pre-miRNA Information | |
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pre-miRNA | hsa-mir-8066 |
Genomic Coordinates | chr4: 101240795 - 101240872 |
Description | Homo sapiens miR-8066 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-8066 | |||||||||||||||||||||||||||
Sequence | 48| CAAUGUGAUCUUUUGGAUGUA |68 | |||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SYPL1 | ||||||||||||||||||||
Synonyms | H-SP1, SYPL | ||||||||||||||||||||
Description | synaptophysin like 1 | ||||||||||||||||||||
Transcript | NM_006754 | ||||||||||||||||||||
Other Transcripts | NM_182715 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SYPL1 | |||||||||||||||||||||
3'UTR of SYPL1 (miRNA target sites are highlighted) |
>SYPL1|NM_006754|3'UTR 1 TTAAAGGGAGAAATACACTGTATGAAGTATATGTTGATACTATGACATGTTGCCAACACCTTGAGAAGCATTATTTGTTT 81 CTAATAAAAGTAATGGCTTTGTCAATATATTGGTGGGTTTAAAACTTTGCTGCTTTTTTACATAAAGCCTGTGCCTTTCC 161 TAGAAAGTTAAGATGTAAATGTATTCTCACATGTAAATTTGAAAGTTCAGGGGTCTATTATGAAATGATACACATTTTTA 241 AATGAACCATAATTTTTTTCACTAAGCTGTTTGCCTTCCAAAGTGTTTACACCTTAAGCCTTAACATGTATCTTCATTCA 321 GAAAACAGTTATATTGTCATACCATAGTAGGAAGAAAAACCTTTATTTGGAATATACACTACTGTAAGTTTGTACAGATC 401 ATATACCTACCACCTGTCTTTGCTTAAAGAGCCTTGATTACATAAATATGTAGGAAAAAACATATTGAGTTCAAAATTTA 481 TATCTAACATTGTTTATGTTATGATTTTTTTTTAATTGCAAAGACTAGGTGTATATTTTTTTCTGTTTTTCTAAATGACC 561 CGTGGTACTTAATAGGTGTACTAAAATTGTGTTGGGAGCAGGGATTTGGAAATTTCTGAGAGATGTGTAGTTAATTTAGT 641 AATTCTGTTTCATGAGATATGATCTGTTATGCTAGTGGTTTAATAGGCTTGCTATGTAAGTAGAACGTGGCTCAACTAGA 721 TATCTTTATATGTATGGGCATTACTCTTAGTGATATTTGTTTCCTGTCCTTTGTTGCTCATGCTGTTTAAGTGCAGGCTG 801 AGACCCAGCCTCTTTGTAAGTACAGTAAAATAATCCACCGTTTTTTACAGACCCTAGTCAAAGGGTTAAAAAAATTAAGA 881 TTGCTTTCCATGTTTGAAATTTACCATTGAGAGTCAATGAAGTTGCTATTTTGAGTTTAGCATTGATATTGTGAAAATAA 961 GTGCAATTTGGATTTCATGTTTCTTAATATTCATTCTTGTTTCACAAATGAATGATTAAGGAATTATGCATCATAAAGGA 1041 ACCTAAGTGAGGTATATGATGAGTGTATTGTCTTTGCACACACATATAGGTATATTCTGAATACAAGCTTATTCACATTT 1121 TGCTTCCTAATCTTTTTGTTGTACAGGGATTCAGGTTTCTTATTCTTACAACATGATTGTTTATATGTGAAGCACATCTT 1201 GCTGTTGCCTTATTTTTGATGCTTTTATTCATGACAAGAATTGTCAATATAAGAATGTATATCTTTTTTGCAACCAATTT 1281 AATAAAGGAGTTGAAAGAAAGAGTGCACTGATTGTTAATATTACAAAGAAACCTTCATCTTAAAGGCATTGAGCAGTGCA 1361 AAACAGAACTGATTTTCAAAGCAGGAAATAGAATCACAGTTTTAATGTTTGGCAAGGAATAAAACAGACAGAAATGC 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 | HEK293 |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
...
PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection
PAR-CLIP data was present in GSM545217. RNA binding protein: AGO2. Condition:miR-7 transfection
... - Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell. |
Article |
- Hafner M; Landthaler M; Burger L; Khorshid et al. - Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
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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 | MCF7 |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
...
PAR-CLIP data was present in SRR1045082. RNA binding protein: AGO2. Condition:Untreated
... - Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology. |
Article |
- Farazi TA; Ten Hoeve JJ; Brown M; et al. - Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
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CLIP-seq Support 1 for dataset GSM545216 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / miR-124 transfection |
Location of target site | ENST00000470347.1 | 3UTR | CUUAUUCACAUUUUGCUUCCUAAUCUUUUUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM545217 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / miR-7 transfection |
Location of target site | ENST00000470347.1 | 3UTR | CUUAUUCACAUUUUGCUUCCUAAUCUUUU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset SRR1045082 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | MCF7 / Untreated |
Location of target site | ENST00000470347.1 | 3UTR | CUUAUUCACAUUUUGCUUCCUAAUCUUUUUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 24398324 / SRX388831 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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92 hsa-miR-8066 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT060588 | CCND1 | cyclin D1 | ![]() |
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2 | 2 | ||||||
MIRT067440 | RIMKLB | ribosomal modification protein rimK like family member B | ![]() |
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2 | 2 | ||||||
MIRT078862 | WBP2 | WW domain binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT088062 | UBXN2A | UBX domain protein 2A | ![]() |
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2 | 4 | ||||||
MIRT088214 | NUP50 | nucleoporin 50 | ![]() |
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2 | 2 | ||||||
MIRT103494 | HOXA3 | homeobox A3 | ![]() |
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2 | 8 | ||||||
MIRT135196 | TMBIM6 | transmembrane BAX inhibitor motif containing 6 | ![]() |
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2 | 4 | ||||||
MIRT177727 | REEP3 | receptor accessory protein 3 | ![]() |
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2 | 2 | ||||||
MIRT179439 | TBRG1 | transforming growth factor beta regulator 1 | ![]() |
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2 | 4 | ||||||
MIRT191647 | SLC39A9 | solute carrier family 39 member 9 | ![]() |
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2 | 2 | ||||||
MIRT192342 | KLF13 | Kruppel like factor 13 | ![]() |
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2 | 2 | ||||||
MIRT212035 | RAPGEF2 | Rap guanine nucleotide exchange factor 2 | ![]() |
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2 | 2 | ||||||
MIRT215387 | CREBRF | CREB3 regulatory factor | ![]() |
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2 | 2 | ||||||
MIRT235001 | IER2 | immediate early response 2 | ![]() |
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2 | 2 | ||||||
MIRT238793 | TPD52L1 | tumor protein D52 like 1 | ![]() |
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2 | 2 | ||||||
MIRT273384 | SMARCD1 | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 | ![]() |
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2 | 4 | ||||||
MIRT280473 | UBR7 | ubiquitin protein ligase E3 component n-recognin 7 (putative) | ![]() |
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2 | 2 | ||||||
MIRT298320 | SLC5A3 | solute carrier family 5 member 3 | ![]() |
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2 | 2 | ||||||
MIRT309180 | SPATA5 | spermatogenesis associated 5 | ![]() |
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2 | 2 | ||||||
MIRT354483 | LRRC58 | leucine rich repeat containing 58 | ![]() |
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2 | 2 | ||||||
MIRT354710 | SLC25A36 | solute carrier family 25 member 36 | ![]() |
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2 | 2 | ||||||
MIRT361004 | CDC5L | cell division cycle 5 like | ![]() |
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2 | 4 | ||||||
MIRT366247 | VMA21 | VMA21, vacuolar ATPase assembly factor | ![]() |
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2 | 2 | ||||||
MIRT405774 | EIF5 | eukaryotic translation initiation factor 5 | ![]() |
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2 | 2 | ||||||
MIRT442640 | TBC1D12 | TBC1 domain family member 12 | ![]() |
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2 | 2 | ||||||
MIRT443928 | ZNF99 | zinc finger protein 99 | ![]() |
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2 | 2 | ||||||
MIRT454287 | FXN | frataxin | ![]() |
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2 | 2 | ||||||
MIRT454367 | ASAH2 | N-acylsphingosine amidohydrolase 2 | ![]() |
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2 | 2 | ||||||
MIRT463574 | ZBTB39 | zinc finger and BTB domain containing 39 | ![]() |
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2 | 6 | ||||||
MIRT464484 | UGCG | UDP-glucose ceramide glucosyltransferase | ![]() |
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2 | 2 | ||||||
MIRT466866 | STX6 | syntaxin 6 | ![]() |
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2 | 2 | ||||||
MIRT467283 | SPNS1 | sphingolipid transporter 1 (putative) | ![]() |
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2 | 2 | ||||||
MIRT470298 | PPTC7 | PTC7 protein phosphatase homolog | ![]() |
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2 | 2 | ||||||
MIRT471630 | PAPD7 | poly(A) RNA polymerase D7, non-canonical | ![]() |
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2 | 2 | ||||||
MIRT472802 | MTMR4 | myotubularin related protein 4 | ![]() |
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2 | 4 | ||||||
MIRT474708 | KIF3A | kinesin family member 3A | ![]() |
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2 | 2 | ||||||
MIRT478256 | DDX3X | DEAD-box helicase 3, X-linked | ![]() |
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2 | 2 | ||||||
MIRT479330 | CERS2 | ceramide synthase 2 | ![]() |
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2 | 2 | ||||||
MIRT480658 | BSCL2 | BSCL2, seipin lipid droplet biogenesis associated | ![]() |
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2 | 2 | ||||||
MIRT481954 | ANKRD11 | ankyrin repeat domain 11 | ![]() |
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2 | 2 | ||||||
MIRT482895 | IAH1 | isoamyl acetate-hydrolyzing esterase 1 homolog | ![]() |
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2 | 4 | ||||||
MIRT493634 | HIC2 | HIC ZBTB transcriptional repressor 2 | ![]() |
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2 | 2 | ||||||
MIRT500847 | SYPL1 | synaptophysin like 1 | ![]() |
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2 | 4 | ||||||
MIRT502035 | LRIG2 | leucine rich repeats and immunoglobulin like domains 2 | ![]() |
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2 | 2 | ||||||
MIRT502185 | IGSF3 | immunoglobulin superfamily member 3 | ![]() |
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2 | 4 | ||||||
MIRT502605 | DNAJB9 | DnaJ heat shock protein family (Hsp40) member B9 | ![]() |
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2 | 10 | ||||||
MIRT502977 | CCNL1 | cyclin L1 | ![]() |
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2 | 8 | ||||||
MIRT504725 | PLEKHA6 | pleckstrin homology domain containing A6 | ![]() |
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2 | 10 | ||||||
MIRT504778 | CLEC2D | C-type lectin domain family 2 member D | ![]() |
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2 | 4 | ||||||
MIRT505786 | SATB1 | SATB homeobox 1 | ![]() |
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2 | 4 | ||||||
MIRT510090 | PPWD1 | peptidylprolyl isomerase domain and WD repeat containing 1 | ![]() |
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2 | 4 | ||||||
MIRT520010 | YY1 | YY1 transcription factor | ![]() |
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2 | 4 | ||||||
MIRT532552 | TXNL1 | thioredoxin like 1 | ![]() |
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2 | 2 | ||||||
MIRT533433 | TRPS1 | transcriptional repressor GATA binding 1 | ![]() |
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2 | 2 | ||||||
MIRT537459 | FAM84B | family with sequence similarity 84 member B | ![]() |
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2 | 2 | ||||||
MIRT541825 | SV2B | synaptic vesicle glycoprotein 2B | ![]() |
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2 | 2 | ||||||
MIRT543222 | TMEM117 | transmembrane protein 117 | ![]() |
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2 | 2 | ||||||
MIRT551088 | DDX52 | DExD-box helicase 52 | ![]() |
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2 | 2 | ||||||
MIRT551500 | UGT2B4 | UDP glucuronosyltransferase family 2 member B4 | ![]() |
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2 | 2 | ||||||
MIRT552326 | ZNF791 | zinc finger protein 791 | ![]() |
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2 | 2 | ||||||
MIRT553213 | TXLNG | taxilin gamma | ![]() |
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2 | 2 | ||||||
MIRT554590 | RRAGC | Ras related GTP binding C | ![]() |
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2 | 2 | ||||||
MIRT559004 | CA8 | carbonic anhydrase 8 | ![]() |
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2 | 2 | ||||||
MIRT559134 | BTG3 | BTG anti-proliferation factor 3 | ![]() |
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2 | 4 | ||||||
MIRT559409 | GDNF | glial cell derived neurotrophic factor | ![]() |
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2 | 4 | ||||||
MIRT560678 | SRFBP1 | serum response factor binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT560954 | POTED | POTE ankyrin domain family member D | ![]() |
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2 | 2 | ||||||
MIRT562856 | C17orf58 | chromosome 17 open reading frame 58 | ![]() |
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2 | 2 | ||||||
MIRT563003 | MOCS2 | molybdenum cofactor synthesis 2 | ![]() |
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2 | 2 | ||||||
MIRT564545 | CCDC80 | coiled-coil domain containing 80 | ![]() |
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2 | 2 | ||||||
MIRT566272 | PTAR1 | protein prenyltransferase alpha subunit repeat containing 1 | ![]() |
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2 | 2 | ||||||
MIRT566510 | PAWR | pro-apoptotic WT1 regulator | ![]() |
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2 | 2 | ||||||
MIRT572103 | EFNB2 | ephrin B2 | ![]() |
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2 | 2 | ||||||
MIRT574576 | NLGN4X | neuroligin 4, X-linked | ![]() |
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2 | 4 | ||||||
MIRT576574 | Serpine1 | serine (or cysteine) peptidase inhibitor, clade E, member 1 | ![]() |
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2 | 2 | ||||||
MIRT610815 | POT1 | protection of telomeres 1 | ![]() |
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2 | 2 | ||||||
MIRT624589 | BCL11B | B-cell CLL/lymphoma 11B | ![]() |
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2 | 2 | ||||||
MIRT627567 | SMAD6 | SMAD family member 6 | ![]() |
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2 | 2 | ||||||
MIRT632675 | MTX3 | metaxin 3 | ![]() |
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2 | 2 | ||||||
MIRT689265 | WDR83OS | WD repeat domain 83 opposite strand | ![]() |
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2 | 2 | ||||||
MIRT694310 | COPB2 | coatomer protein complex subunit beta 2 | ![]() |
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2 | 2 | ||||||
MIRT697721 | USP8 | ubiquitin specific peptidase 8 | ![]() |
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2 | 2 | ||||||
MIRT700209 | RFWD3 | ring finger and WD repeat domain 3 | ![]() |
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2 | 2 | ||||||
MIRT704399 | CTSS | cathepsin S | ![]() |
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2 | 2 | ||||||
MIRT710665 | CSTF2T | cleavage stimulation factor subunit 2 tau variant | ![]() |
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2 | 2 | ||||||
MIRT711953 | SLC7A14 | solute carrier family 7 member 14 | ![]() |
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2 | 2 | ||||||
MIRT712596 | ADCYAP1 | adenylate cyclase activating polypeptide 1 | ![]() |
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2 | 2 | ||||||
MIRT712692 | TNFAIP2 | TNF alpha induced protein 2 | ![]() |
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2 | 2 | ||||||
MIRT714171 | PPP1R2 | protein phosphatase 1 regulatory inhibitor subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT715964 | CES4A | carboxylesterase 4A | ![]() |
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2 | 2 | ||||||
MIRT722781 | PDE3A | phosphodiesterase 3A | ![]() |
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2 | 2 | ||||||
MIRT724505 | MSMO1 | methylsterol monooxygenase 1 | ![]() |
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2 | 2 |