miRTarBase - #MIRT593651


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pre-miRNA Information
pre-miRNA mmu-mir-1948   
Genomic Coordinates chr18: 12714811 - 12714895
Synonyms mmu-mir-1948, Mir1948
Description Mus musculus miR-1948 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-1948-3p
Sequence 52| UUUAGGCAGAGCACUCGUACAG |73
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Stk3   
Synonyms 0610042I06Rik, MST, Mst2, Mst3, Ste20, mess1
Description serine/threonine kinase 3
Transcript NM_019635   
Expression
Putative miRNA Targets on Stk3
3'UTR of Stk3
(miRNA target sites are highlighted)		 
>Stk3|NM_019635|3'UTR
   1 CCAGATTCCCTCTGTCTCAGGATGACCAGAAACCAAGCAACCACAAGAATTGAAGGAATTCTACTTTTTAATCCCTAAAA
  81 TGTATATTCTACAATTTTTTAAAACTCAAAAATGATGGTACACACCTAGATAAATTTCCCAAAAGCAAACTTTACAGTTG
 161 TCTCCACTCTGATGTCGTTTTGAAAGGATGAGAACAACAAACGTGCGCACTTCTCTCTCTGCCTGCTATTCCACCTGCAA
 241 GAGAACTAATCTAAAATGAAAGCTGTATGTGGAGACTAGAAATCCAAAGCTGTTGCTTAGTCAATCATACAGCACTGGAG
 321 GGCTTTGTGTTCCAATGTCCTTTATTCCTATGGAGAAGCCTATTTATTGATCCCCCTCCCACCCCCCAGGTAGACTTATT
 401 TATTTATGCAGTTTCACTTTCTTGGGGTTTTTTTGTTTTTTTTAAGACCAGATCAGGATAGTTTTGGTGAATGTCCAGAC
 481 ACATTGCGGATTATAACACACAACCAAATTGTACACTAAGCAGGGAGCTCTGAGTGTACTCCTTCAACTCCAATAGACAC
 561 AAAGTCATGGCTGTAATGTTCAAATGGACCAGACATTTTATACTGAAGACTTAATACCATTTCTACCTTTTGAAGTGTTA
 641 ATTCCTGATTTTGATATTGGTAAAAATAAAACTATATATACATAGGTCAAAAAGAGTACAGTGTAAAACCAAAGAAATCA
 721 ATGAACTCTTGCACGAAAAAGTGTGGGAAATATTTTTAAAGACATGAAACTGAGGGAAAAAAATGTAATTGTTAATGTTT
 801 CTTTTATTGGTCTGCAATAACTCATCAGGTTTATCCTATGGGAATATGCTTCTGTCACAGGACTTTTTGTTGATTTCATT
 881 TATTTCCTGGGAATTGGTAAGCATCATGTATCTGACAATAAAACAGTAAAAACAAAAACAAAAACTTTTATACTAAAAAC
 961 TGTATCCTTAGGGCCTAAAAAAAAAAAAATTAAAGTATTAGAAAAAGACTCATTTCTGCAGAGCATTAGCATTTGTGTAA
1041 TTGACCTGGGACCAGTCATTTCCTGCACTACACATGTCCTTTTTGACTGTGTGTGTGTGTTCTTTTATGTGTTAATTACT
1121 ATGTGTGCCTCACAAAGACAAATAAATTCCATTGTGCCACCCAAAAAAAAAAAAAAAAAA
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' gaCAUGC-UCA----CGAGACGGAUuu 5'
            ||:|| | |     ||||||||:  
Target 5' acGTGCGCACTTCTCTCTCTGCCTGct 3'
 201 - 227 122.00 -16.42
2 
miRNA  3' gacAUGCUCACGAGACGGAUUu 5'
             ||| | || | ||||| | 
Target 5' aatTACTA-TG-TGTGCCTCAc 3'
 1114 - 1133 121.00 -7.24
3 
miRNA  3' gacaugcucacgagaCGGAUUu 5'
                         |||||| 
Target 5' aactgtatccttaggGCCTAAa 3'
 958 - 979 120.00 -12.69
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0009415
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 GSM1013576. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013582. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013588. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013594. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013595. RNA binding protein: AGO2. Condition:CD4+ T cells "HITS-CLIP data was present in GSM1013598. RNA binding protein: AGO2. Condition:CD4+ T cells ...

- Loeb GB; Khan AA; Canner D; Hiatt JB; et al., 2012, Molecular cell.

Article - Loeb GB; Khan AA; Canner D; Hiatt JB; et al.
- Molecular cell, 2012
MicroRNAs (miRNAs) are essential components of gene regulation, but identification of miRNA targets remains a major challenge. Most target prediction and discovery relies on perfect complementarity of the miRNA seed to the 3' untranslated region (UTR). However, it is unclear to what extent miRNAs target sites without seed matches. Here, we performed a transcriptome-wide identification of the endogenous targets of a single miRNA-miR-155-in a genetically controlled manner. We found that approximately 40% of miR-155-dependent Argonaute binding occurs at sites without perfect seed matches. The majority of these noncanonical sites feature extensive complementarity to the miRNA seed with one mismatch. These noncanonical sites confer regulation of gene expression, albeit less potently than canonical sites. Thus, noncanonical miRNA binding sites are widespread, often contain seed-like motifs, and can regulate gene expression, generating a continuum of targeting and regulation.
LinkOut: [PMID: 23142080]
9 mmu-miR-1948-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT580248 Trp63 transformation related protein 63 1 1
MIRT581816 Pkp1 plakophilin 1 1 3
MIRT593625 Tor1b torsin family 1, member B 1 1
MIRT593651 Stk3 serine/threonine kinase 3 1 1
MIRT594708 Irf2bpl interferon regulatory factor 2 binding protein-like 1 1
MIRT596077 Ttbk2 tau tubulin kinase 2 1 1
MIRT599656 B3galtl beta-3-glucosyltransferase 1 1
MIRT600593 Nfib nuclear factor I/B 1 1
MIRT604517 1700094D03Rik RIKEN cDNA 1700094D03 gene 1 1

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