pre-miRNA Information | |
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pre-miRNA | hsa-mir-4491 |
Genomic Coordinates | chr11: 111347757 - 111347824 |
Description | Homo sapiens miR-4491 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||
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Mature miRNA | hsa-miR-4491 | ||||||||||||||||||||||||
Sequence | 46| AAUGUGGACUGGUGUGACCAAA |67 | ||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||
Experiments | Illumina | ||||||||||||||||||||||||
SNPs in miRNA |
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Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | ZNF76 | ||||||||||||||||||||
Synonyms | D6S229E, ZNF523, Zfp523 | ||||||||||||||||||||
Description | zinc finger protein 76 | ||||||||||||||||||||
Transcript | NM_003427 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on ZNF76 | |||||||||||||||||||||
3'UTR of ZNF76 (miRNA target sites are highlighted) |
>ZNF76|NM_003427|3'UTR 1 GTCCAAGAGGGCTGGGTCCCACACCATGCTGGAGGAAGTGCCATCTGCATGGCCACTCTTGCCCCCAAGGGCCCAGGCTG 81 TGGCTGACACATAGAAGGTGGCCACATAGGTCTCTGGGGTGAGAAGACAGCAAGAAAACTGCCTAACTGAAGGGAATGGG 161 GGCCCTGCTCAAGAAGGGGGCCAGGCAGCTGGAATCAGGGGAGTGCATCATCCTCGGGAGCTGACAACAGCCAGGCTACA 241 CCAGGGCACCCGCCTCTCAAAATCAGCTGGGCGCCCACTCTCCTCCTAAAGAACACCCTTCTGGCCCTCAGTCTGTTCCC 321 CTTCTCAGGTAGAGATTGGGGCTGCTATGGGGACTGGCCCTGTAGGGTTGAGCCACAGACAGCTCTTCAGCCCAGTAGCA 401 GTGGAGCAGGCCCTGTCCTGCCCTCCCAGCAATAACCACCTCCCTGGAGGCCAGCTGAGATGCCTGGCTACTTGGCACCA 481 GGGACTTCCTGACACCACAGTCAATTAATTCCTCAGGGGCCTGTGGCTGAAGAAAAGGTGCCCAGCCCCCACCACTCCTC 561 AGCTGCCCCCCAACCTCTCTATGGCAGAGAGGCAGGGAGTGGCCCTGTACATAGACTGCTGGGGATTGGGTTTGATTTGT 641 TTTGTTTTTTTTAATTCCATTTTGATAATTTTTTTCCTGCTCTGGGTGGTGGTGGCACATGGATGAATGAGTATTTAATA 721 AAAGTTCCAAATTTCCACCAAAAAAAAAAAAAA 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 | 7629.0 |
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 | ENST00000373953.3 | 3UTR | CUGACACAUAGAAGGUGGCCA |
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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67 hsa-miR-4491 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT056779 | ARID5B | AT-rich interaction domain 5B | ![]() |
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2 | 2 | ||||||
MIRT061577 | BTG2 | BTG anti-proliferation factor 2 | ![]() |
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2 | 2 | ||||||
MIRT063828 | SRP9 | signal recognition particle 9 | ![]() |
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2 | 4 | ||||||
MIRT102306 | DNAJB9 | DnaJ heat shock protein family (Hsp40) member B9 | ![]() |
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2 | 10 | ||||||
MIRT186634 | COX20 | COX20, cytochrome c oxidase assembly factor | ![]() |
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2 | 8 | ||||||
MIRT191243 | STYX | serine/threonine/tyrosine interacting protein | ![]() |
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2 | 2 | ||||||
MIRT195908 | SRSF11 | serine and arginine rich splicing factor 11 | ![]() |
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2 | 4 | ||||||
MIRT240343 | UBXN2B | UBX domain protein 2B | ![]() |
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2 | 2 | ||||||
MIRT271178 | PTPN14 | protein tyrosine phosphatase, non-receptor type 14 | ![]() |
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2 | 2 | ||||||
MIRT286219 | TMEM97 | transmembrane protein 97 | ![]() |
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2 | 4 | ||||||
MIRT314182 | OCLN | occludin | ![]() |
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2 | 4 | ||||||
MIRT323938 | AKAP2 | A-kinase anchoring protein 2 | ![]() |
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2 | 4 | ||||||
MIRT323940 | PALM2-AKAP2 | PALM2-AKAP2 readthrough | ![]() |
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2 | 4 | ||||||
MIRT340113 | TXLNA | taxilin alpha | ![]() |
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2 | 2 | ||||||
MIRT450333 | LRWD1 | leucine rich repeats and WD repeat domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT451283 | ZNF101 | zinc finger protein 101 | ![]() |
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2 | 2 | ||||||
MIRT451879 | SOD2 | superoxide dismutase 2 | ![]() |
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2 | 8 | ||||||
MIRT453577 | CRCP | CGRP receptor component | ![]() |
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2 | 2 | ||||||
MIRT454366 | ASAH2 | N-acylsphingosine amidohydrolase 2 | ![]() |
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2 | 2 | ||||||
MIRT454797 | STOML3 | stomatin like 3 | ![]() |
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2 | 2 | ||||||
MIRT459801 | POTED | POTE ankyrin domain family member D | ![]() |
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2 | 10 | ||||||
MIRT460911 | POLQ | DNA polymerase theta | ![]() |
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2 | 2 | ||||||
MIRT468082 | SHOC2 | SHOC2, leucine rich repeat scaffold protein | ![]() |
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2 | 6 | ||||||
MIRT470281 | PRKAA1 | protein kinase AMP-activated catalytic subunit alpha 1 | ![]() |
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2 | 2 | ||||||
MIRT471876 | NUFIP2 | NUFIP2, FMR1 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT476147 | GPR137C | G protein-coupled receptor 137C | ![]() |
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2 | 8 | ||||||
MIRT478056 | DNAJC10 | DnaJ heat shock protein family (Hsp40) member C10 | ![]() |
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2 | 10 | ||||||
MIRT501054 | SMCR8 | Smith-Magenis syndrome chromosome region, candidate 8 | ![]() |
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2 | 4 | ||||||
MIRT501732 | OVOL1 | ovo like transcriptional repressor 1 | ![]() |
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2 | 2 | ||||||
MIRT502214 | HSPB8 | heat shock protein family B (small) member 8 | ![]() |
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2 | 2 | ||||||
MIRT505243 | UBE2D3 | ubiquitin conjugating enzyme E2 D3 | ![]() |
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2 | 2 | ||||||
MIRT505957 | RAN | RAN, member RAS oncogene family | ![]() |
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2 | 6 | ||||||
MIRT507996 | BCL2L13 | BCL2 like 13 | ![]() |
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2 | 4 | ||||||
MIRT510433 | ZNF207 | zinc finger protein 207 | ![]() |
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2 | 6 | ||||||
MIRT510827 | SBNO1 | strawberry notch homolog 1 | ![]() |
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2 | 4 | ||||||
MIRT511493 | HNRNPA0 | heterogeneous nuclear ribonucleoprotein A0 | ![]() |
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2 | 4 | ||||||
MIRT512129 | CREBL2 | cAMP responsive element binding protein like 2 | ![]() |
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2 | 8 | ||||||
MIRT514512 | SHISA9 | shisa family member 9 | ![]() |
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2 | 4 | ||||||
MIRT516482 | RAB32 | RAB32, member RAS oncogene family | ![]() |
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2 | 4 | ||||||
MIRT519514 | RBM22 | RNA binding motif protein 22 | ![]() |
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2 | 4 | ||||||
MIRT523367 | GTF2A1 | general transcription factor IIA subunit 1 | ![]() |
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2 | 2 | ||||||
MIRT524217 | DDI2 | DNA damage inducible 1 homolog 2 | ![]() |
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2 | 6 | ||||||
MIRT524649 | C4orf32 | family with sequence similarity 241 member A | ![]() |
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2 | 2 | ||||||
MIRT528297 | ZNF76 | zinc finger protein 76 | ![]() |
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2 | 2 | ||||||
MIRT528577 | ITGB3BP | integrin subunit beta 3 binding protein | ![]() |
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2 | 2 | ||||||
MIRT530458 | SULT1B1 | sulfotransferase family 1B member 1 | ![]() |
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2 | 2 | ||||||
MIRT535774 | MYCN | MYCN proto-oncogene, bHLH transcription factor | ![]() |
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2 | 2 | ||||||
MIRT544239 | CCBL2 | kynurenine aminotransferase 3 | ![]() |
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2 | 2 | ||||||
MIRT546733 | RNF217 | ring finger protein 217 | ![]() |
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2 | 2 | ||||||
MIRT550360 | INCENP | inner centromere protein | ![]() |
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2 | 4 | ||||||
MIRT553343 | TRPC3 | transient receptor potential cation channel subfamily C member 3 | ![]() |
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2 | 4 | ||||||
MIRT556629 | LAPTM4A | lysosomal protein transmembrane 4 alpha | ![]() |
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2 | 2 | ||||||
MIRT558006 | FAM122B | family with sequence similarity 122B | ![]() |
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2 | 2 | ||||||
MIRT558994 | CA8 | carbonic anhydrase 8 | ![]() |
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2 | 2 | ||||||
MIRT560418 | ENTPD1 | ectonucleoside triphosphate diphosphohydrolase 1 | ![]() |
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2 | 2 | ||||||
MIRT565717 | SESN3 | sestrin 3 | ![]() |
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2 | 2 | ||||||
MIRT566271 | PTAR1 | protein prenyltransferase alpha subunit repeat containing 1 | ![]() |
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2 | 2 | ||||||
MIRT568161 | CCDC6 | coiled-coil domain containing 6 | ![]() |
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2 | 2 | ||||||
MIRT569753 | C2orf71 | chromosome 2 open reading frame 71 | ![]() |
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2 | 2 | ||||||
MIRT573959 | FIGNL1 | fidgetin like 1 | ![]() |
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2 | 2 | ||||||
MIRT574530 | PEG10 | paternally expressed 10 | ![]() |
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2 | 2 | ||||||
MIRT609453 | CCDC149 | coiled-coil domain containing 149 | ![]() |
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2 | 2 | ||||||
MIRT614047 | THBS2 | thrombospondin 2 | ![]() |
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2 | 2 | ||||||
MIRT628418 | ATMIN | ATM interactor | ![]() |
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2 | 2 | ||||||
MIRT689556 | XPO6 | exportin 6 | ![]() |
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2 | 2 | ||||||
MIRT725598 | CDH7 | cadherin 7 | ![]() |
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2 | 2 | ||||||
MIRT735561 | TRIM7 | tripartite motif containing 7 | ![]() |
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3 | 0 |