pre-miRNA Information | |
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pre-miRNA | hsa-mir-2681 |
Genomic Coordinates | chr13: 101967642 - 101967746 |
Description | Homo sapiens miR-2681 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-2681-5p | |||||||||||||||||||||||||||
Sequence | 22| GUUUUACCACCUCCAGGAGACU |43 | |||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||||||||
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 | ARSK | ||||||||||||||||||||
Synonyms | TSULF | ||||||||||||||||||||
Description | arylsulfatase family member K | ||||||||||||||||||||
Transcript | NM_198150 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on ARSK | |||||||||||||||||||||
3'UTR of ARSK (miRNA target sites are highlighted) |
>ARSK|NM_198150|3'UTR 1 ACAAAAAGTTTAAAAATAGTGTTCTAGAGATACATATAAATATATTACAAGATCATAATTATGTATTTTAAATGAAACAG 81 TTTTAATAATTACCAAGTTTTGGCCGGGCACAGTGGCTCACACCTGTAATCCCAGGACTTTGGGAGGCTGAGGAAAGCAG 161 ATCACAAGGTCAAGAGATTGAGACCATCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCTGG 241 GCGCGGTGGTGCACACCTATAGTCTCAGCTACTCAGAGGCTGAGGCAGGAGGATCGCTTGAACCCGGGAGGCAGCAGTTG 321 CAGTGAGCTGAGATTGCGCCACTGTACTCCAGCCTGGCAACAGAGTGAGACTGTGTCGCAAAAAAATAAAAATAAAATAA 401 TAATAATTACCAATTTTTCATTATTTTGTAAGAATGTAGTGTATTTTAAGATAAAATGCCAATGATTATAAAATCACATA 481 TTTTCAAAAATGGTTATTATTTAGGCCTTTGTACAATTTCTAACAATTTAGTGGAAGTATCAAAAGAATTGAAGCAAATA 561 CTGTAACAGTTATGTTCCTTTAAATAATAGAGAATATAAAATATTGTAATAATATGTATCATAAAATAGTTGTATGTGAG 641 CATTTGATGGTGCTCGATGAGTTACTTGTATTTGATGGGATTGTTTGGATGTATTTAATGGGAGTATTTGGAGTATTTAA 721 CGGGATGTAAACCCTGGATGTACCTGATTTTGTTACTGTTTTATTTTAATAGGTAATATATATACAGGGTAAAAGCTTCA 801 AATGGTACAAAAGGGTTAACAGTGATCGTGAAGTCTCTGTCCTTTCCCTCTTCCCTGCCATCCAGTTCCCCCTCCAAGAA 881 GCAAGTACCGAAACCACCTGCTTACGCATTTTTAGAGATTGGCCACAAATTTATAAACAAATGTATATATTCCTTTCCCC 961 CTACACAAACGGTAACATACTGCACACATTGTTCTGCATGTTGCTTCTTTTTCCTTTTTTTTTTCACTTAACAGTAGATA 1041 TCTAGAGGTGAAATTACTGAGTCAAGACTATATTTAGCAAAATTACACTAGATACTACAAATTACCTCTAAAGAAGGTAT 1121 ACTAACTGATAATCTCACCATCAATGCATGTCTTCTTATCCTTTGCCAACCTAACAGATAAAAATGTTCTATTTTTATTT 1201 TTCTTTTTATGAGTAACGTAGAGCATATTTTCATGTATTTAACAGCCACTGGAATCTGCTTTACCATGGCCTTTCCTATT 1281 TCTATTCTTTGCCTATTTTTCTGTTGGTTGTTGGTCTTTGTTTTGTATTACAGGTGTGCTTTAGATATTAGCTTTTTGTA 1361 AGAGATCCTGCAAATATCTTCTTTCCAGTTTGTCATTGTCATTTGTCTTTTGACTTTGTTCTGGTATTTTTTGATATGTA 1441 GAAATTTTTATTTTCATGTAAGCAAATTTATGAATCTTTGTACACCATAAGTATATACAATTATGATTTGTCAATTAAAA 1521 ATATTAGTACAAAATTTACAGATCTTTGCTTTTGTGGCTTTTGGGATTTTGTATCA 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 | ||||||
Disease | 153642.0 | ||||||
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 GSM714644. RNA binding protein: AGO2. Condition:completeT1
... - Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods. |
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miRNA-target interactions (Provided by authors) |
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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]
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CLIP-seq Support 1 for dataset GSM714644 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repA |
Location of target site | ENST00000380009.4 | 3UTR | UUUUAAUAGGUAAUAUAUAUACAGGGUAAAAGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21572407 / GSE28865 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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115 hsa-miR-2681-5p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT058831 | NRAS | NRAS proto-oncogene, GTPase | 2 | 4 | ||||||||
MIRT076301 | ULK2 | unc-51 like autophagy activating kinase 2 | 2 | 2 | ||||||||
MIRT095503 | PURA | purine rich element binding protein A | 2 | 12 | ||||||||
MIRT097763 | ARSK | arylsulfatase family member K | 2 | 2 | ||||||||
MIRT170870 | TAX1BP1 | Tax1 binding protein 1 | 2 | 2 | ||||||||
MIRT179045 | PAFAH1B2 | platelet activating factor acetylhydrolase 1b catalytic subunit 2 | 2 | 4 | ||||||||
MIRT189057 | CLEC2D | C-type lectin domain family 2 member D | 2 | 8 | ||||||||
MIRT241949 | BTG1 | BTG anti-proliferation factor 1 | 2 | 4 | ||||||||
MIRT261860 | ZRANB1 | zinc finger RANBP2-type containing 1 | 2 | 2 | ||||||||
MIRT309357 | OTUD4 | OTU deubiquitinase 4 | 2 | 2 | ||||||||
MIRT340568 | SMIM12 | small integral membrane protein 12 | 2 | 4 | ||||||||
MIRT351983 | HSPE1-MOB4 | HSPE1-MOB4 readthrough | 2 | 8 | ||||||||
MIRT351986 | MOB4 | MOB family member 4, phocein | 2 | 8 | ||||||||
MIRT353140 | RAB10 | RAB10, member RAS oncogene family | 2 | 2 | ||||||||
MIRT387104 | VEZF1 | vascular endothelial zinc finger 1 | 2 | 2 | ||||||||
MIRT441833 | SLC30A7 | solute carrier family 30 member 7 | 2 | 2 | ||||||||
MIRT443778 | MTHFD1 | methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1 | 2 | 4 | ||||||||
MIRT448135 | CMTM6 | CKLF like MARVEL transmembrane domain containing 6 | 2 | 2 | ||||||||
MIRT450638 | ZMYM2 | zinc finger MYM-type containing 2 | 2 | 2 | ||||||||
MIRT494763 | AP1G1 | adaptor related protein complex 1 gamma 1 subunit | 2 | 2 | ||||||||
MIRT498299 | DCAF8 | DDB1 and CUL4 associated factor 8 | 2 | 2 | ||||||||
MIRT505104 | YTHDC1 | YTH domain containing 1 | 2 | 6 | ||||||||
MIRT507179 | G3BP2 | G3BP stress granule assembly factor 2 | 2 | 6 | ||||||||
MIRT516638 | ZNF318 | zinc finger protein 318 | 2 | 4 | ||||||||
MIRT520011 | YWHAZ | tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta | 2 | 4 | ||||||||
MIRT526877 | GJD3 | gap junction protein delta 3 | 2 | 2 | ||||||||
MIRT529374 | SKP1 | S-phase kinase associated protein 1 | 2 | 2 | ||||||||
MIRT530090 | SHISA2 | shisa family member 2 | 2 | 2 | ||||||||
MIRT536514 | KCTD10 | potassium channel tetramerization domain containing 10 | 2 | 2 | ||||||||
MIRT536559 | JMJD1C | jumonji domain containing 1C | 2 | 2 | ||||||||
MIRT536624 | IPO7 | importin 7 | 2 | 2 | ||||||||
MIRT544378 | ZNF266 | zinc finger protein 266 | 2 | 2 | ||||||||
MIRT547590 | LIN28B | lin-28 homolog B | 2 | 2 | ||||||||
MIRT548736 | CREBBP | CREB binding protein | 2 | 2 | ||||||||
MIRT551485 | TMEM192 | transmembrane protein 192 | 2 | 4 | ||||||||
MIRT552322 | ZNF791 | zinc finger protein 791 | 2 | 4 | ||||||||
MIRT553193 | UBE2A | ubiquitin conjugating enzyme E2 A | 2 | 2 | ||||||||
MIRT553719 | TBX18 | T-box 18 | 2 | 2 | ||||||||
MIRT554573 | RRAS2 | RAS related 2 | 2 | 2 | ||||||||
MIRT557038 | HOXB3 | homeobox B3 | 2 | 2 | ||||||||
MIRT559566 | ARF1 | ADP ribosylation factor 1 | 2 | 2 | ||||||||
MIRT560134 | INO80D | INO80 complex subunit D | 2 | 2 | ||||||||
MIRT560406 | JUN | Jun proto-oncogene, AP-1 transcription factor subunit | 2 | 2 | ||||||||
MIRT561712 | PTMA | prothymosin, alpha | 2 | 2 | ||||||||
MIRT562688 | ABI2 | abl interactor 2 | 2 | 2 | ||||||||
MIRT563214 | FXN | frataxin | 2 | 2 | ||||||||
MIRT566288 | PROX1 | prospero homeobox 1 | 2 | 4 | ||||||||
MIRT567369 | GTPBP3 | GTP binding protein 3, mitochondrial | 2 | 2 | ||||||||
MIRT571380 | JKAMP | JNK1/MAPK8-associated membrane protein | 2 | 2 | ||||||||
MIRT574743 | GOLGA4 | golgin A4 | 2 | 2 | ||||||||
MIRT576816 | Tgfbr3 | transforming growth factor, beta receptor III | 2 | 2 | ||||||||
MIRT609984 | ZHX1 | zinc fingers and homeoboxes 1 | 2 | 4 | ||||||||
MIRT610518 | HIAT1 | major facilitator superfamily domain containing 14A | 2 | 2 | ||||||||
MIRT612203 | NKTR | natural killer cell triggering receptor | 2 | 4 | ||||||||
MIRT612224 | DHX33 | DEAH-box helicase 33 | 2 | 6 | ||||||||
MIRT612889 | HOOK3 | hook microtubule tethering protein 3 | 2 | 2 | ||||||||
MIRT613639 | DUSP18 | dual specificity phosphatase 18 | 2 | 4 | ||||||||
MIRT614161 | PHF8 | PHD finger protein 8 | 2 | 2 | ||||||||
MIRT614630 | WDR13 | WD repeat domain 13 | 2 | 4 | ||||||||
MIRT615001 | FXR1 | FMR1 autosomal homolog 1 | 2 | 4 | ||||||||
MIRT615665 | TSC22D2 | TSC22 domain family member 2 | 2 | 2 | ||||||||
MIRT615976 | KAT6A | lysine acetyltransferase 6A | 2 | 2 | ||||||||
MIRT616328 | ADARB2 | adenosine deaminase, RNA specific B2 (inactive) | 2 | 2 | ||||||||
MIRT616495 | AIPL1 | aryl hydrocarbon receptor interacting protein like 1 | 2 | 2 | ||||||||
MIRT616585 | ZNF460 | zinc finger protein 460 | 2 | 2 | ||||||||
MIRT616870 | ARPC1B | actin related protein 2/3 complex subunit 1B | 2 | 4 | ||||||||
MIRT617631 | RXRA | retinoid X receptor alpha | 2 | 2 | ||||||||
MIRT620339 | TLN1 | talin 1 | 2 | 2 | ||||||||
MIRT621658 | UBE4B | ubiquitination factor E4B | 2 | 2 | ||||||||
MIRT621824 | TIMM8A | translocase of inner mitochondrial membrane 8A | 2 | 2 | ||||||||
MIRT622134 | SOX4 | SRY-box 4 | 2 | 2 | ||||||||
MIRT622154 | SNTG1 | syntrophin gamma 1 | 2 | 2 | ||||||||
MIRT622298 | SGK3 | serum/glucocorticoid regulated kinase family member 3 | 2 | 2 | ||||||||
MIRT622531 | RAB9B | RAB9B, member RAS oncogene family | 2 | 2 | ||||||||
MIRT622596 | PRRC2B | proline rich coiled-coil 2B | 2 | 2 | ||||||||
MIRT623328 | MAK16 | MAK16 homolog | 2 | 2 | ||||||||
MIRT624499 | C8orf44-SGK3 | C8orf44-SGK3 readthrough | 2 | 2 | ||||||||
MIRT624720 | AP1S2 | adaptor related protein complex 1 sigma 2 subunit | 2 | 2 | ||||||||
MIRT625990 | IBA57 | IBA57 homolog, iron-sulfur cluster assembly | 2 | 2 | ||||||||
MIRT626143 | MPRIP | myosin phosphatase Rho interacting protein | 2 | 2 | ||||||||
MIRT626499 | ARHGAP9 | Rho GTPase activating protein 9 | 2 | 2 | ||||||||
MIRT627023 | CREBL2 | cAMP responsive element binding protein like 2 | 2 | 2 | ||||||||
MIRT635710 | HFM1 | HFM1, ATP dependent DNA helicase homolog | 2 | 2 | ||||||||
MIRT635725 | CCDC58 | coiled-coil domain containing 58 | 2 | 2 | ||||||||
MIRT637121 | MKX | mohawk homeobox | 2 | 2 | ||||||||
MIRT639969 | POU5F1B | POU class 5 homeobox 1B | 2 | 2 | ||||||||
MIRT640962 | GPRASP1 | G protein-coupled receptor associated sorting protein 1 | 2 | 4 | ||||||||
MIRT641067 | HHIPL1 | HHIP like 1 | 2 | 2 | ||||||||
MIRT644800 | NKX3-2 | NK3 homeobox 2 | 2 | 2 | ||||||||
MIRT644958 | STEAP4 | STEAP4 metalloreductase | 2 | 2 | ||||||||
MIRT649152 | LRTM1 | leucine rich repeats and transmembrane domains 1 | 2 | 2 | ||||||||
MIRT651887 | UFD1L | ubiquitin recognition factor in ER associated degradation 1 | 2 | 2 | ||||||||
MIRT652165 | TRIM66 | tripartite motif containing 66 | 2 | 2 | ||||||||
MIRT652565 | TLR6 | toll like receptor 6 | 2 | 2 | ||||||||
MIRT653127 | SRPX2 | sushi repeat containing protein, X-linked 2 | 2 | 2 | ||||||||
MIRT655622 | ONECUT1 | one cut homeobox 1 | 2 | 2 | ||||||||
MIRT656245 | MEX3A | mex-3 RNA binding family member A | 2 | 2 | ||||||||
MIRT656837 | KLF7 | Kruppel like factor 7 | 2 | 2 | ||||||||
MIRT656990 | KCNN3 | potassium calcium-activated channel subfamily N member 3 | 2 | 2 | ||||||||
MIRT660337 | BCL10 | B-cell CLL/lymphoma 10 | 2 | 2 | ||||||||
MIRT660393 | B3GALT5 | beta-1,3-galactosyltransferase 5 | 2 | 2 | ||||||||
MIRT660940 | ACER3 | alkaline ceramidase 3 | 2 | 2 | ||||||||
MIRT661509 | C8orf82 | chromosome 8 open reading frame 82 | 2 | 2 | ||||||||
MIRT665000 | KLF2 | Kruppel like factor 2 | 2 | 2 | ||||||||
MIRT665106 | TNFSF8 | TNF superfamily member 8 | 2 | 2 | ||||||||
MIRT665547 | UCHL5 | ubiquitin C-terminal hydrolase L5 | 2 | 2 | ||||||||
MIRT687376 | NT5DC3 | 5'-nucleotidase domain containing 3 | 2 | 2 | ||||||||
MIRT711828 | SIGLEC9 | sialic acid binding Ig like lectin 9 | 2 | 2 | ||||||||
MIRT713313 | VLDLR | very low density lipoprotein receptor | 2 | 2 | ||||||||
MIRT715654 | PPM1K | protein phosphatase, Mg2+/Mn2+ dependent 1K | 2 | 2 | ||||||||
MIRT715735 | CD226 | CD226 molecule | 2 | 2 | ||||||||
MIRT717255 | SLC44A1 | solute carrier family 44 member 1 | 2 | 2 | ||||||||
MIRT717950 | MIA3 | MIA family member 3, ER export factor | 2 | 2 | ||||||||
MIRT719709 | CD101 | CD101 molecule | 2 | 2 | ||||||||
MIRT723893 | NUDT21 | nudix hydrolase 21 | 2 | 2 |