miRTarBase - #MIRT585565


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pre-miRNA Information
pre-miRNA mmu-mir-3470b   
Genomic Coordinates chr16: 44013852 - 44013977
Description Mus musculus miR-3470b stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-3470b
Sequence 34| UCACUCUGUAGACCAGGCUGG |54
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Tprkb   
Synonyms 0610033G21Rik, 1810034M08Rik, Cgi-121, DRWMS1, mDRWMS1
Description Tp53rk binding protein
Transcript NM_001170488   
Other Transcripts NM_176842   
Expression
Putative miRNA Targets on Tprkb
3'UTR of Tprkb
(miRNA target sites are highlighted)		 
>Tprkb|NM_001170488|3'UTR
   1 GATGTTTAAAATGTCAACAGAAAGCCGGGCGTGGTGATGCATGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGG
  81 ATTTCTGAGTTTGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACGGAGAAACCCTGTCTCGAA
 161 AAACCAAAAAAAAAAAAAAATTAACTCTAAGCCAGGTGTGGTGACTCATTACAGTCCACTGCTCAGGAGGCTGAGGCAGG
 241 AGAAAGCTGCAAGTTTGAGGTCAGCTTGGGATATGCCACAAATTCCAGATCAGCCTAAAGTACTATGTCAAATCCTATCT
 321 CAATAAATAGCAATTCATTTAACTCTCTTAGCTGCTTTTTAGGTAGATATGTCTTTGTGCCCACTTTATACAAGAGGCAG
 401 CTAAAAGAGTATAGCAGTATTAACTGACTAGCCCAGGGTCATGTAACTAGTATAAAACCATGTTTGATGGTTCCTTTTCC
 481 CCCTCACTTTATCTTGTATTGGATTGTATCCATCAAGATAGGCTTGGTCAAGGGTTAGCAAAGCTCTGTGAAGAGCCAGA
 561 TAAGTACTTTGCTCCTCAAAGGCCGCCTCATCTGGTTCCTGCTACAATTACTCAATATGACCTTTGCAGTCTGAAAGCAG
 641 CCACAGAGGACAGGTACAGAGTGAGTGGCCTCTGTCCAGTGAGCCTTGACTTGAACAAGCAGTGGGCAGCCCTGGAGTTG
 721 AGACTGTAGACTCCAGAGTTGGCTAGGACATAGTGACAGTCAAACCCTAAAGCTCACTGGCTTAGTACAGCAGAAGGAAA
 801 CATTTTGTTATCTTGAAGGCAGAAGGGATCAGAGGGAAACCCACAGCAGGGCTTTAGAGCCCTCTGCGGGGGCTTCTCAG
 881 CCTGGGCTTCTAGGTTACTGTGCAGCTTGTCAGAAGCTCTGGGGAGGGCAGAGAAACCTAAAAGCATCCACATGGAAGTG
 961 GCAGGTATTGCTCACCTCTTTTCATTCACACAAGTTCAAAAATGGTGACCCCTTGTTCTTCCCACAAGCACAGTCAGTTC
1041 TGCCCCTCCAGTCCCCTCTAAAGCGCCAAGTCTGCAAAGCCAGGTGCTCTCATAGTGCAGTTCTGGGGTTGTTCTCTGGG
1121 TACCTTATGGTGGTTTGAATATGTTTGGCCCAGGGAGTGGCACTATTTAGAGATGAGGCCTTTTTGGAGTTGGTAAGACC
1201 TTGGCAGAAATGTGTCATTGTGGGCATGGGCTTTAAGAGACCCTCCCTCCTTCTAGCCGTGTGGGAGCCAGTTTTCTCTT
1281 AGCGGCCTTCAGATGAAGATGTAGAACTCTCAGATCCTCCTGCACCATGCCTGCCTGGACACTGCCATGCTCCTGTCTTG
1361 ATGATAACAGACTGAACCTCTGAACCTGTAAGCCAGCCCGATTAAATGTTGTTCTTATAAGA
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' ggUCGGACCAGAUGUCUCACu 5'
            |||||||||||||||||| 
Target 5' ccAGCCTGGTCTACAGAGTGa 3'
 97 - 117 195.00 -41.60
2 
miRNA  3' ggUCGGACCAGAUGUCUCACu 5'
            :| | ||  ||||||||| 
Target 5' gaGGACAGG--TACAGAGTGa 3'
 646 - 664 155.00 -15.60
3 
miRNA  3' ggUCGGAC--CAGAUGUCUCAcu 5'
            || |||  | || ||||||  
Target 5' tgAGACTGTAGACTCCAGAGTtg 3'
 719 - 741 141.00 -11.20
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 GSM1385342. RNA binding protein: 聽AGO2. Condition:C2C12_GM_Ago2_CLIP-Seq_myoblast ...

- 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 GSM4751756
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 1
Location of target site NM_001170488 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751757
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 2
Location of target site NM_176842 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751758
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 3
Location of target site NM_176842 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4751759
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 4
Location of target site NM_176842 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_176842 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_176842 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4751762
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 3
Location of target site NM_001170488 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4751763
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 4
Location of target site NM_001170488 | 3UTR | GUACAGAGUGAGUGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM1385342
Method / RBP HITS-CLIP /  AGO2
Cell line / Condition C2C12 / C2C12_GM_Ago2_CLIP-Seq_myoblast
Location of target site NM_176842 | 3UTR | AGGCAGAGGCAGGCGGAUUUCUGAGUUUGAGGCCAGCCUGGUCUACAGAGUGAGUUCCAGGACAGCCAGGGCUACACGGAGAAACCCUGUCUCGAAA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 25083871 / GSE57596
CLIP-seq Viewer Link
124 mmu-miR-3470b Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT432203 Gga2 golgi associated, gamma adaptin ear containing, ARF binding protein 2 2 4
MIRT577165 Madd MAP-kinase activating death domain 2 10
MIRT577392 Vsx1 visual system homeobox 1 2 2
MIRT577967 Pla2g7 phospholipase A2, group VII (platelet-activating factor acetylhydrolase, plasma) 2 2
MIRT578741 Gm4951 predicted gene 4951 2 2
MIRT578764 Glrx2 glutaredoxin 2 (thioltransferase) 2 2
MIRT579190 Cd300lf CD300 molecule like family member F 2 6
MIRT579587 Uvssa UV stimulated scaffold protein A 1 1
MIRT580560 Tcea1 transcription elongation factor A (SII) 1 2 2
MIRT580824 Smurf2 SMAD specific E3 ubiquitin protein ligase 2 2 2
MIRT582827 Iws1 IWS1, SUPT6 interacting protein 2 2
MIRT582938 Il11 interleukin 11 2 2
MIRT583238 Gng2 guanine nucleotide binding protein (G protein), gamma 2 2 2
MIRT584226 Cog7 component of oligomeric golgi complex 7 2 6
MIRT585115 Zfp941 zinc finger protein 941 2 2
MIRT585144 Zfp882 zinc finger protein 882 2 2
MIRT585191 Zfp78 zinc finger protein 78 2 2
MIRT585214 Zfp553 zinc finger protein 553 2 4
MIRT585319 Zfp111 zinc finger protein 111 2 2
MIRT585378 Xcr1 chemokine (C motif) receptor 1 2 2
MIRT585415 Was Wiskott-Aldrich syndrome 2 2
MIRT585430 Vps72 vacuolar protein sorting 72 2 4
MIRT585444 Veph1 ventricular zone expressed PH domain-containing 1 2 4
MIRT585491 Ttc9c tetratricopeptide repeat domain 9C 2 2
MIRT585565 Tprkb Tp53rk binding protein 2 2
MIRT585600 Tns4 tensin 4 2 2
MIRT585671 Timm17b translocase of inner mitochondrial membrane 17b 2 4
MIRT585711 Taf1a TATA-box binding protein associated factor, RNA polymerase I, A 2 2
MIRT585717 Taf1 TATA-box binding protein associated factor 1 2 4
MIRT585825 Slc6a2 solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2 2 2
MIRT585872 Slc23a1 solute carrier family 23 (nucleobase transporters), member 1 2 2
MIRT585945 Slc10a1 solute carrier family 10 (sodium/bile acid cotransporter family), member 1 2 2
MIRT585977 Sgpp2 sphingosine-1-phosphate phosphotase 2 2 4
MIRT586018 Sass6 SAS-6 centriolar assembly protein 2 4
MIRT586059 Rnf168 ring finger protein 168 2 2
MIRT586151 Rad51c RAD51 paralog C 2 4
MIRT586160 Rab27a RAB27A, member RAS oncogene family 2 4
MIRT586236 Psmd9 proteasome (prosome, macropain) 26S subunit, non-ATPase, 9 2 2
MIRT586245 Psmb11 proteasome (prosome, macropain) subunit, beta type, 11 2 4
MIRT586317 Pla2g2d phospholipase A2, group IID 2 2
MIRT586467 Nol10 nucleolar protein 10 2 4
MIRT586542 Mtrr 5-methyltetrahydrofolate-homocysteine methyltransferase reductase 2 2
MIRT586605 Mob3c MOB kinase activator 3C 1 2
MIRT586699 Lrrc3 leucine rich repeat containing 3 2 4
MIRT586714 Lmbrd1 LMBR1 domain containing 1 2 2
MIRT587213 Fbxo22 F-box protein 22 2 2
MIRT587293 F10 coagulation factor X 2 2
MIRT587356 Eci1 enoyl-Coenzyme A delta isomerase 1 2 2
MIRT587388 Dtx3l deltex 3-like, E3 ubiquitin ligase 2 2
MIRT587639 Chrnb4 cholinergic receptor, nicotinic, beta polypeptide 4 2 2
MIRT587648 Chek2 checkpoint kinase 2 2 4
MIRT587694 Cd8b1 CD8 antigen, beta chain 1 2 4
MIRT587717 Cd300a CD300A molecule 2 4
MIRT587812 Ccdc78 coiled-coil domain containing 78 2 4
MIRT587857 Car5a carbonic anhydrase 5a, mitochondrial 2 2
MIRT587994 Aoc3 amine oxidase, copper containing 3 2 2
MIRT588049 Aida axin interactor, dorsalization associated 2 4
MIRT588102 Afg3l1 AFG3-like AAA ATPase 1 2 2
MIRT588134 Abcd4 ATP-binding cassette, sub-family D (ALD), member 4 2 4
MIRT588208 4930579G24Rik RIKEN cDNA 4930579G24 gene 2 2
MIRT588239 2510002D24Rik RIKEN cDNA 2510002D24 gene 2 2
MIRT588278 Sppl2a signal peptide peptidase like 2A 1 1
MIRT588307 Inip INTS3 and NABP interacting protein 1 1
MIRT588317 Zyg11b zyg-ll family member B, cell cycle regulator 2 4
MIRT588449 Ybx1 Y box protein 1 2 4
MIRT588886 Slc2a10 solute carrier family 2 (facilitated glucose transporter), member 10 2 4
MIRT588998 Rpl7l1 ribosomal protein L7-like 1 2 4
MIRT589001 Rp2h retinitis pigmentosa 2 homolog 2 2
MIRT589292 Pik3c2a phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 alpha 2 2
MIRT589446 Ncl nucleolin 2 4
MIRT589569 Mau2 MAU2 sister chromatid cohesion factor 2 2
MIRT589881 Hccs holocytochrome c synthetase 2 2
MIRT589966 Gabpb2 GA repeat binding protein, beta 2 2 2
MIRT589995 Fxn frataxin 2 2
MIRT590003 Fsd1l fibronectin type III and SPRY domain containing 1-like 2 2
MIRT590197 Elf1 E74-like factor 1 2 2
MIRT590240 Dnal1 dynein, axonemal, light chain 1 1 2
MIRT590269 Ddx55 DEAD (Asp-Glu-Ala-Asp) box polypeptide 55 2 2
MIRT590279 Dcp2 decapping mRNA 2 2 2
MIRT590288 Dbt dihydrolipoamide branched chain transacylase E2 2 4
MIRT590356 Clmn calmin 2 2
MIRT590482 Camk4 calcium/calmodulin-dependent protein kinase IV 2 4
MIRT590780 5730455P16Rik RIKEN cDNA 5730455P16 gene 2 2
MIRT591260 Lhx9 LIM homeobox protein 9 2 4
MIRT594759 Tspyl5 testis-specific protein, Y-encoded-like 5 2 2
MIRT594930 Gimap1 GTPase, IMAP family member 1 2 2
MIRT594991 Denr density-regulated protein 2 2
MIRT595603 Nbl1 neuroblastoma, suppression of tumorigenicity 1 2 2
MIRT596350 Serpine1 serine (or cysteine) peptidase inhibitor, clade E, member 1 2 2
MIRT597121 Svopl SV2 related protein homolog (rat)-like 2 2
MIRT597362 Sap18 Sin3-associated polypeptide 18 2 2
MIRT598068 Nfatc2ip nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 2 interacting protein 2 2
MIRT598214 Mpv17 MpV17 mitochondrial inner membrane protein 2 2
MIRT598406 Lypla1 lysophospholipase 1 2 2
MIRT599154 Dlgap5 discs, large (Drosophila) homolog-associated protein 5 2 2
MIRT599238 Tmem245 transmembrane protein 245 1 1
MIRT599629 Bckdk branched chain ketoacid dehydrogenase kinase 2 2
MIRT599666 AY074887 cDNA sequence AY074887 2 2
MIRT600092 2010012O05Rik BLOC-1 related complex subunit 7 2 2
MIRT600117 Zmym2 zinc finger, MYM-type 2 2 2
MIRT600600 Ncoa7 nuclear receptor coactivator 7 2 2
MIRT600827 Gnal guanine nucleotide binding protein, alpha stimulating, olfactory type 2 2
MIRT601049 Ciapin1 cytokine induced apoptosis inhibitor 1 2 2
MIRT601185 Asxl2 additional sex combs like 2 (Drosophila) 2 2
MIRT601207 Arhgef9 CDC42 guanine nucleotide exchange factor (GEF) 9 2 2
MIRT601706 Samd8 sterile alpha motif domain containing 8 2 2
MIRT601760 Rapgef4 Rap guanine nucleotide exchange factor (GEF) 4 2 2
MIRT601842 Polr3f polymerase (RNA) III (DNA directed) polypeptide F 2 2
MIRT601916 Opa3 optic atrophy 3 2 2
MIRT601964 Nav1 neuron navigator 1 2 2
MIRT602046 Mettl2 methyltransferase like 2 2 2
MIRT602118 Krr1 KRR1, small subunit (SSU) processome component, homolog (yeast) 2 2
MIRT602481 Dkc1 dyskeratosis congenita 1, dyskerin 2 2
MIRT602573 Crtc3 CREB regulated transcription coactivator 3 2 2
MIRT602698 Ap5z1 adaptor-related protein complex 5, zeta 1 subunit 1 1
MIRT603431 Rprd1a regulation of nuclear pre-mRNA domain containing 1A 2 2
MIRT603444 Rpl23 ribosomal protein L23 2 2
MIRT604415 Adam28 a disintegrin and metallopeptidase domain 28 2 2
MIRT604689 Sfn stratifin 2 2
MIRT605889 A130010J15Rik RIKEN cDNA A130010J15 gene 2 2
MIRT606313 N6amt1 N-6 adenine-specific DNA methyltransferase 1 (putative) 2 2
MIRT606360 Kcna4 potassium voltage-gated channel, shaker-related subfamily, member 4 2 2
MIRT606484 Ctsa cathepsin A 2 2
MIRT606626 Prdm2 PR domain containing 2, with ZNF domain 2 2

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