miRTarBase - #MIRT604997


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pre-miRNA Information
pre-miRNA mmu-mir-3065   
Genomic Coordinates chr11: 120014767 - 120014853
Description Mus musculus miR-3065 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-3065-5p
Sequence 14| UCAACAAAAUCACUGAUGCUGG |35
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Fgf13   
Synonyms Fhf2
Description fibroblast growth factor 13
Transcript NM_010200   
Expression
Putative miRNA Targets on Fgf13
3'UTR of Fgf13
(miRNA target sites are highlighted)		 
>Fgf13|NM_010200|3'UTR
   1 CCAGTGAGGGCAAAACGAGGGCTCTATAACAGAACCTTACCTTCAGGTGCTGTTGAATTCTTCTAGCAGTCCTTCATCCA
  81 AAAGTTCAAACTTATCAGTGAGGTTTACCAAACACACAGGCAGACTTCCCTATTCTCTCTGCCGTTATACCTTGTTATCA
 161 CCCATATTAAAGCCCCATAATTTATTCTGAGCTTGTGCAAAAGAGTGCCAAGCATTATCAATGAACTAAACCTGGAAGAA
 241 GGACTGCCAAATTTTCTCATGATCTCACCTGTACTTTGGGGATAAATAAAACAGCAAAAATATTTAACAGCACAAATGCT
 321 GGTCAATTTGCTTCCCAATTAAGAAAAATTAAAAGACCACAGCTATTCTTAACAAAGCAAAACAACAAAACAAAGTTAAC
 401 TGCTTAAATGTTTTGTAGGGGCAAACAAATTCTGTGAACTGTGCTGTTTTCTTGGCTTCGTGTTTTCTATCTCTGCTTGA
 481 TTCAAATGTACTCTTTACTTTCATATAGTGCAACTTTATGATTTTTGAAAATTAATGGTTCTATTGACTCTGTCACTTAA
 561 TCCATATTAACCAAAGGCAGGGTTGAATCTGAATTGGCATCTGAGGTTCAAGGTAACCGTGTTCTTATGGGTTTTCCTCT
 641 CTCGCACCCTCTCCTTTCCACCCTCCCTCTTTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTCTCTCTTTCTCTCTCT
 721 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTTTTTGTTGTCAATTAGAACTGTAGCATTCT
 801 GGTCAAGTTCTTGTGCTGTACTTTGTGCGTAGAAATTGAGTTGTATCGTCAATCCCAGTCAGTAAGATAAGTTGAAACAA
 881 GATTATCCTCAAGTGTAGATTTCTCTTAATTCCATTCGTGTATCATGTTAATCTATTGTGGCTTCTTGTGTAAAGACAGG
 961 AACTGTGGAACAGTGGCATTGTCTTTCGTGTTGTTCAAATAAGAAGTGTCTCACCTGTACATGTACAAGTCCTCCTGTCA
1041 TTGGATTTGGCACGTGAACATTGTGAACAAGGCAATGTTAAGAATGGTTCCCCCTAAACAACATATATTATACCTGCTAC
1121 TGGAAAAGTGTTTAAGACTTAGCTAGGTTTCCATTTAGATCTTCATATCTGTTGCATGGAAGAAAGTTGGAATCTTGGCA
1201 TAGAGTTGCATGATATGTAAGATTTTGTGCATTAATAATTGTTAAAACCTGTGTTCCAAAAGTGGACATAGCATGTACAG
1281 GCAGTTTTCTGCCCTGTGCACAAAAAGTTAAAAAAAAAGTTGTTTAATATTTGTTGTTGTATACCCAAATACGCACCGAA
1361 TAAACTCTTTATATTCATTCAAAGAAAAAAAAAAAAAA
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' ggucguagucacuAAAACAACu 5'
                       |||||||| 
Target 5' tctctctctccttTTTTGTTGt 3'
 758 - 779 145.00 -6.10
2 
miRNA  3' ggucguagucACUA-AAACAACu 5'
                    | || ||||||| 
Target 5' aaaagttgttTAATATTTGTTGt 3'
 1315 - 1337 144.00 -5.30
3 
miRNA  3' gguCGUAGUCACUAAAACAACu 5'
             || | | || |||||| | 
Target 5' actGCTTAAATG-TTTTGTAGg 3'
 399 - 419 126.00 -5.40
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 GSM622572. RNA binding protein: AGO2. Condition:WT2 ...

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

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]
133 mmu-miR-3065-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT430695 Atp2b2 ATPase, Ca++ transporting, plasma membrane 2 1 1
MIRT577276 Zfp619 zinc finger protein 619 1 1
MIRT577437 Ttyh1 tweety family member 1 1 1
MIRT577647 Sod2 superoxide dismutase 2, mitochondrial 1 1
MIRT577852 Rassf9 Ras association (RalGDS/AF-6) domain family (N-terminal) member 9 1 1
MIRT577896 Prrg4 proline rich Gla (G-carboxyglutamic acid) 4 (transmembrane) 1 4
MIRT577952 Pole4 polymerase (DNA-directed), epsilon 4 (p12 subunit) 1 1
MIRT578007 Pgpep1 pyroglutamyl-peptidase I 1 1
MIRT578136 Noc3l NOC3 like DNA replication regulator 1 1
MIRT578205 Naaa N-acylethanolamine acid amidase 1 3
MIRT578451 Ints7 integrator complex subunit 7 1 2
MIRT578772 Gatsl2 GATS protein-like 2 1 2
MIRT578776 Gata1 GATA binding protein 1 1 1
MIRT578863 Fam163a family with sequence similarity 163, member A 1 1
MIRT578864 Fam159b family with sequence similarity 159, member B 1 1
MIRT579037 Cts8 cathepsin 8 1 1
MIRT579539 Coa5 cytochrome C oxidase assembly factor 5 1 1
MIRT579653 2010106E10Rik RIKEN cDNA 2010106E10 gene 1 1
MIRT579710 Zic1 zinc finger protein of the cerebellum 1 1 1
MIRT579721 Zfp92 zinc finger protein 92 1 2
MIRT579828 Zfp106 zinc finger protein 106 1 1
MIRT579873 Zbtb8b zinc finger and BTB domain containing 8b 1 1
MIRT579938 Zbtb34 zinc finger and BTB domain containing 34 1 1
MIRT580092 Usp54 ubiquitin specific peptidase 54 1 1
MIRT580347 Tmem33 transmembrane protein 33 1 1
MIRT580373 Tmem229a transmembrane protein 229A 1 2
MIRT580541 Tcp11l2 t-complex 11 (mouse) like 2 1 1
MIRT580657 Stxbp5l syntaxin binding protein 5-like 1 2
MIRT580728 Srrm4 serine/arginine repetitive matrix 4 1 1
MIRT580766 Spp1 secreted phosphoprotein 1 1 1
MIRT580853 Slc8a1 solute carrier family 8 (sodium/calcium exchanger), member 1 1 1
MIRT581257 Rras2 related RAS viral (r-ras) oncogene 2 1 1
MIRT581367 Rcor3 REST corepressor 3 1 1
MIRT581452 Ranbp3l RAN binding protein 3-like 1 1
MIRT581626 Prkar2a protein kinase, cAMP dependent regulatory, type II alpha 1 1
MIRT581835 Pkia protein kinase inhibitor, alpha 1 1
MIRT581897 Phc3 polyhomeotic-like 3 (Drosophila) 1 2
MIRT582138 Npr3 natriuretic peptide receptor 3 1 1
MIRT582434 Mllt3 myeloid/lymphoid or mixed-lineage leukemia; translocated to, 3 1 1
MIRT582435 Kmt2a lysine (K)-specific methyltransferase 2A 1 1
MIRT582473 Med28 mediator complex subunit 28 1 1
MIRT582523 March1 membrane-associated ring finger (C3HC4) 1 1 2
MIRT582739 Kpna1 karyopherin (importin) alpha 1 1 1
MIRT582765 Klf12 Kruppel-like factor 12 1 1
MIRT583052 Hoxc4 homeobox C4 1 1
MIRT583070 Hnrnpul2 heterogeneous nuclear ribonucleoprotein U-like 2 1 1
MIRT583389 Fzd6 frizzled class receptor 6 1 1
MIRT583418 Fubp3 far upstream element (FUSE) binding protein 3 1 2
MIRT583486 Foxc2 forkhead box C2 1 1
MIRT583748 Ephb2 Eph receptor B2 1 1
MIRT583894 Dtna dystrobrevin alpha 1 1
MIRT583996 Dck deoxycytidine kinase 1 1
MIRT584018 Dcaf17 DDB1 and CUL4 associated factor 17 1 1
MIRT584023 Tmem245 transmembrane protein 245 1 2
MIRT584102 Csnk1e casein kinase 1, epsilon 1 1
MIRT584246 Cnnm3 cyclin M3 1 2
MIRT584385 Cdh12 cadherin 12 1 1
MIRT584396 Cdc37l1 cell division cycle 37-like 1 1 1
MIRT584462 Cbfa2t3 core-binding factor, runt domain, alpha subunit 2, translocated to, 3 (human) 1 1
MIRT584494 Camkk2 calcium/calmodulin-dependent protein kinase kinase 2, beta 1 1
MIRT584630 Bbx bobby sox HMG box containing 1 1
MIRT584793 Arl5a ADP-ribosylation factor-like 5A 1 1
MIRT584821 Arid3b AT rich interactive domain 3B (BRIGHT-like) 1 1
MIRT584838 Arhgef18 rho/rac guanine nucleotide exchange factor (GEF) 18 1 1
MIRT584952 Adamts5 a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 5 (aggrecanase-2) 1 1
MIRT585099 Zfp945 zinc finger protein 945 1 1
MIRT585623 Tnfaip6 tumor necrosis factor alpha induced protein 6 1 1
MIRT585661 Tmco1 transmembrane and coiled-coil domains 1 1 2
MIRT585936 Slc14a2 solute carrier family 14 (urea transporter), member 2 1 2
MIRT586062 Rnd1 Rho family GTPase 1 1 1
MIRT586696 Lrrtm4 leucine rich repeat transmembrane neuronal 4 1 1
MIRT586756 Kdm5d lysine (K)-specific demethylase 5D 1 1
MIRT586958 Grhl1 grainyhead-like 1 (Drosophila) 1 1
MIRT586989 Gpr107 G protein-coupled receptor 107 1 1
MIRT586997 Gpkow G patch domain and KOW motifs 1 1
MIRT587056 Gm5464 predicted gene 5464 1 1
MIRT587297 Extl1 exostoses (multiple)-like 1 1 1
MIRT587428 Dmd dystrophin, muscular dystrophy 1 1
MIRT587531 Cxxc5 CXXC finger 5 1 1
MIRT587941 Atp1b3 ATPase, Na+/K+ transporting, beta 3 polypeptide 1 1
MIRT588042 Aim2 absent in melanoma 2 1 1
MIRT588860 Smad7 SMAD family member 7 1 1
MIRT588862 Slit3 slit homolog 3 (Drosophila) 1 1
MIRT588901 Slc16a6 solute carrier family 16 (monocarboxylic acid transporters), member 6 1 1
MIRT588916 Skor1 SKI family transcriptional corepressor 1 1 1
MIRT588918 Six6 sine oculis-related homeobox 6 1 1
MIRT588969 Sall1 sal-like 1 (Drosophila) 1 1
MIRT588972 S1pr3 sphingosine-1-phosphate receptor 3 1 2
MIRT589007 Robo1 roundabout guidance receptor 1 1 1
MIRT589016 Rnf150 ring finger protein 150 1 2
MIRT589317 Pbx1 pre B cell leukemia homeobox 1 1 2
MIRT589465 Ncam1 neural cell adhesion molecule 1 1 2
MIRT589658 Lhfpl4 lipoma HMGIC fusion partner-like protein 4 1 1
MIRT589751 Jph1 junctophilin 1 1 1
MIRT589804 Id1 inhibitor of DNA binding 1 1 1
MIRT590017 Foxa1 forkhead box A1 1 1
MIRT590127 Ercc6 excision repair cross-complementing rodent repair deficiency, complementation group 6 1 1
MIRT590256 Dennd5b DENN/MADD domain containing 5B 1 1
MIRT590273 Dcun1d1 DCN1, defective in cullin neddylation 1, domain containing 1 (S. cerevisiae) 1 1
MIRT590384 Cep170 centrosomal protein 170 1 1
MIRT590678 Ankrd28 ankyrin repeat domain 28 1 1
MIRT590712 Agtr1b angiotensin II receptor, type 1b 1 1
MIRT590770 Faxc failed axon connections homolog 1 1
MIRT593316 Nudcd3 NudC domain containing 3 1 1
MIRT593331 Ddx3x DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3, X-linked 1 1
MIRT594854 Ncapg2 non-SMC condensin II complex, subunit G2 1 1
MIRT595054 Ankrd29 ankyrin repeat domain 29 1 1
MIRT597158 Ston1 stonin 1 1 1
MIRT598524 Itsn1 intersectin 1 (SH3 domain protein 1A) 1 1
MIRT598732 Gucy2c guanylate cyclase 2c 1 1
MIRT599943 Rmi2 RecQ mediated genome instability 2 1 1
MIRT600798 Hmg20a high mobility group 20A 1 1
MIRT600906 Fam126b family with sequence similarity 126, member B 1 1
MIRT603234 Tlr3 toll-like receptor 3 1 1
MIRT603378 Sh2d4a SH2 domain containing 4A 1 1
MIRT604113 Dis3l DIS3 like exosome 3'-5' exoribonuclease 1 1
MIRT604271 Cd33 CD33 antigen 1 1
MIRT604719 Samd8 sterile alpha motif domain containing 8 1 1
MIRT604725 Rs1 retinoschisis (X-linked, juvenile) 1 (human) 1 1
MIRT604981 Ftsj1 FtsJ RNA methyltransferase homolog 1 (E. coli) 1 1
MIRT604997 Fgf13 fibroblast growth factor 13 1 1
MIRT605729 Gm5415 predicted gene 5415 1 1
MIRT605798 Creb3l2 cAMP responsive element binding protein 3-like 2 1 1
MIRT605930 Sertad3 SERTA domain containing 3 1 1
MIRT605934 Senp8 SUMO/sentrin specific peptidase 8 1 1
MIRT606120 Trerf1 transcriptional regulating factor 1 1 1
MIRT606209 Sdad1 SDA1 domain containing 1 1 1
MIRT606288 Nudt11 nudix (nucleoside diphosphate linked moiety X)-type motif 11 1 1
MIRT606324 Ms4a6b membrane-spanning 4-domains, subfamily A, member 6B 1 1
MIRT606376 Igf1 insulin-like growth factor 1 1 1
MIRT606464 Deptor DEP domain containing MTOR-interacting protein 1 1
MIRT606642 Nhsl2 NHS-like 2 1 1
MIRT606667 Kcnh1 potassium voltage-gated channel, subfamily H (eag-related), member 1 1 1

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