pre-miRNA Information | |
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pre-miRNA | hsa-mir-4708 |
Genomic Coordinates | chr14: 65335117 - 65335183 |
Description | Homo sapiens miR-4708 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
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Mature miRNA | hsa-miR-4708-5p | ||||||||||||
Sequence | 9| AGAGAUGCCGCCUUGCUCCUU |29 | ||||||||||||
Evidence | Experimental | ||||||||||||
Experiments | Illumina | ||||||||||||
SNPs in miRNA |
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Putative Targets |
miRNA Expression profile | |
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Human miRNA Tissue Atlas | |
Circulating MicroRNA Expression Profiling |
Gene Information | |
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Gene Symbol | NPCA1 |
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 Chi_124B_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + B
... - Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Chi SW; Zang JB; Mele A; Darnell RB - Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
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CLIP-seq Support 1 for dataset Chi_124B_2A8_130_50 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell miR-124 + B |
Location of target site | ENST00000269228.5 | 3UTR | CAAAGAAAGCAUCUCG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 19536157 / Chi_HITSCLIP |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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94 hsa-miR-4708-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT095681 | RBM27 | RNA binding motif protein 27 | ![]() |
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2 | 4 | ||||||
MIRT104033 | USP42 | ubiquitin specific peptidase 42 | ![]() |
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2 | 6 | ||||||
MIRT114773 | CMPK1 | cytidine/uridine monophosphate kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT246923 | CCND1 | cyclin D1 | ![]() |
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2 | 2 | ||||||
MIRT392569 | ORAI2 | ORAI calcium release-activated calcium modulator 2 | ![]() |
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2 | 2 | ||||||
MIRT443949 | LRIT3 | leucine rich repeat, Ig-like and transmembrane domains 3 | ![]() |
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2 | 2 | ||||||
MIRT446695 | PAPPA | pappalysin 1 | ![]() |
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2 | 2 | ||||||
MIRT447383 | VOPP1 | vesicular, overexpressed in cancer, prosurvival protein 1 | ![]() |
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2 | 2 | ||||||
MIRT449321 | FAM120AOS | family with sequence similarity 120A opposite strand | ![]() |
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2 | 2 | ||||||
MIRT449717 | C1orf61 | chromosome 1 open reading frame 61 | ![]() |
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2 | 2 | ||||||
MIRT449738 | TAB2 | TGF-beta activated kinase 1/MAP3K7 binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT450531 | PGLS | 6-phosphogluconolactonase | ![]() |
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2 | 2 | ||||||
MIRT455650 | YARS | tyrosyl-tRNA synthetase | ![]() |
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2 | 2 | ||||||
MIRT458036 | MRPL12 | mitochondrial ribosomal protein L12 | ![]() |
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2 | 2 | ||||||
MIRT463468 | ZC3HAV1L | zinc finger CCCH-type containing, antiviral 1 like | ![]() |
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2 | 2 | ||||||
MIRT466677 | TAF1D | TATA-box binding protein associated factor, RNA polymerase I subunit D | ![]() |
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2 | 4 | ||||||
MIRT467789 | SLC2A14 | solute carrier family 2 member 14 | ![]() |
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2 | 2 | ||||||
MIRT468167 | SGPL1 | sphingosine-1-phosphate lyase 1 | ![]() |
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2 | 2 | ||||||
MIRT468652 | SECISBP2L | SECIS binding protein 2 like | ![]() |
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2 | 6 | ||||||
MIRT469380 | RER1 | retention in endoplasmic reticulum sorting receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT470346 | PPP2R5E | protein phosphatase 2 regulatory subunit B'epsilon | ![]() |
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2 | 2 | ||||||
MIRT472418 | NCKAP1 | NCK associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT474612 | KLF3 | Kruppel like factor 3 | ![]() |
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2 | 2 | ||||||
MIRT478703 | CSRNP2 | cysteine and serine rich nuclear protein 2 | ![]() |
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2 | 2 | ||||||
MIRT481008 | BBC3 | BCL2 binding component 3 | ![]() |
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2 | 4 | ||||||
MIRT483098 | TFPI | tissue factor pathway inhibitor | ![]() |
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2 | 2 | ||||||
MIRT485113 | SHISA6 | shisa family member 6 | ![]() |
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2 | 2 | ||||||
MIRT497533 | ZNF607 | zinc finger protein 607 | ![]() |
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2 | 2 | ||||||
MIRT500644 | TUBB2A | tubulin beta 2A class IIa | ![]() |
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2 | 6 | ||||||
MIRT500890 | STRN | striatin | ![]() |
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2 | 4 | ||||||
MIRT501900 | MED13 | mediator complex subunit 13 | ![]() |
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2 | 2 | ||||||
MIRT506646 | MAPK1 | mitogen-activated protein kinase 1 | ![]() |
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2 | 4 | ||||||
MIRT512675 | ENO4 | enolase family member 4 | ![]() |
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2 | 2 | ||||||
MIRT516977 | OR7D2 | olfactory receptor family 7 subfamily D member 2 | ![]() |
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2 | 2 | ||||||
MIRT528754 | RPS27 | ribosomal protein S27 | ![]() |
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2 | 6 | ||||||
MIRT539670 | ZBTB44 | zinc finger and BTB domain containing 44 | ![]() |
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2 | 2 | ||||||
MIRT544129 | PPIL1 | peptidylprolyl isomerase like 1 | ![]() |
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2 | 2 | ||||||
MIRT546382 | STOX2 | storkhead box 2 | ![]() |
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2 | 4 | ||||||
MIRT562143 | IGFBP5 | insulin like growth factor binding protein 5 | ![]() |
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2 | 2 | ||||||
MIRT568713 | TMEM30B | transmembrane protein 30B | ![]() |
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2 | 2 | ||||||
MIRT571029 | CENPP | centromere protein P | ![]() |
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2 | 2 | ||||||
MIRT572781 | ZNF277 | zinc finger protein 277 | ![]() |
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2 | 2 | ||||||
MIRT573162 | SLC30A9 | solute carrier family 30 member 9 | ![]() |
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2 | 2 | ||||||
MIRT609126 | NUDT3 | nudix hydrolase 3 | ![]() |
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2 | 2 | ||||||
MIRT609284 | OAS3 | 2'-5'-oligoadenylate synthetase 3 | ![]() |
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2 | 2 | ||||||
MIRT613430 | GALNT6 | polypeptide N-acetylgalactosaminyltransferase 6 | ![]() |
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2 | 2 | ||||||
MIRT613770 | TTC38 | tetratricopeptide repeat domain 38 | ![]() |
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2 | 2 | ||||||
MIRT616645 | LRAT | lecithin retinol acyltransferase | ![]() |
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2 | 4 | ||||||
MIRT630892 | SLC25A33 | solute carrier family 25 member 33 | ![]() |
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2 | 2 | ||||||
MIRT636526 | FAXC | failed axon connections homolog | ![]() |
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2 | 4 | ||||||
MIRT641394 | NUBPL | nucleotide binding protein like | ![]() |
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2 | 2 | ||||||
MIRT641412 | SCN2B | sodium voltage-gated channel beta subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT642528 | CERS4 | ceramide synthase 4 | ![]() |
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2 | 2 | ||||||
MIRT643186 | HYPK | huntingtin interacting protein K | ![]() |
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2 | 2 | ||||||
MIRT647800 | FRMD8 | FERM domain containing 8 | ![]() |
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2 | 2 | ||||||
MIRT652150 | TRIM71 | tripartite motif containing 71 | ![]() |
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2 | 2 | ||||||
MIRT652602 | TIMM8A | translocase of inner mitochondrial membrane 8A | ![]() |
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2 | 2 | ||||||
MIRT661606 | C2orf15 | chromosome 2 open reading frame 15 | ![]() |
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2 | 2 | ||||||
MIRT666339 | SKAP2 | src kinase associated phosphoprotein 2 | ![]() |
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2 | 2 | ||||||
MIRT670414 | ELP2 | elongator acetyltransferase complex subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT671122 | ZNF573 | zinc finger protein 573 | ![]() |
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2 | 2 | ||||||
MIRT671155 | ANKRD9 | ankyrin repeat domain 9 | ![]() |
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2 | 2 | ||||||
MIRT671338 | FAM71F2 | family with sequence similarity 71 member F2 | ![]() |
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2 | 2 | ||||||
MIRT671869 | ZNF429 | zinc finger protein 429 | ![]() |
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2 | 2 | ||||||
MIRT671974 | IKZF3 | IKAROS family zinc finger 3 | ![]() |
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2 | 2 | ||||||
MIRT672064 | KIAA0930 | KIAA0930 | ![]() |
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2 | 2 | ||||||
MIRT672654 | SLC25A16 | solute carrier family 25 member 16 | ![]() |
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2 | 4 | ||||||
MIRT672673 | GTF2H5 | general transcription factor IIH subunit 5 | ![]() |
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2 | 2 | ||||||
MIRT672771 | UBE2V2 | ubiquitin conjugating enzyme E2 V2 | ![]() |
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2 | 2 | ||||||
MIRT672929 | LRRC2 | leucine rich repeat containing 2 | ![]() |
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2 | 2 | ||||||
MIRT673159 | C1orf50 | chromosome 1 open reading frame 50 | ![]() |
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2 | 2 | ||||||
MIRT673272 | RUNDC1 | RUN domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT673332 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT673351 | SLC35F6 | solute carrier family 35 member F6 | ![]() |
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2 | 2 | ||||||
MIRT673667 | ZNF440 | zinc finger protein 440 | ![]() |
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2 | 2 | ||||||
MIRT673904 | DCTN6 | dynactin subunit 6 | ![]() |
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2 | 2 | ||||||
MIRT674096 | PLEKHA1 | pleckstrin homology domain containing A1 | ![]() |
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2 | 2 | ||||||
MIRT674401 | MYCBP | MYC binding protein | ![]() |
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2 | 2 | ||||||
MIRT674525 | PRR23A | proline rich 23A | ![]() |
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2 | 2 | ||||||
MIRT674793 | NPR1 | natriuretic peptide receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT674833 | ADAMTS4 | ADAM metallopeptidase with thrombospondin type 1 motif 4 | ![]() |
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2 | 2 | ||||||
MIRT675066 | FGD6 | FYVE, RhoGEF and PH domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT675080 | CCR6 | C-C motif chemokine receptor 6 | ![]() |
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2 | 2 | ||||||
MIRT675126 | FSD2 | fibronectin type III and SPRY domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT679401 | IL10RB | interleukin 10 receptor subunit beta | ![]() |
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2 | 2 | ||||||
MIRT689229 | RPS19 | ribosomal protein S19 | ![]() |
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2 | 2 | ||||||
MIRT694008 | PPIL4 | peptidylprolyl isomerase like 4 | ![]() |
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2 | 2 | ||||||
MIRT699671 | SFT2D2 | SFT2 domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT706213 | ACOT9 | acyl-CoA thioesterase 9 | ![]() |
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2 | 2 | ||||||
MIRT706548 | GJD2 | gap junction protein delta 2 | ![]() |
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2 | 2 | ||||||
MIRT707418 | RRP7A | ribosomal RNA processing 7 homolog A | ![]() |
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2 | 2 | ||||||
MIRT710648 | GLUL | glutamate-ammonia ligase | ![]() |
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2 | 2 | ||||||
MIRT719393 | NPCA1 | Nasopharyngeal carcinoma 1 | ![]() |
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2 | 2 | ||||||
MIRT720166 | PNPO | pyridoxamine 5'-phosphate oxidase | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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