pre-miRNA Information | |
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pre-miRNA | hsa-mir-4481 |
Genomic Coordinates | chr10: 12653138 - 12653197 |
Description | Homo sapiens miR-4481 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||
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Mature miRNA | hsa-miR-4481 | ||||||||||||
Sequence | 1| GGAGUGGGCUGGUGGUU |17 | ||||||||||||
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 | SNX24 | ||||||||||||||||||||
Synonyms | PRO1284, SBBI31 | ||||||||||||||||||||
Description | sorting nexin 24 | ||||||||||||||||||||
Transcript | NM_014035 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on SNX24 | |||||||||||||||||||||
3'UTR of SNX24 (miRNA target sites are highlighted) |
>SNX24|NM_014035|3'UTR 1 AAATCCTACATGGCTAAAAGAAGCAGAAGCAAGTTTCGAAGTCACAGTCAAGGAAATCAATACCTACCAATTTAACCTAA 81 ACGCTATGATATATAACAGCTCTAGCTAGTGGTAAAGTGCACAGTCCCAGCTTAATTCAGGGCAGGGACATTTCCATTAG 161 AATGGTGCTCTTAAAAATAGAAACTGAACCGGGGCGGTGGTCAGGCTAAGGCCAAGTGTTTAAGAAGTAGAGTGTAGCTG 241 CCAGCGTAGAAACCCATGAAAAGGAGGCCACAGGAGATTCCTGGGAGCACTGGGTGTAGCAAAACAAAGCCACTCTCTGC 321 TTCAGTCGCACCATTTGCTAATTGAAAATCATATCCTGAATCATACTGAGACTGATCAACTTTGGTAGCTTTTTTGTTCA 401 GATCTTATGACACACTACTCTTCTCACCGTGAGATTTTCTCAGCCAGTGATAGTACATTCTGAAATGCTGGCACCAGGAG 481 ACGGCCACAGACACACACTGCTAAATGTGAAGATGGAACTAAACTGGAAATTAAATTATACTGACAATATTATGGCATTT 561 TTAAGATCATGGCATTTTAATTTACATTAGAGTGGAGTTGCATCATACTCAGGGGTTAGCTTCCAAGGTCAGTACATAGG 641 TAAAATGGGCTATTAGGATGATCCTTGAAAGCCCTTTAGAAGGGTGCCATGTTGGAAACCTGTACATCCACAACAAGTAG 721 CTTTTCCTCCTATGTTGGAAAAAAAGACTGTTTCTTTGTTTGAAGACCAAGTGAAGTTGTTGGTGTTTGTTTAGGGGCCA 801 TTTTGTTAAAAAAAAAAAAAAAAAAGCACATAACTTTTAACACTAGAATCAGCCCGCAAGATGCTTGCCCCGCTAGTGGC 881 AGATGTGAACTGACAAGGAGTGAAGCGCCCACCCAGCGGATGGACAGCACCCACCTGGGTTTACTCAAGGGTGTGCATTC 961 ATTTTAGGTGGGATCGCCACAGGATTTCATGTTATTTTCCTTACGGCTTCCTTTTCACTGACCTCATTTGTTGAGTTAAT 1041 GTAAGTTAAATGTGTTTATGATATAACTCCACTGTACATCATCCTTTGAGTAGTAAAGGATAAAAGCATATATACTACCT 1121 ATATGTATGTGCTGTATGTGGGCATTTCATTGAGATCTAATTAATAGCTAGCCTATTTATGGTTATTCGTTTTAGTAAGT 1201 TCTGTGGGAGCAAGGTATTTAAAATCAAAACTAATAACTACATCATGGTTTTTGATTAGGATCTAAATATTCAGGTTTTA 1281 AGCCTGCTGCAAACTTTTAAAATATTATGATAGATTCTGTACTACATGTGGGAAACAAGCAAGAACTAAATAATCAAATG 1361 TTGTCAACCAAAAGTAATAGTTGGGTATTGGAGATTTTTTTAAAATGTTTTTATGTTATTAGCTATTTGGAGTTAAATAA 1441 AAACAGAACAAGGAAACATTTGAAAAAAAAAAAAAAAAAA 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 | 28966.0 | ||||||
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 | ENST00000513881.1 | 3UTR | UCAAUUAAACUUCUUUCCUUUAUAAAUUACCCACUCUCG |
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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84 hsa-miR-4481 Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT100715 | TJAP1 | tight junction associated protein 1 | ![]() |
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2 | 2 | ||||||
MIRT183589 | ZC3H11A | zinc finger CCCH-type containing 11A | ![]() |
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2 | 2 | ||||||
MIRT338033 | DAZAP2 | DAZ associated protein 2 | ![]() |
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2 | 4 | ||||||
MIRT395796 | SPCS3 | signal peptidase complex subunit 3 | ![]() |
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2 | 2 | ||||||
MIRT443947 | LRIT3 | leucine rich repeat, Ig-like and transmembrane domains 3 | ![]() |
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2 | 2 | ||||||
MIRT450580 | HIST1H2BG | histone cluster 1 H2B family member g | ![]() |
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2 | 6 | ||||||
MIRT451617 | MEIS3P1 | Meis homeobox 3 pseudogene 1 | ![]() |
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2 | 2 | ||||||
MIRT452331 | EIF5AL1 | eukaryotic translation initiation factor 5A-like 1 | ![]() |
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2 | 2 | ||||||
MIRT453279 | EFTUD2 | elongation factor Tu GTP binding domain containing 2 | ![]() |
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2 | 2 | ||||||
MIRT455212 | GNL1 | G protein nucleolar 1 (putative) | ![]() |
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2 | 2 | ||||||
MIRT455470 | LYPLA2 | lysophospholipase II | ![]() |
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2 | 2 | ||||||
MIRT456503 | PFKFB2 | 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2 | ![]() |
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2 | 2 | ||||||
MIRT456687 | LDB1 | LIM domain binding 1 | ![]() |
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2 | 2 | ||||||
MIRT456915 | DDA1 | DET1 and DDB1 associated 1 | ![]() |
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2 | 2 | ||||||
MIRT457603 | IDS | iduronate 2-sulfatase | ![]() |
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2 | 2 | ||||||
MIRT457848 | RNASEH2B | ribonuclease H2 subunit B | ![]() |
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2 | 4 | ||||||
MIRT458455 | RPRM | reprimo, TP53 dependent G2 arrest mediator homolog | ![]() |
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2 | 2 | ||||||
MIRT460179 | UNK | unkempt family zinc finger | ![]() |
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2 | 6 | ||||||
MIRT461465 | SLC19A3 | solute carrier family 19 member 3 | ![]() |
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2 | 2 | ||||||
MIRT464739 | UBE2Q1 | ubiquitin conjugating enzyme E2 Q1 | ![]() |
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2 | 2 | ||||||
MIRT465279 | TRIM28 | tripartite motif containing 28 | ![]() |
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2 | 2 | ||||||
MIRT468450 | SETD1B | SET domain containing 1B | ![]() |
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2 | 2 | ||||||
MIRT468620 | SUMO1 | small ubiquitin-like modifier 1 | ![]() |
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2 | 6 | ||||||
MIRT469152 | RNF121 | ring finger protein 121 | ![]() |
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2 | 2 | ||||||
MIRT470073 | PTGES2 | prostaglandin E synthase 2 | ![]() |
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2 | 2 | ||||||
MIRT470172 | PSMD11 | proteasome 26S subunit, non-ATPase 11 | ![]() |
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2 | 4 | ||||||
MIRT473156 | MLLT1 | MLLT1, super elongation complex subunit | ![]() |
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2 | 2 | ||||||
MIRT474308 | LAMC1 | laminin subunit gamma 1 | ![]() |
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2 | 2 | ||||||
MIRT474782 | KIAA0895L | KIAA0895 like | ![]() |
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2 | 2 | ||||||
MIRT476484 | GATAD2A | GATA zinc finger domain containing 2A | ![]() |
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2 | 2 | ||||||
MIRT477613 | EFNA3 | ephrin A3 | ![]() |
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2 | 2 | ||||||
MIRT479525 | CDCA4 | cell division cycle associated 4 | ![]() |
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2 | 2 | ||||||
MIRT479973 | CARD10 | caspase recruitment domain family member 10 | ![]() |
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2 | 2 | ||||||
MIRT480410 | C19orf47 | chromosome 19 open reading frame 47 | ![]() |
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2 | 2 | ||||||
MIRT480426 | C17orf85 | nuclear cap binding subunit 3 | ![]() |
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2 | 2 | ||||||
MIRT483573 | SYT2 | synaptotagmin 2 | ![]() |
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2 | 2 | ||||||
MIRT483664 | QSOX2 | quiescin sulfhydryl oxidase 2 | ![]() |
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2 | 4 | ||||||
MIRT484532 | POLD3 | DNA polymerase delta 3, accessory subunit | ![]() |
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2 | 2 | ||||||
MIRT484616 | SIX3 | SIX homeobox 3 | ![]() |
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2 | 6 | ||||||
MIRT485897 | ZFP36 | ZFP36 ring finger protein | ![]() |
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2 | 2 | ||||||
MIRT486505 | MYH11 | myosin heavy chain 11 | ![]() |
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2 | 2 | ||||||
MIRT487505 | GRK5 | G protein-coupled receptor kinase 5 | ![]() |
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2 | 2 | ||||||
MIRT488852 | UBTF | upstream binding transcription factor, RNA polymerase I | ![]() |
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2 | 2 | ||||||
MIRT489464 | MSC | musculin | ![]() |
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2 | 2 | ||||||
MIRT491170 | LRP3 | LDL receptor related protein 3 | ![]() |
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2 | 2 | ||||||
MIRT496627 | TMEM67 | transmembrane protein 67 | ![]() |
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2 | 2 | ||||||
MIRT497616 | ANG | angiogenin | ![]() |
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2 | 2 | ||||||
MIRT497766 | KIAA0895 | KIAA0895 | ![]() |
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2 | 2 | ||||||
MIRT499680 | MRE11A | MRE11 homolog, double strand break repair nuclease | ![]() |
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2 | 6 | ||||||
MIRT499774 | SLC29A2 | solute carrier family 29 member 2 | ![]() |
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2 | 2 | ||||||
MIRT501745 | NSD1 | nuclear receptor binding SET domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT504995 | ZNF652 | zinc finger protein 652 | ![]() |
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2 | 2 | ||||||
MIRT511664 | HIST1H3C | histone cluster 1 H3 family member c | ![]() |
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2 | 2 | ||||||
MIRT511690 | HIST1H2BO | histone cluster 1 H2B family member o | ![]() |
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2 | 4 | ||||||
MIRT511703 | HIST1H2BL | histone cluster 1 H2B family member l | ![]() |
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2 | 4 | ||||||
MIRT511734 | HIST1H2BE | histone cluster 1 H2B family member e | ![]() |
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2 | 8 | ||||||
MIRT512858 | TBC1D13 | TBC1 domain family member 13 | ![]() |
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2 | 2 | ||||||
MIRT513444 | EMP1 | epithelial membrane protein 1 | ![]() |
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2 | 6 | ||||||
MIRT515681 | TFPI | tissue factor pathway inhibitor | ![]() |
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2 | 2 | ||||||
MIRT523529 | GLUL | glutamate-ammonia ligase | ![]() |
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2 | 2 | ||||||
MIRT525546 | PHB2 | prohibitin 2 | ![]() |
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2 | 4 | ||||||
MIRT526209 | SNX24 | sorting nexin 24 | ![]() |
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2 | 2 | ||||||
MIRT531554 | SRD5A1 | steroid 5 alpha-reductase 1 | ![]() |
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2 | 2 | ||||||
MIRT533764 | TMEM135 | transmembrane protein 135 | ![]() |
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2 | 2 | ||||||
MIRT545582 | SNRPA1 | small nuclear ribonucleoprotein polypeptide A' | ![]() |
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2 | 2 | ||||||
MIRT552434 | ZNF460 | zinc finger protein 460 | ![]() |
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2 | 2 | ||||||
MIRT561159 | BCL2L12 | BCL2 like 12 | ![]() |
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2 | 2 | ||||||
MIRT562345 | EXOSC2 | exosome component 2 | ![]() |
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2 | 2 | ||||||
MIRT570659 | KDM6B | lysine demethylase 6B | ![]() |
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2 | 2 | ||||||
MIRT571076 | TCHHL1 | trichohyalin like 1 | ![]() |
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2 | 2 | ||||||
MIRT571330 | TPCN2 | two pore segment channel 2 | ![]() |
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2 | 2 | ||||||
MIRT571603 | TOB2 | transducer of ERBB2, 2 | ![]() |
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2 | 2 | ||||||
MIRT573013 | RPP25 | ribonuclease P and MRP subunit p25 | ![]() |
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2 | 2 | ||||||
MIRT609041 | EP300 | E1A binding protein p300 | ![]() |
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2 | 2 | ||||||
MIRT613398 | DNAH17 | dynein axonemal heavy chain 17 | ![]() |
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2 | 2 | ||||||
MIRT635589 | TTC9C | tetratricopeptide repeat domain 9C | ![]() |
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2 | 2 | ||||||
MIRT661118 | FPR1 | formyl peptide receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT690103 | PNMA2 | paraneoplastic Ma antigen 2 | ![]() |
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2 | 2 | ||||||
MIRT694972 | PLAC8 | placenta specific 8 | ![]() |
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2 | 2 | ||||||
MIRT695515 | ALPI | alkaline phosphatase, intestinal | ![]() |
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2 | 2 | ||||||
MIRT695578 | ASB16 | ankyrin repeat and SOCS box containing 16 | ![]() |
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2 | 2 | ||||||
MIRT699570 | SIT1 | signaling threshold regulating transmembrane adaptor 1 | ![]() |
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2 | 2 | ||||||
MIRT701991 | MIER3 | MIER family member 3 | ![]() |
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2 | 2 | ||||||
MIRT725464 | GRAP2 | GRB2-related adaptor protein 2 | ![]() |
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2 | 2 |
miRNA-Drug Associations | ||||||||||||||||||
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miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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