pre-miRNA Information | |
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pre-miRNA | hsa-mir-4763 |
Genomic Coordinates | chr22: 46113566 - 46113657 |
Description | Homo sapiens miR-4763 stem-loop |
Comment | None |
RNA Secondary Structure |
Mature miRNA Information | ||||||||||||||||||||||||||||||||||
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Mature miRNA | hsa-miR-4763-5p | |||||||||||||||||||||||||||||||||
Sequence | 19| CGCCUGCCCAGCCCUCCUGCU |39 | |||||||||||||||||||||||||||||||||
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 | FOXH1 | ||||||||||||||||||||
Synonyms | FAST-1, FAST1 | ||||||||||||||||||||
Description | forkhead box H1 | ||||||||||||||||||||
Transcript | NM_003923 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on FOXH1 | |||||||||||||||||||||
3'UTR of FOXH1 (miRNA target sites are highlighted) |
>FOXH1|NM_003923|3'UTR 1 GGCTCTTAAGACAGGGGCCACTCCTCCCTCCCGCTCCCACCCCCACCTTGTTGACAGGGAGCCAAGGCGAGGCGGCTGTC 81 TGCGACCACAGCAGCCTCGAAACACCAGGCAGCAGCCTTGCTGGGAGTCCACGGTGTTTATTGGGCCACCCCACGCATGG 161 CCGTGGCCCAGCTGGGCACAACCCTCACCCTGGTCTGTCATGCCTGTTTTTCCTACACTCAGCGGCAAAGCTGCAGGAGC 241 AGGGCTGAGCCTGGAATAGCCCTTCCTAGTCCCCTCTTCTCAGCCCACTACCCATCCATCAGTCACCAGCCGTCACCTCC 321 CCTCCCGTGCTCCAGGCTGGGGGAGGGAGAGCCCAGTGGTGGATCCAGCCTGAAGTCCTGCCCTCTCTCATCTGTCTGGA 401 AAGGAGGTAGCACCTTTTTCGGGAAACGGGTTAGGGAGTAAAGACTGCACCCTACATGGTCCTGGTGGTGGGGGGGATAA 481 CAGTAAAGGAATTTGCAACGTTTTAAAAAAAAAAAA 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 | 8928.0 | ||||||
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. |
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miRNA-target interactions (Provided by authors) |
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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 | ENST00000377317.4 | 3UTR | GGCUGGGGGCGGGGGGUGAUCACUUCAGC |
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-4763-5p Target Genes:
Functional analysis:
ID | Target | Description | Validation methods | |||||||||
Strong evidence | Less strong evidence | |||||||||||
MIRT116035 | DEPDC1 | DEP domain containing 1 | 2 | 2 | ||||||||
MIRT347197 | SIN3B | SIN3 transcription regulator family member B | 2 | 2 | ||||||||
MIRT443248 | C9orf170 | chromosome 9 open reading frame 170 | 2 | 2 | ||||||||
MIRT475164 | IP6K1 | inositol hexakisphosphate kinase 1 | 2 | 2 | ||||||||
MIRT495486 | VTI1B | vesicle transport through interaction with t-SNAREs 1B | 2 | 2 | ||||||||
MIRT496755 | TGIF2 | TGFB induced factor homeobox 2 | 2 | 2 | ||||||||
MIRT496863 | C21orf2 | chromosome 21 open reading frame 2 | 2 | 2 | ||||||||
MIRT499264 | NBPF11 | NBPF member 11 | 2 | 2 | ||||||||
MIRT499517 | MAFK | MAF bZIP transcription factor K | 2 | 2 | ||||||||
MIRT512952 | MKI67 | marker of proliferation Ki-67 | 2 | 2 | ||||||||
MIRT514656 | NUP93 | nucleoporin 93 | 2 | 2 | ||||||||
MIRT517986 | SLC16A13 | solute carrier family 16 member 13 | 2 | 2 | ||||||||
MIRT522816 | KLHL9 | kelch like family member 9 | 2 | 4 | ||||||||
MIRT525495 | CD63 | CD63 molecule | 2 | 2 | ||||||||
MIRT528111 | FOXH1 | forkhead box H1 | 2 | 2 | ||||||||
MIRT531683 | MYO3A | myosin IIIA | 2 | 2 | ||||||||
MIRT534806 | RAB37 | RAB37, member RAS oncogene family | 2 | 2 | ||||||||
MIRT573041 | SHMT1 | serine hydroxymethyltransferase 1 | 2 | 2 | ||||||||
MIRT576720 | Wars | tryptophanyl-tRNA synthetase | 2 | 2 | ||||||||
MIRT609727 | MLXIPL | MLX interacting protein like | 2 | 2 | ||||||||
MIRT610843 | FAM180B | family with sequence similarity 180 member B | 2 | 4 | ||||||||
MIRT614735 | STAT5A | signal transducer and activator of transcription 5A | 2 | 2 | ||||||||
MIRT616981 | EPOR | erythropoietin receptor | 2 | 2 | ||||||||
MIRT617265 | MMAB | methylmalonic aciduria (cobalamin deficiency) cblB type | 2 | 2 | ||||||||
MIRT619405 | INTS7 | integrator complex subunit 7 | 2 | 2 | ||||||||
MIRT621832 | TIMM8A | translocase of inner mitochondrial membrane 8A | 2 | 2 | ||||||||
MIRT621893 | TAF13 | TATA-box binding protein associated factor 13 | 2 | 2 | ||||||||
MIRT630263 | SMIM14 | small integral membrane protein 14 | 2 | 2 | ||||||||
MIRT634879 | SENP8 | SUMO/sentrin peptidase family member, NEDD8 specific | 2 | 2 | ||||||||
MIRT636863 | ARSE | arylsulfatase E (chondrodysplasia punctata 1) | 2 | 2 | ||||||||
MIRT637653 | ADAT1 | adenosine deaminase, tRNA specific 1 | 2 | 2 | ||||||||
MIRT637699 | ZNF439 | zinc finger protein 439 | 2 | 2 | ||||||||
MIRT637759 | GATAD1 | GATA zinc finger domain containing 1 | 2 | 2 | ||||||||
MIRT638193 | TAOK1 | TAO kinase 1 | 2 | 2 | ||||||||
MIRT638996 | ADO | 2-aminoethanethiol dioxygenase | 2 | 2 | ||||||||
MIRT642221 | RABAC1 | Rab acceptor 1 | 2 | 2 | ||||||||
MIRT643327 | ATCAY | ATCAY, caytaxin | 2 | 4 | ||||||||
MIRT643419 | ERVMER34-1 | endogenous retrovirus group MER34 member 1, envelope | 2 | 2 | ||||||||
MIRT644499 | RNF14 | ring finger protein 14 | 2 | 2 | ||||||||
MIRT644603 | NT5DC3 | 5'-nucleotidase domain containing 3 | 2 | 2 | ||||||||
MIRT644795 | C21orf59 | chromosome 21 open reading frame 59 | 2 | 2 | ||||||||
MIRT648732 | HIST1H2BD | histone cluster 1 H2B family member d | 2 | 2 | ||||||||
MIRT653856 | SHE | Src homology 2 domain containing E | 2 | 2 | ||||||||
MIRT654129 | RPL14 | ribosomal protein L14 | 2 | 4 | ||||||||
MIRT658876 | DSN1 | DSN1 homolog, MIS12 kinetochore complex component | 2 | 2 | ||||||||
MIRT671624 | C20orf144 | chromosome 20 open reading frame 144 | 2 | 4 | ||||||||
MIRT677367 | HSPA4L | heat shock protein family A (Hsp70) member 4 like | 2 | 2 | ||||||||
MIRT677579 | TRIM65 | tripartite motif containing 65 | 2 | 2 | ||||||||
MIRT678220 | MACC1 | MACC1, MET transcriptional regulator | 2 | 2 | ||||||||
MIRT679613 | RRP36 | ribosomal RNA processing 36 | 2 | 2 | ||||||||
MIRT686081 | PNPLA3 | patatin like phospholipase domain containing 3 | 2 | 2 | ||||||||
MIRT691817 | ICA1L | islet cell autoantigen 1 like | 2 | 2 | ||||||||
MIRT693869 | COX19 | COX19, cytochrome c oxidase assembly factor | 2 | 2 | ||||||||
MIRT694544 | BPNT1 | 3'(2'), 5'-bisphosphate nucleotidase 1 | 2 | 2 | ||||||||
MIRT694926 | ANKS4B | ankyrin repeat and sterile alpha motif domain containing 4B | 2 | 2 | ||||||||
MIRT697758 | USP37 | ubiquitin specific peptidase 37 | 2 | 2 | ||||||||
MIRT697891 | UBE2B | ubiquitin conjugating enzyme E2 B | 2 | 2 | ||||||||
MIRT701569 | MYPN | myopalladin | 2 | 2 | ||||||||
MIRT703081 | GPRIN3 | GPRIN family member 3 | 2 | 2 | ||||||||
MIRT708104 | IGF2BP1 | insulin like growth factor 2 mRNA binding protein 1 | 2 | 2 | ||||||||
MIRT708320 | NT5C | 5', 3'-nucleotidase, cytosolic | 2 | 2 | ||||||||
MIRT709878 | TRAF1 | TNF receptor associated factor 1 | 2 | 2 | ||||||||
MIRT713545 | GJB1 | gap junction protein beta 1 | 2 | 2 | ||||||||
MIRT716275 | NUP85 | nucleoporin 85 | 2 | 2 | ||||||||
MIRT716621 | CRCP | CGRP receptor component | 2 | 2 | ||||||||
MIRT717987 | C9orf171 | cilia and flagella associated protein 77 | 2 | 2 | ||||||||
MIRT718438 | RAB11B | RAB11B, member RAS oncogene family | 2 | 2 | ||||||||
MIRT722544 | AGPAT4 | 1-acylglycerol-3-phosphate O-acyltransferase 4 | 2 | 2 | ||||||||
MIRT724013 | F2RL1 | F2R like trypsin receptor 1 | 2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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