pre-miRNA Information | |
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pre-miRNA | hsa-mir-497 |
Genomic Coordinates | chr17: 7017911 - 7018022 |
Synonyms | MIRN497, hsa-mir-497, MIR497 |
Description | Homo sapiens miR-497 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-497-3p | ||||||||||||||||||||||||||||
Sequence | 64| CAAACCACACUGUGGUGUUAGA |85 | ||||||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||||||
Experiments | Cloned | ||||||||||||||||||||||||||||
Editing Events in miRNAs |
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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 | PIWIL2 | ||||||||||||||||||||
Synonyms | CT80, HILI, PIWIL1L, mili | ||||||||||||||||||||
Description | piwi like RNA-mediated gene silencing 2 | ||||||||||||||||||||
Transcript | NM_001135721 | ||||||||||||||||||||
Other Transcripts | NM_018068 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on PIWIL2 | |||||||||||||||||||||
3'UTR of PIWIL2 (miRNA target sites are highlighted) |
>PIWIL2|NM_001135721|3'UTR 1 CTGCACAGCTTGGAGATGGGCTGGTGAGAAGAAAGGCGGCCTCAGAACTCAGCTGTGACTCTTGCAGAATCAACAGAGAC 81 TGAAGTGGGCTTTTGTGTTATAATTTTCCCTTTCTCCAACCCTGTAGAATAAGATTTCTTTCTTGTCTTTTAAACCTAAT 161 ATCACCAAGAAGCAAGTTTCTGAGTAACAGCTGAAAATGGCCTTGTTGCCTGTGTAGAGCAAGTTACGGTGGTACTGCCA 241 CTCTGCAGGTGGAGCGGGTGACTCTGGGGGACCATTAAGACCTCCAGACCGGGTGCGGTGGTTCACACCTGTAATCCAAG 321 CACTTTGGGAGGCCGAGGCGGGTGGATCATGAGGTCAGGAGATCAAGACCATCCTGGCCAACATGGTGAAACCCCGTCTC 401 TACTAAAATACAAAAAAATTAGCCGGGTGTGGCGGTGCACGCCTGTAGTCCCAGCTACTCAGGAGGCTAAGGCAGGAGAA 481 TCGCTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCCGAGATCACGCCACTGCACTCCAGCCTGTTGACAAAGCAAGACTC 561 TGTCTC 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 | BT474 |
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 GSM1395166. RNA binding protein: AGO. Condition:BT474 AGO HITS-CLIP Replicate 1
... - Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al., 2014, Breast cancer research and treatment. |
Article |
- Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al. - Breast cancer research and treatment, 2014
miRNAs regulate the expression of genes in both normal physiology and disease. While miRNAs have been demonstrated to play a pivotal role in aspects of cancer biology, these reports have generally focused on the regulation of single genes. Such single-gene approaches have significant limitations, relying on miRNA expression levels and heuristic predictions of mRNA-binding sites. This results in only circumstantial evidence of miRNA-target interaction and typically leads to large numbers of false positive predictions. Here, we used a genome-wide approach (high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation, HITS-CLIP) to define direct miRNA-mRNA interactions in three breast cancer subtypes (estrogen receptor positive, Her2 amplified, and triple negative). Focusing on steroid receptor signaling, we identified two novel regulators of the ER pathway (miR-9-5p and miR-193a/b-3p), which together target multiple genes involved in ER signaling. Moreover, this approach enabled the definition of miR-9-5p as a global regulator of steroid receptor signaling in breast cancer. We show that miRNA targets and networks defined by HITS-CLIP under physiologic conditions are predictive of patient outcomes and provide global insight into miRNA regulation in breast cancer.
LinkOut: [PMID: 24906430]
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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 | Cardiac Tissues |
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 GSM2202481. RNA binding protein: AGO2. Condition:S6_LV_61yo_Male_AGO2_bound_RNA
... - Spengler RM; Zhang X; Cheng C; McLendon JM; et al., 2016, Nucleic acids research. |
Article |
Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP.
- Spengler RM; Zhang X; Cheng C; McLendon JM; et al.- Nucleic acids research, 2016
MicroRNAs (miRs) have emerged as key biological effectors in human health and disease. These small noncoding RNAs are incorporated into Argonaute (Ago) proteins, where they direct post-transcriptional gene silencing via base-pairing with target transcripts. Although miRs have become intriguing biological entities and attractive therapeutic targets, the translational impacts of miR research remain limited by a paucity of empirical miR targeting data, particularly in human primary tissues. Here, to improve our understanding of the diverse roles miRs play in cardiovascular function and disease, we applied high-throughput methods to globally profile miR:target interactions in human heart tissues. We deciphered Ago2:RNA interactions using crosslinking immunoprecipitation coupled with high-throughput sequencing (HITS-CLIP) to generate the first transcriptome-wide map of miR targeting events in human myocardium, detecting 4000 cardiac Ago2 binding sites across >2200 target transcripts. Our initial exploration of this interactome revealed an abundance of miR target sites in gene coding regions, including several sites pointing to new miR-29 functions in regulating cardiomyocyte calcium, growth and metabolism. Also, we uncovered several clinically-relevant interactions involving common genetic variants that alter miR targeting events in cardiomyopathy-associated genes. Overall, these data provide a critical resource for bolstering translational miR research in heart, and likely beyond.
LinkOut: [PMID: 27418678]
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CLIP-seq Support 1 for dataset GSM1395166 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | BT474 / BT474 AGO HITS-CLIP Replicate 1 |
Location of target site | ENST00000356766.6 | 3UTR | CUUUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUCUGUGUGU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 24906430 / GSE57855 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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MiRNA-Target Expression Profile (TCGA) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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95 hsa-miR-497-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT092955 | CYP2U1 | cytochrome P450 family 2 subfamily U member 1 | ![]() |
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2 | 4 | ||||||
MIRT124568 | PRRC2B | proline rich coiled-coil 2B | ![]() |
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2 | 2 | ||||||
MIRT125196 | EIF1AX | eukaryotic translation initiation factor 1A, X-linked | ![]() |
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2 | 4 | ||||||
MIRT147296 | KPNA2 | karyopherin subunit alpha 2 | ![]() |
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2 | 8 | ||||||
MIRT163999 | KIAA1109 | KIAA1109 | ![]() |
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2 | 4 | ||||||
MIRT252495 | NWD1 | NACHT and WD repeat domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT357969 | GRPEL2 | GrpE like 2, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT443007 | TRIOBP | TRIO and F-actin binding protein | ![]() |
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2 | 2 | ||||||
MIRT443524 | NETO1 | neuropilin and tolloid like 1 | ![]() |
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2 | 2 | ||||||
MIRT443573 | EVX2 | even-skipped homeobox 2 | ![]() |
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2 | 2 | ||||||
MIRT443656 | BACH1 | BTB domain and CNC homolog 1 | ![]() |
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2 | 2 | ||||||
MIRT460670 | KRT10 | keratin 10 | ![]() |
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2 | 8 | ||||||
MIRT464761 | UBE2N | ubiquitin conjugating enzyme E2 N | ![]() |
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2 | 2 | ||||||
MIRT465032 | LINC00598 | long intergenic non-protein coding RNA 598 | ![]() |
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2 | 2 | ||||||
MIRT465040 | TTC39C | tetratricopeptide repeat domain 39C | ![]() |
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2 | 2 | ||||||
MIRT468667 | SEC62 | SEC62 homolog, preprotein translocation factor | ![]() |
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2 | 2 | ||||||
MIRT473694 | MAPK8 | mitogen-activated protein kinase 8 | ![]() |
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2 | 4 | ||||||
MIRT477618 | EFNA3 | ephrin A3 | ![]() |
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2 | 2 | ||||||
MIRT480506 | C11orf57 | chromosome 11 open reading frame 57 | ![]() |
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2 | 2 | ||||||
MIRT480592 | BUB3 | BUB3, mitotic checkpoint protein | ![]() |
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2 | 2 | ||||||
MIRT486915 | ZNF398 | zinc finger protein 398 | ![]() |
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2 | 6 | ||||||
MIRT487770 | ANKEF1 | ankyrin repeat and EF-hand domain containing 1 | ![]() |
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2 | 16 | ||||||
MIRT493265 | MDFIC | MyoD family inhibitor domain containing | ![]() |
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2 | 2 | ||||||
MIRT495271 | SLC1A2 | solute carrier family 1 member 2 | ![]() |
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2 | 4 | ||||||
MIRT495309 | CHST12 | carbohydrate sulfotransferase 12 | ![]() |
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2 | 2 | ||||||
MIRT496681 | DPP6 | dipeptidyl peptidase like 6 | ![]() |
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2 | 4 | ||||||
MIRT496891 | FOXP1 | forkhead box P1 | ![]() |
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2 | 2 | ||||||
MIRT497330 | IRF4 | interferon regulatory factor 4 | ![]() |
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2 | 2 | ||||||
MIRT498272 | KIAA1644 | KIAA1644 | ![]() |
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2 | 2 | ||||||
MIRT498634 | CHD4 | chromodomain helicase DNA binding protein 4 | ![]() |
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2 | 10 | ||||||
MIRT500581 | USP53 | ubiquitin specific peptidase 53 | ![]() |
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2 | 2 | ||||||
MIRT500751 | TMPPE | transmembrane protein with metallophosphoesterase domain | ![]() |
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2 | 6 | ||||||
MIRT509668 | ZNF354B | zinc finger protein 354B | ![]() |
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2 | 10 | ||||||
MIRT510919 | PSMA2 | proteasome subunit alpha 2 | ![]() |
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2 | 4 | ||||||
MIRT519118 | CEP76 | centrosomal protein 76 | ![]() |
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2 | 2 | ||||||
MIRT526193 | ABCG2 | ATP binding cassette subfamily G member 2 (Junior blood group) | ![]() |
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2 | 2 | ||||||
MIRT526746 | HLA-DOB | major histocompatibility complex, class II, DO beta | ![]() |
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2 | 2 | ||||||
MIRT527270 | FBLN2 | fibulin 2 | ![]() |
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2 | 2 | ||||||
MIRT528198 | PLEKHM2 | pleckstrin homology and RUN domain containing M2 | ![]() |
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2 | 2 | ||||||
MIRT528330 | TBC1D22B | TBC1 domain family member 22B | ![]() |
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2 | 2 | ||||||
MIRT530346 | GABRB3 | gamma-aminobutyric acid type A receptor beta3 subunit | ![]() |
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2 | 2 | ||||||
MIRT533627 | TMX3 | thioredoxin related transmembrane protein 3 | ![]() |
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2 | 2 | ||||||
MIRT533738 | TMEM200C | transmembrane protein 200C | ![]() |
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2 | 2 | ||||||
MIRT533779 | TMEM133 | transmembrane protein 133 | ![]() |
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2 | 2 | ||||||
MIRT534317 | SKIDA1 | SKI/DACH domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT538438 | COG5 | component of oligomeric golgi complex 5 | ![]() |
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2 | 2 | ||||||
MIRT539156 | AREL1 | apoptosis resistant E3 ubiquitin protein ligase 1 | ![]() |
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2 | 2 | ||||||
MIRT539474 | ADARB2 | adenosine deaminase, RNA specific B2 (inactive) | ![]() |
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2 | 2 | ||||||
MIRT539620 | SHISA9 | shisa family member 9 | ![]() |
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2 | 2 | ||||||
MIRT539650 | BUB1 | BUB1 mitotic checkpoint serine/threonine kinase | ![]() |
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2 | 2 | ||||||
MIRT540346 | OPHN1 | oligophrenin 1 | ![]() |
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2 | 2 | ||||||
MIRT540412 | PITPNC1 | phosphatidylinositol transfer protein, cytoplasmic 1 | ![]() |
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2 | 2 | ||||||
MIRT541200 | HSP90AA1 | heat shock protein 90 alpha family class A member 1 | ![]() |
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2 | 2 | ||||||
MIRT541395 | CDC27 | cell division cycle 27 | ![]() |
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2 | 2 | ||||||
MIRT546443 | SNX5 | sorting nexin 5 | ![]() |
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2 | 2 | ||||||
MIRT547369 | MSI2 | musashi RNA binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT553288 | TSPAN3 | tetraspanin 3 | ![]() |
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2 | 2 | ||||||
MIRT554402 | SERP1 | stress associated endoplasmic reticulum protein 1 | ![]() |
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2 | 2 | ||||||
MIRT557822 | FOXN2 | forkhead box N2 | ![]() |
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2 | 2 | ||||||
MIRT568530 | ANP32E | acidic nuclear phosphoprotein 32 family member E | ![]() |
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2 | 2 | ||||||
MIRT569508 | THYN1 | thymocyte nuclear protein 1 | ![]() |
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2 | 2 | ||||||
MIRT570707 | FAM69A | family with sequence similarity 69 member A | ![]() |
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2 | 2 | ||||||
MIRT608376 | PIWIL2 | piwi like RNA-mediated gene silencing 2 | ![]() |
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2 | 2 | ||||||
MIRT608483 | NKTR | natural killer cell triggering receptor | ![]() |
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2 | 6 | ||||||
MIRT613533 | TRA2B | transformer 2 beta homolog | ![]() |
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2 | 2 | ||||||
MIRT616601 | ELP2 | elongator acetyltransferase complex subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT618166 | DUSP18 | dual specificity phosphatase 18 | ![]() |
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2 | 2 | ||||||
MIRT632059 | CEP135 | centrosomal protein 135 | ![]() |
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2 | 2 | ||||||
MIRT647379 | ZDHHC23 | zinc finger DHHC-type containing 23 | ![]() |
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2 | 2 | ||||||
MIRT648366 | POTED | POTE ankyrin domain family member D | ![]() |
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2 | 2 | ||||||
MIRT651075 | ZNF518B | zinc finger protein 518B | ![]() |
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2 | 4 | ||||||
MIRT653618 | SLC30A4 | solute carrier family 30 member 4 | ![]() |
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2 | 2 | ||||||
MIRT653636 | SLC30A1 | solute carrier family 30 member 1 | ![]() |
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2 | 2 | ||||||
MIRT654895 | POU2F1 | POU class 2 homeobox 1 | ![]() |
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2 | 2 | ||||||
MIRT656232 | MFSD6 | major facilitator superfamily domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT659880 | CAPRIN1 | cell cycle associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT660526 | ARL4C | ADP ribosylation factor like GTPase 4C | ![]() |
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2 | 2 | ||||||
MIRT666286 | SLC30A3 | solute carrier family 30 member 3 | ![]() |
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2 | 2 | ||||||
MIRT686808 | SNX2 | sorting nexin 2 | ![]() |
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2 | 4 | ||||||
MIRT695302 | TK1 | thymidine kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT699737 | SERINC3 | serine incorporator 3 | ![]() |
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2 | 2 | ||||||
MIRT700794 | PIAS2 | protein inhibitor of activated STAT 2 | ![]() |
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2 | 2 | ||||||
MIRT712270 | PPP1CB | protein phosphatase 1 catalytic subunit beta | ![]() |
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2 | 2 | ||||||
MIRT712617 | KNSTRN | kinetochore localized astrin/SPAG5 binding protein | ![]() |
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2 | 2 | ||||||
MIRT714264 | RPL10A | ribosomal protein L10a | ![]() |
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2 | 2 | ||||||
MIRT715072 | TMTC1 | transmembrane and tetratricopeptide repeat containing 1 | ![]() |
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2 | 2 | ||||||
MIRT715386 | TADA3 | transcriptional adaptor 3 | ![]() |
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2 | 2 | ||||||
MIRT716397 | NPAS1 | neuronal PAS domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT725328 | NFASC | neurofascin | ![]() |
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2 | 2 | ||||||
MIRT725503 | GANAB | glucosidase II alpha subunit | ![]() |
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2 | 2 | ||||||
MIRT732913 | IRAK2 | interleukin 1 receptor associated kinase 2 | ![]() |
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3 | 0 | |||||
MIRT734890 | SMAD3 | SMAD family member 3 | ![]() |
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3 | 0 | |||||
MIRT737328 | LINC02476 | long intergenic non-protein coding RNA 2476 | ![]() |
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3 | 0 | |||||
MIRT737544 | MALAT1 | metastasis associated lung adenocarcinoma transcript 1 (non-protein coding) | ![]() |
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4 | 0 | ||||
MIRT755545 | PAK1 | p21 (RAC1) activated kinase 1 | 3 | 1 |
miRNA-Drug Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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