pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-569 |
Genomic Coordinates | chr3: 171106664 - 171106759 |
Synonyms | MIRN569, hsa-mir-569, MIR569 |
Description | Homo sapiens miR-569 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Associated Diseases | ![]() |
Mature miRNA Information | ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-569 | |||||||||||||||
Sequence | 61| AGUUAAUGAAUCCUGGAAAGU |81 | |||||||||||||||
Evidence | Experimental | |||||||||||||||
Experiments | SAGE | DRVs in miRNA |
|
|||||||||||||
SNPs in miRNA |
|
|||||||||||||||
Putative Targets |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | RSBN1L | ||||||||||||||||||||
Synonyms | - | ||||||||||||||||||||
Description | round spermatid basic protein 1 like | ||||||||||||||||||||
Transcript | NM_198467 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on RSBN1L | |||||||||||||||||||||
3'UTR of RSBN1L (miRNA target sites are highlighted) |
>RSBN1L|NM_198467|3'UTR 1 ATTTGCATATACCATCTAAAATCCTTTTTTAAAAAAATTTAATGTAATAAAGATTCATGAATTCTGAAAGCAAGCCAAGG 81 ACTTGCTCCTATGTCTGTTACAAAACATAGTTTATGTAGCTTTGTAACATTCCTCAGTGCCTGTCCATAACTGTGAAGTA 161 TTAAGCACTTAGGGCCAGATGCACTGTAAACATTGCAGGTTTAAACATAAAGGAGTCTTTAAAAAAAAATCATTTACGTT 241 GGAATTTTAGGTTTTAGAATAGAGCTGACATTAACATATATATATATATATAAATATATATATATATTTTGTAATATGAG 321 CCAGAATTCTTTTTCAACAATTTAAAGCTTTTCCATAGAGCTTATTTATATCCTTTTTTTTCATTTTAAATGTGTCAGCA 401 CTGTAGTGTAAATAGCTTTTAAATATCTTTTTAGTGTGATTTATACTGAAATGTGAGCCACTTAATAAAGGTTCATATGT 481 TCATATTAATAAATATGTTTTCTGTTGAGTCTGTAAAGACAAACTGACAATTCATTTAAGTCATTTGATAATGATTCTCT 561 GCTGGTATATCTATTTAGTGTGGTATTGTAGTGCAAATGTACGTAATTCAAATCTAGTAAATATTTAAGTTCCTC Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
|
||||||||||||||||||||
miRNA-target interactions (Predicted by miRanda) |
|
||||||||||||||||||||
DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
Conditions | HEK293 |
Disease | 222194.0 |
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 GSM714642. RNA binding protein: AGO2. Condition:completeT1
"PAR-CLIP data was present in GSM714644. RNA binding protein: AGO2. Condition:completeT1
... - Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods. |
Article |
- Kishore S; Jaskiewicz L; Burger L; Hausser et al. - Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
|
Experimental Support 2 for Functional miRNA-Target Interaction | |
---|---|
miRNA:Target | ---- |
Validation Method |
|
Conditions | HEK293 |
Disease | 222194.0 |
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 GSM1065667. RNA binding protein: AGO1. Condition:4-thiouridine
"PAR-CLIP data was present in GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine
... - Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature. |
Article |
- Memczak S; Jens M; Elefsinioti A; Torti F; et al. - Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
|
CLIP-seq Support 1 for dataset GSM714642 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repA |
Location of target site | ENST00000334955.8 | 3UTR | AACAUAUAUAUAUAUAUAUAAAUAUAUAUAUAUAUUU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM714644 | |
---|---|
Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repA |
Location of target site | ENST00000334955.8 | 3UTR | UAACAUAUAUAUAUAUAUAUAAAUAUAUAUAUAUAUUUUG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM1065667 | |
---|---|
Method / RBP | PAR-CLIP / AGO1 |
Cell line / Condition | HEK293 / 4-thiouridine, ML_MM_6 |
Location of target site | ENST00000334955.8 | 3UTR | ACAUUAACAUAUAUAUAUAUAUAUAAAUAUAUAUAUAUAUUUU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23446348 / GSE43573 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM1065669 | |
---|---|
Method / RBP | PAR-CLIP / AGO1 |
Cell line / Condition | HEK293 / 4-thiouridine, ML_MM_8 |
Location of target site | ENST00000334955.8 | 3UTR | UAACAUAUAUAUAUAUAUAUAAAUAUAUAUAUAUAUU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23446348 / GSE43573 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
58 hsa-miR-569 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT004827 | SPI1 | Spi-1 proto-oncogene | ![]() |
![]() |
2 | 1 | ||||||
MIRT086537 | HSPE1-MOB4 | HSPE1-MOB4 readthrough | ![]() |
![]() |
2 | 2 | ||||||
MIRT086545 | MOB4 | MOB family member 4, phocein | ![]() |
![]() |
2 | 2 | ||||||
MIRT154349 | PARD6B | par-6 family cell polarity regulator beta | ![]() |
![]() |
2 | 4 | ||||||
MIRT182174 | POU2F1 | POU class 2 homeobox 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT190452 | EIF5 | eukaryotic translation initiation factor 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT191410 | NAA30 | N(alpha)-acetyltransferase 30, NatC catalytic subunit | ![]() |
![]() |
2 | 2 | ||||||
MIRT199846 | CSNK1G2 | casein kinase 1 gamma 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT208376 | SLC25A36 | solute carrier family 25 member 36 | ![]() |
![]() |
2 | 2 | ||||||
MIRT275677 | CARKD | NAD(P)HX dehydratase | ![]() |
![]() |
2 | 2 | ||||||
MIRT275764 | TFDP1 | transcription factor Dp-1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT280470 | UBR7 | ubiquitin protein ligase E3 component n-recognin 7 (putative) | ![]() |
![]() |
2 | 2 | ||||||
MIRT296592 | FAM217B | family with sequence similarity 217 member B | ![]() |
![]() |
2 | 4 | ||||||
MIRT306847 | FYTTD1 | forty-two-three domain containing 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT443764 | HLF | HLF, PAR bZIP transcription factor | ![]() |
![]() |
2 | 2 | ||||||
MIRT448026 | GSR | glutathione-disulfide reductase | ![]() |
![]() |
2 | 2 | ||||||
MIRT448659 | NCALD | neurocalcin delta | ![]() |
![]() |
2 | 2 | ||||||
MIRT449142 | UQCRB | ubiquinol-cytochrome c reductase binding protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT449225 | RAD51B | RAD51 paralog B | ![]() |
![]() |
2 | 2 | ||||||
MIRT462421 | TWISTNB | TWIST neighbor | ![]() |
![]() |
2 | 2 | ||||||
MIRT468478 | SESN3 | sestrin 3 | ![]() |
![]() |
2 | 4 | ||||||
MIRT478170 | DENND5B | DENN domain containing 5B | ![]() |
![]() |
2 | 2 | ||||||
MIRT478577 | VSIG2 | V-set and immunoglobulin domain containing 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT481300 | ATP5G3 | ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) | ![]() |
![]() |
2 | 16 | ||||||
MIRT485894 | ZFP36 | ZFP36 ring finger protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT497242 | FITM2 | fat storage inducing transmembrane protein 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT500282 | ZNF703 | zinc finger protein 703 | ![]() |
![]() |
2 | 8 | ||||||
MIRT509536 | RSBN1L | round spermatid basic protein 1 like | ![]() |
![]() |
2 | 4 | ||||||
MIRT511835 | GPATCH8 | G-patch domain containing 8 | ![]() |
![]() |
2 | 4 | ||||||
MIRT522437 | MON1B | MON1 homolog B, secretory trafficking associated | ![]() |
![]() |
2 | 2 | ||||||
MIRT523538 | GLO1 | glyoxalase I | ![]() |
![]() |
2 | 4 | ||||||
MIRT527631 | MYBPC1 | myosin binding protein C, slow type | ![]() |
![]() |
2 | 4 | ||||||
MIRT528059 | OLAH | oleoyl-ACP hydrolase | ![]() |
![]() |
2 | 2 | ||||||
MIRT532549 | TXNL1 | thioredoxin like 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT545503 | NAP1L1 | nucleosome assembly protein 1 like 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT546724 | RNF6 | ring finger protein 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT546737 | RNF141 | ring finger protein 141 | ![]() |
![]() |
2 | 2 | ||||||
MIRT550889 | ACTA1 | actin, alpha 1, skeletal muscle | ![]() |
![]() |
2 | 2 | ||||||
MIRT554180 | SLC35E2B | solute carrier family 35 member E2B | ![]() |
![]() |
2 | 2 | ||||||
MIRT555878 | PAFAH1B2 | platelet activating factor acetylhydrolase 1b catalytic subunit 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT558458 | DCUN1D1 | defective in cullin neddylation 1 domain containing 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT560375 | TIMM8A | translocase of inner mitochondrial membrane 8A | ![]() |
![]() |
2 | 2 | ||||||
MIRT562672 | AKT3 | AKT serine/threonine kinase 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT563810 | TUBA1B | tubulin alpha 1b | ![]() |
![]() |
2 | 2 | ||||||
MIRT564607 | ZNF711 | zinc finger protein 711 | ![]() |
![]() |
2 | 2 | ||||||
MIRT564881 | YWHAE | tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon | ![]() |
![]() |
2 | 2 | ||||||
MIRT566724 | MSL2 | MSL complex subunit 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT566900 | CSRP3 | cysteine and glycine rich protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT570002 | COL1A2 | collagen type I alpha 2 chain | ![]() |
![]() |
2 | 2 | ||||||
MIRT612300 | ZFP14 | ZFP14 zinc finger protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT618334 | ZNF813 | zinc finger protein 813 | ![]() |
![]() |
2 | 2 | ||||||
MIRT627658 | RSBN1 | round spermatid basic protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT630660 | PLAG1 | PLAG1 zinc finger | ![]() |
![]() |
2 | 2 | ||||||
MIRT640802 | MYCL1 | MYCL proto-oncogene, bHLH transcription factor | ![]() |
1 | 1 | |||||||
MIRT651370 | ZBTB21 | zinc finger and BTB domain containing 21 | ![]() |
![]() |
2 | 2 | ||||||
MIRT709227 | GPSM2 | G protein signaling modulator 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT712058 | ZBTB34 | zinc finger and BTB domain containing 34 | ![]() |
![]() |
2 | 2 | ||||||
MIRT725006 | ZPBP | zona pellucida binding protein | ![]() |
![]() |
2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|