pre-miRNA Information | |
---|---|
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 | |
---|---|
Mature miRNA | hsa-miR-3180-3p |
Sequence | 62| UGGGGCGGAGCUUCCGGAGGCC |83 |
Evidence | Experimental |
Experiments | Illumina |
Putative Targets |
miRNA Expression profile | |
---|---|
Human miRNA Tissue Atlas | |
miRNAs in Extracellular Vesicles |
|
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | OLR1 | ||||||||||||||||||||
Synonyms | CLEC8A, LOX1, LOXIN, SCARE1, SLOX1 | ||||||||||||||||||||
Description | oxidized low density lipoprotein receptor 1 | ||||||||||||||||||||
Transcript | NM_001172632 | ||||||||||||||||||||
Other Transcripts | NM_001172633 , NM_002543 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on OLR1 | |||||||||||||||||||||
3'UTR of OLR1 (miRNA target sites are highlighted) |
>OLR1|NM_001172632|3'UTR
1 AGTCCGAGGCGCTGTCTCCCAGACATACCCTTCAGGTACCTGTGCATATATACAACGAGGAGCTGTTTATGCGGAAAACT
81 GCATTTTAGCTGCCTTCAGTATATGTCAGAAGAAGGCAAACCTAAGAGCACAGTGAATTTGAAGGCTCTGGAAGAAAAGA
161 AAAAAGTCTTTGAGTTTTATTCTGGAATTTAAGCTATTCTTTGTCACTTGGGTGCCAAACATGAGAGCCCAGAAAACTGT
241 CATTTAGCTGGCTGCAGAACTCCTTTGCAGAAACTGGGGTTCCAGGTGCCTGGCACCTTTATGTCAACATTTTTGATTCT
321 AGCTACCTGTATTATTTCACCTAGCTTGTCCCAAGCTTCCCTGCCAGCCTGAAGTCCATTTTCCCCTTTTTATTTTAAAA
401 TTTGACTCCTCTTCAAGCTTGAAAACCCTCTGAACTCAGTCTTCTTTACCTCATTATCACCTTCCCCTCACACTCCTAAA
481 ATTGCATGAAAGACAGAACATGGAGAACTTGCTCAAGTGCAGGCAGAGAGCAAAAAGGGGAAATATGTCTGGGAAAAAGT
561 GCACGTGAAGAAACAAAGAAGGACAGAGGCCATTCCGAAATCAAGAAACTCATGTTCTTAACTTTAAAAAAGGTATCAAT
641 CCTTGGTTTTTAAACTGTGGTCCATCTCCAGACTCTACCACTTACGGACAGACAGACAGACAGACACACACACACACACA
721 CACACACATTTTGGGACAAGTGGGGAGCCCAAGAAAGTAATTAGTAAGTGAGTGGTCTTTTCTGTAAGCTAATCCACAAC
801 CTGTTACCACTTCCTGAATCAGTTATTATTTCTTCATTTTTTTTTCTACCAGAGGACAGATTAATAGATTTAACCCTTCA
881 CAACAGTTCTTGTTAGAATCATGGGATGTGTGGCCCAGAGGTAAGAATAGAATTTCTTTCCCTAAAGAACATACCTTTTG
961 TAGATGAACTCTTCTCAACTCTGTTTTGCTATGCTATAATTCCGAAACATACAAGACAAAAAAAATGAAGACACTCAATC
1041 TAGAACAAACTAAGCCAGGTATGCAAATATCGCTGAATAGAAACAGATGGAATTAGAAATATATCTTCTATTTTTAGGCT
1121 TCTATTTCCTTTCCACCCACTCTTCACAGGCTATTCTACTTTAAAGGAAGCCTTTTTATTTTGCTGCACACAATCTAGCA
1201 GGAATCTTTTTTTTTTTTTAAGAGCTGTGTCATCCTTATGTAGGCAAGAGATGTTTGCTTTTGTTAAAAGCTTTATTGAG
1281 ATATAATTAACATAAAATAAACTGAACATATTTAAAGTGTACTATTTGATAAGTTTTCACACCTTGTGGAGAACATGCAT
1361 ACTACAATTAAGAGAGTGAACATATCCATCATCCCTCAAAGTGTCACAATGCTCCTCCTGATGACTCCTCCCCAGAAAAC
1441 CACCAATCGGCTTTCATTTTGCATTTTGTAGTTTTATGTGAATGGAATCATATAGTATGTCTTTTTTTTTTGTCTGGCTT
1521 CTTTCACTTTGCATAATTATTTTGAGATTCATATGTCTCCATCTTGATGCTCGTATGAATTCATTCTTTTAAATGTTGAA
1601 TATTCCCTTGTATGGATATACCACAATTCATTTACCCATTTACTTGTTGATGACATTTGGGTTGTTTTAGTTTTGGGATA
1681 TTACAAATAAAGCTGCTGTGAACATTTGTGTACAAGAAAAAAAAAAAAAAAAA
Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
|
||||||||||||||||||||
miRNA-target interactions (Predicted by miRanda) |
|
||||||||||||||||||||
DRVs in gene 3'UTRs | |||||||||||||||||||||
SNPs in gene 3'UTRs |
Experimental Support 1 for Functional miRNA-Target Interaction | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
miRNA:Target | ---- | |||||||||
Validation Method |
|
|||||||||
Conditions | HEK293S | |||||||||
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 GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
|||||||||
miRNA-target interactions (Provided by authors) |
|
|||||||||
Article |
- Karginov FV; Hannon GJ - Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
|
CLIP-seq Support 1 for dataset GSM1084047 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_arsenite_rep4 |
Location of target site | ENST00000543993.1 | 3UTR | UUCUGAAAGUGCUGGGAUUACAGGCGUGAGCCACCGCCCC |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23824327 / GSE44404 |
CLIP-seq Viewer | Link |
MiRNA-Target Expression Profile | |||||||
---|---|---|---|---|---|---|---|
|
MiRNA-Target Expression Profile (TCGA) | |||||||
---|---|---|---|---|---|---|---|
|
66 hsa-miR-3180-3p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT133792 | SKI | SKI proto-oncogene | ![]() |
![]() |
2 | 2 | ||||||
MIRT146658 | MINK1 | misshapen like kinase 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT441337 | C19orf26 | CACN beta subunit associated regulatory protein | ![]() |
![]() |
2 | 4 | ||||||
MIRT449088 | XPO6 | exportin 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT464967 | TULP1 | tubby like protein 1 | ![]() |
![]() |
2 | 6 | ||||||
MIRT471706 | OTUB1 | OTU deubiquitinase, ubiquitin aldehyde binding 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT473252 | MIDN | midnolin | ![]() |
![]() |
2 | 2 | ||||||
MIRT483494 | STMN3 | stathmin 3 | ![]() |
![]() |
2 | 4 | ||||||
MIRT483726 | THSD4 | thrombospondin type 1 domain containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT485684 | CCDC64 | BICD family like cargo adaptor 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT486046 | WSCD1 | WSC domain containing 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT486522 | CLCN7 | chloride voltage-gated channel 7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT486779 | SESTD1 | SEC14 and spectrin domain containing 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT486852 | DPF1 | double PHD fingers 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT487035 | C10orf55 | chromosome 10 open reading frame 55 | ![]() |
![]() |
2 | 2 | ||||||
MIRT487082 | C3orf36 | chromosome 3 open reading frame 36 | ![]() |
![]() |
2 | 2 | ||||||
MIRT487284 | AGPAT6 | glycerol-3-phosphate acyltransferase 4 | ![]() |
![]() |
2 | 4 | ||||||
MIRT487992 | RXRB | retinoid X receptor beta | ![]() |
![]() |
2 | 2 | ||||||
MIRT488101 | POU3F1 | POU class 3 homeobox 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT488547 | POU3F3 | POU class 3 homeobox 3 | ![]() |
![]() |
2 | 8 | ||||||
MIRT488582 | ST7L | suppression of tumorigenicity 7 like | ![]() |
![]() |
2 | 2 | ||||||
MIRT488757 | FXYD1 | FXYD domain containing ion transport regulator 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT489217 | ASCL2 | achaete-scute family bHLH transcription factor 2 | ![]() |
![]() |
2 | 4 | ||||||
MIRT489350 | SYNGR1 | synaptogyrin 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT489385 | RAB11B | RAB11B, member RAS oncogene family | ![]() |
![]() |
2 | 2 | ||||||
MIRT489459 | MSC | musculin | ![]() |
![]() |
2 | 2 | ||||||
MIRT489469 | SLITRK5 | SLIT and NTRK like family member 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT489749 | TACC3 | transforming acidic coiled-coil containing protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT490244 | MFI2 | melanotransferrin | ![]() |
![]() |
2 | 2 | ||||||
MIRT490423 | VPS51 | VPS51, GARP complex subunit | ![]() |
![]() |
2 | 4 | ||||||
MIRT490644 | FEM1A | fem-1 homolog A | ![]() |
![]() |
2 | 2 | ||||||
MIRT491977 | UNK | unkempt family zinc finger | ![]() |
![]() |
2 | 2 | ||||||
MIRT492469 | RASD1 | ras related dexamethasone induced 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT492837 | NRGN | neurogranin | ![]() |
![]() |
2 | 2 | ||||||
MIRT492956 | NEUROD2 | neuronal differentiation 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT493002 | NANOS1 | nanos C2HC-type zinc finger 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT493430 | KCNK3 | potassium two pore domain channel subfamily K member 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT493709 | H2AFX | H2A histone family member X | ![]() |
![]() |
2 | 6 | ||||||
MIRT493886 | FAM43A | family with sequence similarity 43 member A | ![]() |
![]() |
2 | 4 | ||||||
MIRT493955 | ENG | endoglin | ![]() |
![]() |
2 | 2 | ||||||
MIRT500168 | MSI1 | musashi RNA binding protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT500196 | MAPK8IP3 | mitogen-activated protein kinase 8 interacting protein 3 | ![]() |
![]() |
2 | 4 | ||||||
MIRT500366 | ZNF385A | zinc finger protein 385A | ![]() |
![]() |
2 | 2 | ||||||
MIRT501159 | SLC10A7 | solute carrier family 10 member 7 | ![]() |
![]() |
2 | 6 | ||||||
MIRT501698 | PCGF3 | polycomb group ring finger 3 | ![]() |
![]() |
2 | 6 | ||||||
MIRT512173 | CASP16 | caspase 16, pseudogene | ![]() |
![]() |
2 | 6 | ||||||
MIRT512237 | ATG2A | autophagy related 2A | ![]() |
![]() |
2 | 6 | ||||||
MIRT512879 | PITX3 | paired like homeodomain 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT531184 | SIGLEC12 | sialic acid binding Ig like lectin 12 (gene/pseudogene) | ![]() |
![]() |
2 | 2 | ||||||
MIRT548362 | ENTPD5 | ectonucleoside triphosphate diphosphohydrolase 5 | ![]() |
![]() |
2 | 4 | ||||||
MIRT569093 | FSCN1 | fascin actin-bundling protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT574133 | MARVELD1 | MARVEL domain containing 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT635542 | LEPROTL1 | leptin receptor overlapping transcript like 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT654098 | RSBN1L | round spermatid basic protein 1 like | ![]() |
![]() |
2 | 2 | ||||||
MIRT664919 | BHMT2 | betaine--homocysteine S-methyltransferase 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT669843 | OLR1 | oxidized low density lipoprotein receptor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT670502 | LYRM4 | LYR motif containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT670526 | SLC9A7 | solute carrier family 9 member A7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT670550 | SHISA2 | shisa family member 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT671031 | PCDHB2 | protocadherin beta 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT695219 | SCAMP3 | secretory carrier membrane protein 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT700129 | RNF144B | ring finger protein 144B | ![]() |
![]() |
2 | 2 | ||||||
MIRT709280 | MAPK8IP2 | mitogen-activated protein kinase 8 interacting protein 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT712750 | GMDS | GDP-mannose 4,6-dehydratase | ![]() |
![]() |
2 | 2 | ||||||
MIRT720753 | FAM193A | family with sequence similarity 193 member A | ![]() |
![]() |
2 | 2 | ||||||
MIRT724920 | VPS18 | VPS18, CORVET/HOPS core subunit | ![]() |
![]() |
2 | 2 |
miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|