pre-miRNA Information | |
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pre-miRNA | hsa-mir-4260 |
Genomic Coordinates | chr1: 209623444 - 209623510 |
Description | Homo sapiens miR-4260 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
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Mature miRNA | hsa-miR-4260 | ||||||||||||
Sequence | 11| CUUGGGGCAUGGAGUCCCA |29 | ||||||||||||
Evidence | Experimental | ||||||||||||
Experiments | SOLiD | DRVs in miRNA |
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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 | IL21R | ||||||||||||||||||||
Synonyms | CD360, NILR | ||||||||||||||||||||
Description | interleukin 21 receptor | ||||||||||||||||||||
Transcript | NM_021798 | ||||||||||||||||||||
Other Transcripts | NM_181078 , NM_181079 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on IL21R | |||||||||||||||||||||
3'UTR of IL21R (miRNA target sites are highlighted) |
>IL21R|NM_021798|3'UTR 1 TGAGGCTGACTGGATGTCCAGAGCTGGCCAGGCCACTGGGCCCTGAGCCAGAGACAAGGTCACCTGGGCTGTGATGTGAA 81 GACACCTGCAGCCTTTGGTCTCCTGGATGGGCCTTTGAGCCTGATGTTTACAGTGTCTGTGTGTGTGTGTGCATATGTGT 161 GTGTGTGCATATGCATGTGTGTGTGTGTGTGTGTCTTAGGTGCGCAGTGGCATGTCCACGTGTGTGTGTGATTGCACGTG 241 CCTGTGGGCCTGGGATAATGCCCATGGTACTCCATGCATTCACCTGCCCTGTGCATGTCTGGACTCACGGAGCTCACCCA 321 TGTGCACAAGTGTGCACAGTAAACGTGTTTGTGGTCAACAGATGACAACAGCCGTCCTCCCTCCTAGGGTCTTGTGTTGC 401 AAGTTGGTCCACAGCATCTCCGGGGCTTTGTGGGATCAGGGCATTGCCTGTGACTGAGGCGGAGCCCAGCCCTCCAGCGT 481 CTGCCTCCAGGAGCTGCAAGAAGTCCATATTGTTCCTTATCACCTGCCAACAGGAAGCGAAAGGGGATGGAGTGAGCCCA 561 TGGTGACCTCGGGAATGGCAATTTTTTGGGCGGCCCCTGGACGAAGGTCTGAATCCCGACTCTGATACCTTCTGGCTGTG 641 CTACCTGAGCCAAGTCGCCTCCCCTCTCTGGGCTAGAGTTTCCTTATCCAGACAGTGGGGAAGGCATGACACACCTGGGG 721 GAAATTGGCGATGTCACCCGTGTACGGTACGCAGCCCAGAGCAGACCCTCAATAAACGTCAGCTTCCTTCCTTCTGCGGC 801 CAGAGCCGAGGCGGGCGGGGGTGAGAACATCAATCGTCAGCGACAGCCTGGGCACCCGCGGGGCCGTCCCGCCTGCAGAG 881 GGCCACTCGGGGGGGTTTCCAGGCTTAAAATCAGTCCGTTTCGTCTCTTGGAAACAGCTCCCCACCAACCAAGATTTCTT 961 TTTCTAACTTCTGCTACTAAGTTTTTAAAAATTCCCTTTATGCACCCAAGAGATATTTATTAAACACCAATTACGTAGCA 1041 GGCCATGGCTCATGGGACCCACCCCCCGTGGCACTCATGGAGGGGGCTGCAGGTTGGAACTATGCAGTGTGCTCCGGCCA 1121 CACATCCTGCTGGGCCCCCTACCCTGCCCCAATTCAATCCTGCCAATAAATCCTGTCTTATTTGTTCATCCTGGAGAATT 1201 GAAGGGAGGTCAAGTTGTTTGTCAATGATTTGTCAGAGAACCTGTTGAAATGTGAATTAAGAAGCTAAGAAAATATTTCT 1281 TAGCAACATTTTCTTTTTCTTTTTTTTTTTTTTCTTTTGAGACAGAGTCTCACTCTCGTCGCCCAGGCTGGAATGCAGTG 1361 GTGCGATCTCGGCTCTCTGCAACCTCTGTCTCCCGGGTTCAAGCGATTTCCTGCGTCAGCCCCAGAGTAGCTGGAATTAC 1441 AGGCACACACCACCACGCCTGGCTAATTTTTGTATTTTTAGTAGAGCTGGGGCCACCCTGGCCCGGCCCCGTCTTCCTCC 1521 CCAAAGGTCAGACTGCAGGCTGCAGGGCTGTGCTGGAGGAGCCAGCTCTAGCTCACCCATGCTTTTGCAACAGGGTCGGG 1601 TTGGAAGTCAGCACAGGTCAGTCCTGCGGAAGGTTCCTTCGTGACTCATCTGTGAAGTGGGGTGGTTGGGAGAGGTAGCT 1681 GAGAGAATGCATGAGAGTCCTCGGTGCCTGGCAGGAGGCTGGAAGGTTCTAGAACACTGATGGTTATAAGAGTGGGACTG 1761 TGAGCCTGGGATCGGGGGGTGTGAGACTTGGATGGGAGCACAAGAGTGGAAACACAGCTTCTGCACGGAGCAGGCGCAGC 1841 CCTCAACACCCCGTGCACCTGCACCCTAGGGACTCTTGGGTCCAGATGTGCTGTGGTTTTCACACCTTCTTGGGGGCAAC 1921 AGGTTCCAGGAGCCACCTGTGGGTGCCACCTGAGCCACAGGCTCCCAGGAAAGCAGCACAGCTCTCCTGCACCCAGAGCT 2001 TGCTGGGTGGCGGAGGGGAACACAGATGGTTGGGGAAGGCCTGAGGCCAGATTGGGGGACTCTGGACTGGGGCAGATGAG 2081 GCTCCTCAGAATCCCACCTTTGAAGGGAACTCAGCTTATAAACACAGAGGAGCAAAGTTGGAGGGCCGGGCGTAGTGGCT 2161 CACACCTGTGATCTCAGCACTTTGGGAGGCCAAGGAAGGTGGATCACTTGAGGCCAGGAGTTCGAGACCAGCCTGGGCAA 2241 CATAGCAAGGCCCCATCTCTACAAAAATTATTATTTTTTAAAAAAATTAGCCAGGTGTGGTGGTGCTTGCCTATAGTCCC 2321 AGCTACTCGGGAGGCTAAGGTGGGAGGATCGCTGGAGCCCAGGAATTTGAGGCTGCAGTGAGCTGTGATTACACCGTTGC 2401 ACTCCAGCCTGGGTCACAGATCAAGACCCTGTCTCTTAAAAATAAAAGTTGGAGACAAGAGCTGGCTCACCTGAAAGGAG 2481 GGATTAGTAGGTAGGAGGGTGGATGGAGGATGGATGGATGTGTGGGTGGATAGGAAGATGGTATTAAGTTGGTGCAAAAG 2561 TCTTTGATATTACTCTTAATGGCTTTAATAAAAAGCTTGAAGGAAGAATGATTGGTTGGATAGACAGAGATAAATGCATA 2641 CTGGAAACAAAGATAAAGATAAAACACAAGTTATACCAGGCCAGCAACTCTATTTTGTTCACTGCCTTTAGTCCCAGCCT 2721 GGCACATAGTAGGCACTCAATAAAGCCTGATTTGTAGCAAAAAAAAAAAAAAAAA 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 GSM545212. RNA binding protein: AGO1. Condition:Control
PAR-CLIP data was present in GSM545214. RNA binding protein: AGO3. Condition:Control
PAR-CLIP data was present in GSM545215. RNA binding protein: AGO4. Condition:Control
... - 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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CLIP-seq Support 1 for dataset GSM545212 | |
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Method / RBP | PAR-CLIP / AGO1 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000395755.1 | 3UTR | GGCCCCGUCUUCCUCCCC |
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 GSM545214 | |
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Method / RBP | PAR-CLIP / AGO3 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000395755.1 | 3UTR | GGCCCCGUCUUCCUCCCC |
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 GSM545215 | |
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Method / RBP | PAR-CLIP / AGO4 |
Cell line / Condition | HEK293 / Control |
Location of target site | ENST00000395755.1 | 3UTR | GGCCCCGUCUUCCUCCCC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 20371350 / GSE21578 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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66 hsa-miR-4260 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT074404 | TNRC6A | trinucleotide repeat containing 6A | ![]() |
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2 | 2 | ||||||
MIRT289774 | PER1 | period circadian clock 1 | ![]() |
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2 | 2 | ||||||
MIRT442576 | HOXD9 | homeobox D9 | ![]() |
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2 | 2 | ||||||
MIRT443878 | CNKSR3 | CNKSR family member 3 | ![]() |
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2 | 2 | ||||||
MIRT449080 | XPO6 | exportin 6 | ![]() |
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2 | 2 | ||||||
MIRT450294 | DRAXIN | dorsal inhibitory axon guidance protein | ![]() |
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2 | 2 | ||||||
MIRT461785 | FXR2 | FMR1 autosomal homolog 2 | ![]() |
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2 | 2 | ||||||
MIRT463931 | WNT10B | Wnt family member 10B | ![]() |
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2 | 2 | ||||||
MIRT464860 | UBB | ubiquitin B | ![]() |
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2 | 8 | ||||||
MIRT467619 | SLC7A5 | solute carrier family 7 member 5 | ![]() |
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2 | 2 | ||||||
MIRT469649 | RAC1 | Rac family small GTPase 1 | ![]() |
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2 | 2 | ||||||
MIRT473421 | MDM4 | MDM4, p53 regulator | ![]() |
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2 | 2 | ||||||
MIRT473646 | MARCKSL1 | MARCKS like 1 | ![]() |
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2 | 2 | ||||||
MIRT474213 | LCOR | ligand dependent nuclear receptor corepressor | ![]() |
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2 | 2 | ||||||
MIRT474335 | KMT2D | lysine methyltransferase 2D | ![]() |
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2 | 2 | ||||||
MIRT474871 | KDELR1 | KDEL endoplasmic reticulum protein retention receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT477440 | ELOVL5 | ELOVL fatty acid elongase 5 | ![]() |
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2 | 2 | ||||||
MIRT478432 | DAZAP2 | DAZ associated protein 2 | ![]() |
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2 | 2 | ||||||
MIRT479851 | CCDC6 | coiled-coil domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT482507 | ACTB | actin beta | ![]() |
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2 | 2 | ||||||
MIRT485473 | IGF1R | insulin like growth factor 1 receptor | ![]() |
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2 | 8 | ||||||
MIRT485670 | CCDC64 | BICD family like cargo adaptor 1 | ![]() |
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2 | 4 | ||||||
MIRT485902 | PGPEP1 | pyroglutamyl-peptidase I | ![]() |
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2 | 4 | ||||||
MIRT488143 | PRRC2B | proline rich coiled-coil 2B | ![]() |
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2 | 4 | ||||||
MIRT489455 | MSC | musculin | ![]() |
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2 | 2 | ||||||
MIRT509568 | HIST2H2AB | histone cluster 2 H2A family member b | ![]() |
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2 | 4 | ||||||
MIRT513093 | DYNAP | dynactin associated protein | ![]() |
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2 | 2 | ||||||
MIRT513256 | CALM3 | calmodulin 3 | ![]() |
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2 | 2 | ||||||
MIRT514356 | UBBP4 | ubiquitin B pseudogene 4 | ![]() |
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2 | 6 | ||||||
MIRT522019 | PAQR3 | progestin and adipoQ receptor family member 3 | ![]() |
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2 | 4 | ||||||
MIRT523164 | HIST3H3 | histone cluster 3 H3 | ![]() |
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2 | 2 | ||||||
MIRT523297 | HIST1H1B | histone cluster 1 H1 family member b | ![]() |
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2 | 2 | ||||||
MIRT524782 | BAG5 | BCL2 associated athanogene 5 | ![]() |
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2 | 2 | ||||||
MIRT530921 | SCIN | scinderin | ![]() |
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2 | 2 | ||||||
MIRT533302 | USP44 | ubiquitin specific peptidase 44 | ![]() |
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2 | 2 | ||||||
MIRT552782 | YIPF4 | Yip1 domain family member 4 | ![]() |
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2 | 4 | ||||||
MIRT553981 | SRPR | SRP receptor alpha subunit | ![]() |
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2 | 2 | ||||||
MIRT563126 | ZNF215 | zinc finger protein 215 | ![]() |
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2 | 2 | ||||||
MIRT569025 | IL21R | interleukin 21 receptor | ![]() |
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2 | 2 | ||||||
MIRT573413 | RPL18A | ribosomal protein L18a | ![]() |
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2 | 2 | ||||||
MIRT574877 | Dnajc6 | DnaJ heat shock protein family (Hsp40) member C6 | ![]() |
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2 | 3 | ||||||
MIRT607538 | GLI2 | GLI family zinc finger 2 | ![]() |
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2 | 2 | ||||||
MIRT607682 | MAPK10 | mitogen-activated protein kinase 10 | ![]() |
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2 | 3 | ||||||
MIRT623791 | GK5 | glycerol kinase 5 (putative) | ![]() |
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2 | 2 | ||||||
MIRT628834 | FAM151B | family with sequence similarity 151 member B | ![]() |
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2 | 2 | ||||||
MIRT635547 | LEPREL1 | prolyl 3-hydroxylase 2 | ![]() |
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2 | 2 | ||||||
MIRT635698 | NMNAT2 | nicotinamide nucleotide adenylyltransferase 2 | ![]() |
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2 | 2 | ||||||
MIRT635906 | ARPC1B | actin related protein 2/3 complex subunit 1B | ![]() |
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2 | 2 | ||||||
MIRT649985 | MSI1 | musashi RNA binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT654900 | POMGNT1 | protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) | ![]() |
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2 | 2 | ||||||
MIRT655116 | PHF7 | PHD finger protein 7 | ![]() |
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2 | 2 | ||||||
MIRT658958 | DNAJC6 | DnaJ heat shock protein family (Hsp40) member C6 | ![]() |
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2 | 3 | ||||||
MIRT659665 | CDC42EP4 | CDC42 effector protein 4 | ![]() |
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2 | 2 | ||||||
MIRT668946 | CNBP | CCHC-type zinc finger nucleic acid binding protein | ![]() |
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2 | 2 | ||||||
MIRT691164 | APOL6 | apolipoprotein L6 | ![]() |
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2 | 2 | ||||||
MIRT692696 | MEAF6 | MYST/Esa1 associated factor 6 | ![]() |
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2 | 2 | ||||||
MIRT693245 | HBS1L | HBS1 like translational GTPase | ![]() |
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2 | 2 | ||||||
MIRT695203 | SCAMP3 | secretory carrier membrane protein 3 | ![]() |
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2 | 2 | ||||||
MIRT701957 | MINK1 | misshapen like kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT706802 | APOL4 | apolipoprotein L4 | ![]() |
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2 | 2 | ||||||
MIRT716899 | CACNB2 | calcium voltage-gated channel auxiliary subunit beta 2 | ![]() |
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2 | 2 | ||||||
MIRT717632 | HLX | H2.0 like homeobox | ![]() |
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2 | 2 | ||||||
MIRT719052 | ZNF281 | zinc finger protein 281 | ![]() |
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2 | 2 | ||||||
MIRT722973 | GDE1 | glycerophosphodiester phosphodiesterase 1 | ![]() |
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2 | 2 | ||||||
MIRT723643 | RPTN | repetin | ![]() |
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2 | 2 | ||||||
MIRT734708 | NR3C2 | nuclear receptor subfamily 3 group C member 2 | ![]() |
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4 | 0 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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