miRTarBase - #MIRT597931


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pre-miRNA Information
pre-miRNA mmu-mir-1906-1   
Genomic Coordinates chr12: 109544541 - 109544620
Description Mus musculus miR-1906-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA mmu-mir-1906-2   
Genomic Coordinates chrX: 88759474 - 88759553
Synonyms mmu-mir-1906, Mir1906
Description Mus musculus miR-1906-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-1906
Sequence 48| UGCAGCAGCCUGAGGCAGGGCU |69
Evidence Experimental
Experiments Microarray
Putative Targets

Gene Information
Gene Symbol Pacsin2   
Synonyms AI197433
Description protein kinase C and casein kinase substrate in neurons 2
Transcript NM_001159509   
Other Transcripts NM_001159510 , NM_011862   
Expression
Putative miRNA Targets on Pacsin2
3'UTR of Pacsin2
(miRNA target sites are highlighted)		 
>Pacsin2|NM_001159509|3'UTR
   1 CAGCCCATGGGCAGGCTGGCGGAGAGACGGAAATGGGCAGTTCAGGAGCTCCGTTAGCCTTGGCCTGGGCAGTGACACCT
  81 CTAGTGCCCCCAGCAGCCATGTAGGCATCCACTCCACCTGCAAAAGACGATGGCTCTGTTGTTCTTGGCTTCCTGGTGTG
 161 CTTTGAAGGCAGATGAGCTGGTGATTTCATTGGGCACTTGGCCCTTTTCCAAGCACATCTGGGCAGATATAGACACAGGA
 241 AGATAGGGTCCAACAGCGAGAGCCAGGCCCCTCCCCACCCCCACCAGCTCTCTCTATCATGGATCTGCACCTTCTCGCCC
 321 TTGTCTCTCCTGAGTCATGACGGGTCATACTGATTCTTGTTCCACTGATGATTTTCTCTGATGAGGTCCTATCTGCAAGG
 401 TCAATGAGCAGACTTACATGCCATCTTCTGAGTAAAGAGTTTGAGGTTTTAATTTAAAGGCAATGTACAGCTATACTTTT
 481 TTATATGCTCTTCCAGTCAGTTAAATTATGGCCTACACTGATCTGAGATGTTCTCCACGTGAGCTGTCTTCATTTCTCTG
 561 TGCTATGTCCAGATGTGGGGTTGCTGCAGCCGGGGTTCTATGGCAAGTGCCAGTTGCAGGGCTAACCTTGTGCAACGTTC
 641 CCCAACACTTCCACATACAGAAATTATTTTCACTCTATCCCTGCTTCAGTTTTTGCAGATTAACAGTTCTATTAGTGATT
 721 TGGAAAGTTAACAGTAAGAAGACTAACTTTTCAAAACAGTTGCATCTGTAGATTAAGATGCTTTACATTAGACCGTTGTG
 801 TCTCGATGTATATCTGTATATATTATTTGATAATCAGAAAATCTATAGAGTTCACCCACTGTTGAATGAGAGCTGGTGGC
 881 TTCTGACAGCAGATCTGGTCAACTGCTTGAAGCCCATGGCATTGAAGCACAGGCACGGCTGGTTAACGGTGCCCACCCAG
 961 TTAGGATGTGGCTCTGGCCTCTGAGTGGAGCTGCTGGGAAGACTGATTCTCATTGGCCTGGGCTCCAAGCTCATGACCGA
1041 GCACTGGAAAAGCTCCTAGGACTTGGTAGTAATCGTAGACTTCACAGTCCCTGTGTCACTCACTGGAGAGCTAGAGGGAG
1121 GGGTTCGACACCCTCCACCACACACACACACACACACACACACACACACACAAGTTCCTCCAGTTGCCCTTGTCCTCAGG
1201 TGCAGTGGGACTGTTGTGAGCCCCAGGGATGGGCACAAAGAGGACTTTTATTTTGTTAGCTCGGACAGTGCAGTGGTGCA
1281 CATCAGCAACTTGTATTTCTTCGGTGTTTGGCACGAGCACTGTCTCGCTGTGGCTGTGTGTCATGAGAACTTACCAGCAG
1361 AAATCCTTGTTCCTAAGCTACAGAATGACCAAAAGCTGTCAAGTCCTTAATGTTTAGAAACTCCTTAAAATGTATAGTAT
1441 TTTAGAACAACAACAACAAAACTCAATAAACAGTTGATCTTGTGTGTTTGACAGTCCCTTTGCCTTGCATCCACCCTCAT
1521 GTTCACACAGCTGATAGACCTGTCTCCTTGGGGGTGTACCAGCTTTGAAACTGGGCAAGATCCAGTTCATAGGATCCCTT
1601 CTCGGGACCATGTCTCAGTTCCTGCACCAGAGGCTGGGGACTTGGGGCACCTTGGGCATCCCTGAGGAGGGCATCCCTGG
1681 TGCCACCCTCTCTCCCCTGACCAACAACCGCTCCTCCCCAAACCTGCGTGTGTTGACCTTTATGTGCCACTGTTCTGTTT
1761 TCTCAAGCTGATGATCTCTGGGTGTAATGTGATCAATGCAGGTCCCAGCTGGTCCTGCTCGCACAAAGAACCTCCAAGGA
1841 TCTTGCCTCCTATTGGGATCAGCTAAGGAGATAAAGCCAGTGCGGTAGCCCTGACCAGTCCCGGTGAACGGACTGCTGCT
1921 GCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTCTTCAACACTAGTAAAGCTTCTC
2001 TCTGGCCTTCC
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' ucggGACGGAGUC--CGACGACGu 5'
              ||||: | |  |||||||| 
Target 5' cggaCTGCTGCTGCTGCTGCTGCt 3'
 1909 - 1932 160.00 -19.90
2 
miRNA  3' ucggGACGGAGUC--CGACGACGu 5'
              ||||: | |  |||||||| 
Target 5' gctgCTGCTGCTGCTGCTGCTGCt 3'
 1933 - 1956 160.00 -21.00
3 
miRNA  3' ucggGACGGAGUC--CGACGACGU- 5'
              ||||: | |  ||||||||  
Target 5' gctgCTGCTGCTGCTGCTGCTGCTC 3'
 1954 - 1978 152.00 -20.90
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 GSM622570. RNA binding protein: AGO2. Condition:WT1A HITS-CLIP data was present in GSM622571. RNA binding protein: AGO2. Condition:WT1B HITS-CLIP data was present in GSM622572. RNA binding protein: AGO2. Condition:WT2 HITS-CLIP data was present in GSM622574. RNA binding protein: AGO2. Condition:KO2 ...

- 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]
CLIP-seq Support 1 for dataset GSM4656408
Method / RBP HITS-CLIP / AGO
Cell line / Condition mouse liver / P7
Location of target site NM_011862 | 3UTR | GCUGCUGCUGCUGCUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE153876
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4656410
Method / RBP HITS-CLIP / AGO
Cell line / Condition mouse liver / e185 rep2
Location of target site NM_011862 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE153876
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4751756
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 1
Location of target site NM_001159509 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4751757
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 2
Location of target site NM_001159509 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4751758
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 3
Location of target site NM_001159509 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4751759
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 4
Location of target site NM_001159509 | 3UTR | CUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_001159509 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4751761
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 2
Location of target site NM_001159509 | 3UTR | UGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM4751762
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 3
Location of target site NM_001159509 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset GSM622570
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT1A
Location of target site NM_011862 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 11 for dataset GSM622571
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT1B
Location of target site NM_011862 | 3UTR | GCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 12 for dataset GSM622572
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT2
Location of target site NM_011862 | 3UTR | ACUGCUGCUGCUGCUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 13 for dataset GSM622574
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / KO2
Location of target site NM_011862 | 3UTR | CUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCUGCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
27 mmu-miR-1906 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT578439 Irgq immunity-related GTPase family, Q 2 10
MIRT578971 Dhdh dihydrodiol dehydrogenase (dimeric) 2 4
MIRT580446 Tln2 talin 2 2 2
MIRT582494 Mbtps2 membrane-bound transcription factor peptidase, site 2 2 2
MIRT587588 Cox15 cytochrome c oxidase assembly protein 15 2 2
MIRT589524 Mtf1 metal response element binding transcription factor 1 2 2
MIRT591281 Klc1 kinesin light chain 1 2 4
MIRT591935 Ddx19b DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b 2 2
MIRT592084 Sorcs2 sortilin-related VPS10 domain containing receptor 2 2 2
MIRT592206 Mapkap1 mitogen-activated protein kinase associated protein 1 2 4
MIRT592349 Armcx6 armadillo repeat containing, X-linked 6 2 4
MIRT592351 Angel1 angel homolog 1 2 2
MIRT592365 4930444A02Rik protein-O-mannose kinase 2 2
MIRT592427 Spsb4 splA/ryanodine receptor domain and SOCS box containing 4 2 2
MIRT592671 Itgav integrin alpha V 2 2
MIRT592712 Fbxo21 F-box protein 21 2 4
MIRT593155 Itsn1 intersectin 1 (SH3 domain protein 1A) 2 2
MIRT593662 Spen SPEN homolog, transcriptional regulator (Drosophila) 2 2
MIRT593976 Cdc14b CDC14 cell division cycle 14B 2 2
MIRT597931 Pacsin2 protein kinase C and casein kinase substrate in neurons 2 2 2
MIRT597949 Opa1 OPA1, mitochondrial dynamin like GTPase 2 2
MIRT598550 Isoc1 isochorismatase domain containing 1 2 2
MIRT599017 Fgd4 FYVE, RhoGEF and PH domain containing 4 2 2
MIRT600307 Tacc1 transforming, acidic coiled-coil containing protein 1 2 2
MIRT603647 Otop1 otopetrin 1 2 2
MIRT605000 Fam168b family with sequence similarity 168, member B 2 2
MIRT606275 Oxsm 3-oxoacyl-ACP synthase, mitochondrial 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-1 Anthocyanin NULL 145858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Caffeic acid NULL 689043 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Catechin approved 9064 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Curcumin NULL 969516 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Ferulic acid NULL 445858 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Hesperidin NULL 10621 Microarray apoE−/− mice 22253797 2012 up-regulated
miR-1 Quercetin NULL 5280343 Microarray apoE−/− mice 22253797 2012 down-regulated
miR-1 Galactose NULL 6036 Quantitative real-time PCR lens 22736950 2012 up-regulated
miR-1 Hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) NULL 8490 Microarray mouse brain 19270793 2009 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Quantitative real-time PCR myocardial differentiation of mouse ES cells 19521018 2009 down-regulated
miR-1 Sulfonyl-hydrazone-1 (SHZ) NULL NULL Quantitative real-time PCR Murine broblast-derived Induced pluripotent stem cells 21445862 2011 up-regulated
miR-1 Cocaine NULL 446220 Next-generation sequencing ventral striatum 21708909 2011 up-regulated
miR-1 Atorvastatin approved 60823 Quantitative real-time PCR Cardiomyocyte 23860036 2013 down-regualted
miR-1 Glucose NULL 5793 Quantitative real-time PCR endothelial cells 24394957 2014 down-regulated
miR-1 Docosahexaenoic acid NULL 445580 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 Palmitic acid approved 985 Quantitative real-time PCR Caco-2 cells 24623846 2014 up-regulated
miR-1 17beta-estradiol (E2) approved 5757 Microarray MCF-7AKT breast cancer cells 19528081 2009 down-regulated
miR-1 Essential amino acids (EAA) NULL NULL Quantitative real-time PCR skeletal muscle of young adults 19828686 2009 up-regulated
miR-1 Hydrogen peroxide (H2O2) NULL 784 Quantitative real-time PCR Human umbilical vein endothelial cells 21527937 2011 down-regulated
miR-1 Trichostatin A (TSA) NULL 444732 Microarray apoptosis-resistant breast cancer cells 21971930 2011 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-1 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miR-1 Bicalutamide approved 2375 Microarray prostate 22674191 2012 up-regulated
miR-1 Arsenic trioxide approved 14888 Quantitative real-time PCR cardia 22889704 2012 up-regulated
miR-1 Perfluorooctane sulfonate NULL 74483 Microarray zebrafish embryos 20878907 2011 up-regulated
miR-1 Quinidine approved 441074 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 up-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR myocardial infarction (MI) rats 19775284 2009 down-regulated
miR-1 Tanshinone IIA NULL 164676 Quantitative real-time PCR post-infarction rat cardiomyocytes 21220930 2011 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 down-regulated
miR-1 Dexamethasone approved 5743 Microarray adrenals and granulosa cells 24205079 2014 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 up-regulated
miR-1 Thiourea (TU) NULL 737139 Quantitative real-time PCR skeletal muscle and heart 22142802 2012 down-regulated
miR-1 Isoproterenol approved 3779 Quantitative real-time PCR heart 22847192 2012 up-regulated

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