
 		1 - 8
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]
Experimental Support 4 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 HITS-CLIP data was present in ERR266286. RNA binding protein: AGO2. Condition:A_Liver partial hapatectomy 1h HITS-CLIP data was present in ERR266287. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 36h HITS-CLIP data was present in ERR266292. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 48h HITS-CLIP data was present in ERR266293. RNA binding protein: AGO2. Condition:A_Liver partial hapatectomy 36h HITS-CLIP data was present in ERR266295. RNA binding protein: AGO2. Condition:B_Liver partial hapatectomy 1h HITS-CLIP data was present in ERR266298. RNA binding protein: AGO2. Condition:A_Untreated 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 - 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]
Experimental Support 5 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions C2C12
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 GSM1385342. RNA binding protein: 聽AGO2. Condition:C2C12_GM_Ago2_CLIP-Seq_myoblast HITS-CLIP data was present in GSM1385343. RNA binding protein: 聽AGO2. Condition:C2C12_DM_Ago2_CLIP-Seq_myotubes ...

- Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al., 2014, Cell.

Article - Zhang X; Zuo X; Yang B; Li Z; Xue Y; Zhou et al.
- Cell, 2014
MicroRNAs are well known to mediate translational repression and mRNA degradation in the cytoplasm. Various microRNAs have also been detected in membrane-compartmentalized organelles, but the functional significance has remained elusive. Here, we report that miR-1, a microRNA specifically induced during myogenesis, efficiently enters the mitochondria where it unexpectedly stimulates, rather than represses, the translation of specific mitochondrial genome-encoded transcripts. We show that this positive effect requires specific miR:mRNA base-pairing and Ago2, but not its functional partner GW182, which is excluded from the mitochondria. We provide evidence for the direct action of Ago2 in mitochondrial translation by crosslinking immunoprecipitation coupled with deep sequencing (CLIP-seq), functional rescue with mitochondria-targeted Ago2, and selective inhibition of the microRNA machinery in the cytoplasm. These findings unveil a positive function of microRNA in mitochondrial translation and suggest a highly coordinated myogenic program via miR-1-mediated translational stimulation in the mitochondria and repression in the cytoplasm.
LinkOut: [PMID: 25083871]
CLIP-seq Support 1 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_153134 | 3UTR | ACCUGCUGCUGGUCCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset Chi_BrainB_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition Brain (Mouse neocortex) / Brain B 2A8 P13 130 KD
Location of target site NM_153134 | 3UTR | CUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM622570
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT1A
Location of target site NM_153134 | 3UTR | UGCUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM1013576
Method / RBP HITS-CLIP / AGO2
Cell line / Condition CD4+ T cells (C57BL/6) / CD4+ T cells, 155KO, biological rep2
Location of target site NM_153134 | 3UTR | CUGCUGUGUGUGUGUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23142080 / GSE41285
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset ERR266281
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Liver partial hapatectomy 48h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGGGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset ERR266286
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Liver partial hapatectomy 1h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset ERR266287
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Liver partial hapatectomy 36h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset ERR266292
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Liver partial hapatectomy 48h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGGGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset ERR266293
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Liver partial hapatectomy 36h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset ERR266295
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Liver partial hapatectomy 1h
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 11 for dataset ERR266298
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Untreated
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 12 for dataset ERR266300
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Untreated
Location of target site NM_153134 | 3UTR | AGGAUGCUGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 13 for dataset GSM1385342
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_GM_Ago2_CLIP-Seq_myoblast
Location of target site NM_153134 | 3UTR | UGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
CLIP-seq Support 14 for dataset GSM1385343
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_DM_Ago2_CLIP-Seq_myotubes
Location of target site NM_153134 | 3UTR | UGCUGCUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
27 mmu-miR-1906 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT578439 Irgq immunity-related GTPase family, Q 2 10
MIRT578971 Dhdh dihydrodiol dehydrogenase (dimeric) 2 4
MIRT580446 Tln2 talin 2 2 2
MIRT582494 Mbtps2 membrane-bound transcription factor peptidase, site 2 2 2
MIRT587588 Cox15 cytochrome c oxidase assembly protein 15 2 2
MIRT589524 Mtf1 metal response element binding transcription factor 1 2 2
MIRT591281 Klc1 kinesin light chain 1 2 4
MIRT591935 Ddx19b DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b 2 2
MIRT592084 Sorcs2 sortilin-related VPS10 domain containing receptor 2 2 2
MIRT592206 Mapkap1 mitogen-activated protein kinase associated protein 1 2 4
MIRT592349 Armcx6 armadillo repeat containing, X-linked 6 2 4
MIRT592351 Angel1 angel homolog 1 2 2
MIRT592365 4930444A02Rik protein-O-mannose kinase 2 2
MIRT592427 Spsb4 splA/ryanodine receptor domain and SOCS box containing 4 2 2
MIRT592671 Itgav integrin alpha V 2 2
MIRT592712 Fbxo21 F-box protein 21 2 4
MIRT593155 Itsn1 intersectin 1 (SH3 domain protein 1A) 2 2
MIRT593662 Spen SPEN homolog, transcriptional regulator (Drosophila) 2 2
MIRT593976 Cdc14b CDC14 cell division cycle 14B 2 2
MIRT597931 Pacsin2 protein kinase C and casein kinase substrate in neurons 2 2 2
MIRT597949 Opa1 OPA1, mitochondrial dynamin like GTPase 2 2
MIRT598550 Isoc1 isochorismatase domain containing 1 2 2
MIRT599017 Fgd4 FYVE, RhoGEF and PH domain containing 4 2 2
MIRT600307 Tacc1 transforming, acidic coiled-coil containing protein 1 2 2
MIRT603647 Otop1 otopetrin 1 2 2
MIRT605000 Fam168b family with sequence similarity 168, member B 2 2
MIRT606275 Oxsm 3-oxoacyl-ACP synthase, mitochondrial 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-1 Anthocyanin NULL 145858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Caffeic acid NULL 689043 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Catechin approved 9064 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Curcumin NULL 969516 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Ferulic acid NULL 445858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Hesperidin NULL 10621 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Quercetin NULL 5280343 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Galactose NULL 6036 Quantitative real-time PCR lens 22736950 2012 up-regulated
miR-1 Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Quantitative real-time PCR myocardial differentiation of mouse ES cells 19521018 2009 down-regulated
miR-1 Sulfonyl-hydrazone-1 (SHZ) NULL NULL Quantitative real-time PCR Murine broblast-derived Induced pluripotent stem cells 21445862 2011 up-regulated
miR-1 Cocaine NULL 446220 Next-generation sequencing ventral striatum 21708909 2011 up-regulated
miR-1 Atorvastatin approved 60823 Quantitative real-time PCR Cardiomyocyte 23860036 2013 down-regualted
miR-1 Glucose NULL 5793 Quantitative real-time PCR endothelial cells 24394957 2014 down-regulated
miR-1 Docosahexaenoic acid NULL 445580 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 Palmitic acid approved 985 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 17beta-estradiol (E2) approved 5757 Microarray MCF-7AKT breast cancer cells 19528081 2009 down-regulated
miR-1 Essential amino acids (EAA) NULL NULL Quantitative real-time PCR skeletal muscle of young adults 19828686 2009 up-regulated
miR-1 Hydrogen peroxide (H2O2) NULL 784 Quantitative real-time PCR Human umbilical vein endothelial cells 21527937 2011 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Microarray apoptosis-resistant breast cancer cells 21971930 2011 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-1 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miR-1 Bicalutamide approved 2375 Microarray prostate 22674191 2012 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR cardia 22889704 2012 up-regulated
miR-1 Perfluorooctane sulfonate NULL 74483 Microarray zebrafish embryos 20878907 2011 up-regulated
miR-1 Quinidine approved 441074 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 up-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 down-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR post-infarction rat cardiomyocytes 21220930 2011 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 down-regulated
miR-1 Dexamethasone approved 5743 Microarray adrenals and granulosa cells 24205079 2014 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 up-regulated

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