pre-miRNA Information | |
---|---|
pre-miRNA | hsa-mir-3152 |
Genomic Coordinates | chr9: 18573306 - 18573379 |
Description | Homo sapiens miR-3152 stem-loop |
Comment | Berezikov et al. proposed this sequence as a miRNA candidate based on the RAKE method . |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Mature miRNA | hsa-miR-3152-5p | ||||||||||||||||||||||||
Sequence | 11| AUUGCCUCUGUUCUAACACAAG |32 | ||||||||||||||||||||||||
Evidence | Experimental | ||||||||||||||||||||||||
Experiments | Illumina | ||||||||||||||||||||||||
SNPs in miRNA |
|
||||||||||||||||||||||||
Putative Targets |
miRNA Expression profile | |
---|---|
miRNAs in Extracellular Vesicles |
|
Circulating MicroRNA Expression Profiling |
Gene Information | |||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Symbol | C1orf115 | ||||||||||||||||||||
Synonyms | - | ||||||||||||||||||||
Description | chromosome 1 open reading frame 115 | ||||||||||||||||||||
Transcript | NM_024709 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on C1orf115 | |||||||||||||||||||||
3'UTR of C1orf115 (miRNA target sites are highlighted) |
>C1orf115|NM_024709|3'UTR 1 TGGGAGCTGCTGTGGCAGGTGCCCCCAGAGTGAACGGGAGCCCCTGCTGTGGGAACTTTGTGAATCCTGGAGCATCTCAG 81 ACTTGAACACACAGCATATTTGGAAGAGAAAACATGCCTTTCTTTGTTGAATCACATTAGTATGATGAGTGAGTCATCCC 161 TGCCCATCTGCTGAGCTTCTCACATCTCTCAGTCACACGTGGACCCAGTGGTCAATCCTGCAGAGAATTCGGCGGAGGTT 241 AGGTTTGGGAGTGGAGCTAGCGTGCTAAAGCCAGAGCCTTCACGTGAAGGTGGCAGGCACTGGGGCGGAAGCCAACACTC 321 AACAGATGCAAGCAGTGTGGGTGTGCAGCAGAACAGTGATCTTGGGGGAGGAAGAGGATGTTACTAGAGTCAGATGATTT 401 GCTGTATTCTCCTGAAAGGTCGTAGGCTGACAGGCGCTCACATTCCTTGGCTGCCTCGGTTCTGAGGGCAGCTAAGGAGC 481 TGTTTATTCCTCAAGTCATGCTCCCCGATCTCCTTCCTCTACCACTCTGTCACCAGGAGTTTAATTACAGGCTTGAGGAG 561 AAGAAAGGAAGAAAAGATATCTTGATGCTTTGAAAACTGTGTTGGCAGTGTGGCATGACTGTTTAAAGTAGATAAAACCT 641 TGTCATTTTACCCCATCCCTGCATGACTGTGAAGCTGGCGAGGAAGGAGGAAGAAGGGCAAGTTCAGATGCAGGCTGGGT 721 GGCTGGGACAGGTTGGCTAAGGGACTACTCTGGAGGGCTCTTCTGCCTGGCATTGCCCACTTCGGCCCAGCCACGTGTTT 801 GCAGCGACCAGAGTCCCTGCAAAGGTGTGGCTGGCTGTGGTCAGGGTGCTACTAGCACCATCAGCGCACTCCCGCCATTG 881 GCTCAGCTCCTCTCTGCCAGTCCAACTAAGAGTGCTTTGTCCTGGGTGGGACATAGGGGCTGAGAGAGATGGGGGGAGAC 961 ATAACACCCAGGAATGAAAATACAGATTTAGAGAAGGAACCAGTAAGTAGGAGACAGATGTGAAGGAAATGGAAATGAGG 1041 CAAGAGGACATTGGAAGAGAGAAGTTTGCTGTCCAGGAGCCAGGTCTGGAGCATCAGTGTGAGGGAGTTCAGGTAGGCTG 1121 GGCCTGTGCCTCTAGGTAGGGACAAGGGAGGCTGGGTAGCCAGGGCTGGTGCTTAAAACCCCTGAGGCCATGAGCTCATT 1201 GGCTGCCTTTGTAGCATCCTGTCTTCTTCTGTGCTGCCTGGTTTGATCTCATCTCACCTGGATTCAAAGGGTAAGGTGGG 1281 CATGGGTCTTGGGCCTGACACCCACCAAGGATGACCTGTGGACTGCCATCGGATGCTGAACAGGGAGATGAAAGGAGGTC 1361 CTCTTACCATACCCCTCTGCCAACCCCCCAGTAGGCCACTGTTCTGACTTTGTTTCCAGAATATCCAGAAATCCAAAGGG 1441 GCTGTTGCTGAACAGTCTGCAGGACCAGTGACAGCACCTACCTGTTGTCCCAAGGCATACAAAGGAGGCCTCAACGCTCA 1521 TGCTTCTCTAATCAAGCCCTACCAAGACAGACAGAAAGACAGACAGAAAAAAGGAAGGGGTAGAGGAGAAGGTTGAAGCT 1601 GTGGAGCTAGACTCTGCTTCACTTCCTGAAGCTTCAACTTCATGTCGAAGATTCACTGGGACCCAATTCCTGCATTGTTA 1681 ATATTTGTGAGGAAAAGTGAAACAAGTGATCTGGTTTTAGCCCAGATGATGAAAGTGGATATGGCACATTTTCACACACG 1761 TGAGATAATTACAGCTTGCCCCACAACACTGGGTGTTGGAGAAAGGGAGAGATAGTCATAAGTGGAAGAAAAAGCCAAGC 1841 ATAGTGAGTGGGAAAGAGAGTGAGAGCCTGTGCAGGCTGCTGACGAGCCCCAGGCAGCCCACAAGTTTCTCGTGGGGAGA 1921 TGGAGGCAGAGCCCAGGGTAGGGGACAGAGCTGCTGGGGCCTTTCCTTGCCTGGGAATCTGTCCCAGGAAGAGCTTCCCC 2001 ACTCCCATCCCCCAAATTGGAAAAACCGTACATTCAAGCCTGTTTGGCCCTGAAATTCTTAAGAATCTGGTTAAGAATTA 2081 ACTCACTAATGTCAAAAGTCAAAACCTCCTAGGGGTTGTCCTGGGAGTCAGGTTCACGGGTACAGAAGATGAATCTCAGA 2161 TGTCACTCAACCTGAGCCGTCATTCTCTGTGGCAGGGCTGCCCTGGGTTTCTCTTACTCAATCCCTGGAGTGTAAGCATT 2241 TGGATTGTGTCACAGATTACCTTTTTACCTTTTCTTTCTTTTTTTTTCTTTTTTTCAATATCAGTGCCCACACCTTACTG 2321 AGTATTGAGTTTTAGAGCTTTCGCTTGATGTGCTTGACCAAGAGACTTCTTTTGTATCCTTTTCTTGTCCTATGATGTAA 2401 ATAAAAGCCTCGATTTATGTAATGTTAAAAAAAAAAAAAAAAAA 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 | HeLa | ||||||
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 Chi_124A_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + A
... - Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature. |
||||||
miRNA-target interactions (Provided by authors) |
|
||||||
Article |
- Chi SW; Zang JB; Mele A; Darnell RB - Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
|
Experimental Support 2 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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb
... - 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 Chi_124A_2A8_130_50 | |
---|---|
Method / RBP | HITS-CLIP / AGO |
Cell line / Condition | HeLa / HeLa cell miR-124 + A |
Location of target site | ENST00000294889.5 | 3UTR | AAAUGAGGCAAGAGG |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 19536157 / Chi_HITSCLIP |
CLIP-seq Viewer | Link |
CLIP-seq Support 2 for dataset GSM1084065 | |
---|---|
Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | HEK293S / CLIP_emetine_AbnovaAb |
Location of target site | ENST00000294889.5 | 3UTR | AAGAGGACAUUGGAAGAGAGAAGUUUGCU |
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) | |||||||
---|---|---|---|---|---|---|---|
|
75 hsa-miR-3152-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
![]() |
![]() |
|||||||
Strong evidence | Less strong evidence | |||||||||||
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
|||||
MIRT092535 | KBTBD8 | kelch repeat and BTB domain containing 8 | ![]() |
![]() |
2 | 6 | ||||||
MIRT461731 | NDUFA2 | NADH:ubiquinone oxidoreductase subunit A2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT468456 | SET | SET nuclear proto-oncogene | ![]() |
![]() |
2 | 2 | ||||||
MIRT482192 | AHR | aryl hydrocarbon receptor | ![]() |
![]() |
2 | 2 | ||||||
MIRT507923 | BZW1 | basic leucine zipper and W2 domains 1 | ![]() |
![]() |
2 | 4 | ||||||
MIRT512208 | C18orf25 | chromosome 18 open reading frame 25 | ![]() |
![]() |
2 | 6 | ||||||
MIRT526238 | STARD4 | StAR related lipid transfer domain containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT536131 | MAPK14 | mitogen-activated protein kinase 14 | ![]() |
![]() |
2 | 2 | ||||||
MIRT536280 | LIMA1 | LIM domain and actin binding 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT544251 | LRIF1 | ligand dependent nuclear receptor interacting factor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT548054 | GOLGA7 | golgin A7 | ![]() |
![]() |
2 | 2 | ||||||
MIRT563443 | ISCA1 | iron-sulfur cluster assembly 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT565643 | SIX4 | SIX homeobox 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT614870 | PDE12 | phosphodiesterase 12 | ![]() |
![]() |
2 | 2 | ||||||
MIRT614923 | MARCH6 | membrane associated ring-CH-type finger 6 | ![]() |
![]() |
2 | 2 | ||||||
MIRT615793 | FAM124A | family with sequence similarity 124 member A | ![]() |
![]() |
2 | 2 | ||||||
MIRT618557 | VLDLR | very low density lipoprotein receptor | ![]() |
![]() |
2 | 2 | ||||||
MIRT622147 | SORBS2 | sorbin and SH3 domain containing 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT622390 | RSBN1 | round spermatid basic protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT624185 | DDX19B | DEAD-box helicase 19B | ![]() |
![]() |
2 | 2 | ||||||
MIRT624448 | CALCOCO2 | calcium binding and coiled-coil domain 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT625340 | TAPBP | TAP binding protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT625370 | IRGQ | immunity related GTPase Q | ![]() |
![]() |
2 | 2 | ||||||
MIRT627276 | WSB1 | WD repeat and SOCS box containing 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT627746 | RAD54L2 | RAD54 like 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT629578 | RFC2 | replication factor C subunit 2 | ![]() |
![]() |
2 | 4 | ||||||
MIRT630537 | LGALS8 | galectin 8 | ![]() |
![]() |
2 | 4 | ||||||
MIRT630559 | C3orf36 | chromosome 3 open reading frame 36 | ![]() |
![]() |
2 | 4 | ||||||
MIRT630568 | SOWAHA | sosondowah ankyrin repeat domain family member A | ![]() |
![]() |
2 | 4 | ||||||
MIRT630763 | MSANTD3 | Myb/SANT DNA binding domain containing 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT635424 | LRP10 | LDL receptor related protein 10 | ![]() |
![]() |
2 | 2 | ||||||
MIRT636011 | GNPNAT1 | glucosamine-phosphate N-acetyltransferase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT636337 | PHAX | phosphorylated adaptor for RNA export | ![]() |
![]() |
2 | 2 | ||||||
MIRT638413 | POU3F2 | POU class 3 homeobox 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT639358 | INIP | INTS3 and NABP interacting protein | ![]() |
![]() |
2 | 2 | ||||||
MIRT642124 | DYRK1A | dual specificity tyrosine phosphorylation regulated kinase 1A | ![]() |
![]() |
2 | 4 | ||||||
MIRT642828 | KIAA0319 | KIAA0319 | ![]() |
![]() |
2 | 2 | ||||||
MIRT644017 | NUCB1 | nucleobindin 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT644038 | WWC2 | WW and C2 domain containing 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT644153 | GIN1 | gypsy retrotransposon integrase 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT644649 | SNX9 | sorting nexin 9 | ![]() |
![]() |
2 | 2 | ||||||
MIRT645798 | OMA1 | OMA1 zinc metallopeptidase | ![]() |
![]() |
2 | 2 | ||||||
MIRT647633 | FAIM2 | Fas apoptotic inhibitory molecule 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT648528 | KIAA1143 | KIAA1143 | ![]() |
![]() |
2 | 2 | ||||||
MIRT648851 | PDLIM3 | PDZ and LIM domain 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT648880 | TUBGCP5 | tubulin gamma complex associated protein 5 | ![]() |
![]() |
2 | 2 | ||||||
MIRT650777 | TNFRSF10A | TNF receptor superfamily member 10a | ![]() |
![]() |
2 | 2 | ||||||
MIRT654200 | RNF19B | ring finger protein 19B | ![]() |
![]() |
2 | 2 | ||||||
MIRT654508 | RAB5B | RAB5B, member RAS oncogene family | ![]() |
![]() |
2 | 2 | ||||||
MIRT655249 | PEX26 | peroxisomal biogenesis factor 26 | ![]() |
![]() |
2 | 2 | ||||||
MIRT656089 | MTA3 | metastasis associated 1 family member 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT656599 | LRRC55 | leucine rich repeat containing 55 | ![]() |
![]() |
2 | 2 | ||||||
MIRT659194 | CYBB | cytochrome b-245 beta chain | ![]() |
![]() |
2 | 2 | ||||||
MIRT660000 | C1orf115 | chromosome 1 open reading frame 115 | ![]() |
![]() |
2 | 4 | ||||||
MIRT661715 | KLF8 | Kruppel like factor 8 | ![]() |
![]() |
2 | 2 | ||||||
MIRT661813 | PRPSAP1 | phosphoribosyl pyrophosphate synthetase associated protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT668360 | FGD4 | FYVE, RhoGEF and PH domain containing 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT679734 | CABP4 | calcium binding protein 4 | ![]() |
![]() |
2 | 2 | ||||||
MIRT708616 | NUDT18 | nudix hydrolase 18 | ![]() |
![]() |
2 | 2 | ||||||
MIRT709034 | TROVE2 | TROVE domain family member 2 | ![]() |
![]() |
2 | 2 | ||||||
MIRT709573 | DMGDH | dimethylglycine dehydrogenase | ![]() |
![]() |
2 | 2 | ||||||
MIRT709665 | AJAP1 | adherens junctions associated protein 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT709874 | TRAF1 | TNF receptor associated factor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT710821 | NLRP12 | NLR family pyrin domain containing 12 | ![]() |
![]() |
2 | 2 | ||||||
MIRT710883 | PARL | presenilin associated rhomboid like | ![]() |
![]() |
2 | 2 | ||||||
MIRT711547 | LCAT | lecithin-cholesterol acyltransferase | ![]() |
![]() |
2 | 2 | ||||||
MIRT712017 | STX1B | syntaxin 1B | ![]() |
![]() |
2 | 2 | ||||||
MIRT713058 | BLVRA | biliverdin reductase A | ![]() |
![]() |
2 | 2 | ||||||
MIRT713129 | THRB | thyroid hormone receptor beta | ![]() |
![]() |
2 | 2 | ||||||
MIRT713878 | MOB3A | MOB kinase activator 3A | ![]() |
![]() |
2 | 2 | ||||||
MIRT714154 | NXPH3 | neurexophilin 3 | ![]() |
![]() |
2 | 2 | ||||||
MIRT719755 | FLYWCH1 | FLYWCH-type zinc finger 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT720213 | KCNK1 | potassium two pore domain channel subfamily K member 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT722728 | BRMS1 | breast cancer metastasis suppressor 1 | ![]() |
![]() |
2 | 2 | ||||||
MIRT725652 | ABI2 | abl interactor 2 | ![]() |
![]() |
2 | 2 |