miRTarBase - #MIRT597148


—
pre-miRNA Information
pre-miRNA mmu-mir-302a   
Genomic Coordinates chr3: 127545496 - 127545564
Description Mus musculus miR-302a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-302a-3p
Sequence 44| UAAGUGCUUCCAUGUUUUGGUGA |66
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Stxbp4   
Synonyms 6030470M02Rik, Synip
Description syntaxin binding protein 4
Transcript NM_011505   
Expression
Putative miRNA Targets on Stxbp4
3'UTR of Stxbp4
(miRNA target sites are highlighted)		 
>Stxbp4|NM_011505|3'UTR
   1 TGGGTTTCCATGGGAAATGGAGCAGCAGAGTCCTCTGGCTTCTCAGTCCATGTCCACAACCAGACACAAGCCACCACACC
  81 CCGAGACACAGGAATCCAGCACGTGCACCAGGCAGGGTGTCAAGTCGCAAGTGTGGTATTTTCGTGTACATGTTAAAGAT
 161 CAGTTGCCACTACAGTAGTTTTTTTGGAAATAATCTAGTTGCATTTATTGAAGTCATTTATAGTCAGATTTTACATGCAT
 241 AAACCTCTTTATAATTAGATCTTTATAACTCAGTATGTTAGCTCATTGTTTGGTATGAGATACAATGGTTTGTATATCAA
 321 CACTTCATATTGAAAAGTTATACGAACATAGCAAACTCCTTTTTATAACTCTCCCTCCCAACCCACAGCTTAGGAAAAAT
 401 GTTCTGAGAAAGCGAGGGGAGGCTGCCTCACAGCTGTCCCACTAGCTGCTGACTACAACTTGTACCAAATAGGACACCAC
 481 CTAACTTATATTATTAGGAGACATCTATCATTTATAAAGTGCTTTCAAGCCGGGCAGTGGTGGTGCACGCCTTTAATCCC
 561 AGCACTTGGGAGGTAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGCCTACAAAGTGAGTTCCAGGACAGCCAGG
 641 GCTACACAGAGAAACCCTGTCTCGAAAAAAAAAAAAAAAAAAATGCTTTCAAACCTCACCTTACTTAAACCAAACAGCAT
 721 AGATTTTGAGCTGATCTACAGGGCAGTTCTACTCATGGCTTCAGCTGGAGAAACAGTGGTTCAGAGAGACAGAGCAGCCC
 801 ATCCCAGGGATGAGACTCACACCTTATCTTCTGATTCCGTGTCCAGGCGCCTTTGCCCTGCTCCCTACTGTCCCCACAGA
 881 GGGAGATTGCAGCCCAGCAGAGTATCTACAGTCTGTTGATGCAGCTGGGTCCACAGCTGTGCATTCCACAGCAGTCCAGA
 961 GGACACCTCAGAGTCATGACCCACTCTCTTCCTTCTGCGGCCCCAACCCCACCACCACCACCACCACCACCACCCTTAGA
1041 TACCAAGCAGGACACTGCTCTGTGACTTTTCAGTGGGCTTTGTATTTTCTAGACTAGAGACACTGGCTCATGGCCATGCT
1121 TAGGTGCCATGAGCCAGTAGGAGCATCTAAAGAGAGCTGACAGGAGAAAGGTATTTGTTTAAACACTGCTGGAGCGCTTG
1201 TAAAAGGATGGAGGCCAGGAGCCAAGCAAAGCAGCGCAGCATCACTTAGGCAAGCATAGAGCTCCCAAGAACACGGTGCA
1281 AGAACCTTCACTCAGGGCCACTTTATAAGTAAGTCACGGAGTTCCTGCAGTGGAGCAGCACCTGTGTCAGCATCAGACCC
1361 TAGCTCCTTACATTCTCTGCTGAGTTTTACCTGGTATAGGGAATGCATATGGAAAATACACATGGGCATCGTGCTCACCC
1441 ATACCTCTCTGAATACATTTAAGATGTAGGGTTTAAGCTGAATGCACTTAGGATTCATGTTTTCCTTCATGAGGAAGAAC
1521 ATAAAGTCAAATACAGACTGACAAGGAGACTCGAACCCTAACAACGACAGAATGGCTGGAGCAAACGTATGCCTCTCCTC
1601 ACAGCTGTCTGGATCTTAGGATGCTTCGAGAAGCGGGGTAGGGGTAGGTGGCTTTGAGAGCAGCTGCAGAAGGACCTGTT
1681 TCAAGTCCCAAAGAGGTGTGAACAGGCACTCACACGCTTTTATAAGACCGTCTCTGCTGTGACACCAGCACACTCCTGTT
1761 AGGAGATCATTCTCCTGCCTCGCATTGGAGAGTGTCCTCAATTGTTTGTAAGGGAAGCTGAGATGGGCTCCTGAAGCATG
1841 CAGTCTTTAATCTGTATGTGTGCATGTGTGTGTGGCACTCACAACCTCTCTGCTGCTAGTATCAAGTCCCTCCCTATTTC
1921 TACCAAATACATAATCAAAAAGATCTATAAAAACACATAGCTCTATGTACTGAGCACTCTATACCATACATTTCGGTATA
2001 CAATGAACATCTTTTGGGAGGTCTTTTTGGGATAGCCACTCTCTGTGTATACCACCCTGGCCTTGAGTTCACAATCCCCC
2081 TGCCTCAACCTCCCAAGTACTGGTATTTCAGCAACAAGTACCTTCTTGAAGGTACCCAAAGTGATTCCAATTTTATGAAA
2161 AAGCTGAGGTTTAGAAAGAAGTGGTCCCAAGGATCCCACCATGCCTTTGTGTTGATGCTGGATCTGAGGCAAGTCTTAGA
2241 CCCCAGGGCTTCCTTAAACCAGGGTGTAGAGCCTCCTGGATTTAGTCAGCCCTGCAGGACTCCAGCTTTCAGTCACGAAG
2321 AACTTCCCGATTTGTAAGAAAGGAATTCTCCAGGAGAAAATAGCATTCCATCAGGTTCCTGTGTAACTGAGCATCTCATG
2401 TGAATGCAGCTAAGGAGGTTGAGCCTCTGAATTAGCTGAATCAGGCGAACACTCATTGAGAACTATTCTTTAGTCCCTAT
2481 GTCCTCACCCATGTGTTCCCTTGGGATGCTCAGTAGCTACCAGCGGTGTGACCAGCACTCTGGTCACCAGGGCAAAGCAG
2561 AGCTACAGCTAACCATTTCAAAATAAAAATGATCTTGAAAGTCAGAATTTGTTAACTTCTAAATTTTAAAAATAGTTTCT
2641 TTTCCTTTCAAAAACGAGATCAAAGTTCTGTAGAAATAAGTCGAGTTAGATAAATAGCCCGTCTAACTTTCTGGAAGCTG
2721 CCGTCACCAATATTTCAGTAACTATTTCCCCTCGAGGGTAAGCCTGCCACCCTTAAACAGCTCCCCCTTGAATTGGTATG
2801 TTGTGGTCATCTTTTCATGGTGATATACGCATTCTGTTGCATTTTAAGTGTCTGCTTAAGCTATCACTTCCCAGAATACC
2881 CTTCACCAGTTGTTCAGCAACTCATTAAAGAAATCTTAGGCTACTGTAAGGTCTTTCCCGTAACAGTGTCATGGCGAGCA
2961 TTTGTGTATTTATTAAAACCTTTTCTTCAAGTACCCCCGCACTCAAACATGAGCGTCTGTAGACTGAATACTTTTGAAAG
3041 CCACTGTGTCAGAGTACAAAGTTTTGTCACTGAACAAAGAGCTTCTCCATCCCTGCCTAAAAAACCTGGATTTTTGTTTT
3121 AAATTGGATATTTTCTTTATTTACATTTCAAATGTAAACCTGGATGTTTTAATCATTGGGTTTTATCATCTCTTTAGCAT
3201 CGGAGACTGGCTTGCTGTGTGGGGCAGAGTCTGGCAGTGACTAATTCAGTGTTCCACACATGGCATTCCTCTCAGTGTGT
3281 TCTACTTTACATGTAATGATGATAAGGACTTGCTTCTAAATTAGCAGAGAGAGCAAAGGCATGCATACAGCATGCGCACC
3361 ATTTCTCTATCTGTGGAACAGTGGCATACGTCCCTGTGCCCACACAAGGCAACTCAGCATGCATCACCTGAGCACCTACT
3441 AAGTGCCTGACCATGCAAAGTATTAGAATTGTGGACAGTACAAACTTCAAAGTCAAAGAGCTCAATGTCTTAATATTTCT
3521 GTACACACACACACACACACACACACACACTCAAACACCAACAATTGGTATTCTGTACAGGATAAGAAGTTAAGGATTTG
3601 TTTCCTAAGAACCCCTTAAATTTGAATAATTATGGAAAATATTGACCCCCACACACACACCTTGGCTAGAAACGGAGAAG
3681 AAGGAACGTGCTGGAAGAAGAGGCTCTCCAATAACAAATGAAAGGCAGCTGTCAAAATAGACTCAAACAGCACACTCATA
3761 AACTGCTTGCGCAATCAGAAAATATTATCCTTTTTCTAGGGAGAAATAGGACATTTCTCTACGGTAAGCAAAATGTAACT
3841 TTTTGAAGGGTCAACACTCTTGACATTTTTATGATACTCATACAGACAGAACTGAACAAACATTAATACAGCTTTCACAG
3921 TCTTGGGTATGATTTTCAAGATGATGAAAAAGCACAGACTATGCCTGTGGAACTTAAAGGATTAAACGGAATGCGCCTGT
4001 GGATCATGACTTTAGAAATGTAAAACTCGAGATGTTCTAGCCATAGCTGTTCACGTGTAATATCATGTATCAGTAAAATG
4081 ATTTATAAATGATTTTATAAATACTAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' agugguUUUGU-AC--CUUCGUGAAu 5'
                ||||| ||  |:|||:||| 
Target 5' ttgtttAAACACTGCTGGAGCGCTTg 3'
 1175 - 1200 147.00 -15.10
2 
miRNA  3' agUGGUUUUGUACC-UUCGUGAAu 5'
            || : : ||||| :||||:|| 
Target 5' taACAGTGTCATGGCGAGCATTTg 3'
 2941 - 2964 145.00 -17.50
3 
miRNA  3' agugguuuugUACCUUCGUGAAu 5'
                    ||   ||||||| 
Target 5' cacgcctttaATCCCAGCACTTg 3'
 546 - 568 141.00 -13.61
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 HITS-CLIP data was present in GSM622571. RNA binding protein: AGO2. Condition:WT1B HITS-CLIP data was present in GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622573. RNA binding protein: AGO2. Condition:KO1 HITS-CLIP data was present in GSM622574. RNA binding protein: AGO2. Condition:KO2 ...

- 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]
73 mmu-miR-302a-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT054363 Lats2 large tumor suppressor 2 4 1
MIRT054577 Ccnd1 cyclin D1 4 1
MIRT578213 Myl6b myosin, light polypeptide 6B 1 1
MIRT579773 Zfp568 zinc finger protein 568 1 1
MIRT579903 Zbtb41 zinc finger and BTB domain containing 41 1 1
MIRT582206 Nfatc3 nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 3 1 1
MIRT589603 Luc7l2 LUC7-like 2 (S. cerevisiae) 1 4
MIRT592531 Mup7 major urinary protein 7 1 1
MIRT592581 Mup13 major urinary protein 13 1 1
MIRT595334 Galnt4 UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 4 1 1
MIRT596464 Fam168b family with sequence similarity 168, member B 1 1
MIRT596522 Zfp882 zinc finger protein 882 1 1
MIRT596544 Zfp866 zinc finger protein 866 1 1
MIRT596766 Usp45 ubiquitin specific petidase 45 1 1
MIRT596795 Ubxn2a UBX domain protein 2A 1 1
MIRT596925 Tprkb Tp53rk binding protein 1 1
MIRT597148 Stxbp4 syntaxin binding protein 4 1 1
MIRT597693 Ppp2r3d protein phosphatase 2 (formerly 2A), regulatory subunit B'', delta 1 1
MIRT598003 Npy1r neuropeptide Y receptor Y1 1 1
MIRT598028 Nol10 nucleolar protein 10 1 1
MIRT598114 Ncl nucleolin 1 1
MIRT598150 Mtif2 mitochondrial translational initiation factor 2 1 1
MIRT598303 Mc1r melanocortin 1 receptor 1 1
MIRT598345 Mau2 MAU2 sister chromatid cohesion factor 1 1
MIRT598390 Magt1 magnesium transporter 1 1 1
MIRT598435 Lpl lipoprotein lipase 1 1
MIRT598657 Hpgds hematopoietic prostaglandin D synthase 1 1
MIRT598871 Glyctk glycerate kinase 1 1
MIRT598885 Glrx2 glutaredoxin 2 (thioltransferase) 1 1
MIRT599161 Diap2 diaphanous related formin 2 1 1
MIRT599255 Tmem245 transmembrane protein 245 1 1
MIRT599414 Chek2 checkpoint kinase 2 1 1
MIRT599539 Car5b carbonic anhydrase 5b, mitochondrial 1 1
MIRT599747 Anapc16 anaphase promoting complex subunit 16 1 1
MIRT599850 Adarb1 adenosine deaminase, RNA-specific, B1 1 1
MIRT599896 Acat1 acetyl-Coenzyme A acetyltransferase 1 1 1
MIRT599919 A830018L16Rik RIKEN cDNA A830018L16 gene 1 1
MIRT600228 Trim56 tripartite motif-containing 56 1 1
MIRT600269 Tns4 tensin 4 1 1
MIRT600435 Samd8 sterile alpha motif domain containing 8 1 1
MIRT600863 Gad2 glutamic acid decarboxylase 2 1 1
MIRT600876 Gabpb2 GA repeat binding protein, beta 2 1 1
MIRT600951 Elf1 E74-like factor 1 1 1
MIRT601038 Cntn2 contactin 2 1 1
MIRT601252 Abl2 v-abl Abelson murine leukemia viral oncogene 2 (arg, Abelson-related gene) 1 1
MIRT601369 Ybey ybeY metallopeptidase 1 1
MIRT601493 Tmlhe trimethyllysine hydroxylase, epsilon 1 1
MIRT601936 Ogdh oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide) 1 1
MIRT601974 Nav1 neuron navigator 1 1 1
MIRT602014 Mpp7 membrane protein, palmitoylated 7 (MAGUK p55 subfamily member 7) 1 1
MIRT602186 Hyal1 hyaluronoglucosaminidase 1 1 1
MIRT602216 Hecw1 HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1 1 1
MIRT602228 H2-T3 histocompatibility 2, T region locus 3 1 1
MIRT602245 Grm1 glutamate receptor, metabotropic 1 1 1
MIRT602367 Fbxl3 F-box and leucine-rich repeat protein 3 1 1
MIRT602425 Ercc4 excision repair cross-complementing rodent repair deficiency, complementation group 4 1 1
MIRT602490 Dkc1 dyskeratosis congenita 1, dyskerin 1 1
MIRT602596 Chrnb4 cholinergic receptor, nicotinic, beta polypeptide 4 1 1
MIRT602684 Camk4 calcium/calmodulin-dependent protein kinase IV 1 1
MIRT602761 Asxl2 additional sex combs like 2 (Drosophila) 1 1
MIRT603033 Chic1 cysteine-rich hydrophobic domain 1 1 1
MIRT603526 Pwwp2a PWWP domain containing 2A 1 1
MIRT603813 Kif5b kinesin family member 5B 1 1
MIRT603883 Il10rb interleukin 10 receptor, beta 1 1
MIRT604185 Cxcl11 chemokine (C-X-C motif) ligand 11 1 1
MIRT605161 C030039L03Rik zinc finger protein 607B 1 1
MIRT605480 Slc6a2 solute carrier family 6 (neurotransmitter transporter, noradrenalin), member 2 1 1
MIRT605613 Mpv17 MpV17 mitochondrial inner membrane protein 1 1
MIRT605789 Ddx11 DEAD/H (Asp-Glu-Ala-Asp/His) box helicase 11 1 1
MIRT605806 Emc8 ER membrane protein complex subunit 8 1 1
MIRT605843 Cd300a CD300A molecule 1 1
MIRT731069 Nr2f2 nuclear receptor subfamily 2, group F, member 2 3 1
MIRT734874 FOXO1 forkhead box O1 3 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-302a Catechin approved 9064 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-302a Glucose NULL 5793 Microarray endothelial cells 24394957 2014 up-regulated

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