pre-miRNA Information | |
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pre-miRNA | hsa-mir-4301 |
Genomic Coordinates | chr11: 113450023 - 113450088 |
Description | Homo sapiens miR-4301 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||||||||
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Mature miRNA | hsa-miR-4301 | ||||||||||||||||||
Sequence | 11| UCCCACUACUUCACUUGUGA |30 | ||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||
Experiments | SOLiD | ||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | ELOF1 | ||||||||||||||||||||
Synonyms | ELF1 | ||||||||||||||||||||
Description | elongation factor 1 homolog | ||||||||||||||||||||
Transcript | NM_032377 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on ELOF1 | |||||||||||||||||||||
3'UTR of ELOF1 (miRNA target sites are highlighted) |
>ELOF1|NM_032377|3'UTR 1 CGACACAGAGGACCCGCCCCCTGAGCAGCCCCGCGTACTGTGGATCCAGCTGTTCGGTTCTGGTCCAGAGACATTCCAGG 81 GGTCCAGGGTGTGGGTCCTGGGCTGTCACAGCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 161 TGTAGTGGGTGTGCGTGTGGGTGTGGGTGTGAGTGAGTGTGGGTGTGTGTGGCTGCACGTGTCACTGGGGTGGCCGTGAG 241 TGTGTGCTCACAGGTACGCGGTGGTGTCGGGTTCCTGGGCCTGAGGGGCCTGAACTGATCTCACTTGGCTCCGAAAGCCT 321 TTGCTGTGTTCCCTGCAGCCCCTGGCCCCCCAGCCTTGGGGCTCTGGCTCCCCCCGGCGGAATTGGGGGACTGTTTCCTG 401 ACATCCTGGACAAGGGAAGCCCACTAGAGGCTGGAACAGGACCTCTCCAGCCTCCTCACCAGCACCGTGCCCATCTCAAC 481 TGGACTTCCCGCTCTCCTTCTCCACCTTCTAGTGCCCGTGGCCGGGGATTCAAAGCCGCCGTTCCCCAGGTCCCTGGGCT 561 GGGCCCTGACAGGGAGCCGCCCCCCTCCCCATGGTAACCAGGAAGCCCGTTTCATGTTCAGTTGCTTTTGTAGAGGAAGC 641 AAGGGCTGGGATGGGGACAGCTGTCAATCACAAGCCCTTAAATAAAGCAGCCAGCGCACATCCAAAAAAAAAA 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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DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
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miRNA:Target | ---- | ||||||
Validation Method |
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Conditions | Hela | ||||||
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 GSM1048188. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_ptb_knockdown
... - Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al., 2013, Cell. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al. - Cell, 2013
The induction of pluripotency or trans-differentiation of one cell type to another can be accomplished with cell-lineage-specific transcription factors. Here, we report that repression of a single RNA binding polypyrimidine-tract-binding (PTB) protein, which occurs during normal brain development via the action of miR-124, is sufficient to induce trans-differentiation of fibroblasts into functional neurons. Besides its traditional role in regulated splicing, we show that PTB has a previously undocumented function in the regulation of microRNA functions, suppressing or enhancing microRNA targeting by competitive binding on target mRNA or altering local RNA secondary structure. A key event during neuronal induction is the relief of PTB-mediated blockage of microRNA action on multiple components of the REST complex, thereby derepressing a large array of neuronal genes, including miR-124 and multiple neuronal-specific transcription factors, in nonneuronal cells. This converts a negative feedback loop to a positive one to elicit cellular reprogramming to the neuronal lineage.
LinkOut: [PMID: 23313552]
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Experimental Support 2 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | HEK293S |
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 GSM1084043. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep2
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
Article |
- Karginov FV; Hannon GJ - Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
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CLIP-seq Support 1 for dataset GSM4903833 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_a |
Location of target site | NM_032377 | 3UTR | CAGAGGACCCGCCCCCUGAGCAGCCCCGCGUACUGUGGAUCCAGCUGUUCGGUUCUGGUCCAGAGACAUUCCAGGGGUCCAGGGUGUGGGUCCUGGGCUGUCACAGCCGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM4903834 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_b |
Location of target site | NM_032377 | 3UTR | UGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM4903835 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / CTL_TD_21_c |
Location of target site | NM_032377 | 3UTR | UGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM4903836 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_a |
Location of target site | NM_032377 | 3UTR | CAGCCGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 5 for dataset GSM4903837 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_b |
Location of target site | NM_032377 | 3UTR | GCCGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 6 for dataset GSM4903838 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | Dermal fibroblasts / 124_TD_21_c |
Location of target site | NM_032377 | 3UTR | UGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGUGGGUGUGCGUGUGGGUGUGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Accession Series | GSE161239 |
CLIP-seq Viewer | Link |
CLIP-seq Support 7 for dataset GSM1048188 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | Hela / Hela_AGO2_CLIP_ptb_knockdown |
Location of target site | ENST00000252445.3 | 3UTR | UGUGUGUGUGUGUGUGUGUAGU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23313552 / GSE42701 |
CLIP-seq Viewer | Link |
CLIP-seq Support 8 for dataset GSM1084043 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep2 |
Location of target site | ENST00000252445.3 | 3UTR | CACAGCCGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUAGU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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83 hsa-miR-4301 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT081134 | LDLR | low density lipoprotein receptor | ![]() |
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2 | 4 | ||||||
MIRT090911 | ARHGEF26 | Rho guanine nucleotide exchange factor 26 | ![]() |
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2 | 2 | ||||||
MIRT229436 | MECP2 | methyl-CpG binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT274717 | CPSF6 | cleavage and polyadenylation specific factor 6 | ![]() |
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2 | 2 | ||||||
MIRT350957 | BACH1 | BTB domain and CNC homolog 1 | ![]() |
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2 | 2 | ||||||
MIRT386722 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT446022 | PEX3 | peroxisomal biogenesis factor 3 | ![]() |
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2 | 2 | ||||||
MIRT481303 | ATP5G3 | ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) | ![]() |
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2 | 14 | ||||||
MIRT483959 | ZNF354B | zinc finger protein 354B | ![]() |
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2 | 6 | ||||||
MIRT495667 | TUBAL3 | tubulin alpha like 3 | ![]() |
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2 | 2 | ||||||
MIRT496554 | TBX15 | T-box 15 | ![]() |
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2 | 2 | ||||||
MIRT497702 | ARL6IP6 | ADP ribosylation factor like GTPase 6 interacting protein 6 | ![]() |
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2 | 2 | ||||||
MIRT498105 | RMND5A | required for meiotic nuclear division 5 homolog A | ![]() |
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2 | 2 | ||||||
MIRT512535 | SEMA4D | semaphorin 4D | ![]() |
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2 | 2 | ||||||
MIRT512556 | MFN2 | mitofusin 2 | ![]() |
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2 | 6 | ||||||
MIRT521465 | RABGAP1 | RAB GTPase activating protein 1 | ![]() |
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2 | 6 | ||||||
MIRT526236 | C2orf15 | chromosome 2 open reading frame 15 | ![]() |
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2 | 2 | ||||||
MIRT526743 | HLA-DOB | major histocompatibility complex, class II, DO beta | ![]() |
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2 | 2 | ||||||
MIRT527578 | BRD7 | bromodomain containing 7 | ![]() |
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2 | 4 | ||||||
MIRT528038 | WT1 | Wilms tumor 1 | ![]() |
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2 | 2 | ||||||
MIRT528267 | GPRIN2 | G protein regulated inducer of neurite outgrowth 2 | ![]() |
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2 | 2 | ||||||
MIRT528505 | HTR7 | 5-hydroxytryptamine receptor 7 | ![]() |
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2 | 4 | ||||||
MIRT528758 | RPS27 | ribosomal protein S27 | ![]() |
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2 | 6 | ||||||
MIRT528999 | IPO9 | importin 9 | ![]() |
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2 | 2 | ||||||
MIRT529701 | MRPL30 | mitochondrial ribosomal protein L30 | ![]() |
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2 | 2 | ||||||
MIRT529781 | C17orf82 | chromosome 17 open reading frame 82 | ![]() |
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2 | 2 | ||||||
MIRT533797 | TMEM119 | transmembrane protein 119 | ![]() |
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2 | 6 | ||||||
MIRT535308 | PHF12 | PHD finger protein 12 | ![]() |
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2 | 2 | ||||||
MIRT535917 | MKL2 | MKL1/myocardin like 2 | ![]() |
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2 | 2 | ||||||
MIRT544892 | OSBPL1A | oxysterol binding protein like 1A | ![]() |
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2 | 2 | ||||||
MIRT555423 | PPIC | peptidylprolyl isomerase C | ![]() |
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2 | 2 | ||||||
MIRT562068 | KLHL15 | kelch like family member 15 | ![]() |
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2 | 2 | ||||||
MIRT565623 | SLC31A1 | solute carrier family 31 member 1 | ![]() |
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2 | 2 | ||||||
MIRT565661 | SIX1 | SIX homeobox 1 | ![]() |
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2 | 2 | ||||||
MIRT570138 | IL1RL2 | interleukin 1 receptor like 2 | ![]() |
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2 | 2 | ||||||
MIRT571045 | YRDC | yrdC N6-threonylcarbamoyltransferase domain containing | ![]() |
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2 | 2 | ||||||
MIRT621232 | LMAN1 | lectin, mannose binding 1 | ![]() |
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2 | 2 | ||||||
MIRT622272 | SH3TC2 | SH3 domain and tetratricopeptide repeats 2 | ![]() |
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2 | 2 | ||||||
MIRT623844 | GAN | gigaxonin | ![]() |
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2 | 2 | ||||||
MIRT626158 | NFYA | nuclear transcription factor Y subunit alpha | ![]() |
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2 | 2 | ||||||
MIRT626464 | CMKLR1 | chemerin chemokine-like receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT632087 | ALDH1A2 | aldehyde dehydrogenase 1 family member A2 | ![]() |
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2 | 2 | ||||||
MIRT637243 | FAM26E | calcium homeostasis modulator family member 5 | ![]() |
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2 | 2 | ||||||
MIRT642710 | FGFR1OP2 | FGFR1 oncogene partner 2 | ![]() |
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2 | 2 | ||||||
MIRT643611 | KANSL3 | KAT8 regulatory NSL complex subunit 3 | ![]() |
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2 | 2 | ||||||
MIRT644270 | PAFAH1B1 | platelet activating factor acetylhydrolase 1b regulatory subunit 1 | ![]() |
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2 | 2 | ||||||
MIRT645470 | SPIN3 | spindlin family member 3 | ![]() |
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2 | 2 | ||||||
MIRT649193 | DNPEP | aspartyl aminopeptidase | ![]() |
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2 | 2 | ||||||
MIRT650776 | POP4 | POP4 homolog, ribonuclease P/MRP subunit | ![]() |
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2 | 2 | ||||||
MIRT651345 | ZC2HC1C | zinc finger C2HC-type containing 1C | ![]() |
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2 | 2 | ||||||
MIRT652237 | TRAPPC3L | trafficking protein particle complex 3 like | ![]() |
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2 | 2 | ||||||
MIRT652587 | TIMM8A | translocase of inner mitochondrial membrane 8A | ![]() |
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2 | 2 | ||||||
MIRT654591 | PURA | purine rich element binding protein A | ![]() |
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2 | 2 | ||||||
MIRT654649 | PTAFR | platelet activating factor receptor | ![]() |
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2 | 2 | ||||||
MIRT656842 | KLF7 | Kruppel like factor 7 | ![]() |
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2 | 2 | ||||||
MIRT657209 | IKZF2 | IKAROS family zinc finger 2 | ![]() |
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2 | 2 | ||||||
MIRT658513 | ETV3 | ETS variant 3 | ![]() |
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2 | 2 | ||||||
MIRT659448 | CNNM2 | cyclin and CBS domain divalent metal cation transport mediator 2 | ![]() |
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2 | 2 | ||||||
MIRT668816 | CYLD | CYLD lysine 63 deubiquitinase | ![]() |
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2 | 2 | ||||||
MIRT669067 | CELSR3 | cadherin EGF LAG seven-pass G-type receptor 3 | ![]() |
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2 | 2 | ||||||
MIRT677711 | ELOF1 | elongation factor 1 homolog | ![]() |
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2 | 4 | ||||||
MIRT687146 | PTPN12 | protein tyrosine phosphatase, non-receptor type 12 | ![]() |
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2 | 2 | ||||||
MIRT698498 | THOC2 | THO complex 2 | ![]() |
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2 | 2 | ||||||
MIRT707930 | PPP1R3D | protein phosphatase 1 regulatory subunit 3D | ![]() |
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4 | 2 | ||||
MIRT708737 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT710031 | POLL | DNA polymerase lambda | ![]() |
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2 | 2 | ||||||
MIRT712175 | STK4 | serine/threonine kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT715297 | MAPK1 | mitogen-activated protein kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT716892 | AGPAT6 | glycerol-3-phosphate acyltransferase 4 | ![]() |
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2 | 2 | ||||||
MIRT717378 | RBM41 | RNA binding motif protein 41 | ![]() |
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2 | 2 | ||||||
MIRT718082 | CLIC5 | chloride intracellular channel 5 | ![]() |
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2 | 2 | ||||||
MIRT718721 | ANKRD18A | ankyrin repeat domain 18A | ![]() |
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2 | 2 | ||||||
MIRT719152 | DPYSL5 | dihydropyrimidinase like 5 | ![]() |
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2 | 2 | ||||||
MIRT719224 | CAMK4 | calcium/calmodulin dependent protein kinase IV | ![]() |
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2 | 2 | ||||||
MIRT719528 | SRCIN1 | SRC kinase signaling inhibitor 1 | ![]() |
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2 | 2 | ||||||
MIRT719861 | KLF2 | Kruppel like factor 2 | ![]() |
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2 | 2 | ||||||
MIRT720326 | CAMK2G | calcium/calmodulin dependent protein kinase II gamma | ![]() |
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2 | 2 | ||||||
MIRT721596 | SREBF1 | sterol regulatory element binding transcription factor 1 | ![]() |
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2 | 2 | ||||||
MIRT722020 | NEBL | nebulette | ![]() |
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2 | 2 | ||||||
MIRT722484 | QSOX1 | quiescin sulfhydryl oxidase 1 | ![]() |
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2 | 2 | ||||||
MIRT722614 | TEAD1 | TEA domain transcription factor 1 | ![]() |
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2 | 2 | ||||||
MIRT723664 | RPTN | repetin | ![]() |
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2 | 2 | ||||||
MIRT723939 | SVOP | SV2 related protein | ![]() |
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2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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