miRTarBase - #MIRT009947


—
pre-miRNA Information
pre-miRNA mmu-mir-17   
Genomic Coordinates chr14: 115043671 - 115043754
Synonyms Mirn17, mmu-mir-17, Mir17
Description Mus musculus miR-17 stem-loop
Comment Mouse mir-17 is predicted .
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-17-5p
Sequence 14| CAAAGUGCUUACAGUGCAGGUAG |36
Evidence Experimental
Experiments Cloned
Putative Targets

Biomarker Information
Biomarker ID Name Type Discovered From Mode Level Source Testing Methods
B0I1LA miR-17 Predictive Biomarker (PRD) Clinical/Experimental Data Expression Decrease Tumor tissue Quantitative real-time PCR
BL85QR miR-17-5p Safety Biomarker (SAF) Clinical/Experimental Data Expression Increase Urine Real-time polymerase chain reaction
Gene Information
Gene Symbol Rab30   
Synonyms 5033421K01Rik, AI323892, Rsb30
Description RAB30, member RAS oncogene family
Transcript NM_029494   
Expression
Putative miRNA Targets on Rab30
3'UTR of Rab30
(miRNA target sites are highlighted)		 
>Rab30|NM_029494|3'UTR
   1 AGGCTGAGGCAAAGAGAATCAAAGGGAATCAGTAGTTGCCTTGGTGGGCCGTACGTTGCTAGGGAATCTGGCAATGACTA
  81 TGGCTCCCGCTCTTGGACCTTCTGACTCCTGTAGGCTCCAGAGCTTACCAAGCATGCAGGCCAAGGGCCTTGACTGCAGG
 161 CCAGCATTAGCAGAACACATAATGGTTTCACCCTTTTGCAGTCTGGCGTTGGAGCAAGGAGAAAATTGCACTAAGCGCTC
 241 CATGATCTGCAGAGCATGTTGCTTTTGTTTTTAAAAAAGCAAGTAAAAAATGCATTCCTGAACACAGAGCAGGGGATCGT
 321 GTACTGTAGGAATCCTTCTGTGTGTCAGCGGGTGCATGAGGGGCTATTCTTTAGGCTTCAGTGGTAATCTGGTGCCCATG
 401 GATTTCTTGACTACCAGGTAAACCAAAACTGGAAAGGCCAAGTACTGTCTCTGTAGTACTTATTGAGGACCCCATGGAGA
 481 TTTTGAAAAGTGTTATTTCTTTTGTCCACAAGCACTTTCAAAACCTTTGGGATATAAAAATGGGAACTCTTCTCACGACC
 561 AACAGTAAAAATTATTGTTTAACAATATATACAAGCTCCATGACTCTTTTTGGTGCTAATGATTATGCTATTTCACAGAC
 641 CAAACGTTTTAGTACATTGATACCCTTAGATGTATTACCTAAAAATAAAAAGAGAATGGGGGAAATCCATGAGTCAGCAG
 721 TCTTCTTCAGTCTCATTACCACCATTTCTAGGATGGGTTTGGATATGAGAAGCCCTTCTTCTTTCATATTCTCCTTGAAA
 801 TTTATTAACATTCTTCTATTCTTTCACACTTATCGTGCCCTTTAGGTAAATCAAAGTATTAAAAAAATGGGGAAAAATAT
 881 AAATTATGACATTCTAATAAAGAAGATTAGTTGTAGGACATGTTGAGTAGCATGAGAAAACAGAGCAGATATGACCAAAA
 961 TACTGTGGACTATGGACTGACTGCAGGGCAGACTTCCAGACAGAGTGCAGCTCTCTAACAGGTCACGCCTTTTCCTTTCG
1041 GGAACTAGCCTTGGAGAGGCCAAGGTTTAGGATTTTGTAGACATTTTTAGTATAATAAGTGAGAATAGCAAGAGATGAAA
1121 AGTCTCACAAATCATTTTTGTATCTTCAATAAACTTAGGAAAGTGTGCTCAGGAAGCAAAAAAAAAAAAAAAAAAAAAAA
1201 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' gaUGGACGUGACA----UUCGUGAAAc 5'
            |::| : :|||    ||||||||| 
Target 5' ttATTTCTTTTGTCCACAAGCACTTTc 3'
 493 - 519 159.00 -11.00
2 
miRNA  3' gaugGAC-GUGACAUUCGUGAAac 5'
              ||| | |||| ||:||||  
Target 5' agtaCTGTCTCTGT-AGTACTTat 3'
 441 - 463 130.00 -14.30
3 
miRNA  3' gaUGGACGUGACAUUCGUGAaac 5'
            | :|||||  |||||:||   
Target 5' aaAATTGCAC--TAAGCGCTcca 3'
 222 - 242 117.00 -15.12
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
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]