miRTarBase - #MIRT594081


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pre-miRNA Information
pre-miRNA mmu-mir-452   
Genomic Coordinates chrX: 72262224 - 72262308
Synonyms Mirn452, mmu-mir-452, Mir452
Description Mus musculus miR-452 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-452-3p
Sequence 53| UCAGUCUCAUCUGCAAAGAGGU |74
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Sema6d   
Synonyms 1110067B02Rik, AA409156, D330011G23, mKIAA1479
Description sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D
Transcript NM_172537   
Other Transcripts NM_199238 , NM_199239 , NM_199240 , NM_199241   
Expression
Putative miRNA Targets on Sema6d
3'UTR of Sema6d
(miRNA target sites are highlighted)		 
>Sema6d|NM_172537|3'UTR
   1 GCCTCAAGTATGCTATTCCCGTGTGGCTTTATCCTGTCCCTGCTGTTGCGAGGAAGCTGTGAGGGTACCTTCAGATGAGA
  81 TACCTGCTTGTATTTTAAGAGAAACAAGTAGCCAAAGAAACTCTGTCACTTTGGTAACACCAGAACTTGCCACATGTAGC
 161 TACTACAGCAAGGCTTCTGTGTACTTGCCGGAAACGAAGGGAGGTCCTGCTCACTCCATTTCTTTCGTTTGAAGCAGAAG
 241 GGATGTGTAGCCAGGGAAGGCTCCCTTCACCAGTGTAAAGAGCTGATACAGTACTCAGAAGACTGAACAAATACTTGAAA
 321 ATGGGTTCAATGTAGACTGCCATTCTGTGTGGTCTTCCCATTAAATGTGAACATTTTAATATGTATGCATTCACCTTGCC
 401 TCTTGCACAAATGTCAAAATGGAAAGATGGGAATGTCTCAAAACAAAATGAGCTTGGAGATTACCAAGCAGTTTGCTGAA
 481 AATTCAATCTTTGACCCAAACTGTAGCAATTTTTATTTTCTGAGTGTGGCACTGTTTTGTTTTATTTTTTTGTTTTGTTT
 561 TGTTTTTCAATGCCACCAACAAACTATGTTAAGAGAGGGGCGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
 641 TGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATCTACCCATTAGAATTGATTTAGGTGCCCATTGCA
 721 TCTTTTGTACTATGGAGTTGTTTACAGTAAGCATGACTGAACAAGCACTAACATCCTCCTACACCGGTCCATCGTGTTCG
 801 GCTCTGATCAGGAATAGACAAGGCTTCTTTGACTGTCAAGTGATTAACATATGGTACCCGGTGTCAGAACATTTAAGCGT
 881 TCTAAATAATTTTGTGCTGCTATCCATCAGAACGTCTATTCCAGCCTTGCCAGCTTAAGAACTTAGAGAAATTAAGAGGT
 961 ATCTTTGATGTATCTACCAGTATTCAATAGTAACATTTACCTGTCCACTGTGAATCAAAGCCTGGGGCACGCTACTCAAC
1041 CTTAGACACACTTACAGGCTTTTATTTTGATTGTGTTATTTTATTTTCCATACAGTAAAAAATGTCCTCTCTTAACTCCT
1121 CTCACCCCCAACTCCCAAGGCAAAAGAGAAACCAAAAGTAGGACAAAAGAAAGAGACAGACAGACAGACAGACAGAACAG
1201 GAATTACAGTTGGCTTAGCAGGGAGGATCTGTAGAGCTCTCGATGATCCTTCCTCCATGTGTGTCCTGTGAGGATTTTGC
1281 TCATGAGTCATGCAGGCAGTGACAGTGAACTGTAAATACCACATGTGAGTTTACCTGGATCTGTGCATTTTGTGCCTTAT
1361 TCACTCGAGTGGTAGAAGTTCCGCGGTATGTTGAGTGTTTCCACTACAGAGCATCATTTCCCATGTGCCACTTGTAAATG
1441 TTTTGCAGCCAGCACCTGAGGACTTCTTATACAGTCATAAAGCCACCTAGAGCGATTTGTTGTTGAGCAACGCCGCCCCT
1521 TCCCTCCAGGATCAGAAGCAGCACCCACCCTTGCCATGATAAACATTCCATCCCCTGCTGTTCTGATAATGTGAAGTCAG
1601 ATGAGGGTTCCCAGGTTATGTGGCACCTGCGGAAACCATGTCTAGAGTCGTTTCTATGTAGCTTGGCAGAGCCCACTGAT
1681 GGCTGCAGGTGTGTAGCCTACTGACAGCTTTGGTTAACCCACTGCACATCACCCAGTCATTTACCCAACTTACTCTAGAA
1761 ATGTCCACAGCTAAGGAAGGCTCCTGAGCCAGTCAGGCGGAGTTCAAGTGATATCTTGGGACAGTGACCATGGTCTGCAT
1841 TACTTGGGGGAGGATGGGGTACAAGACACCAGATCATTTTTATACAGGATGTAGAGTACTGATGCGGTTGATCTTTTCCT
1921 TCAAGAACATTCTTTTCTATAGAAAAATGATTCCCTGTGATCTTCTGGAAGCTCCAAAGCTGAAACCCTTCAGCTTTGCA
2001 ACTAAAAATATTACAGTTTAATAATCAATTAAACCAACCAACAATAAGCACTACACATCTGCCACCAACAATGTTGTTTG
2081 CATTTACCTTACCAATATTAATCCCAGCGTGGTAACTCTGTGTGACCCCGATAACATTTTGTAACATTGTGCTGCCTTAG
2161 AGTTTGTACTGTGAGTTCTATCAGTATTTATGTTGAAATTTCTAACATGGATTCTAGTCTCTATTCTGTTAATTTAATTT
2241 TAAATGCTTTATCCATTTGTGCAAAGGTAAACACAGATTGTATCTTTTTTAATGGTACGGCATAAAAAAATAACCCTAAA
2321 GTGAAGTGGCTCTATACTGTTTTATAGAGTACTTTAACGTGTATAGATATCTTGTAAACTTGTATTGTGGATGTGTAAAT
2401 AATATGTACTTTGGGTTTTTAACACCGCATGTAAAGTCAAAATAAAATATCCAAGTCATTACATCCTGCCTTTTGATGTT
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' uggagaaacGUCUACUCUGACu 5'
                   ||||  |||||| 
Target 5' tacagtactCAGA--AGACTGa 3'
 287 - 306 124.00 -12.50
2 
miRNA  3' ugGAGAAACGU-CUA---CUC-UGACu 5'
            :|:| | || |||   ||| |||| 
Target 5' atTTTTATACAGGATGTAGAGTACTGa 3'
 1876 - 1902 124.00 -10.40
3 
miRNA  3' uggaGAAACGUCUACUCU---GACu 5'
              |||  |||||||||   ||| 
Target 5' gtacCTT--CAGATGAGATACCTGc 3'
 65 - 87 122.00 -17.10
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions CD4+ T cells (C57BL/6)
Disease MIMAT0017194
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 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]
CLIP-seq Support 1 for dataset GSM4656408
Method / RBP HITS-CLIP / AGO
Cell line / Condition mouse liver / P7
Location of target site NM_199241 | 3UTR | AGAAGACUGAACAAAUACUUGAAAAU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE153876
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4656409
Method / RBP HITS-CLIP / AGO
Cell line / Condition mouse liver / Adult
Location of target site NM_199241 | 3UTR | AGAAGACUGAACAAAUACUUGAAAAU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE153876
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM1013598
Method / RBP HITS-CLIP / AGO2
Cell line / Condition CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep12
Location of target site NM_172537 | 3UTR | UACAGUACUCAGAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23142080 / GSE41285
CLIP-seq Viewer Link
26 mmu-miR-452-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT429003 Nfib nuclear factor I/B 2 2
MIRT577016 Vmp1 vacuole membrane protein 1 2 8
MIRT580097 Usp54 ubiquitin specific peptidase 54 2 2
MIRT581145 Senp1 SUMO1/sentrin specific peptidase 1 2 2
MIRT581215 Samd4 sterile alpha motif domain containing 4 2 2
MIRT582710 Lcorl ligand dependent nuclear receptor corepressor-like 2 6
MIRT583742 Ephb3 Eph receptor B3 2 10
MIRT583790 Elk4 ELK4, member of ETS oncogene family 2 2
MIRT584103 Csnk1e casein kinase 1, epsilon 2 6
MIRT587976 Armc1 armadillo repeat containing 1 2 2
MIRT590630 Arl5a ADP-ribosylation factor-like 5A 2 2
MIRT591969 Bbx bobby sox HMG box containing 2 2
MIRT591998 Wrn Werner syndrome RecQ like helicase 2 2
MIRT594081 Sema6d sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D 2 2
MIRT594218 Ube2k ubiquitin-conjugating enzyme E2K 2 2
MIRT594859 Nacc1 nucleus accumbens associated 1, BEN and BTB (POZ) domain containing 2 2
MIRT595550 Celf2 CUGBP, Elav-like family member 2 2 2
MIRT595570 Mtf1 metal response element binding transcription factor 1 2 2
MIRT596982 Tango6 transport and golgi organization 6 1 1
MIRT599081 Eid2b EP300 interacting inhibitor of differentiation 2B 2 2
MIRT599176 Dhdh dihydrodiol dehydrogenase (dimeric) 2 2
MIRT600982 Denr density-regulated protein 2 2
MIRT602199 Hlcs holocarboxylase synthetase (biotin- [propriony-Coenzyme A-carboxylase (ATP-hydrolysing)] ligase) 2 2
MIRT603280 Stambp STAM binding protein 2 2
MIRT603947 Grap2 GRB2-related adaptor protein 2 2 2
MIRT606257 Polr1e polymerase (RNA) I polypeptide E 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-452 Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-452 Phenethyl isothiocyanate(PEITC) NULL 16741 Microarray neonatal mice liver 20145010 2010 up-regulated
miR-452 Tert-butyl hydroperoxide (t-BHP) NULL 6410 Microarray mouse auditory cells 20510889 2010 down-regulated
miR-452 Reversine NULL 210332 Microarray C2C12 myoblast cells 24513286 2014 down-regulated

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