pre-miRNA Information | |
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pre-miRNA | hsa-mir-6510 |
Genomic Coordinates | chr17: 41517164 - 41517217 |
Description | Homo sapiens miR-6510 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-6510-5p | |||||||||||||||||||||||||||||||||
Sequence | 3| CAGCAGGGGAGAGAGAGGAGUC |24 | |||||||||||||||||||||||||||||||||
Evidence | Experimental | |||||||||||||||||||||||||||||||||
Experiments | Illumina | |||||||||||||||||||||||||||||||||
Editing Events in miRNAs |
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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 | WDR81 | ||||||||||||||||||||
Synonyms | CAMRQ2, PPP1R166, SORF-2 | ||||||||||||||||||||
Description | WD repeat domain 81 | ||||||||||||||||||||
Transcript | NM_001163673 | ||||||||||||||||||||
Other Transcripts | NM_001163809 , NM_001163811 , NM_152348 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on WDR81 | |||||||||||||||||||||
3'UTR of WDR81 (miRNA target sites are highlighted) |
>WDR81|NM_001163673|3'UTR 1 ACTGAGGCAGGAGCTGGCCGGGCAAGGGTGGGAAGACATCTGCGGGCGCGTGTCCACTCACCCTGTTCCCTGAGCAGCAG 81 CTCCCTCCAGGGAGGCCCTGGGTCCCACGCCCTGGGTGCCCACATGGCCTGCCAACTAGGGCCTGCAAATGGAGTGGGGG 161 AGTCCTGGCCCCTGAATCACCAGAGCCACCAAGCCTGCCAGAGGGGTCTCATTCATGGCTTGGGGACACAGGGCTCCTAG 241 CAAGCAGGAAGTTAAGAGCAGGAGGAAGCGTTGCTACCTTCACTTCTCCCCAGCTCTGCCCTCTGGGTCCACATGAGGAC 321 AGGGAAGCTCGGGAAGGGGAAGGGAGACTGGCCCTGCCCAGCCGGTCTCTAGCCCCTCAGCCCCCGCTGGGCACTCTCTG 401 TCCCATCCCTCTAGGACAGGGAAGCTGGCCTGGTCCAGGGCACTGATGGTGCTTGGATTCCAGCCTAAGGAAGGCTGGCC 481 GTGGTCCAGGAGTTAAGGGCTTGGGTCTGGGGTTTAAGTGGCCACCCATCCAGGCCCTGGCCAGTGTGGGACCGGGACGG 561 GAAGGAAGAAGGAGGCTAGGAGCAGGGGGAAAAGGTGCACTTGGCCAGTGGCGCCTGCCAGGAGTGAGTCCATGCGTTGT 641 CTGCCCACCCCTACCACAGTGTTTGTGCCTTCAGCTGAGGGGGCAGCCTCTGGGCCCTGAACCCCTGCTGGGGCTCCACG 721 ACCCTGAGAGAAGGGGTGAGAAGAATCATCTCTGCACCTCGGGTCTCTGCCAGAGGAAGACTTAAGCATCCCTGCGACCT 801 CACATTCTAGACAGAGATGAGGTCCAGGGGTTGGCCCCTGCTGCCTTCTCACAATTTGCAATAGATGTAAATAGGACCAA 881 TAAATCCTTTGGAAGAGCCATGGGGTGAACTGAG 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 | 124997.0 | ||||||
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
"PAR-CLIP data was present in GSM714645. 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 | ENST00000437219.2 | 3UTR | CUGCCUUCUCACAAUUUGCAAUAG |
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 GSM714645 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | HEK293 / completeT1, repB |
Location of target site | ENST00000437219.2 | 3UTR | CUGCCUUCUCACAAUUUGCAAUAG |
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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85 hsa-miR-6510-5p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT076147 | WDR81 | WD repeat domain 81 | 2 | 2 | ||||||||
MIRT082027 | COX6B1 | cytochrome c oxidase subunit 6B1 | 2 | 4 | ||||||||
MIRT100112 | ABT1 | activator of basal transcription 1 | 2 | 8 | ||||||||
MIRT109300 | TXLNG | taxilin gamma | 2 | 2 | ||||||||
MIRT152336 | TNFSF9 | TNF superfamily member 9 | 2 | 2 | ||||||||
MIRT252840 | HNRNPUL1 | heterogeneous nuclear ribonucleoprotein U like 1 | 2 | 2 | ||||||||
MIRT347165 | CHERP | calcium homeostasis endoplasmic reticulum protein | 2 | 2 | ||||||||
MIRT448869 | FAM49B | family with sequence similarity 49 member B | 2 | 2 | ||||||||
MIRT453312 | ZNF394 | zinc finger protein 394 | 2 | 2 | ||||||||
MIRT453959 | ENTHD1 | ENTH domain containing 1 | 2 | 2 | ||||||||
MIRT455499 | C6orf106 | chromosome 6 open reading frame 106 | 2 | 2 | ||||||||
MIRT455618 | PABPC1L2B | poly(A) binding protein cytoplasmic 1 like 2B | 2 | 10 | ||||||||
MIRT455630 | PABPC1L2A | poly(A) binding protein cytoplasmic 1 like 2A | 2 | 10 | ||||||||
MIRT456708 | LDB1 | LIM domain binding 1 | 2 | 2 | ||||||||
MIRT457199 | ERC1 | ELKS/RAB6-interacting/CAST family member 1 | 2 | 2 | ||||||||
MIRT457943 | ABCC5 | ATP binding cassette subfamily C member 5 | 2 | 4 | ||||||||
MIRT458058 | TSEN54 | tRNA splicing endonuclease subunit 54 | 2 | 2 | ||||||||
MIRT458335 | SALL2 | spalt like transcription factor 2 | 2 | 2 | ||||||||
MIRT458388 | ITM2C | integral membrane protein 2C | 2 | 2 | ||||||||
MIRT460218 | FGFR4 | fibroblast growth factor receptor 4 | 2 | 2 | ||||||||
MIRT460326 | SH3RF1 | SH3 domain containing ring finger 1 | 2 | 2 | ||||||||
MIRT460733 | ASXL3 | additional sex combs like 3, transcriptional regulator | 2 | 2 | ||||||||
MIRT461644 | ZSWIM4 | zinc finger SWIM-type containing 4 | 2 | 2 | ||||||||
MIRT461978 | PACSIN1 | protein kinase C and casein kinase substrate in neurons 1 | 2 | 2 | ||||||||
MIRT463455 | ZC3HAV1L | zinc finger CCCH-type containing, antiviral 1 like | 2 | 2 | ||||||||
MIRT463496 | ZC3H10 | zinc finger CCCH-type containing 10 | 2 | 2 | ||||||||
MIRT464004 | WDTC1 | WD and tetratricopeptide repeats 1 | 2 | 2 | ||||||||
MIRT464021 | WBP2 | WW domain binding protein 2 | 2 | 2 | ||||||||
MIRT464759 | UBE2N | ubiquitin conjugating enzyme E2 N | 2 | 2 | ||||||||
MIRT464899 | UBALD1 | UBA like domain containing 1 | 2 | 2 | ||||||||
MIRT465380 | TPM3 | tropomyosin 3 | 2 | 6 | ||||||||
MIRT465563 | TOB2 | transducer of ERBB2, 2 | 2 | 2 | ||||||||
MIRT473836 | MAP2K7 | mitogen-activated protein kinase kinase 7 | 2 | 2 | ||||||||
MIRT474204 | LEPRE1 | prolyl 3-hydroxylase 1 | 1 | 1 | ||||||||
MIRT474650 | KLF16 | Kruppel like factor 16 | 2 | 2 | ||||||||
MIRT474948 | KCTD15 | potassium channel tetramerization domain containing 15 | 2 | 2 | ||||||||
MIRT476570 | G3BP1 | G3BP stress granule assembly factor 1 | 2 | 4 | ||||||||
MIRT477402 | ENTPD7 | ectonucleoside triphosphate diphosphohydrolase 7 | 2 | 2 | ||||||||
MIRT478027 | DNAJC8 | DnaJ heat shock protein family (Hsp40) member C8 | 2 | 2 | ||||||||
MIRT480536 | C10orf76 | chromosome 10 open reading frame 76 | 2 | 2 | ||||||||
MIRT480739 | BNC2 | basonuclin 2 | 2 | 8 | ||||||||
MIRT482046 | AMER1 | APC membrane recruitment protein 1 | 2 | 2 | ||||||||
MIRT482613 | ABHD14B | abhydrolase domain containing 14B | 2 | 2 | ||||||||
MIRT483671 | QSOX2 | quiescin sulfhydryl oxidase 2 | 2 | 2 | ||||||||
MIRT486551 | DCTN4 | dynactin subunit 4 | 2 | 2 | ||||||||
MIRT487716 | ARIH1 | ariadne RBR E3 ubiquitin protein ligase 1 | 2 | 2 | ||||||||
MIRT488294 | PARS2 | prolyl-tRNA synthetase 2, mitochondrial | 2 | 2 | ||||||||
MIRT488650 | ELAVL3 | ELAV like RNA binding protein 3 | 2 | 2 | ||||||||
MIRT488960 | AIDA | axin interactor, dorsalization associated | 2 | 2 | ||||||||
MIRT490236 | C9orf3 | chromosome 9 open reading frame 3 | 2 | 2 | ||||||||
MIRT490634 | BCAM | basal cell adhesion molecule (Lutheran blood group) | 2 | 2 | ||||||||
MIRT491652 | PDRG1 | p53 and DNA damage regulated 1 | 2 | 10 | ||||||||
MIRT492477 | RAPGEF1 | Rap guanine nucleotide exchange factor 1 | 2 | 2 | ||||||||
MIRT492497 | RANBP10 | RAN binding protein 10 | 2 | 4 | ||||||||
MIRT493921 | FAM127B | retrotransposon Gag like 8A | 2 | 4 | ||||||||
MIRT494216 | CHST11 | carbohydrate sulfotransferase 11 | 2 | 2 | ||||||||
MIRT495085 | IGSF3 | immunoglobulin superfamily member 3 | 2 | 2 | ||||||||
MIRT501268 | NHS | NHS actin remodeling regulator | 2 | 4 | ||||||||
MIRT503263 | KIF18B | kinesin family member 18B | 2 | 2 | ||||||||
MIRT507164 | GAS2L3 | growth arrest specific 2 like 3 | 2 | 2 | ||||||||
MIRT508002 | BCL2L13 | BCL2 like 13 | 2 | 4 | ||||||||
MIRT509715 | ANKRD23 | ankyrin repeat domain 23 | 2 | 2 | ||||||||
MIRT510649 | TMEM167A | transmembrane protein 167A | 2 | 4 | ||||||||
MIRT513199 | CMBL | carboxymethylenebutenolidase homolog | 2 | 2 | ||||||||
MIRT546525 | SERTAD3 | SERTA domain containing 3 | 2 | 2 | ||||||||
MIRT554385 | SESN2 | sestrin 2 | 2 | 2 | ||||||||
MIRT561218 | ZSWIM1 | zinc finger SWIM-type containing 1 | 2 | 2 | ||||||||
MIRT562661 | ARHGDIA | Rho GDP dissociation inhibitor alpha | 2 | 2 | ||||||||
MIRT567666 | ERGIC2 | ERGIC and golgi 2 | 2 | 2 | ||||||||
MIRT569614 | TRIM29 | tripartite motif containing 29 | 2 | 2 | ||||||||
MIRT574027 | RIMBP3C | RIMS binding protein 3C | 2 | 2 | ||||||||
MIRT610142 | FOXI2 | forkhead box I2 | 2 | 2 | ||||||||
MIRT617018 | ABCC12 | ATP binding cassette subfamily C member 12 | 2 | 2 | ||||||||
MIRT621604 | USF2 | upstream transcription factor 2, c-fos interacting | 2 | 2 | ||||||||
MIRT635333 | RASSF4 | Ras association domain family member 4 | 2 | 2 | ||||||||
MIRT640177 | AGO1 | argonaute 1, RISC catalytic component | 2 | 2 | ||||||||
MIRT659746 | CCDC30 | coiled-coil domain containing 30 | 2 | 2 | ||||||||
MIRT665107 | TNFSF8 | TNF superfamily member 8 | 2 | 2 | ||||||||
MIRT691706 | FLOT2 | flotillin 2 | 2 | 2 | ||||||||
MIRT697465 | ZC3H4 | zinc finger CCCH-type containing 4 | 2 | 2 | ||||||||
MIRT716429 | RAB15 | RAB15, member RAS oncogene family | 2 | 2 | ||||||||
MIRT718554 | PIGQ | phosphatidylinositol glycan anchor biosynthesis class Q | 2 | 2 | ||||||||
MIRT718998 | UTP15 | UTP15, small subunit processome component | 2 | 2 | ||||||||
MIRT721404 | LDLRAD4 | low density lipoprotein receptor class A domain containing 4 | 2 | 2 | ||||||||
MIRT723093 | INSIG1 | insulin induced gene 1 | 2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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