pre-miRNA Information | |
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pre-miRNA | mmu-mir-669m-1 |
Genomic Coordinates | chr2: 10512790 - 10512887 |
Synonyms | mmu-mir-669m-1, Mir669m-1 |
Description | Mus musculus miR-669m-1 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
pre-miRNA | mmu-mir-669m-2 |
Genomic Coordinates | chr2: 10513434 - 10513531 |
Synonyms | mmu-mir-669m-2, Mir669m-2 |
Description | Mus musculus miR-669m-2 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |
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Mature miRNA | mmu-miR-669m-5p |
Sequence | 25| UGUGUGCAUGUGCAUGUGUGUAU |47 |
Evidence | Experimental |
Experiments | Illumina |
Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | Oxtr | ||||||||||||||||||||
Synonyms | OTR | ||||||||||||||||||||
Description | oxytocin receptor | ||||||||||||||||||||
Transcript | NM_001081147 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on Oxtr | |||||||||||||||||||||
3'UTR of Oxtr (miRNA target sites are highlighted) |
>Oxtr|NM_001081147|3'UTR
1 GCCATAGGCCTGGCCCACCAGGCCAGCCGCTGGGTGGTGTAGCCGCCGATCTTCCCCTCTGGTGGCTGTGCATGGAGCTG
81 TATATGGTGCCTATTGATTGGTTTGCATCCCTCCTGTCCTTGGGCTGGTTAGATTCTGTGTCATATTCTGACTTGGGGTA
161 GGGAAATGTCTCCATGGGAGATGACAGGGTCACTCAGCCATCAGAGGATCACCTGGACTCCCACCTATTTCTACTACCCT
241 GACTCAAGTGTTCCTGGGCAGTGGGTAGATTCTCCTGCACCTCACTTCTGTCCCCTCCACCCCTTGTTTATCCTGGTATC
321 TTGTGAAAGACGGCACACCTAGGATTGGTGACCAGTTACCTGAGGAAGTCCAGTGGGATGAGACAAGGAGTGGGAAATGA
401 GGCTGCAGACGCAGAGTGGTGCTAATTTCCTTCTGACCTGAGTTGTGTGGACAGATCTTAGCATCCTTAGGACATCCCAG
481 AAAGCATTTGGAGCTGGAAACTGAGCCGTGAAGCCACCTGGCTCTGGAAGGAATGAGAACGAGGGCTGAAAGGTTGAAGA
561 TGTTGTTGCTTGACAAACATTTGGGAAGGAAAAGGAAATGAGAGCCACCCAGGACAGACGAGGGAGGAGAGCTGTCTGTA
641 CACACACTGATCCATGCATATGTGATCCTAGGAGCGCTCACACACATGCAAGTAGTCTCTCTCTCTCTCTCTCTCTCTCT
721 CTCCCCCCCCATCTCTTCCCAGAGCTGACAGATGAGAAGCAAGGTTAGTGTCAGATCAATGTACAGAGATCGTTTATATT
801 TCCTTATACTGCTGGTGACCAATGGGAAGGTGAAGTAAGGAGCGCCCACCCATAAAAGTCCCAGACTGAGTAAAGGAAGG
881 CTAGGGCTAACAGAGAAAACAGAGCAAGCCCATGCCCTGAAGGCTGCAAATAGGCACTTGGGGAACGTTAAGGAGACTAG
961 ATAAATGGGGCCACCTTGTGCTTGTGAATCAGAGACGTAATATTATTGGACAGATTTGATGTAATCCTCATCAAATTCCT
1041 AGCTGGCTTCTGCAGAAATTGATAAAGTGATCCTAAAATTCCCAAGGAGATGGGGATTGGGGTGCTTAAGATGCTTAGGA
1121 ATTTGTGATGGGTGCACAATTCTGAGAACGTATTTAAAATTAATAAAGCAAACTCCAGCGGCTGAGGAGATGGCTCACTC
1201 AGAGAAGTAAATGTGTGCTGAGTGAGTGTAAGGACCCAACTTCAGCACCCAGCATCCCATCCATGTAGACACCAGGCTCA
1281 GTGAGCCTTAACCTCAGCCCTGGGGTGAGGTGGGGGTGACAGATGATCCTGTCAGAGACTTGCAAGGCAGCCAGCCTAGC
1361 AGACTTCAAGCAACTTCAAGTTCAGCAAGAGACTCTATCTCAAGACAAATAACTCAGTAAATAAAAATAAGGTGGAGAGT
1441 GATGGAAGAAAACACCAGAAGTCGACCTTTGGTCTCTACACGTATATATGGCTATACAGCATACACACACTTACATGCAA
1521 GCAGACACACACACCTATGCATACATGCATGCACACACACACACACACACACACACACACACA TGCACACGCACGCACAA
1601 AACCATTAAACTATATACACTTGAAAATGTGAAAAAAGTTCAAGAGCCGAGTTCTGGGAAAACCACAATGATGGATGGAC
1681 TTCTTGACCTATCTTCCTTGAGTGCAGTTTCCCATGTGACTCACCACCTCCGAGTGTCTGCAGCAGAGGCGGGCTCTGTT
1761 CTGGCCTGTGGAAGCAGTGAGCACCCCCATCTGGCTTTGCCGAAGGCCCGAAGGCCCGAGGGATGCTCCACCATTGTGGC
1841 CTGTCTTCTTTAGAACAGCACTTCCCCAGGAGTCTTAAAGGTTTTGTTTATCAGATAAGCATGCTCTCAAATGTCCTCTC
1921 AGTCTTGAGGACAGGATATGAGTCTGTCTCAGAAATACCTTTGACCATTAAATATAGGTCACAACTGAATAGTGGCTTTC
2001 TGCCTGTGTCTGGTCACTGTGCACTCTGGAGTCCCTTTGAAATACCCAGACTTAATTCTGGACTTACTGAAATATATCAA
2081 GGGCGCTTCCAAAAAGCCTAGAATCTGTAGATCCACTTTGTTAACTGCCCACCTCCCATACTTCTGAACACATTTTCTTC
2161 TGCTATGCTGCAGTATTTGCCCAAACCCATACATGTACCTGTATGCGCACACATGCACAAATGAATATGAAACAGTGCAG
2241 TTGAGTGTTTAGGAAGAAGGAAGCCACGTGCTACAGTGCCCATGTTCAACATCCACAACTTAGGGCAAGCTGGTTGACAC
2321 CAGCTGGAGATAGGAGGCAGTGTCATTTTTGGACCCAGGGACATTAACCCTCATGCATACAGTGTCACACCAGCTTGTCC
2401 CAGCTCTTTGAGAAGCTAGCACGATTCTGCTTTAGGGTGTCTGCCTATGTCCTAGACCATCCTGCTCGCCTGGGTGATGG
2481 CAGGCATGGCAGTAGCCTGTTAGCATCTGTGTCTTGCAGGTGCTCTGATTCCCTGCTATCCACAGAGAAGTTGCTATCCT
2561 TAGGGCCAAAAGGTGTCACTAGGGGTCAAGGGAAGGAGTGACTCAGATATTCTGACCATGGACACAGTGTTCCGGAGAGC
2641 CCCAGAGGGCATAGAAACCTGCTGTTGTCAGTCTCCATGAAAGCTCTAGCTGGTACCTTGGGTCTTGTCCTGACACCCGT
2721 ATCTGTGACATAAGTGACAGTTGACTTCACCAGCAACATTGGATTGGCACCTTACTGTCCTAATCGCACAGGAAAAAATT
2801 TTTTTTTTATCATTTTTTTCAATTGTTATCTCCCCAATGAAAGCTGAGGATCTCTAGGGGTTCAAAACACCCACTCCCAG
2881 TCCTGTGACCTGTGTTCTTCTTCCTCAGATTCCACACCTGACATCCCCAGTGCCCCTTCCATTTTCCAGCCTGTTTACAA
2961 TCCATGTGCAGGGTTGAAAGTTGTGTTAAACTGGAGCTGAATGTTCTGGAATGTTTCGTTGTTCTGACCATGAAGAGTCA
3041 GTGTGCAAACTGTGAGAGTCACTTAGGCCCTGCCAGAAAAGAGTCTCCATTTAAAACTCTGTGTCTCCTTTTGGGACAAA
3121 TCTGAGCCATCACTTCAGAGAGCACAGGAGGATGTCAGTGCAGGCTGCCGGCTGATGGTCCCAGCTTTCAGCATGTACCT
3201 TTGGTATTCAATTGCAATGAGATGCCCCTCAGCACACAGTGTGAACTCCTTGATAATGTGATTTCATGGACACTCGTGTG
3281 GTGCCCAGTGTCCCCTGCGTCTGGTGAGTGACACAGCCAATTCTGAAATGCCTGCTTTACCAGCTGCTGCTCCATAAATG
3361 GTGCACTTAATAAACATTTTTTTTCTGTAG
Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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Experimental Support 1 for Functional miRNA-Target Interaction | ||||||||||
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miRNA:Target | ---- | |||||||||
Validation Method |
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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 ERR266298. RNA binding protein: AGO2. Condition:A_Untreated
... - Schug J; McKenna LB; Walton G; Hand N; et al., 2013, BMC genomics. |
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miRNA-target interactions (Provided by authors) |
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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]
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CLIP-seq Support 1 for dataset ERR266298 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | Liver / A_Untreated |
Location of target site | NM_001081147 | 3UTR | CAUGCACACACACACACACACACACACACACACACA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23597149 / E-MTAB-1612 |
CLIP-seq Viewer | Link |
87 mmu-miR-669m-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT577337 | Zfp157 | zinc finger protein 157 | ![]() |
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2 | 2 | ||||||
MIRT577486 | Tns4 | tensin 4 | ![]() |
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2 | 6 | ||||||
MIRT578069 | Oxsm | 3-oxoacyl-ACP synthase, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT578341 | Ltf | lactotransferrin | ![]() |
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2 | 2 | ||||||
MIRT578746 | Gm4841 | predicted gene 4841 | ![]() |
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2 | 4 | ||||||
MIRT578823 | Fermt1 | fermitin family member 1 | ![]() |
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2 | 2 | ||||||
MIRT579125 | Chrnd | cholinergic receptor, nicotinic, delta polypeptide | ![]() |
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2 | 2 | ||||||
MIRT579138 | Chrna1 | cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) | ![]() |
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2 | 2 | ||||||
MIRT579308 | BC021785 | major facilitator superfamily domain containing 4B5 | ![]() |
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2 | 4 | ||||||
MIRT579418 | Agtrap | angiotensin II, type I receptor-associated protein | ![]() |
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2 | 2 | ||||||
MIRT579730 | Zfp92 | zinc finger protein 92 | ![]() |
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2 | 4 | ||||||
MIRT579980 | Wrn | Werner syndrome RecQ like helicase | ![]() |
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2 | 4 | ||||||
MIRT581036 | Sim1 | single-minded homolog 1 (Drosophila) | ![]() |
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2 | 4 | ||||||
MIRT581534 | Pten | phosphatase and tensin homolog | ![]() |
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2 | 2 | ||||||
MIRT582315 | Nab1 | Ngfi-A binding protein 1 | ![]() |
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2 | 4 | ||||||
MIRT582845 | Itga9 | integrin alpha 9 | ![]() |
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2 | 4 | ||||||
MIRT582975 | Igf2 | insulin-like growth factor 2 | ![]() |
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2 | 4 | ||||||
MIRT583471 | Foxk1 | forkhead box K1 | ![]() |
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2 | 4 | ||||||
MIRT584664 | B4galt6 | UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6 | ![]() |
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2 | 4 | ||||||
MIRT585223 | Zfp488 | zinc finger protein 488 | ![]() |
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2 | 4 | ||||||
MIRT585300 | Zfp26 | zinc finger protein 26 | ![]() |
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2 | 2 | ||||||
MIRT585313 | Zfp248 | zinc finger protein 248 | ![]() |
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2 | 4 | ||||||
MIRT585836 | Slc6a17 | solute carrier family 6 (neurotransmitter transporter), member 17 | ![]() |
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2 | 4 | ||||||
MIRT586076 | Rhobtb1 | Rho-related BTB domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT586328 | Pgm5 | phosphoglucomutase 5 | ![]() |
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2 | 4 | ||||||
MIRT587380 | Dzip3 | DAZ interacting protein 3, zinc finger | ![]() |
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2 | 2 | ||||||
MIRT587614 | Cml2 | N-acetyltransferase 8 (GCN5-related) family member 2 | ![]() |
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2 | 2 | ||||||
MIRT587630 | Clec7a | C-type lectin domain family 7, member a | ![]() |
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2 | 8 | ||||||
MIRT587724 | Cd28 | CD28 antigen | ![]() |
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2 | 2 | ||||||
MIRT587756 | Cd200r1 | CD200 receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT588014 | Akap7 | A kinase (PRKA) anchor protein 7 | ![]() |
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2 | 2 | ||||||
MIRT588297 | 1700019G17Rik | N-acetyltransferase 8 (GCN5-related) family member 4 | ![]() |
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2 | 2 | ||||||
MIRT588558 | Uhrf1bp1l | UHRF1 (ICBP90) binding protein 1-like | ![]() |
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2 | 2 | ||||||
MIRT588688 | Tet2 | tet methylcytosine dioxygenase 2 | ![]() |
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2 | 2 | ||||||
MIRT588895 | Slc1a2 | solute carrier family 1 (glial high affinity glutamate transporter), member 2 | ![]() |
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2 | 4 | ||||||
MIRT589020 | Rnf11 | ring finger protein 11 | ![]() |
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2 | 2 | ||||||
MIRT589098 | Rasal2 | RAS protein activator like 2 | ![]() |
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2 | 4 | ||||||
MIRT590108 | Etv3 | ets variant 3 | ![]() |
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2 | 2 | ||||||
MIRT590173 | Elovl6 | ELOVL family member 6, elongation of long chain fatty acids (yeast) | ![]() |
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2 | 4 | ||||||
MIRT590925 | Tacr2 | tachykinin receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT591064 | Ptpre | protein tyrosine phosphatase, receptor type, E | ![]() |
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2 | 4 | ||||||
MIRT591145 | Nsun3 | NOL1/NOP2/Sun domain family member 3 | ![]() |
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2 | 2 | ||||||
MIRT591206 | Mdm2 | transformed mouse 3T3 cell double minute 2 | ![]() |
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2 | 2 | ||||||
MIRT591428 | Car10 | carbonic anhydrase 10 | ![]() |
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2 | 4 | ||||||
MIRT591504 | Acot2 | acyl-CoA thioesterase 2 | ![]() |
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2 | 4 | ||||||
MIRT591558 | Zfp449 | zinc finger protein 449 | ![]() |
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2 | 2 | ||||||
MIRT591634 | Ubtf | upstream binding transcription factor, RNA polymerase I | ![]() |
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2 | 4 | ||||||
MIRT591949 | Ceacam1 | carcinoembryonic antigen-related cell adhesion molecule 1 | ![]() |
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2 | 2 | ||||||
MIRT591975 | Ap1ar | adaptor-related protein complex 1 associated regulatory protein | ![]() |
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2 | 2 | ||||||
MIRT592039 | Tnfrsf13c | tumor necrosis factor receptor superfamily, member 13c | ![]() |
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2 | 2 | ||||||
MIRT592090 | Smo | smoothened, frizzled class receptor | ![]() |
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2 | 2 | ||||||
MIRT592111 | Slc25a12 | solute carrier family 25 (mitochondrial carrier, Aralar), member 12 | ![]() |
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2 | 2 | ||||||
MIRT592172 | Oxtr | oxytocin receptor | ![]() |
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2 | 2 | ||||||
MIRT592215 | Map3k7 | mitogen-activated protein kinase kinase kinase 7 | ![]() |
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2 | 2 | ||||||
MIRT592225 | Magee2 | melanoma antigen, family E, 2 | ![]() |
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2 | 6 | ||||||
MIRT592248 | Lcp2 | lymphocyte cytosolic protein 2 | ![]() |
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2 | 4 | ||||||
MIRT592265 | Kcnj16 | potassium inwardly-rectifying channel, subfamily J, member 16 | ![]() |
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2 | 2 | ||||||
MIRT592389 | Trp53i11 | transformation related protein 53 inducible protein 11 | ![]() |
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2 | 6 | ||||||
MIRT592424 | Stxbp5l | syntaxin binding protein 5-like | ![]() |
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2 | 2 | ||||||
MIRT592444 | Snx12 | sorting nexin 12 | ![]() |
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2 | 2 | ||||||
MIRT592518 | Npr3 | natriuretic peptide receptor 3 | ![]() |
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2 | 2 | ||||||
MIRT592624 | Mbnl3 | muscleblind like splicing factor 3 | ![]() |
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2 | 4 | ||||||
MIRT592705 | Gfra2 | glial cell line derived neurotrophic factor family receptor alpha 2 | ![]() |
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2 | 2 | ||||||
MIRT592745 | Epas1 | endothelial PAS domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT592762 | Dmd | dystrophin, muscular dystrophy | ![]() |
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2 | 4 | ||||||
MIRT592846 | Akap2 | A kinase (PRKA) anchor protein 2 | ![]() |
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2 | 2 | ||||||
MIRT592988 | Cacna2d2 | calcium channel, voltage-dependent, alpha 2/delta subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT593001 | Bend4 | BEN domain containing 4 | ![]() |
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2 | 2 | ||||||
MIRT593230 | Fndc3a | fibronectin type III domain containing 3A | ![]() |
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2 | 2 | ||||||
MIRT593419 | Neurod2 | neurogenic differentiation 2 | ![]() |
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2 | 4 | ||||||
MIRT593451 | Rab11fip1 | RAB11 family interacting protein 1 (class I) | ![]() |
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2 | 2 | ||||||
MIRT593485 | Havcr2 | hepatitis A virus cellular receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT593515 | Csf2ra | colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage) | ![]() |
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2 | 2 | ||||||
MIRT594036 | 2810006K23Rik | RIKEN cDNA 2810006K23 gene | ![]() |
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2 | 2 | ||||||
MIRT594128 | Fam104a | family with sequence similarity 104, member A | ![]() |
1 | 1 | |||||||
MIRT595669 | Rxrb | retinoid X receptor beta | ![]() |
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2 | 2 | ||||||
MIRT595702 | Fndc7 | fibronectin type III domain containing 7 | ![]() |
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2 | 2 | ||||||
MIRT596266 | Bnc2 | basonuclin 2 | ![]() |
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2 | 2 | ||||||
MIRT596280 | Slc6a8 | solute carrier family 6 (neurotransmitter transporter, creatine), member 8 | ![]() |
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2 | 2 | ||||||
MIRT598760 | Gpr68 | G protein-coupled receptor 68 | ![]() |
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2 | 2 | ||||||
MIRT601113 | Btrc | beta-transducin repeat containing protein | ![]() |
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2 | 2 | ||||||
MIRT601203 | Arhgef9 | CDC42 guanine nucleotide exchange factor (GEF) 9 | ![]() |
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2 | 2 | ||||||
MIRT603153 | Ubxn8 | UBX domain protein 8 | ![]() |
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2 | 2 | ||||||
MIRT603194 | Trim65 | tripartite motif-containing 65 | ![]() |
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2 | 2 | ||||||
MIRT604580 | Trim71 | tripartite motif-containing 71 | ![]() |
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2 | 2 | ||||||
MIRT605450 | St18 | suppression of tumorigenicity 18 | ![]() |
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2 | 2 | ||||||
MIRT605589 | Ncam1 | neural cell adhesion molecule 1 | ![]() |
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2 | 2 |