pre-miRNA Information | |
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pre-miRNA | hsa-mir-7849 |
Genomic Coordinates | chr4: 146408583 - 146408688 |
Description | Homo sapiens miR-7849 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||
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Mature miRNA | hsa-miR-7849-3p | |||||||||||||||
Sequence | 64| GACAAUUGUUGAUCUUGGGCCU |85 | |||||||||||||||
Evidence | Experimental | |||||||||||||||
Experiments | Illumina | |||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | FAM69C | ||||||||||||||||||||
Synonyms | C18orf51 | ||||||||||||||||||||
Description | family with sequence similarity 69 member C | ||||||||||||||||||||
Transcript | NM_001044369 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on FAM69C | |||||||||||||||||||||
3'UTR of FAM69C (miRNA target sites are highlighted) |
>FAM69C|NM_001044369|3'UTR 1 CCACTCTCTGGCCTTAAACATGCTCACACAGGAAAAGTGACCTTGGCTGGATTTCTTCTGCCATTGTTTTAAAGATGAGC 81 CATTTCCCCTGTGCTCTCTGGGGTGCCGTTCTGGTCTCCACATTGTGGAGTGGCAAGTGCTGCTGCCAGAGACAGTGCTC 161 CCTCGCTCTCGTCCCACCCTGGCCTCTGACCTGTCGCCTTGTGTAAAATGAGATGAGGGAGGAGGTACAGACCTCCCTTC 241 AGGAGGGCTCTCGGTCAGAAGACACCAACCTGTGTGCACTTATTCTCTGCAGAGAGCACTTGTACCTGGTTATCCCAGCA 321 CGAGTTCCAGCTGTTCTTTCCTGTAAATCGTTACCACGTTAAAAAGTGTGCGTGTGTGCATACAAATGATGTGTATGCCT 401 GTGTCTGGGTGCAAATGAGCATGTGAGCATGTGTGAGTGTGCCCATGAGTGTCTGCATGTGTGTGAGTGTGCACAGGTGA 481 GTGTGCACAGGTGAGTGTGGTGTGCTCATGAGGAGTATGAGTATGCCTGAGTGTGAATATGTATGAGTGTGAATGAGTGT 561 GTGCACATGAGTGCACGGGTGTCAGCATGTGTATATAAGTGTGGGCATGTGTATGTGATTGTGTGAGTGTGGGCAGGTGA 641 GTGTGTTGGGGATGTGGGTTAGGGTGGGGAGTGGTGCTTTCTCTAGTGTGTCCTCCGGAACATCTTGCCTACCTAGCAAA 721 GAAGTGTGACCATTCTTTCGGAATTAAATACAATAAAAAGAAAATAAGCTGCAAAAAAA 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 | hESCs (WA-09) |
Disease | 125704.0 |
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 SRR359787. RNA binding protein: AGO2. Condition:4-thiouridine
... - Lipchina I; Elkabetz Y; Hafner M; Sheridan et al., 2011, Genes & development. |
Article |
- Lipchina I; Elkabetz Y; Hafner M; Sheridan et al. - Genes & development, 2011
MicroRNAs are important regulators in many cellular processes, including stem cell self-renewal. Recent studies demonstrated their function as pluripotency factors with the capacity for somatic cell reprogramming. However, their role in human embryonic stem (ES) cells (hESCs) remains poorly understood, partially due to the lack of genome-wide strategies to identify their targets. Here, we performed comprehensive microRNA profiling in hESCs and in purified neural and mesenchymal derivatives. Using a combination of AGO cross-linking and microRNA perturbation experiments, together with computational prediction, we identified the targets of the miR-302/367 cluster, the most abundant microRNAs in hESCs. Functional studies identified novel roles of miR-302/367 in maintaining pluripotency and regulating hESC differentiation. We show that in addition to its role in TGF-beta signaling, miR-302/367 promotes bone morphogenetic protein (BMP) signaling by targeting BMP inhibitors TOB2, DAZAP2, and SLAIN1. This study broadens our understanding of microRNA function in hESCs and is a valuable resource for future studies in this area.
LinkOut: [PMID: 22012620]
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CLIP-seq Support 1 for dataset SRR359787 | |
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Method / RBP | PAR-CLIP / AGO2 |
Cell line / Condition | hESCs (WA-09) / 4-thiouridine, RNase T1 |
Location of target site | ENST00000400291.2 | 3UTR | AAUUGUAUUCUAGCAA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 22012620 / SRX103431 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
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MiRNA-Target Expression Profile (TCGA) | |||||||
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69 hsa-miR-7849-3p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT062192 | WNK1 | WNK lysine deficient protein kinase 1 | 2 | 2 | ||||||||
MIRT064755 | CCND2 | cyclin D2 | 2 | 8 | ||||||||
MIRT076594 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | 2 | 2 | ||||||||
MIRT086027 | UBR3 | ubiquitin protein ligase E3 component n-recognin 3 (putative) | 2 | 2 | ||||||||
MIRT091394 | EIF4A2 | eukaryotic translation initiation factor 4A2 | 2 | 2 | ||||||||
MIRT104730 | KLF10 | Kruppel like factor 10 | 2 | 2 | ||||||||
MIRT105345 | SLC7A2 | solute carrier family 7 member 2 | 2 | 2 | ||||||||
MIRT105672 | PNMA2 | paraneoplastic Ma antigen 2 | 2 | 6 | ||||||||
MIRT173218 | TMEM64 | transmembrane protein 64 | 2 | 2 | ||||||||
MIRT228305 | SMU1 | DNA replication regulator and spliceosomal factor | 2 | 2 | ||||||||
MIRT229503 | EIF1AX | eukaryotic translation initiation factor 1A, X-linked | 2 | 2 | ||||||||
MIRT243387 | SKIL | SKI like proto-oncogene | 2 | 2 | ||||||||
MIRT257404 | E2F3 | E2F transcription factor 3 | 2 | 2 | ||||||||
MIRT301069 | SLC16A14 | solute carrier family 16 member 14 | 2 | 4 | ||||||||
MIRT307327 | CTNNB1 | catenin beta 1 | 2 | 2 | ||||||||
MIRT443182 | DENND4C | DENN domain containing 4C | 2 | 2 | ||||||||
MIRT469272 | RHOB | ras homolog family member B | 2 | 8 | ||||||||
MIRT475106 | IRF2BP2 | interferon regulatory factor 2 binding protein 2 | 2 | 4 | ||||||||
MIRT484134 | C14orf142 | GON7, KEOPS complex subunit homolog | 2 | 2 | ||||||||
MIRT491117 | TMTC1 | transmembrane and tetratricopeptide repeat containing 1 | 2 | 4 | ||||||||
MIRT504856 | HAUS3 | HAUS augmin like complex subunit 3 | 2 | 4 | ||||||||
MIRT505544 | SNX16 | sorting nexin 16 | 2 | 6 | ||||||||
MIRT506752 | LCOR | ligand dependent nuclear receptor corepressor | 2 | 8 | ||||||||
MIRT507358 | FAM129A | family with sequence similarity 129 member A | 2 | 6 | ||||||||
MIRT507812 | CDK6 | cyclin dependent kinase 6 | 2 | 6 | ||||||||
MIRT510730 | SON | SON DNA binding protein | 2 | 6 | ||||||||
MIRT521296 | RRAGD | Ras related GTP binding D | 2 | 4 | ||||||||
MIRT521371 | RNF11 | ring finger protein 11 | 2 | 6 | ||||||||
MIRT525860 | ARL13B | ADP ribosylation factor like GTPase 13B | 2 | 2 | ||||||||
MIRT527352 | FAM69C | family with sequence similarity 69 member C | 2 | 2 | ||||||||
MIRT528796 | RAB32 | RAB32, member RAS oncogene family | 2 | 2 | ||||||||
MIRT530417 | SULT1B1 | sulfotransferase family 1B member 1 | 2 | 2 | ||||||||
MIRT533425 | TWF1 | twinfilin actin binding protein 1 | 2 | 2 | ||||||||
MIRT539512 | ACSS3 | acyl-CoA synthetase short chain family member 3 | 2 | 2 | ||||||||
MIRT543660 | ZNF589 | zinc finger protein 589 | 2 | 4 | ||||||||
MIRT544833 | ZNF639 | zinc finger protein 639 | 2 | 2 | ||||||||
MIRT545266 | TRIM36 | tripartite motif containing 36 | 2 | 4 | ||||||||
MIRT545425 | SLC39A6 | solute carrier family 39 member 6 | 2 | 2 | ||||||||
MIRT546070 | VEZF1 | vascular endothelial zinc finger 1 | 2 | 2 | ||||||||
MIRT546896 | PTPRK | protein tyrosine phosphatase, receptor type K | 2 | 2 | ||||||||
MIRT547932 | HNRNPR | heterogeneous nuclear ribonucleoprotein R | 2 | 2 | ||||||||
MIRT548836 | CHD1 | chromodomain helicase DNA binding protein 1 | 2 | 4 | ||||||||
MIRT550937 | ZNF100 | zinc finger protein 100 | 2 | 2 | ||||||||
MIRT551840 | AASDHPPT | aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase | 2 | 2 | ||||||||
MIRT553749 | TBC1D8 | TBC1 domain family member 8 | 2 | 2 | ||||||||
MIRT554070 | SOBP | sine oculis binding protein homolog | 2 | 2 | ||||||||
MIRT554254 | SIX4 | SIX homeobox 4 | 2 | 2 | ||||||||
MIRT558254 | DYRK2 | dual specificity tyrosine phosphorylation regulated kinase 2 | 2 | 2 | ||||||||
MIRT559252 | BBX | BBX, HMG-box containing | 2 | 4 | ||||||||
MIRT561110 | OPA3 | OPA3, outer mitochondrial membrane lipid metabolism regulator | 2 | 2 | ||||||||
MIRT561412 | TSN | translin | 2 | 2 | ||||||||
MIRT562154 | ID4 | inhibitor of DNA binding 4, HLH protein | 2 | 2 | ||||||||
MIRT563324 | ORC4 | origin recognition complex subunit 4 | 2 | 2 | ||||||||
MIRT563985 | SLFN11 | schlafen family member 11 | 2 | 2 | ||||||||
MIRT571387 | JKAMP | JNK1/MAPK8-associated membrane protein | 2 | 2 | ||||||||
MIRT575040 | Fasl | Fas ligand (TNF superfamily, member 6) | 1 | 1 | ||||||||
MIRT610374 | C9orf64 | chromosome 9 open reading frame 64 | 2 | 2 | ||||||||
MIRT611045 | FASLG | Fas ligand | 2 | 3 | ||||||||
MIRT625440 | RMDN1 | regulator of microtubule dynamics 1 | 2 | 2 | ||||||||
MIRT655071 | PKIA | cAMP-dependent protein kinase inhibitor alpha | 2 | 2 | ||||||||
MIRT656139 | MSH6 | mutS homolog 6 | 2 | 2 | ||||||||
MIRT667042 | PDE3A | phosphodiesterase 3A | 2 | 2 | ||||||||
MIRT691264 | ICOSLG | inducible T-cell costimulator ligand | 2 | 2 | ||||||||
MIRT699773 | SEMA4D | semaphorin 4D | 2 | 2 | ||||||||
MIRT707809 | TSPAN6 | tetraspanin 6 | 2 | 2 | ||||||||
MIRT711125 | CYYR1 | cysteine and tyrosine rich 1 | 2 | 2 | ||||||||
MIRT714107 | RLIM | ring finger protein, LIM domain interacting | 2 | 2 | ||||||||
MIRT717792 | TGFBR2 | transforming growth factor beta receptor 2 | 2 | 2 | ||||||||
MIRT717929 | ZNF546 | zinc finger protein 546 | 2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||
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