pre-miRNA Information | |
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pre-miRNA | hsa-mir-4753 |
Genomic Coordinates | chr1: 235190034 - 235190116 |
Description | Homo sapiens miR-4753 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | ||||||||||||||||||||||
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Mature miRNA | hsa-miR-4753-5p | |||||||||||||||||||||
Sequence | 10| CAAGGCCAAAGGAAGAGAACAG |31 | |||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||
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 | CNGA2 | ||||||||||||||||||||
Synonyms | CNCA, CNCA1, CNG2, OCNC1, OCNCALPHA, OCNCa | ||||||||||||||||||||
Description | cyclic nucleotide gated channel alpha 2 | ||||||||||||||||||||
Transcript | NM_005140 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on CNGA2 | |||||||||||||||||||||
3'UTR of CNGA2 (miRNA target sites are highlighted) |
>CNGA2|NM_005140|3'UTR 1 GACCTGGGGCCCAACTGCCTCTCCAGCATTGGCCTTGGCCTTGATCCCAGAAGCTAGAGGAGCTATTTAGATCTCCGGAT 81 TTACATGCATTACCCTCATGTTCCCTGAATTCTCCCAAAAGCCTCTCTGACCCTGGGTTTTTGGCCTAAACATCCAAGAT 161 TCCGCCTCCAAGTTTAGCCCAAGTTTGTGGAGAGTACAGACTGCGTTGGCTGGGCTTCCGAGAGCTTCGGCCTGCCTAAG 241 TCTGAGGAAGGGAGAAGGGGGCAGCTGTCTGCCAGGAGTCTGGCTCTTTTGCTCATAGCGACCCCTCCCTTGGTTCTGGC 321 CCCCGCTTTTTCTAACATGTCTTCTGAATGCTTCCTTTTTCCCTGCACACGCATGTACTTCGAGCACCGACTATAGACAT 401 TTAGATCAGGTACCCAGTGTCTGTCTCCCACGACAGGCCAAGGGATGTGATAGTGTTGTTGGGAGGGGGTAGAAGGGTGC 481 CCACTCAGGGTTATTCCTCCCCCATCAGATGCTCCAGCTCCTGCTCTGTAGATTGATCTGTCTGTCTGCTAGCCAGGATG 561 GGATCTCTGCAGTCTTCTGTGGACCAAGGAGATAGACCCGGCTTCTGGTCCATTCCAGGGCAGGGAGTGAGGAGCAAGGC 641 AACTGGCATTTGTCCACCTGGAGACAGAGGTAGCTGGCAGCTCTGGCCATCCCTCCCCTATGAAGAGCATTCCTAAAGAG 721 GCCCTGAAAACTGCTGGTGGTGGGGAGACTCTTCAAGTTAATATCTGCATTAGAGGCACCTATGAGTTAAAAAATTCCTT 801 TGAACTATCTGTGGTTATTGCTCAACTCTGCTGTTCACATTCTCTCCCTCCCTTCATTAATCCCTCTCTTTTCACCATAT 881 GGTTGTCCCTCAGTATTCATCAGGGATTGCTTTCAGGAGTCCCCATGGATACCAAAATTTGTGGATGTTCAAGTCCCTGA 961 TACAAAATGACGTCGTATTTGAATATAACCTATGCACATCCTCCCATACTTTAAGTCATCTCTCGATTATTTGTAACACC 1041 TAATACAATGTCAGTGCTATGTAAAT 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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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 | LCL-BAC | ||||||
Disease | MIMAT0019890 | ||||||
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 GSM1020023. RNA binding protein: AGO2. Condition:EBV B95-8-infected
... - Skalsky RL; Corcoran DL; Gottwein E; Frank et al., 2012, PLoS pathogens. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Skalsky RL; Corcoran DL; Gottwein E; Frank et al. - PLoS pathogens, 2012
Epstein-Barr virus (EBV) is a ubiquitous human herpesvirus linked to a number of B cell cancers and lymphoproliferative disorders. During latent infection, EBV expresses 25 viral pre-microRNAs (miRNAs) and induces the expression of specific host miRNAs, such as miR-155 and miR-21, which potentially play a role in viral oncogenesis. To date, only a limited number of EBV miRNA targets have been identified; thus, the role of EBV miRNAs in viral pathogenesis and/or lymphomagenesis is not well defined. Here, we used photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation (PAR-CLIP) combined with deep sequencing and computational analysis to comprehensively examine the viral and cellular miRNA targetome in EBV strain B95-8-infected lymphoblastoid cell lines (LCLs). We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs. 24 PAR-CLIP-identified miRNA:3'UTR interactions were confirmed by reporter assays. Our results reveal that EBV miRNAs predominantly target cellular transcripts during latent infection, thereby manipulating the host environment. Furthermore, targets of EBV miRNAs are involved in multiple cellular processes that are directly relevant to viral infection, including innate immunity, cell survival, and cell proliferation. Finally, we present evidence that myc-regulated host miRNAs from the miR-17/92 cluster can regulate latent viral gene expression. This comprehensive survey of the miRNA targetome in EBV-infected B cells represents a key step towards defining the functions of EBV-encoded miRNAs, and potentially, identifying novel therapeutic targets for EBV-associated malignancies.
LinkOut: [PMID: 22291592]
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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 | LCL-BAC-D2 | ||||||
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 GSM1133252. RNA binding protein: AGO2. Condition:Untreated
... - Majoros WH; Lekprasert P; Mukherjee N; et al., 2013, Nature methods. |
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miRNA-target interactions (Provided by authors) |
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Article |
- Majoros WH; Lekprasert P; Mukherjee N; et al. - Nature methods, 2013
High-throughput sequencing has opened numerous possibilities for the identification of regulatory RNA-binding events. Cross-linking and immunoprecipitation of Argonaute proteins can pinpoint a microRNA (miRNA) target site within tens of bases but leaves the identity of the miRNA unresolved. A flexible computational framework, microMUMMIE, integrates sequence with cross-linking features and reliably identifies the miRNA family involved in each binding event. It considerably outperforms sequence-only approaches and quantifies the prevalence of noncanonical binding modes.
LinkOut: [PMID: 23708386]
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CLIP-seq Support 1 for dataset GSM1020023 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | LCL-BAC / EBV B95-8-infected, 4-thiouridine, RNase T1 |
Location of target site | ENST00000329903.4 | 3UTR | UUGGCCUUGGCCUUGAU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 22291592 / GSE41437 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1133252 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | LCL-BAC-D2 / Untreated |
Location of target site | ENST00000329903.4 | 3UTR | UUGGCCUUGGCCUUGAU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23708386 / GSE46611 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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94 hsa-miR-4753-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT064916 | ZBTB18 | zinc finger and BTB domain containing 18 | ![]() |
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2 | 2 | ||||||
MIRT161166 | SLC25A36 | solute carrier family 25 member 36 | ![]() |
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2 | 2 | ||||||
MIRT285542 | CDT1 | chromatin licensing and DNA replication factor 1 | ![]() |
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2 | 2 | ||||||
MIRT308266 | LRIG1 | leucine rich repeats and immunoglobulin like domains 1 | ![]() |
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2 | 2 | ||||||
MIRT311425 | LMNB1 | lamin B1 | ![]() |
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2 | 2 | ||||||
MIRT373989 | PEBP1 | phosphatidylethanolamine binding protein 1 | ![]() |
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2 | 4 | ||||||
MIRT383141 | CRY2 | cryptochrome circadian clock 2 | ![]() |
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2 | 2 | ||||||
MIRT405243 | ADIPOR2 | adiponectin receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT441620 | ROCK1 | Rho associated coiled-coil containing protein kinase 1 | ![]() |
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2 | 6 | ||||||
MIRT441789 | SRPK1 | SRSF protein kinase 1 | ![]() |
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2 | 2 | ||||||
MIRT441804 | NOC3L | NOC3 like DNA replication regulator | ![]() |
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2 | 2 | ||||||
MIRT441832 | ALG14 | ALG14, UDP-N-acetylglucosaminyltransferase subunit | ![]() |
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2 | 2 | ||||||
MIRT442005 | NDUFV3 | NADH:ubiquinone oxidoreductase subunit V3 | ![]() |
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2 | 2 | ||||||
MIRT442411 | LIMD1 | LIM domains containing 1 | ![]() |
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2 | 2 | ||||||
MIRT442708 | UBE4B | ubiquitination factor E4B | ![]() |
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2 | 2 | ||||||
MIRT442714 | TNRC6B | trinucleotide repeat containing 6B | ![]() |
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2 | 2 | ||||||
MIRT442738 | SERINC5 | serine incorporator 5 | ![]() |
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2 | 2 | ||||||
MIRT442793 | CEP170 | centrosomal protein 170 | ![]() |
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2 | 2 | ||||||
MIRT442984 | ZNF736 | zinc finger protein 736 | ![]() |
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2 | 2 | ||||||
MIRT443055 | THRB | thyroid hormone receptor beta | ![]() |
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2 | 2 | ||||||
MIRT443288 | ZC3H12A | zinc finger CCCH-type containing 12A | ![]() |
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2 | 2 | ||||||
MIRT443325 | SLC35G1 | solute carrier family 35 member G1 | ![]() |
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2 | 2 | ||||||
MIRT443331 | OCRL | OCRL, inositol polyphosphate-5-phosphatase | ![]() |
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2 | 2 | ||||||
MIRT443593 | ZNF439 | zinc finger protein 439 | ![]() |
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2 | 4 | ||||||
MIRT443696 | KCNN3 | potassium calcium-activated channel subfamily N member 3 | ![]() |
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2 | 2 | ||||||
MIRT443748 | ELL2 | elongation factor for RNA polymerase II 2 | ![]() |
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2 | 2 | ||||||
MIRT443866 | HDLBP | high density lipoprotein binding protein | ![]() |
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2 | 2 | ||||||
MIRT461185 | LTBP2 | latent transforming growth factor beta binding protein 2 | ![]() |
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2 | 2 | ||||||
MIRT464074 | WAC | WW domain containing adaptor with coiled-coil | ![]() |
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2 | 2 | ||||||
MIRT468738 | SDC4 | syndecan 4 | ![]() |
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2 | 2 | ||||||
MIRT470540 | COASY | Coenzyme A synthase | ![]() |
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2 | 2 | ||||||
MIRT476458 | GBA2 | glucosylceramidase beta 2 | ![]() |
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2 | 2 | ||||||
MIRT479470 | CDK6 | cyclin dependent kinase 6 | ![]() |
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2 | 2 | ||||||
MIRT486351 | TACC2 | transforming acidic coiled-coil containing protein 2 | ![]() |
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2 | 8 | ||||||
MIRT495126 | CXorf67 | chromosome X open reading frame 67 | ![]() |
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2 | 2 | ||||||
MIRT495166 | CNGA2 | cyclic nucleotide gated channel alpha 2 | ![]() |
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2 | 4 | ||||||
MIRT495432 | ATG7 | autophagy related 7 | ![]() |
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2 | 2 | ||||||
MIRT495922 | FBXO41 | F-box protein 41 | ![]() |
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2 | 2 | ||||||
MIRT496572 | DGCR6L | DiGeorge syndrome critical region gene 6 like | ![]() |
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2 | 2 | ||||||
MIRT498277 | POFUT1 | protein O-fucosyltransferase 1 | ![]() |
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2 | 2 | ||||||
MIRT498431 | DDX39A | DExD-box helicase 39A | ![]() |
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2 | 2 | ||||||
MIRT530149 | HADHB | hydroxyacyl-CoA dehydrogenase/3-ketoacyl-CoA thiolase/enoyl-CoA hydratase (trifunctional protein), beta subunit | ![]() |
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2 | 2 | ||||||
MIRT530313 | TNFRSF10D | TNF receptor superfamily member 10d | ![]() |
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2 | 2 | ||||||
MIRT530880 | TRUB1 | TruB pseudouridine synthase family member 1 | ![]() |
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2 | 4 | ||||||
MIRT531177 | ZNF626 | zinc finger protein 626 | ![]() |
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2 | 2 | ||||||
MIRT533395 | TYRP1 | tyrosinase related protein 1 | ![]() |
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2 | 2 | ||||||
MIRT533709 | TMEM64 | transmembrane protein 64 | ![]() |
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2 | 2 | ||||||
MIRT533954 | TAF1D | TATA-box binding protein associated factor, RNA polymerase I subunit D | ![]() |
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2 | 2 | ||||||
MIRT535616 | NSD1 | nuclear receptor binding SET domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT539472 | ADARB2 | adenosine deaminase, RNA specific B2 (inactive) | ![]() |
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2 | 2 | ||||||
MIRT542878 | NR6A1 | nuclear receptor subfamily 6 group A member 1 | ![]() |
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2 | 2 | ||||||
MIRT559077 | C19orf47 | chromosome 19 open reading frame 47 | ![]() |
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2 | 2 | ||||||
MIRT559465 | ARPP19 | cAMP regulated phosphoprotein 19 | ![]() |
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2 | 2 | ||||||
MIRT561233 | ZNF772 | zinc finger protein 772 | ![]() |
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2 | 2 | ||||||
MIRT563477 | POLE3 | DNA polymerase epsilon 3, accessory subunit | ![]() |
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2 | 2 | ||||||
MIRT563995 | SLFN11 | schlafen family member 11 | ![]() |
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2 | 2 | ||||||
MIRT564222 | SDE2 | SDE2 telomere maintenance homolog | ![]() |
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2 | 2 | ||||||
MIRT566017 | RHOA | ras homolog family member A | ![]() |
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2 | 2 | ||||||
MIRT566028 | RFX1 | regulatory factor X1 | ![]() |
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2 | 2 | ||||||
MIRT566591 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT567874 | CTDSP1 | CTD small phosphatase 1 | ![]() |
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2 | 2 | ||||||
MIRT568552 | AKT2 | AKT serine/threonine kinase 2 | ![]() |
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2 | 2 | ||||||
MIRT569357 | EFHC1 | EF-hand domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT569973 | DNAAF2 | dynein axonemal assembly factor 2 | ![]() |
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2 | 2 | ||||||
MIRT614423 | ZNF440 | zinc finger protein 440 | ![]() |
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2 | 2 | ||||||
MIRT628831 | SLC25A34 | solute carrier family 25 member 34 | ![]() |
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2 | 2 | ||||||
MIRT630142 | ZFYVE9 | zinc finger FYVE-type containing 9 | ![]() |
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2 | 2 | ||||||
MIRT634479 | PAFAH1B2 | platelet activating factor acetylhydrolase 1b catalytic subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT634498 | OR7D2 | olfactory receptor family 7 subfamily D member 2 | ![]() |
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2 | 2 | ||||||
MIRT637394 | R3HDM2 | R3H domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT641840 | TCF7L2 | transcription factor 7 like 2 | ![]() |
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2 | 2 | ||||||
MIRT644397 | CDKL1 | cyclin dependent kinase like 1 | ![]() |
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2 | 2 | ||||||
MIRT644888 | C2orf50 | chromosome 2 open reading frame 50 | ![]() |
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2 | 2 | ||||||
MIRT647124 | ZNF446 | zinc finger protein 446 | ![]() |
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2 | 2 | ||||||
MIRT647420 | SSTR3 | somatostatin receptor 3 | ![]() |
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2 | 2 | ||||||
MIRT650297 | PYCARD | PYD and CARD domain containing | ![]() |
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2 | 2 | ||||||
MIRT655488 | PAK3 | p21 (RAC1) activated kinase 3 | ![]() |
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2 | 2 | ||||||
MIRT658185 | FBXO9 | F-box protein 9 | ![]() |
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2 | 2 | ||||||
MIRT660931 | ADAM19 | ADAM metallopeptidase domain 19 | ![]() |
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2 | 2 | ||||||
MIRT665317 | ZBTB3 | zinc finger and BTB domain containing 3 | ![]() |
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2 | 2 | ||||||
MIRT670350 | C1orf106 | chromosome 1 open reading frame 106 | ![]() |
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2 | 4 | ||||||
MIRT670823 | NICN1 | nicolin 1 | ![]() |
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2 | 2 | ||||||
MIRT671825 | TRPM6 | transient receptor potential cation channel subfamily M member 6 | ![]() |
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2 | 2 | ||||||
MIRT672732 | NETO2 | neuropilin and tolloid like 2 | ![]() |
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2 | 2 | ||||||
MIRT674841 | GLRX2 | glutaredoxin 2 | ![]() |
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2 | 2 | ||||||
MIRT675930 | CYP51A1 | cytochrome P450 family 51 subfamily A member 1 | ![]() |
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2 | 2 | ||||||
MIRT686786 | AZF1 | azoospermia factor 1 | ![]() |
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2 | 2 | ||||||
MIRT697723 | USP8 | ubiquitin specific peptidase 8 | ![]() |
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2 | 2 | ||||||
MIRT702357 | KLHL26 | kelch like family member 26 | ![]() |
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2 | 2 | ||||||
MIRT704361 | DBR1 | debranching RNA lariats 1 | ![]() |
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2 | 2 | ||||||
MIRT709242 | RANGAP1 | Ran GTPase activating protein 1 | ![]() |
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2 | 2 | ||||||
MIRT714433 | SNED1 | sushi, nidogen and EGF like domains 1 | ![]() |
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2 | 2 | ||||||
MIRT717000 | ARL6IP4 | ADP ribosylation factor like GTPase 6 interacting protein 4 | ![]() |
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2 | 2 | ||||||
MIRT720875 | ADCY5 | adenylate cyclase 5 | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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