miRTarBase - #MIRT591263


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pre-miRNA Information
pre-miRNA mmu-mir-883b   
Genomic Coordinates chrX: 66789890 - 66789967
Description Mus musculus miR-883b stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-883b-5p
Sequence 11| UACUGAGAAUGGGUAGCAGUCA |32
Evidence Experimental
Experiments Cloned
Putative Targets

Gene Information
Gene Symbol Lars2   
Synonyms AI035546, Kiaa0028, LEURS
Description leucyl-tRNA synthetase, mitochondrial
Transcript NM_153168   
Expression
Putative miRNA Targets on Lars2
3'UTR of Lars2
(miRNA target sites are highlighted)		 
>Lars2|NM_153168|3'UTR
   1 CCAGGGCTTCTAGGACCCTCCTTCTCTGCCCAGATCAAGGGAAGGAATGTTAACGTGGGAAAAAAGGCAAACATCAGGGA
  81 CATTGGCCTTTGTGCCAGGACCAGCAGGAGTCAGCAGGAGGCCTAAGGCGAGCTCAGGGAGGACAGAAACCTCCCGTGGA
 161 GCAGAAGGGCAAAAGCTCGCTTGATCTTGATTTTCAGTAGGAATACAGACCGTGAAAGCGGGGCCTCACGATCCTTCTGA
 241 CCTTTTGGGTTTTAAGCAGGATGTGTCAGAAAAGTTACCACAGGGATAACTGGCTTGTGGCGGCCAAGCGTTCATAGCGA
 321 CGTCGCTTTTTGATCCTTCGATGTCGGCTCTTCCTATCATTGTGAAGCAGAATTCACCAAGCGTTGGATTGTTCACCCAC
 401 TAATAGGGAACGTGAGCTGGGATTAGACCGTCGTGAGACAGGTTAGTTTTACCCTACTGATGATGTGTTGTTGCCATGGT
 481 AATCCTGCTCAGTACGAGAGGAACCGCAGCTAGCTTGTGTCTCCAGTGTCTTTTACCATCACAGGCCCTGGCTCTGTGCT
 561 ACCTCCCTAGAATACCTGTGGTTCATCACCTTCAGCTCACACTCCATTCAGACAATGCTCACTTAGGCCTACAAGCAAGG
 641 GAGAGGCTTAAGCACAAGGTCTTTAAGCTTGATACTGTGCCTGGTCTCAATGCCTAGAAATTCCAACTTAACTGTCGCTA
 721 TCATAAAGGATTTTAAATTTTTTTACAAGTGAGAACCTAGCATGTCAAGGTCCTAGGTTCCATCTCCAACACGAAAAAAG
 801 CAAGGCAACTCTACCAAAGAAACTAATTACATACTTGTATTCCCAATATGTGAGAAGCTGAGGAAGGAGGATCATGAGTT
 881 TAAAGCCATCCTTGGTTACATGAGACTCTTGTCTCAAAGAACTACCAGGGATCCTAATGGACAACAAAGGTTGAAAACCA
 961 TTGAATTAATAAATGTTGTGAACCATAATTTCTACCC
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' acUGA-CGA--UGGG--UAAGAGUCAu 5'
            :|| |||  |:|:  |||:||||| 
Target 5' aaGCTCGCTTGATCTTGATTTTCAGTa 3'
 173 - 199 144.00 -13.20
2 
miRNA  3' acUGACGAUGGGUAAGAGUCAu 5'
            |||| |:||:: ||||| | 
Target 5' atACTG-TGCCTGGTCTCAATg 3'
 672 - 692 135.00 -14.60
3 
miRNA  3' acugACGAUGGGUAAGAGUCAu 5'
              || || :| | |||||| 
Target 5' gccaTGGTAATCCTGCTCAGTa 3'
 473 - 494 130.00 -14.50
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions mESCs
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 GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622573. RNA binding protein: AGO2. Condition:KO1 ...

- Leung AK; Young AG; Bhutkar A; Zheng GX; et al., 2011, Nature structural & molecular biology.

Article - Leung AK; Young AG; Bhutkar A; Zheng GX; et al.
- Nature structural & molecular biology, 2011
MicroRNAs (miRNAs) are 19-22-nucleotide noncoding RNAs that post-transcriptionally regulate mRNA targets. We have identified endogenous miRNA binding sites in mouse embryonic stem cells (mESCs), by performing photo-cross-linking immunoprecipitation using antibodies to Argonaute (Ago2) followed by deep sequencing of RNAs (CLIP-seq). We also performed CLIP-seq in Dicer(-)/(-) mESCs that lack mature miRNAs, allowing us to define whether the association of Ago2 with the identified sites was miRNA dependent. A significantly enriched motif, GCACUU, was identified only in wild-type mESCs in 3' untranslated and coding regions. This motif matches the seed of a miRNA family that constitutes ~68% of the mESC miRNA population. Unexpectedly, a G-rich motif was enriched in sequences cross-linked to Ago2 in both the presence and absence of miRNAs. Expression analysis and reporter assays confirmed that the seed-related motif confers miRNA-directed regulation on host mRNAs and that the G-rich motif can modulate this regulation.
LinkOut: [PMID: 21258322]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions Liver
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 ERR266298. RNA binding protein: AGO2. Condition:A_Untreated HITS-CLIP data was present in ERR266300. RNA binding protein: AGO2. Condition:B_Untreated ...

- Schug J; McKenna LB; Walton G; Hand N; et al., 2013, BMC genomics.

Article - Schug J; McKenna LB; Walton G; Hand N; et al.
- BMC genomics, 2013
BACKGROUND: Validation of physiologic miRNA targets has been met with significant challenges. We employed HITS-CLIP to identify which miRNAs participate in liver regeneration, and to identify their target mRNAs. RESULTS: miRNA recruitment to the RISC is highly dynamic, changing more than five-fold for several miRNAs. miRNA recruitment to the RISC did not correlate with changes in overall miRNA expression for these dynamically recruited miRNAs, emphasizing the necessity to determine miRNA recruitment to the RISC in order to fully assess the impact of miRNA regulation. We incorporated RNA-seq quantification of total mRNA to identify expression-weighted Ago footprints, and developed a microRNA regulatory element (MRE) prediction algorithm that represents a greater than 20-fold refinement over computational methods alone. These high confidence MREs were used to generate candidate 'competing endogenous RNA' (ceRNA) networks. CONCLUSION: HITS-CLIP analysis provide novel insights into global miRNA:mRNA relationships in the regenerating liver.
LinkOut: [PMID: 23597149]
CLIP-seq Support 1 for dataset GSM4656408
Method / RBP HITS-CLIP / AGO
Cell line / Condition mouse liver / P7
Location of target site NM_153168 | 3UTR | AGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAGCU
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_153168 | 3UTR | UUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE153876
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751768
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of aWAT 2
Location of target site NM_153168 | 3UTR | ACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4751769
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of aWAT 3
Location of target site NM_153168 | 3UTR | UUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4751770
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of mWAT 1
Location of target site NM_153168 | 3UTR | ACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4751771
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of mWAT 2
Location of target site NM_153168 | 3UTR | AGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4751772
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of mWAT 3
Location of target site NM_153168 | 3UTR | AGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4751774
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of eWAT 2
Location of target site NM_153168 | 3UTR | ACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM4751778
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of cWAT 3
Location of target site NM_153168 | 3UTR | CACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset GSM4751779
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of iBAT 1
Location of target site NM_153168 | 3UTR | CACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 11 for dataset GSM4751780
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of iBAT 2
Location of target site NM_153168 | 3UTR | UACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 12 for dataset GSM4751781
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / miRNA sequencing of iBAT 3
Location of target site NM_153168 | 3UTR | UACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 13 for dataset GSM622572
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT2
Location of target site NM_153168 | 3UTR | GGCCUAAGGCGAGCUCAGGGAGGACAGAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUAGGAAUACAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAUGUGUCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 14 for dataset GSM622573
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / KO1
Location of target site NM_153168 | 3UTR | CCUAAGGCGAGCUCAGGGAGGACAGAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUAGGAAUACAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAUGUGUCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 15 for dataset ERR266298
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Untreated
Location of target site NM_153168 | 3UTR | GGAGGCCUAAGGCGAGCUCAGGGAGGACAGAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUAGGAAUACAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAUGUGUCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAGCUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
CLIP-seq Support 16 for dataset ERR266300
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / B_Untreated
Location of target site NM_153168 | 3UTR | CAGGAGGCCUAAGGCGAGCUCAGGGAGGACAGAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUAGGAAUACAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAUGUGUCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGAUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
13 mmu-miR-883b-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT426296 Scn2a1 sodium channel, voltage-gated, type II, alpha 2 2
MIRT579169 Cd93 CD93 antigen 2 4
MIRT579383 Ankra2 ankyrin repeat, family A (RFXANK-like), 2 2 2
MIRT581675 Ppp2r2c protein phosphatase 2, regulatory subunit B, gamma 2 2
MIRT582481 Mdga2 MAM domain containing glycosylphosphatidylinositol anchor 2 2 2
MIRT584649 Bach2 BTB and CNC homology, basic leucine zipper transcription factor 2 2 2
MIRT587948 Asph aspartate-beta-hydroxylase 2 4
MIRT591263 Lars2 leucyl-tRNA synthetase, mitochondrial 2 4
MIRT596076 Ywhag tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide 2 2
MIRT597944 Orc4 origin recognition complex, subunit 4 2 2
MIRT598809 Gm4951 predicted gene 4951 2 2
MIRT603477 Rbm8a RNA binding motif protein 8a 2 2
MIRT606744 Ryr2 ryanodine receptor 2, cardiac 2 2

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