pre-miRNA Information | |
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pre-miRNA | mmu-mir-876 |
Genomic Coordinates | chr4: 36645373 - 36645453 |
Synonyms | Mirn876, mmu-mir-876, Mir876 |
Description | Mus musculus miR-876 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |
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Mature miRNA | mmu-miR-876-5p |
Sequence | 11| UGGAUUUCUCUGUGAAUCACUA |32 |
Evidence | Experimental |
Experiments | Cloned |
Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | Plin3 | ||||||||||||||||||||
Synonyms | 1300012C15Rik, M6prbp1, Tip47 | ||||||||||||||||||||
Description | perilipin 3 | ||||||||||||||||||||
Transcript | NM_025836 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on Plin3 | |||||||||||||||||||||
3'UTR of Plin3 (miRNA target sites are highlighted) |
>Plin3|NM_025836|3'UTR 1 GGAGAAGGTTCAGGGCCAACATCTATCTGGCTTGACTGCTTTTCCCAACAGTCCAATTGCACAACAGGTCCTCCCCTACT 81 GAGTCTGAATGAGACATGTGTTTAACCTATTCCCATCAGTCTTTTAAAGCAATTTTTTTTCTAGAATGTTCCAGGGGTAA 161 AAAGATCCAGAACATTCTAGAAAAAAAAAATGTTTTTTTCCTAAAAAAAAAAAAAAAAAAAAAATGAGGAATGAGGGTAA 241 TGAATAGTGATAGCACTAGTCTGTCATCCTGTGTCAGCACTGTGGTATAGAGGCAAGAGGGTCACAGGTTCAAAGCCCGG 321 CTGCCACATCACAAATTCAGTGATAGTCTAAGCTACATTAGACCTTGTCTTGAAGTAAAAAAAGGCATAATGATTTTTCA 401 CTCCGGGTTTCTTTTCTACATCATGGCCCACAATAGCAAGAGCTTTTCTTGTTTGTTTTTTTTTTTTTTTTCCTGAGACA 481 GGGTTTCTCTGTATAGCCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCACCTGC 561 CTCTGCCTCCTGAGTGCTGGGATTAAAGGCCGGCTAGCAAGAGCTTTTCTAACAGACCCTGATACCTGGCCCAAGAACCC 641 AGCAACTGTGACAGGATAGACAGCTGGGATGTTGCAATTGTTTCAGATGAGAAAGTGAGGGCCGAGTACACTGTTCCTCA 721 AATCCTGGGGCTCAGTATTGCCTTAATAAATTTTATATGCATCAGAGGCC 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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Experimental Support 1 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | mESCs |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM622570. RNA binding protein: AGO2. Condition:WT1A
HITS-CLIP data was present in GSM622571. RNA binding protein: AGO2. Condition:WT1B
HITS-CLIP data was present in GSM622572. RNA binding protein: AGO2. Condition:WT2
HITS-CLIP data was present in GSM622573. RNA binding protein: AGO2. Condition:KO1
HITS-CLIP data was present in GSM622574. RNA binding protein: AGO2. Condition:KO2
... - Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology. |
Article |
- Leung AK; Young AG; Bhutkar A; Zheng GX; et al. - Nature structural & molecular biology, 2011
MicroRNAs (miRNAs) are 19-22-nucleotide noncoding RNAs that post-transcriptionally regulate mRNA targets. We have identified endogenous miRNA binding sites in mouse embryonic stem cells (mESCs), by performing photo-cross-linking immunoprecipitation using antibodies to Argonaute (Ago2) followed by deep sequencing of RNAs (CLIP-seq). We also performed CLIP-seq in Dicer(-)/(-) mESCs that lack mature miRNAs, allowing us to define whether the association of Ago2 with the identified sites was miRNA dependent. A significantly enriched motif, GCACUU, was identified only in wild-type mESCs in 3' untranslated and coding regions. This motif matches the seed of a miRNA family that constitutes ~68% of the mESC miRNA population. Unexpectedly, a G-rich motif was enriched in sequences cross-linked to Ago2 in both the presence and absence of miRNAs. Expression analysis and reporter assays confirmed that the seed-related motif confers miRNA-directed regulation on host mRNAs and that the G-rich motif can modulate this regulation.
LinkOut: [PMID: 21258322]
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CLIP-seq Support 1 for dataset GSM622570 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | mESCs / WT1A |
Location of target site | NM_025836 | 3UTR | AGAAAUCCACCUGCCUCUGCCUCCUGAGUGCUGGGAUUAAAGGC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21258322 / GSE25310 |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM622571 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | mESCs / WT1B |
Location of target site | NM_025836 | 3UTR | AGAAAUCCACCUGCCUCUGCCUCCUGAGUGCU |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21258322 / GSE25310 |
CLIP-seq Viewer | Link |
CLIP-seq Support 3 for dataset GSM622572 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | mESCs / WT2 |
Location of target site | NM_025836 | 3UTR | AGAAAUCCACCUGCCUCUGCCUCCUGAGUGCUGGGAUUAAAGGCC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21258322 / GSE25310 |
CLIP-seq Viewer | Link |
CLIP-seq Support 4 for dataset GSM622573 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | mESCs / KO1 |
Location of target site | NM_025836 | 3UTR | AGACCAGGCUGGCCUUGAACUCAGAAAUCCACCUGCCUCUGCCUCCUGAGUGCUGGGAUUA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21258322 / GSE25310 |
CLIP-seq Viewer | Link |
CLIP-seq Support 5 for dataset GSM622574 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | mESCs / KO2 |
Location of target site | NM_025836 | 3UTR | AGACCAGGCUGGCCUUGAACUCAGAAAUCCACCUGCCUCUGCCUCCUGAGUGCUGGGAUUA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 21258322 / GSE25310 |
CLIP-seq Viewer | Link |
120 mmu-miR-876-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT577002 | Gpx5 | glutathione peroxidase 5 | ![]() |
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2 | 2 | ||||||
MIRT577009 | Zfhx3 | zinc finger homeobox 3 | ![]() |
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2 | 2 | ||||||
MIRT577023 | Fndc3b | fibronectin type III domain containing 3B | ![]() |
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2 | 4 | ||||||
MIRT577452 | Tspan31 | tetraspanin 31 | ![]() |
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2 | 4 | ||||||
MIRT578027 | Pfas | phosphoribosylformylglycinamidine synthase (FGAR amidotransferase) | ![]() |
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2 | 2 | ||||||
MIRT578035 | Pde4c | phosphodiesterase 4C, cAMP specific | ![]() |
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2 | 2 | ||||||
MIRT578432 | Nmrk2 | nicotinamide riboside kinase 2 | ![]() |
1 | 1 | |||||||
MIRT579608 | 4930519G04Rik | RIKEN cDNA 4930519G04 gene | ![]() |
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2 | 4 | ||||||
MIRT579782 | Zfp422 | zinc finger protein 422 | ![]() |
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2 | 2 | ||||||
MIRT579948 | Xpo7 | exportin 7 | ![]() |
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2 | 4 | ||||||
MIRT581398 | Rbms2 | RNA binding motif, single stranded interacting protein 2 | ![]() |
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2 | 4 | ||||||
MIRT582830 | Itih5 | inter-alpha (globulin) inhibitor H5 | ![]() |
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2 | 4 | ||||||
MIRT584574 | Bpnt1 | bisphosphate 3'-nucleotidase 1 | ![]() |
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2 | 4 | ||||||
MIRT585235 | Zfp459 | zinc finger protein 459 | ![]() |
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2 | 4 | ||||||
MIRT585498 | Ttc26 | tetratricopeptide repeat domain 26 | ![]() |
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2 | 4 | ||||||
MIRT585512 | Trub1 | TruB pseudouridine (psi) synthase family member 1 | ![]() |
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2 | 4 | ||||||
MIRT585584 | Tox4 | TOX high mobility group box family member 4 | ![]() |
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2 | 2 | ||||||
MIRT585843 | Slc3a2 | solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2 | ![]() |
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2 | 2 | ||||||
MIRT585865 | Slc23a1 | solute carrier family 23 (nucleobase transporters), member 1 | ![]() |
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2 | 2 | ||||||
MIRT586042 | Rps3 | ribosomal protein S3 | ![]() |
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2 | 2 | ||||||
MIRT586299 | Pnpla3 | patatin-like phospholipase domain containing 3 | ![]() |
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2 | 4 | ||||||
MIRT586512 | Neu3 | neuraminidase 3 | ![]() |
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2 | 2 | ||||||
MIRT586788 | Isg20l2 | interferon stimulated exonuclease gene 20-like 2 | ![]() |
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2 | 4 | ||||||
MIRT586840 | Il17rd | interleukin 17 receptor D | ![]() |
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2 | 6 | ||||||
MIRT586911 | Helb | helicase (DNA) B | ![]() |
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2 | 4 | ||||||
MIRT586984 | Gpr157 | G protein-coupled receptor 157 | ![]() |
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2 | 4 | ||||||
MIRT587011 | Gngt1 | guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1 | ![]() |
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2 | 4 | ||||||
MIRT587338 | Efcab4a | calcium release activated channel regulator 2B | ![]() |
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2 | 4 | ||||||
MIRT587594 | Commd8 | COMM domain containing 8 | ![]() |
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2 | 4 | ||||||
MIRT588116 | Aco1 | aconitase 1 | ![]() |
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2 | 4 | ||||||
MIRT589172 | Rab11b | RAB11B, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT589182 | Ptprg | protein tyrosine phosphatase, receptor type, G | ![]() |
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2 | 2 | ||||||
MIRT589339 | Ostf1 | osteoclast stimulating factor 1 | ![]() |
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2 | 4 | ||||||
MIRT589353 | Osbpl8 | oxysterol binding protein-like 8 | ![]() |
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2 | 4 | ||||||
MIRT589489 | Mzt1 | mitotic spindle organizing protein 1 | ![]() |
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2 | 4 | ||||||
MIRT589817 | Hnrnpab | heterogeneous nuclear ribonucleoprotein A/B | ![]() |
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2 | 4 | ||||||
MIRT590034 | Fbxo43 | F-box protein 43 | ![]() |
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2 | 2 | ||||||
MIRT590043 | Fbxo30 | F-box protein 30 | ![]() |
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2 | 2 | ||||||
MIRT590125 | Ercc6 | excision repair cross-complementing rodent repair deficiency, complementation group 6 | ![]() |
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2 | 4 | ||||||
MIRT590429 | Cbfa2t2 | core-binding factor, runt domain, alpha subunit 2, translocated to, 2 (human) | ![]() |
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2 | 4 | ||||||
MIRT590994 | Slc28a3 | solute carrier family 28 (sodium-coupled nucleoside transporter), member 3 | ![]() |
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2 | 4 | ||||||
MIRT592907 | Mmachc | methylmalonic aciduria cblC type, with homocystinuria | ![]() |
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2 | 4 | ||||||
MIRT593321 | Slc25a51 | solute carrier family 25, member 51 | ![]() |
1 | 2 | |||||||
MIRT593776 | Nfic | nuclear factor I/C | ![]() |
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2 | 2 | ||||||
MIRT594578 | Znrf1 | zinc and ring finger 1 | ![]() |
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2 | 2 | ||||||
MIRT594903 | Homer1 | homer scaffolding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT594907 | Hecw1 | HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1 | ![]() |
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2 | 2 | ||||||
MIRT595731 | B2m | beta-2 microglobulin | ![]() |
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2 | 2 | ||||||
MIRT597330 | Senp5 | SUMO/sentrin specific peptidase 5 | ![]() |
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2 | 2 | ||||||
MIRT597339 | Sema4b | sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B | ![]() |
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2 | 2 | ||||||
MIRT597499 | Rbm34 | RNA binding motif protein 34 | ![]() |
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2 | 2 | ||||||
MIRT597517 | Rbak | RB-associated KRAB zinc finger | ![]() |
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2 | 2 | ||||||
MIRT597664 | Prkcb | protein kinase C, beta | ![]() |
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2 | 2 | ||||||
MIRT597707 | Ppih | peptidyl prolyl isomerase H | ![]() |
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2 | 2 | ||||||
MIRT597733 | Polr3gl | polymerase (RNA) III (DNA directed) polypeptide G like | ![]() |
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2 | 2 | ||||||
MIRT597746 | Polr1b | polymerase (RNA) I polypeptide B | ![]() |
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2 | 2 | ||||||
MIRT597780 | Plin3 | perilipin 3 | ![]() |
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2 | 2 | ||||||
MIRT597870 | Pdxk | pyridoxal (pyridoxine, vitamin B6) kinase | ![]() |
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2 | 2 | ||||||
MIRT597901 | Paxip1 | PAX interacting (with transcription-activation domain) protein 1 | ![]() |
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2 | 2 | ||||||
MIRT598294 | Mcm5 | minichromosome maintenance complex component 5 | ![]() |
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2 | 2 | ||||||
MIRT598361 | Man2a2 | mannosidase 2, alpha 2 | ![]() |
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2 | 2 | ||||||
MIRT598747 | Gpr68 | G protein-coupled receptor 68 | ![]() |
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2 | 2 | ||||||
MIRT598915 | Gje1 | gap junction protein, epsilon 1 | ![]() |
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2 | 2 | ||||||
MIRT598934 | Git2 | G protein-coupled receptor kinase-interactor 2 | ![]() |
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2 | 2 | ||||||
MIRT598997 | Fnip2 | folliculin interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT599120 | Dynll1 | dynein light chain LC8-type 1 | ![]() |
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2 | 2 | ||||||
MIRT599129 | Dync1li1 | dynein cytoplasmic 1 light intermediate chain 1 | ![]() |
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2 | 2 | ||||||
MIRT599209 | Ddhd2 | DDHD domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT599270 | D14Abb1e | family with sequence similarity 208, member A | ![]() |
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2 | 2 | ||||||
MIRT599457 | Cdnf | cerebral dopamine neurotrophic factor | ![]() |
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2 | 2 | ||||||
MIRT599491 | Ccr9 | chemokine (C-C motif) receptor 9 | ![]() |
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2 | 2 | ||||||
MIRT599545 | Car5b | carbonic anhydrase 5b, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT599692 | Aqp7 | aquaporin 7 | ![]() |
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2 | 2 | ||||||
MIRT599818 | Agl | amylo-1,6-glucosidase, 4-alpha-glucanotransferase | ![]() |
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2 | 2 | ||||||
MIRT599910 | Abcc9 | ATP-binding cassette, sub-family C (CFTR/MRP), member 9 | ![]() |
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2 | 2 | ||||||
MIRT599936 | Rmi2 | RecQ mediated genome instability 2 | ![]() |
1 | 1 | |||||||
MIRT600061 | Smco1 | single-pass membrane protein with coiled-coil domains 1 | ![]() |
1 | 1 | |||||||
MIRT600068 | Knop1 | lysine rich nucleolar protein 1 | ![]() |
1 | 1 | |||||||
MIRT600089 | 2010315B03Rik | RIKEN cDNA 2010315B03 gene | ![]() |
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2 | 2 | ||||||
MIRT600338 | Strbp | spermatid perinuclear RNA binding protein | ![]() |
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2 | 2 | ||||||
MIRT600469 | Rbm4 | RNA binding motif protein 4 | ![]() |
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2 | 2 | ||||||
MIRT600632 | Mkl2 | MKL/myocardin-like 2 | ![]() |
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2 | 2 | ||||||
MIRT600647 | Med18 | mediator complex subunit 18 | ![]() |
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2 | 2 | ||||||
MIRT600649 | Mcc | mutated in colorectal cancers | ![]() |
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2 | 2 | ||||||
MIRT600717 | Kif24 | kinesin family member 24 | ![]() |
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2 | 2 | ||||||
MIRT600735 | Ajuba | ajuba LIM protein | ![]() |
1 | 1 | |||||||
MIRT600803 | C5ar2 | complement component 5a receptor 2 | ![]() |
1 | 1 | |||||||
MIRT600924 | Exoc8 | exocyst complex component 8 | ![]() |
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2 | 2 | ||||||
MIRT601088 | Cbln3 | cerebellin 3 precursor protein | ![]() |
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2 | 2 | ||||||
MIRT601272 | Soga1 | suppressor of glucose, autophagy associated 1 | ![]() |
1 | 1 | |||||||
MIRT601425 | Tubb5 | tubulin, beta 5 class I | ![]() |
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2 | 2 | ||||||
MIRT601557 | Tapbp | TAP binding protein | ![]() |
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2 | 2 | ||||||
MIRT601630 | Slc2a4 | solute carrier family 2 (facilitated glucose transporter), member 4 | ![]() |
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2 | 2 | ||||||
MIRT601889 | Pctp | phosphatidylcholine transfer protein | ![]() |
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2 | 2 | ||||||
MIRT601917 | Ooep | oocyte expressed protein | ![]() |
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2 | 2 | ||||||
MIRT602062 | Luc7l2 | LUC7-like 2 (S. cerevisiae) | ![]() |
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2 | 2 | ||||||
MIRT602149 | Irgm2 | immunity-related GTPase family M member 2 | ![]() |
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2 | 2 | ||||||
MIRT602256 | Gnl3l | guanine nucleotide binding protein-like 3 (nucleolar)-like | ![]() |
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2 | 2 | ||||||
MIRT602278 | Glt8d1 | glycosyltransferase 8 domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT602285 | Gls | glutaminase | ![]() |
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2 | 2 | ||||||
MIRT602324 | Gal3st3 | galactose-3-O-sulfotransferase 3 | ![]() |
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2 | 2 | ||||||
MIRT602385 | Fam198b | family with sequence similarity 198, member B | ![]() |
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2 | 2 | ||||||
MIRT602406 | Fadd | Fas (TNFRSF6)-associated via death domain | ![]() |
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2 | 2 | ||||||
MIRT602905 | Fam219b | family with sequence similarity 219, member B | ![]() |
1 | 1 | |||||||
MIRT602928 | Zmat3 | zinc finger matrin type 3 | ![]() |
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2 | 2 | ||||||
MIRT602977 | Sgms2 | sphingomyelin synthase 2 | ![]() |
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2 | 2 | ||||||
MIRT603139 | Ufd1l | ubiquitin recognition factor in ER-associated degradation 1 | ![]() |
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2 | 2 | ||||||
MIRT603235 | Tle2 | transducin-like enhancer of split 2 | ![]() |
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2 | 2 | ||||||
MIRT603269 | Svopl | SV2 related protein homolog (rat)-like | ![]() |
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2 | 2 | ||||||
MIRT603292 | Spib | Spi-B transcription factor (Spi-1/PU.1 related) | ![]() |
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2 | 2 | ||||||
MIRT604167 | Cyb5d2 | cytochrome b5 domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT604190 | Cts8 | cathepsin 8 | ![]() |
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2 | 2 | ||||||
MIRT604320 | Car8 | carbonic anhydrase 8 | ![]() |
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2 | 2 | ||||||
MIRT604483 | 2810006K23Rik | RIKEN cDNA 2810006K23 gene | ![]() |
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2 | 2 | ||||||
MIRT604612 | Tbl1xr1 | transducin (beta)-like 1X-linked receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT604837 | Mrpl35 | mitochondrial ribosomal protein L35 | ![]() |
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2 | 2 | ||||||
MIRT605042 | Efr3b | EFR3 homolog B | ![]() |
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2 | 2 | ||||||
MIRT605187 | Bach2 | BTB and CNC homology, basic leucine zipper transcription factor 2 | ![]() |
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2 | 2 | ||||||
MIRT605488 | Slc35e2 | solute carrier family 35, member E2 | ![]() |
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2 | 2 | ||||||
MIRT606171 | Smtnl2 | smoothelin-like 2 | ![]() |
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2 | 2 |