pre-miRNA Information | |
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pre-miRNA | hsa-mir-5691 |
Genomic Coordinates | chr11: 9090312 - 9090379 |
Description | Homo sapiens miR-5691 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||
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Mature miRNA | hsa-miR-5691 | |||||||||||||||
Sequence | 9| UUGCUCUGAGCUCCGAGAAAGC |30 | |||||||||||||||
Evidence | Experimental | |||||||||||||||
Experiments | Illumina | |||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | ZNF281 | ||||||||||||||||||||
Synonyms | ZBP-99, ZNP-99 | ||||||||||||||||||||
Description | zinc finger protein 281 | ||||||||||||||||||||
Transcript | NM_012482 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on ZNF281 | |||||||||||||||||||||
3'UTR of ZNF281 (miRNA target sites are highlighted) |
>ZNF281|NM_012482|3'UTR 1 GGTCCCAAAAGTGGCCAGGCTGGAGGTCTTCTAATGTAATTTTGTTTTATTTTGAGAACACTGCCATTGGAATGTTTCTA 81 CACGATCCTATTAAGAATAATGTGATGCCCTTTCAATGCAACTTTTCATATTTAGTTTATTTTGTTAGCGTGATTTTAGC 161 TCTGTTTGTATTATGATTTTTAATCAAAATCAATAGATTAAAAATAGTTTGACATTCAAAGTGACAATGTTTAGCAATCA 241 AATTTACATGTATAGATCGTCAGGGAATAGCCCAAATGTTTTAAACGCAAAAAAAAAGACAAAAAAAAACCAAAAAAAAA 321 AAACCTACAAAAAAAACTTTGTTGCTAGGATTAAGGTTATTCTAATTGCTTTACTCTCAGGAAAGTGTAATAACGCATGG 401 GAATTCTGTACGTTATCACTGTAATGGAATATCCAATTTACAGATAGTATGATATACATTTCATCATTTAAGTAAGGGAT 481 CGAAAACATTTCAAATTGCTCTATCTGGGCTGATAGACATTTCGTCATTTAAGTAAGGGATCGAAGACATTTCAAATTGC 561 TATCTCCATCTGGGCTGATCCAAAATTCTGAGATTGTTGGCTACCTATATTTTGTTGCAGCTTTTAAATGTACTCTGAAC 641 TTCCAAACCACATTCATTCCAGCCTGGTAGAACAAATATTCTTGGATCTTTGATCAAAGCCTGGAATGATAGCTTTAATA 721 AAAGAAGGAAAAAAAAAAAGCACCCTCTCTTGATCTCAACTGTAACAAGGCTGTAATTCCATCAAGCGATTCTACTGACA 801 TCTAGTACAGTGTTGAAGCCCAAGTGGTTGGCTGGTTCCAGTATTAGAACTCAAGTTGAAATTATATGATTAACTGAAAT 881 TTGGGGCATGCATTATTTATTATACATGGCCTACAACGGTTCTGTCTGCGCTGTTACGTATTACCTACACTTCTGGGTTT 961 TTTTGTTCTTGTTCTCAGCCTCTCTTTAAGAGTTCTTGGGCCTTCCTTTTCCCTCTTTCTATTTTAACAGTTTTAATTTT 1041 AGAACCATTTACATTCCAGTAGGTAATTCACTATGCGCTTTATATGCCTTAGGGCATCCAAATAAAAAACAATAGGGTAA 1121 ACATCCCCAAAACCCACCTTTAAAAAAAAAAAAACCCATACAGATTTCCATATGTAATAAAACCCCGTGTTCTTGGATAG 1201 ATATTAATAAGGTTGTAATTCCAACTGGTGACATAACTCCTGTGAGGGATAAGAATGTGTCTGCTTATAGTAATAACATC 1281 AGAACCTCTTTGTGAAATTGCGGCCTTTAATGTACATTTTAATGAAAGGGTGCATTAGTATTGTACAGGGGTCTTGTAAA 1361 GTCATCAAAACTTGCTATGAACTCTAATTGCCATTTGAAGCTACTGATTGGCAGTGGCTCTACTCTAAAACTGCTTTTTA 1441 GCAATTGTATTTTTTTCCTGATTATATTTTTTAATGTACTTTGATGTTTATGCTGATGAGTTTTTTATGTACTTTTGGTG 1521 ATGTTTCAGTCTTATGTACTCTTCTGACGTCAGAAAAGTACCACTGGTTGTTTGCAGTCTTATTGTGTAATCAGCCTACC 1601 GCAGGCTTCCATGTATAATAAAGTAATTAATATTGTGCAAGTGTAAAACACTTCTGTTATAAAAGCAGTGTTTGGAAAAT 1681 AAGAAATATTAAAAATGGTTACAAAGTATTAGTTAATTTCCTTTTCCCACTTTCCTCCCTTTAGCTTTAGCAGCTAAAGG 1761 GTCACCAACTTGTCATTGCAAGATTCTTAGAAAATGTACTTAATCTTAAATACGCTGAGTACTAAAAAGTGTTTATTTCT 1841 TATTTCAGTAAGTGCGGTAAGTTCTATTGAGTACAGAGTACAAGCTGTAATCAAAGGATGGAGAGGACCTTTACCACTGT 1921 ATCTCTTAAGCTGTATGATTTTTCTCCAGTTTGTTTTATACAGGTTTTGAATTTCTTTAACTTTTATTGTGTGTACTGAA 2001 TACTGCATATGTATTATTCTGATTGTTTGCTCTAGTTTACTACCAATAAAAGTCCTGTTAATCACAAGATTAAAAAAAAA 2081 AAAAAAAAA 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 | 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 GSM1084040. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep1
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
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miRNA-target interactions (Provided by authors) |
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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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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 GSM2202478. RNA binding protein: AGO2. Condition:S3_LV_36yo_Male_AGO2_bound_RNA
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 GSM1084040 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_noarsenite_rep1 |
Location of target site | ENST00000294740.3 | 3UTR | AAGAUUGUGCCACUGCACUCCAGCCUGGGCGACAGA |
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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91 hsa-miR-5691 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT091162 | TBL1XR1 | transducin beta like 1 X-linked receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT242227 | TTC9 | tetratricopeptide repeat domain 9 | ![]() |
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2 | 4 | ||||||
MIRT246192 | TXNIP | thioredoxin interacting protein | ![]() |
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2 | 2 | ||||||
MIRT251553 | DCAF7 | DDB1 and CUL4 associated factor 7 | ![]() |
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2 | 4 | ||||||
MIRT387267 | SOX9 | SRY-box 9 | ![]() |
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2 | 2 | ||||||
MIRT463486 | ZC3H11A | zinc finger CCCH-type containing 11A | ![]() |
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2 | 12 | ||||||
MIRT494446 | BTG2 | BTG anti-proliferation factor 2 | ![]() |
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2 | 2 | ||||||
MIRT496478 | ADAMTS17 | ADAM metallopeptidase with thrombospondin type 1 motif 17 | ![]() |
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2 | 2 | ||||||
MIRT501825 | NCOA3 | nuclear receptor coactivator 3 | ![]() |
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2 | 2 | ||||||
MIRT503072 | C6orf120 | chromosome 6 open reading frame 120 | ![]() |
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2 | 2 | ||||||
MIRT504755 | TEP1 | telomerase associated protein 1 | ![]() |
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2 | 4 | ||||||
MIRT505971 | RAB11FIP1 | RAB11 family interacting protein 1 | ![]() |
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2 | 4 | ||||||
MIRT511868 | GOLGA7 | golgin A7 | ![]() |
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2 | 6 | ||||||
MIRT512900 | UBL4A | ubiquitin like 4A | ![]() |
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2 | 2 | ||||||
MIRT513048 | LYPD6 | LY6/PLAUR domain containing 6 | ![]() |
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2 | 6 | ||||||
MIRT523772 | FAM83D | family with sequence similarity 83 member D | ![]() |
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2 | 2 | ||||||
MIRT525126 | RPS11 | ribosomal protein S11 | ![]() |
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2 | 2 | ||||||
MIRT525816 | VIMP | selenoprotein S | ![]() |
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2 | 10 | ||||||
MIRT531222 | HIST1H2BD | histone cluster 1 H2B family member d | ![]() |
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2 | 2 | ||||||
MIRT531729 | SLC2A9 | solute carrier family 2 member 9 | ![]() |
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2 | 2 | ||||||
MIRT536282 | LIMA1 | LIM domain and actin binding 1 | ![]() |
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2 | 2 | ||||||
MIRT537291 | G3BP1 | G3BP stress granule assembly factor 1 | ![]() |
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2 | 2 | ||||||
MIRT537724 | ELAVL2 | ELAV like RNA binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT547940 | HNRNPA0 | heterogeneous nuclear ribonucleoprotein A0 | ![]() |
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2 | 2 | ||||||
MIRT554177 | SLC35E2B | solute carrier family 35 member E2B | ![]() |
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2 | 2 | ||||||
MIRT555015 | RAB2B | RAB2B, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT576717 | Wars | tryptophanyl-tRNA synthetase | ![]() |
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2 | 2 | ||||||
MIRT607484 | HEBP2 | heme binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT610786 | KLK2 | kallikrein related peptidase 2 | ![]() |
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2 | 2 | ||||||
MIRT611491 | ZNF440 | zinc finger protein 440 | ![]() |
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2 | 2 | ||||||
MIRT613986 | DBT | dihydrolipoamide branched chain transacylase E2 | ![]() |
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2 | 2 | ||||||
MIRT615782 | KIAA0319L | KIAA0319 like | ![]() |
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2 | 2 | ||||||
MIRT620563 | WBSCR27 | methyltransferase like 27 | ![]() |
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2 | 4 | ||||||
MIRT624157 | DGKE | diacylglycerol kinase epsilon | ![]() |
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2 | 2 | ||||||
MIRT626088 | MKLN1 | muskelin 1 | ![]() |
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2 | 2 | ||||||
MIRT629481 | GSN | gelsolin | ![]() |
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2 | 2 | ||||||
MIRT636645 | CDK4 | cyclin dependent kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT638074 | HS3ST1 | heparan sulfate-glucosamine 3-sulfotransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT638442 | PLXDC2 | plexin domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT641025 | KLHL7 | kelch like family member 7 | ![]() |
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2 | 2 | ||||||
MIRT641539 | MOCOS | molybdenum cofactor sulfurase | ![]() |
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2 | 2 | ||||||
MIRT643004 | ZNF829 | zinc finger protein 829 | ![]() |
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2 | 2 | ||||||
MIRT643092 | NDUFB5 | NADH:ubiquinone oxidoreductase subunit B5 | ![]() |
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2 | 2 | ||||||
MIRT644979 | IL2RA | interleukin 2 receptor subunit alpha | ![]() |
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2 | 2 | ||||||
MIRT645912 | PLXNA3 | plexin A3 | ![]() |
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2 | 2 | ||||||
MIRT646605 | ORAI2 | ORAI calcium release-activated calcium modulator 2 | ![]() |
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2 | 2 | ||||||
MIRT648033 | FADS6 | fatty acid desaturase 6 | ![]() |
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2 | 2 | ||||||
MIRT657491 | HBEGF | heparin binding EGF like growth factor | ![]() |
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2 | 2 | ||||||
MIRT658381 | FAM26E | calcium homeostasis modulator family member 5 | ![]() |
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2 | 2 | ||||||
MIRT659695 | CD200 | CD200 molecule | ![]() |
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2 | 2 | ||||||
MIRT661276 | TEX9 | testis expressed 9 | ![]() |
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2 | 2 | ||||||
MIRT661348 | DYRK4 | dual specificity tyrosine phosphorylation regulated kinase 4 | ![]() |
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2 | 2 | ||||||
MIRT662948 | JPH2 | junctophilin 2 | ![]() |
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2 | 2 | ||||||
MIRT663225 | PPY | pancreatic polypeptide | ![]() |
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2 | 2 | ||||||
MIRT663280 | SPN | sialophorin | ![]() |
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2 | 2 | ||||||
MIRT663335 | ZNF74 | zinc finger protein 74 | ![]() |
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2 | 2 | ||||||
MIRT664344 | C16orf45 | chromosome 16 open reading frame 45 | ![]() |
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2 | 2 | ||||||
MIRT664855 | TBRG4 | transforming growth factor beta regulator 4 | ![]() |
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2 | 2 | ||||||
MIRT665484 | VPS53 | VPS53, GARP complex subunit | ![]() |
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2 | 2 | ||||||
MIRT666428 | SH2B3 | SH2B adaptor protein 3 | ![]() |
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2 | 2 | ||||||
MIRT668162 | GDE1 | glycerophosphodiester phosphodiesterase 1 | ![]() |
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2 | 2 | ||||||
MIRT670170 | CCDC142 | coiled-coil domain containing 142 | ![]() |
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2 | 2 | ||||||
MIRT671277 | MTO1 | mitochondrial tRNA translation optimization 1 | ![]() |
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2 | 2 | ||||||
MIRT672284 | GP2 | glycoprotein 2 | ![]() |
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2 | 2 | ||||||
MIRT672435 | RAB10 | RAB10, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT672646 | SLC25A16 | solute carrier family 25 member 16 | ![]() |
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2 | 4 | ||||||
MIRT672760 | UBE2V2 | ubiquitin conjugating enzyme E2 V2 | ![]() |
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2 | 2 | ||||||
MIRT672834 | AKR7L | aldo-keto reductase family 7 like (gene/pseudogene) | ![]() |
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2 | 2 | ||||||
MIRT672841 | ICOSLG | inducible T-cell costimulator ligand | ![]() |
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2 | 2 | ||||||
MIRT673080 | AK1 | adenylate kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT673148 | C1orf50 | chromosome 1 open reading frame 50 | ![]() |
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2 | 2 | ||||||
MIRT673323 | THAP1 | THAP domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT673893 | DCTN6 | dynactin subunit 6 | ![]() |
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2 | 2 | ||||||
MIRT674182 | PLEKHM3 | pleckstrin homology domain containing M3 | ![]() |
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2 | 2 | ||||||
MIRT674607 | RBBP4 | RB binding protein 4, chromatin remodeling factor | ![]() |
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2 | 2 | ||||||
MIRT674740 | SLC16A1 | solute carrier family 16 member 1 | ![]() |
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2 | 2 | ||||||
MIRT675140 | MOGAT1 | monoacylglycerol O-acyltransferase 1 | ![]() |
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2 | 4 | ||||||
MIRT675194 | NKPD1 | NTPase KAP family P-loop domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT675886 | SNAP29 | synaptosome associated protein 29 | ![]() |
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2 | 2 | ||||||
MIRT679163 | PSMB2 | proteasome subunit beta 2 | ![]() |
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2 | 2 | ||||||
MIRT680337 | ZNF281 | zinc finger protein 281 | ![]() |
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2 | 2 | ||||||
MIRT706699 | GPR155 | G protein-coupled receptor 155 | ![]() |
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2 | 2 | ||||||
MIRT706911 | THAP6 | THAP domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT707880 | SLC45A4 | solute carrier family 45 member 4 | ![]() |
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2 | 2 | ||||||
MIRT709097 | SEPT4 | septin 4 | ![]() |
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2 | 2 | ||||||
MIRT709408 | FBXL20 | F-box and leucine rich repeat protein 20 | ![]() |
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2 | 2 | ||||||
MIRT710845 | FAM210A | family with sequence similarity 210 member A | ![]() |
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2 | 2 | ||||||
MIRT711358 | VPS8 | VPS8, CORVET complex subunit | ![]() |
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2 | 2 | ||||||
MIRT718590 | SCD5 | stearoyl-CoA desaturase 5 | ![]() |
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2 | 2 | ||||||
MIRT723649 | RPTN | repetin | ![]() |
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2 | 2 | ||||||
MIRT724208 | NUP205 | nucleoporin 205 | ![]() |
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2 | 2 |