miRTarBase - #MIRT580328


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pre-miRNA Information
pre-miRNA mmu-mir-690   
Genomic Coordinates chr16: 28599935 - 28600043
Synonyms Mirn690, mmu-mir-690, Mir690
Description Mus musculus miR-690 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-690
Sequence 83| AAAGGCUAGGCUCACAACCAAA |104
Evidence Experimental
Experiments MPSS
Putative Targets

Biomarker Information
Biomarker ID Name Type Discovered From Mode Level Source Testing Methods
B6MEZ5 miR-690 Safety Biomarker (SAF) Clinical/Experimental Data Expression Increase Serum Microarray
Gene Information
Gene Symbol Tnrc6a   
Synonyms 2010321I05Rik, 3110054G10Rik, AW557223, CAGH26, D130023A07Rik, GW182, Tnrc6
Description trinucleotide repeat containing 6a
Transcript NM_144925   
Expression
Putative miRNA Targets on Tnrc6a
3'UTR of Tnrc6a
(miRNA target sites are highlighted)		 
>Tnrc6a|NM_144925|3'UTR
   1 TGGCATAGGTATAGACGTAAACTGTGACCTCACGAAGAGAAGGAAAGGAGCACTAAGTTGGGCTCGCCGCCTGCAGCCAG
  81 GGCACCTGTGGGAACAGCTGTTTTCTGCACATTCTCCACTTTGTTTTCCCCAAAACATATCAGTTTGAATACTTGAATCA
 161 TGCAGGCCAATATTATAATGTGAAAGGGTATCTATCTATTTACACTCCCAAACAGCGCCATACAGCTACCGTGTGGAATG
 241 AGCTCACTTGTGTATTCATCATGTTTAGCCTTCGGATTCCTTCTTTCCTCCATTTCCATCCCCATCCCCACCTTTTATTT
 321 TTATTTGTATTTTTTGCAAAACCGTTTTGGGGCTGACGTATGAGCTTTTACCTTTGCACTGAGTGATGTTCTCCGTCTAA
 401 TCGGCAATATGGGGGCAGCTGTTCCAGTGTAGATGTTTACTCAAGGGTGTTCTCAAGGCGTGCGCTCTCTACTATGCCTC
 481 ATGTTGCCTACCTTAGTGTGGTATCGTGGAGTTGAAAAGATCAAGTTAAGATACTGACGTAGGATTCTTAATGAAAGTAT
 561 TGCACCAGTTTTTTCATGTTGTAAAACTAAAGAATTTCGCTCTACAGTTTGAGAAACTGTGGCCACCGCTGTGACCTGCA
 641 GCCCGCCTGCTGCCCAGGACGGGCCCTGCACTTTGAACAGGCTTTCCATGTTGTTTTGAAGGTTCCCACGGTGAACCTTC
 721 TTGTTTACAGATTTTTTTGTTTGTTTTTTGAGAAAAAAAATGTTTACTCTTCCATCATTTAAAAAAAAAAAATTAAAAGA
 801 CAAAAAAAAAAAAAAAGGAGGGTGGTTTAAAAGACGCTTCTATCTCTGGGAAAAGAGCAGCAGTTGGCCATGTTCTTCTG
 881 TTTTCTATTCCTGTCCTAAATCAAAGAGCATGGTTCTCAGGAAACCAGTTCCCCGGTCAAAAAATCTTGTAGTTTCTTAT
 961 AGGAAAGAAGAAAACCCAACTTTTAGCACTGATACTACGTATTGCTCTGTTCAACATTTTCTCTGCCAAAAAAAGAAAAA
1041 AAAAAAAAAAAGAAAAGAAAAAAGAAAAAAACGCGCTTCGAGCTGGAGTTGCCGTCTGCTTTCAGATGCTGTCCTTTAGT
1121 AGTGAGTGATGATGGTTTGCTAATCGCTAGGTGACTTTTGTAACCCCATCAGTGGCTCTCATGTCTCTGCTCTCTTGTGA
1201 CTGTGTTCATGTTTAACTGTTGTACCTTAAAGCCGAGATCAGTAACTATGCATACTGTAACCAAGACATTGGGCTTACAG
1281 AGTTGTTTGTTGTATAAAAAATTTTAAATGTTGTTGCAAACTAACGAGTTACACCATTTTAAAATTTCTTTCCTCCCTAG
1361 CCCCTGTTGTTTTGCCCACAAATGGTATTATAATGCTTGCTTAGTCAAAGAGAGACTAAACAAGGGTAAACTTTTAACAG
1441 TACAGAATACGCCATCATTTCATTGCCTTGATTCTAACTGTTTGTGTCCTAAGATGCAAAAGAGGTCAGTGGCTTTTAAC
1521 TGTTTACAATAGGATGTGATTGTAAATGTACAGTTTGGTTGTGTTTGAATTATGAAATCTTCAAATAATAAACCATGACT
1601 TTTTGGCTGCTCAACATTAATTGTCTCTTTTTTGTGGATTTATTTGTAGGCTCTTTTATAATGAAAGTTACAAAGTTGCT
1681 GCATGTGAGAGTTCTTCTCATAGAGCGGCAGATTAAAAATCTAAGCAAATATTTGAACATTTTACCTGAACTTGTCCACA
1761 ATCACCCTGAGATAATGTGAGAACAGTGGGAACTGTAGCTTGCTCCTCCTCCCCTGAGCATCTGTGGGAGCTTGTTGTTG
1841 CCCAAAGCTCTTCTCTGGCTTCACCTTCCCCACCATCTGTGCCCATCTCAAGCCTCAGCGGGACCATTGGGACACGAAGC
1921 TGACTGCCGTGACAGCGTCCTAGTGTTAACCTCTCATACCTCACACAGTGGGGATGCCACCACCTGGACTGGCCTCTCTT
2001 CCCTGTGCCCTTCGCCCCTCCTCACTGAAGGAGCTCTGGGCACAGAACCTGTATGACTTCAAATCACGCTCCACTTGCCA
2081 GGTGTAAGCTAATGTTGGACACCGTAACCTAAGCAAATGTTTAATGCATTCGGTGTGTGTTGATGTCCATACTGGTTTTT
2161 CCAAAAACCAAAGGTAGCTTTGAAAAACCATGTGTGGAGATGTTTGGACCGTTAAGCTGAGTGACCGTTTGGGGCTTTGA
2241 GTAGTATATATCTGACTTCATGACTTCGTTAATTGTATTGTTAAAAGTGTTTGGGAGTTTTTTTGCGCTTGTTATGTGGA
2321 AATAAAGTGTTTGATTTAAAAAATAAAAAAAAAAAAAAA
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' aaaccaacacuCGGAUCGGAAa 5'
                     |::||||||| 
Target 5' gtattcatcatGTTTAGCCTTc 3'
 252 - 273 147.00 -10.50
2 
miRNA  3' aaACCAACA-----CUCGG-----AUCGGAAa 5'
            ||||| |      | ||     ||||:|| 
Target 5' acTGGTTTTTCCAAAAACCAAAGGTAGCTTTg 3'
 2151 - 2182 128.00 -10.26
3 
miRNA  3' aaaccaACACUCGG-AUCGGAaa 5'
                || || |: ||||:|  
Target 5' gaacagTGGGAACTGTAGCTTgc 3'
 1781 - 1803 116.00 -8.60
Experimental Support 1 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 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 GSM4751757
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 2
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751758
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 3
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751759
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 4
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4751762
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 3
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4751763
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 4
Location of target site NM_144925 | 3UTR | CAUGUUUAGCCUUCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM1385343
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_DM_Ago2_CLIP-Seq_myotubes
Location of target site NM_144925 | 3UTR | GCCUUCGGAUUCCUUCUUUCCUCCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
29 mmu-miR-690 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT054611 Vcan versican 3 1
MIRT054612 Ctnnb1 catenin (cadherin associated protein), beta 1 3 1
MIRT438463 Cebpe CCAAT/enhancer binding protein (C/EBP), epsilon 2 1
MIRT580328 Tnrc6a trinucleotide repeat containing 6a 2 2
MIRT587416 Dnase2a deoxyribonuclease II alpha 2 4
MIRT588924 Shroom3 shroom family member 3 2 2
MIRT593056 Madd MAP-kinase activating death domain 2 2
MIRT593335 Cebpa CCAAT/enhancer binding protein (C/EBP), alpha 2 2
MIRT593667 Smarcc1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1 2 2
MIRT594943 Fnta farnesyltransferase, CAAX box, alpha 2 2
MIRT595735 Apcdd1 adenomatosis polyposis coli down-regulated 1 2 2
MIRT596853 Ttc26 tetratricopeptide repeat domain 26 2 2
MIRT596914 Trim27 tripartite motif-containing 27 2 2
MIRT597246 Slc39a1 solute carrier family 39 (zinc transporter), member 1 2 2
MIRT597547 Ranbp3l RAN binding protein 3-like 2 2
MIRT600400 Sgms2 sphingomyelin synthase 2 2 2
MIRT600700 Lpp LIM domain containing preferred translocation partner in lipoma 2 2
MIRT600812 Gpcpd1 glycerophosphocholine phosphodiesterase 1 2 2
MIRT601006 Cst6 cystatin E/M 2 2
MIRT601281 2010107G23Rik RIKEN cDNA 2010107G23 gene 2 2
MIRT601474 Tnfaip6 tumor necrosis factor alpha induced protein 6 2 2
MIRT601744 Rbm34 RNA binding motif protein 34 2 2
MIRT603545 Ptchd2 dispatched RND transporter family member 3 2 2
MIRT603901 Htr5a 5-hydroxytryptamine (serotonin) receptor 5A 2 2
MIRT605244 Soga1 suppressor of glucose, autophagy associated 1 1 1
MIRT605502 Siglece sialic acid binding Ig-like lectin E 2 2
MIRT605746 Fgfr1 fibroblast growth factor receptor 1 2 2
MIRT735810 Map2k3 mitogen-activated protein kinase kinase 3 2 0
MIRT735811 Map3k7 mitogen-activated protein kinase kinase kinase 7 2 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-690 Glucose NULL 5793 Microarray pancreatic {beta} cells 19096044 2009 down-regulated
miR-690 Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 down-regulated
miR-690 Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse liver 19270793 2009 up-regulated
miR-690 Phenethyl isothiocyanate(PEITC) NULL 16741 Microarray neonatal mice liver 20145010 2010 up-regulated
miR-690 Tert-butyl hydroperoxide (t-BHP) NULL 6410 Microarray mouse auditory cells 20510889 2010 up-regulated

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