miRTarBase - #MIRT592159


—
pre-miRNA Information
pre-miRNA mmu-mir-5114   
Genomic Coordinates chr19: 44303171 - 44303231
Description Mus musculus miR-5114 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-5114
Sequence 1| ACUGGAGACGGAAGCUGCAAGA |22
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Paxip1   
Synonyms D5Ertd149e, PTIP
Description PAX interacting (with transcription-activation domain) protein 1
Transcript NM_018878   
Expression
Putative miRNA Targets on Paxip1
3'UTR of Paxip1
(miRNA target sites are highlighted)		 
>Paxip1|NM_018878|3'UTR
   1 TGGCCTCTTGCTGCTGCTAGCCTGGAGCCTGGAGCACAAGGGTAGCTGCTGGCAGCATGAACCAGGACTCCCTCCCCGCA
  81 GAGGGCTTGTTTTCCAGCTCTGCCTTAGGGAGAGACCTCGACCAGGAAGACAGATGTAATACTGACTGCATCGTGTTAAG
 161 ATGTGTGATCTTATTCTAGGAAACATAAATTATGTTTTGTATTATATGCCTAAGAGCCCACATTAAGTCTTCTGATTAAT
 241 TTGCCAGGTTTTTAATGTGTTTTCAGAAAGCTGTGTGAAATTTCATCTACAAATAAAAATGATGTAAATAAGACTTTGCT
 321 GTCTAAATTATGGCTGTTAAAGATATGAAATGTTTTGTACTTTGATTATTTTTATTTCTTACACTTTTCTTTTATATTGA
 401 TAACTTGCTCACAGTTAAATAAATGTACTTTTGAACTTAGAATTGGGTGATTATTTAAAATTTCATATTCTTTGCATAAC
 481 ATAAATGATTTTCAACAAGCTGGATAGCATTTTGATAAATTTCACAGCAGAGTATTTTTGAAGTAACTTTTCTCCTGGAG
 561 AAATAAGTTTTGATAGTATTTCATAAATAGTCACCTCTTACTGATATGGCAAGGGGGCTCCAGACAGGTGGACTGGAAGC
 641 CTGGACAGCCACTAAATGCAAACTGTGAGCCTGTTCCCAGCCTGGGCAGAGCCTACCCTACTGTACTGATGTTGTACTCC
 721 AAAGCATGGTGGGGACAGTGCTCTGTTCTACGGGAAGGCCCGGTGTCTTTTGCCTACATGTTTCCTGGCTAGCCCTGATC
 801 TCTGGTGACTTTGCATAGGACTGTTACTATCTGCAGAAACATCCTTCTGTTGGACATTCCTTGTGGCAGGTGTGTCTTCA
 881 CAGGCTGCTTTGGAGAGGCTGTCTAAGCAACCTGAGAGACTTCCTACAGAGCTGGCCTTTATCTGGTTGAAGTTGTCACT
 961 ATGAAATACTTCCAAATGTGGAAATTGGGGTGAGCAGAAGAAGAGCTCTGTACGTGGGGACAGTCGGATTTGCCAGCATG
1041 CCACATGCCATCCTGTGTCCTTGATCCTAGAACAAAGTGGATGTAGATTCAATAGCCTTCTCTGTGGAATGTCACACATC
1121 TGTTACCTGTGCAGGAGACAGGATGTTTCTTTAAGAGAGATATGACTGATTTTTTTTTTTTTCTGGTTTTTCGAGACAGG
1201 GTTTCTCTGTGTAGCTCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTC
1281 TGCCTCTCAAGTGCTGGGATTAAAGGCGTGGGCCACCACGCCCAGCTTGATTTTTTTTTTTATTTATGTGTATGAGTACT
1361 CTGTTGCTGTCTTCAGACACTCCAGAAGAGGGCATCCAATTCCAATTCCATTACAGATGGTAATGAGCCACCATGTGGTT
1441 GCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGCGCTCTTCCAGCCCTTGATTAACCTTTCAATTAGCATCTTC
1521 TGTAAGCTGCCAAGAAATGCAACTTGAGGAGCTGTCCAGAACCACAGCTTACACAGCTGTTCCACCCGAGGTTGGCTGGG
1601 AGGGCAAGGTGACAAACAAATGCTGGTTATGAAGTAAATCAGAAAGGTGGTGGTTTCAAAAATGGTGCACATCTGGAGTG
1681 CCAACAGTCGAATGCTGAGATACAGTGTTCTACATGGCAGACCCTGGGCTATCCAGGGCTACATGGGTGAGATCCTGTCT
1761 CAAAAAGTAAATAATTATATTTTGCCCACATTGTTTAAAATACAGTTAACTCTTTTCTGGTAATTGTATCTGTTTTTAAT
1841 TAATGTTTTATAACATCAAAGTTTCAGTCTCTGACCCCTAGGTACATGTTAGTGCTCAGCTGGTTACGTTTGATGGTGAA
1921 CAGTCATCATGAATACATCACTTGTAGTCCTGTGATTTGCAACACTGGCCAGAGGTAGTAGGTGGAAGGTTAGTGGCAGG
2001 ACTCAGGGGGTGTGTTCAAACCATTACAGAATGGTTTCATTGTTTCCTGAAGTTAAAGGGGAGTGACCTGTGCGGTTTTG
2081 GTTTGGTTTGGGAGGAAAGAGTGCCTTGGCACTCTTTGATAGTCTTTAAAGATCTGGTAGTCTTTAGTCTTGGAGTCTGG
2161 AGTGTCAGGAACCATCACCACACACCATCAGTGGGTTTTCAACAAAGTGCTTAAGTTGCATAGGAAAGTTTCTAGTAGAA
2241 GCTGCACAGCTTGCTTCCTTTAAACATTTTTACTGGAAATTGGAACACAGTTCATCAGAAGGTATCTGTCCTGGGCACCT
2321 TCTGAGAGTGCTGTTTCACTCCACAAAGCATTTGTGTAATAATAAAAAAAAAAAATCAGTATTAAAGTCCTGATGCTGAG
2401 AGTCTAAAAAAAAAAAAAAAAA
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' agaacGUCGAAGGCAGAGGUCa 5'
               | |:| |:||||:||| 
Target 5' gtactCTGTTGCTGTCTTCAGa 3'
 1356 - 1377 145.00 -16.80
2 
miRNA  3' agaacgUCGAAGGCAGAGGUCa 5'
                :|||| : |:||||| 
Target 5' gcagagGGCTTGT-TTTCCAGc 3'
 78 - 98 135.00 -12.90
3 
miRNA  3' agAACGUCG--AAGGCAGAGGUca 5'
            |||::||   | :||||:||  
Target 5' ccTTGTGGCAGGTGTGTCTTCAca 3'
 859 - 882 126.00 -16.90
Experimental Support 1 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 ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' agaacGUCGAAGGCAGAGGUCa 5'
               | |:| |:||||:||| 
Target 5' ----uCUGUUGCUGUCUUCAGa 3'
 		1 - 18
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 GSM4751756
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 1
Location of target site NM_018878 | 3UTR | GUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751757
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 2
Location of target site NM_018878 | 3UTR | UUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751758
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 3
Location of target site NM_018878 | 3UTR | GUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4751759
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 4
Location of target site NM_018878 | 3UTR | UUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_018878 | 3UTR | UGUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_018878 | 3UTR | CUCUGUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4751762
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 3
Location of target site NM_018878 | 3UTR | UACUCUGUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4751763
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 4
Location of target site NM_018878 | 3UTR | GUUGCUGUCUUCAGACACUCCAGAAGAGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset ERR266298
Method / RBP HITS-CLIP / AGO2
Cell line / Condition Liver / A_Untreated
Location of target site NM_018878 | 3UTR | UCUGUUGCUGUCUUCAGACACUCCAGAAGAGGGCAUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23597149 / E-MTAB-1612
CLIP-seq Viewer Link
39 mmu-miR-5114 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577166 Madd MAP-kinase activating death domain 2 12
MIRT580377 Tmem206 transmembrane protein 206 2 4
MIRT580729 Srrm4 serine/arginine repetitive matrix 4 2 2
MIRT581165 Sec23ip Sec23 interacting protein 2 2
MIRT581310 Rnf150 ring finger protein 150 2 4
MIRT581568 Prtg protogenin 2 2
MIRT582280 Nav2 neuron navigator 2 2 2
MIRT582511 March5 membrane-associated ring finger (C3HC4) 5 2 4
MIRT584183 Cpeb3 cytoplasmic polyadenylation element binding protein 3 2 2
MIRT584252 Cmtm6 CKLF-like MARVEL transmembrane domain containing 6 2 2
MIRT584403 Cd63 CD63 antigen 2 2
MIRT586848 Ikbkg inhibitor of kappaB kinase gamma 2 4
MIRT586939 H2-T24 histocompatibility 2, T region locus 24 2 4
MIRT587266 Fam161b family with sequence similarity 161, member B 2 2
MIRT588386 Zfp113 zinc finger protein 113 2 2
MIRT590219 Dync1li2 dynein, cytoplasmic 1 light intermediate chain 2 2 4
MIRT592159 Paxip1 PAX interacting (with transcription-activation domain) protein 1 2 2
MIRT592188 Nanog Nanog homeobox 2 4
MIRT593309 Rmnd5a required for meiotic nuclear division 5 homolog A 2 2
MIRT594051 1200014J11Rik nuclear cap binding subunit 3 2 2
MIRT594495 Cspg4 chondroitin sulfate proteoglycan 4 2 2
MIRT595572 Mtf1 metal response element binding transcription factor 1 2 2
MIRT597122 Svopl SV2 related protein homolog (rat)-like 2 2
MIRT598947 Ggps1 geranylgeranyl diphosphate synthase 1 2 2
MIRT599498 Ccdc78 coiled-coil domain containing 78 2 2
MIRT601067 Cdc14b CDC14 cell division cycle 14B 2 2
MIRT601902 Padi2 peptidyl arginine deiminase, type II 2 2
MIRT602607 Chrna1 cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) 2 2
MIRT602771 Armc2 armadillo repeat containing 2 2 2
MIRT602877 4931428F04Rik RIKEN cDNA 4931428F04 gene 2 2
MIRT602958 Xpo7 exportin 7 2 2
MIRT603304 Slc4a7 solute carrier family 4, sodium bicarbonate cotransporter, member 7 2 2
MIRT603315 Slc35d2 solute carrier family 35, member D2 2 2
MIRT603389 Sgol2 shugoshin 2A 2 2
MIRT605052 Efr3b EFR3 homolog B 2 2
MIRT605054 Arhgef39 Rho guanine nucleotide exchange factor (GEF) 39 1 1
MIRT605412 T2 brachyury 2 2 2
MIRT605550 Ppp1r16b protein phosphatase 1, regulatory (inhibitor) subunit 16B 2 2
MIRT606407 Glrx2 glutaredoxin 2 (thioltransferase) 2 2

Error report submission