pre-miRNA Information | |
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pre-miRNA | hsa-mir-3180-1 |
Genomic Coordinates | chr16: 14911220 - 14911313 |
Description | Homo sapiens miR-3180-1 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
pre-miRNA | hsa-mir-3180-2 |
Genomic Coordinates | chr16: 16309879 - 16309966 |
Description | Homo sapiens miR-3180-2 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
pre-miRNA | hsa-mir-3180-3 |
Genomic Coordinates | chr16: 18402178 - 18402271 |
Description | Homo sapiens miR-3180-3 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |
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Mature miRNA | hsa-miR-3180-3p |
Sequence | 62| UGGGGCGGAGCUUCCGGAGGCC |83 |
Evidence | Experimental |
Experiments | Illumina |
Putative Targets |
miRNA Expression profile | |
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Human miRNA Tissue Atlas | |
miRNAs in Extracellular Vesicles |
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Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
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Gene Symbol | SIGLEC12 | ||||||||||||||||||||
Synonyms | S2V, SIGLECL1, SLG, Siglec-XII | ||||||||||||||||||||
Description | sialic acid binding Ig like lectin 12 (gene/pseudogene) | ||||||||||||||||||||
Transcript | NM_033329 | ||||||||||||||||||||
Other Transcripts | NM_053003 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SIGLEC12 | |||||||||||||||||||||
3'UTR of SIGLEC12 (miRNA target sites are highlighted) |
>SIGLEC12|NM_033329|3'UTR 1 GAAACTGCAGAGACTCAGGCCTGTTTGAGGGCTCACGACCCCTGCAGCAAAGAAGCCCGAGACTGATTCCTTTAGAATTA 81 ACAGCCCTCCATGCTGTGCAACAGGACATCAGAACTTATTCCTCTTGTCAAACTGAAAATGCGTGCCTGATGACCAAACT 161 CTCCCTTTCTCCATCCAATCGGTCCACACTCCCCGCCCCCGGCCTCTGGTACCCACCATTCTCTTCTCTACTTCTCTGAG 241 GTCGACTATTTTAGGTTCCAAATATAGTGAGATCGTAGAGTGTTTGTCTCTCTGTACCTGGCTTATTTCACTCAACATAA 321 TGTTCTCTAGGTTCATCCGTGTTGTTCCAAATAACAGAATAATGTATTGAATATTTCAAAATGGCTAAAAGAGAGGAGTT 401 TAAATGTTGTCACC 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 | 89858.0 | ||||||
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 | ENST00000291707.3 | 3UTR | CUCCCCGCCCCCGGCCUC |
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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66 hsa-miR-3180-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT133792 | SKI | SKI proto-oncogene | ![]() |
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2 | 2 | ||||||
MIRT146658 | MINK1 | misshapen like kinase 1 | ![]() |
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2 | 4 | ||||||
MIRT441337 | C19orf26 | CACN beta subunit associated regulatory protein | ![]() |
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2 | 4 | ||||||
MIRT449088 | XPO6 | exportin 6 | ![]() |
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2 | 2 | ||||||
MIRT464967 | TULP1 | tubby like protein 1 | ![]() |
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2 | 6 | ||||||
MIRT471706 | OTUB1 | OTU deubiquitinase, ubiquitin aldehyde binding 1 | ![]() |
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2 | 2 | ||||||
MIRT473252 | MIDN | midnolin | ![]() |
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2 | 2 | ||||||
MIRT483494 | STMN3 | stathmin 3 | ![]() |
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2 | 4 | ||||||
MIRT483726 | THSD4 | thrombospondin type 1 domain containing 4 | ![]() |
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2 | 2 | ||||||
MIRT485684 | CCDC64 | BICD family like cargo adaptor 1 | ![]() |
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2 | 4 | ||||||
MIRT486046 | WSCD1 | WSC domain containing 1 | ![]() |
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2 | 4 | ||||||
MIRT486522 | CLCN7 | chloride voltage-gated channel 7 | ![]() |
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2 | 2 | ||||||
MIRT486779 | SESTD1 | SEC14 and spectrin domain containing 1 | ![]() |
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2 | 4 | ||||||
MIRT486852 | DPF1 | double PHD fingers 1 | ![]() |
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2 | 2 | ||||||
MIRT487035 | C10orf55 | chromosome 10 open reading frame 55 | ![]() |
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2 | 2 | ||||||
MIRT487082 | C3orf36 | chromosome 3 open reading frame 36 | ![]() |
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2 | 2 | ||||||
MIRT487284 | AGPAT6 | glycerol-3-phosphate acyltransferase 4 | ![]() |
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2 | 4 | ||||||
MIRT487992 | RXRB | retinoid X receptor beta | ![]() |
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2 | 2 | ||||||
MIRT488101 | POU3F1 | POU class 3 homeobox 1 | ![]() |
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2 | 2 | ||||||
MIRT488547 | POU3F3 | POU class 3 homeobox 3 | ![]() |
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2 | 8 | ||||||
MIRT488582 | ST7L | suppression of tumorigenicity 7 like | ![]() |
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2 | 2 | ||||||
MIRT488757 | FXYD1 | FXYD domain containing ion transport regulator 1 | ![]() |
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2 | 2 | ||||||
MIRT489217 | ASCL2 | achaete-scute family bHLH transcription factor 2 | ![]() |
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2 | 4 | ||||||
MIRT489350 | SYNGR1 | synaptogyrin 1 | ![]() |
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2 | 4 | ||||||
MIRT489385 | RAB11B | RAB11B, member RAS oncogene family | ![]() |
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2 | 2 | ||||||
MIRT489459 | MSC | musculin | ![]() |
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2 | 2 | ||||||
MIRT489469 | SLITRK5 | SLIT and NTRK like family member 5 | ![]() |
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2 | 2 | ||||||
MIRT489749 | TACC3 | transforming acidic coiled-coil containing protein 3 | ![]() |
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2 | 2 | ||||||
MIRT490244 | MFI2 | melanotransferrin | ![]() |
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2 | 2 | ||||||
MIRT490423 | VPS51 | VPS51, GARP complex subunit | ![]() |
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2 | 4 | ||||||
MIRT490644 | FEM1A | fem-1 homolog A | ![]() |
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2 | 2 | ||||||
MIRT491977 | UNK | unkempt family zinc finger | ![]() |
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2 | 2 | ||||||
MIRT492469 | RASD1 | ras related dexamethasone induced 1 | ![]() |
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2 | 4 | ||||||
MIRT492837 | NRGN | neurogranin | ![]() |
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2 | 2 | ||||||
MIRT492956 | NEUROD2 | neuronal differentiation 2 | ![]() |
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2 | 2 | ||||||
MIRT493002 | NANOS1 | nanos C2HC-type zinc finger 1 | ![]() |
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2 | 2 | ||||||
MIRT493430 | KCNK3 | potassium two pore domain channel subfamily K member 3 | ![]() |
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2 | 2 | ||||||
MIRT493709 | H2AFX | H2A histone family member X | ![]() |
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2 | 6 | ||||||
MIRT493886 | FAM43A | family with sequence similarity 43 member A | ![]() |
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2 | 4 | ||||||
MIRT493955 | ENG | endoglin | ![]() |
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2 | 2 | ||||||
MIRT500168 | MSI1 | musashi RNA binding protein 1 | ![]() |
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2 | 2 | ||||||
MIRT500196 | MAPK8IP3 | mitogen-activated protein kinase 8 interacting protein 3 | ![]() |
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2 | 4 | ||||||
MIRT500366 | ZNF385A | zinc finger protein 385A | ![]() |
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2 | 2 | ||||||
MIRT501159 | SLC10A7 | solute carrier family 10 member 7 | ![]() |
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2 | 6 | ||||||
MIRT501698 | PCGF3 | polycomb group ring finger 3 | ![]() |
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2 | 6 | ||||||
MIRT512173 | CASP16 | caspase 16, pseudogene | ![]() |
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2 | 6 | ||||||
MIRT512237 | ATG2A | autophagy related 2A | ![]() |
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2 | 6 | ||||||
MIRT512879 | PITX3 | paired like homeodomain 3 | ![]() |
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2 | 2 | ||||||
MIRT531184 | SIGLEC12 | sialic acid binding Ig like lectin 12 (gene/pseudogene) | ![]() |
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2 | 2 | ||||||
MIRT548362 | ENTPD5 | ectonucleoside triphosphate diphosphohydrolase 5 | ![]() |
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2 | 4 | ||||||
MIRT569093 | FSCN1 | fascin actin-bundling protein 1 | ![]() |
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2 | 2 | ||||||
MIRT574133 | MARVELD1 | MARVEL domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT635542 | LEPROTL1 | leptin receptor overlapping transcript like 1 | ![]() |
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2 | 2 | ||||||
MIRT654098 | RSBN1L | round spermatid basic protein 1 like | ![]() |
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2 | 2 | ||||||
MIRT664919 | BHMT2 | betaine--homocysteine S-methyltransferase 2 | ![]() |
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2 | 2 | ||||||
MIRT669843 | OLR1 | oxidized low density lipoprotein receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT670502 | LYRM4 | LYR motif containing 4 | ![]() |
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2 | 2 | ||||||
MIRT670526 | SLC9A7 | solute carrier family 9 member A7 | ![]() |
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2 | 2 | ||||||
MIRT670550 | SHISA2 | shisa family member 2 | ![]() |
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2 | 2 | ||||||
MIRT671031 | PCDHB2 | protocadherin beta 2 | ![]() |
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2 | 2 | ||||||
MIRT695219 | SCAMP3 | secretory carrier membrane protein 3 | ![]() |
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2 | 2 | ||||||
MIRT700129 | RNF144B | ring finger protein 144B | ![]() |
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2 | 2 | ||||||
MIRT709280 | MAPK8IP2 | mitogen-activated protein kinase 8 interacting protein 2 | ![]() |
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2 | 2 | ||||||
MIRT712750 | GMDS | GDP-mannose 4,6-dehydratase | ![]() |
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2 | 2 | ||||||
MIRT720753 | FAM193A | family with sequence similarity 193 member A | ![]() |
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2 | 2 | ||||||
MIRT724920 | VPS18 | VPS18, CORVET/HOPS core subunit | ![]() |
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2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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