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 | VPS8 | ||||||||||||||||||||
Synonyms | KIAA0804 | ||||||||||||||||||||
Description | VPS8, CORVET complex subunit | ||||||||||||||||||||
Transcript | NM_001009921 | ||||||||||||||||||||
Other Transcripts | NM_015303 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on VPS8 | |||||||||||||||||||||
3'UTR of VPS8 (miRNA target sites are highlighted) |
>VPS8|NM_001009921|3'UTR 1 TGACTCCATGGAGCCTGGCCCAGGAGAACCAGAGATGATCCCGAGGCAGCTGGGGAGAGGCCCCGCCTCTGGTGGGCTTG 81 GCCTCCACCACCTCCCACGCTTCTGAGAAGAGGTTCCAAATTGGGCTTCTGTGCCCAGAGCGTCCACAGCACCATTCCCA 161 GTGTAGACTCCCAGTCTTCTCCACATTGCTGTCATGGCGTCAGTTCACCAGACTCATTGATTTTGTTTTGCTTGTTAAGC 241 AAAGGAATGTCACATACCTCTGTCCAGCTTTTTAGGAAATACATTTCGCCTATTGCGACTTTTTCCATTTACCCTGAAGC 321 CTAGAAAGTAGGTGGAACTCACACAAATGGCATTCCAGAGTCTGCCATACTCCGTCTCCTCCAGCTGCTGGATAATACAG 401 AGGAACTTCAACTTCTACAGGGAACAGTGGTTGGCCAGGCTGCAGTATAACTGAAGCATGCCTTGGAGAGAGCAGACACT 481 GTGGGGGCCAGGGCCATCTCCCTTTAATGTGTTCATGTTAAAACCTATTTGAGTGTAAGACTTGCCCTTTCTAACAATAA 561 ATGCTCCGTGTTTAAGTTCTGCAGGTCTCAAAAAAAAAAAAAAAAA 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 Chi_ControlB_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell Control 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_ControlB_2A8_130_50 | |
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Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell Control B |
Location of target site | ENST00000287546.4 | 3UTR | CAAAGAGGUAGCAGAGCA |
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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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 |