miRTarBase - #MIRT597927


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pre-miRNA Information
pre-miRNA mmu-mir-1907   
Genomic Coordinates chr15: 50889025 - 50889114
Synonyms mmu-mir-1907, Mir1907
Description Mus musculus miR-1907 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-1907
Sequence 59| GAGCAGCAGAGGAUCUGGAGGU |80
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' ugGAGGUCUAGGA-GACGACGAg 5'
            || | | | || |||||||| 
Target 5' gaCTGCTGCTGCTGCTGCTGCTg 3'
 1911 - 1933 160.00 -16.60
2 
miRNA  3' ugGAGGUCUAGGA-GACGACGAg 5'
            || | | | || |||||||| 
Target 5' tgCTGCTGCTGCTGCTGCTGCTg 3'
 1935 - 1957 160.00 -16.60
3 
miRNA  3' ugGAGGUCUAGGA-GACGACGAG- 5'
            || | | | || ||||||||| 
Target 5' tgCTGCTGCTGCTGCTGCTGCTCT 3'
 1956 - 1979 152.00 -20.50
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 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
26 mmu-miR-1907 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577814 Rnf168 ring finger protein 168 2 2
MIRT578446 Irgq immunity-related GTPase family, Q 2 10
MIRT578975 Dhdh dihydrodiol dehydrogenase (dimeric) 2 4
MIRT583725 Erlin2 ER lipid raft associated 2 2 2
MIRT584145 Creb5 cAMP responsive element binding protein 5 2 2
MIRT591282 Klc1 kinesin light chain 1 2 4
MIRT591941 Ddx19b DEAD (Asp-Glu-Ala-Asp) box polypeptide 19b 2 2
MIRT592082 Sorcs2 sortilin-related VPS10 domain containing receptor 2 2 2
MIRT592203 Mapkap1 mitogen-activated protein kinase associated protein 1 2 4
MIRT592344 Armcx6 armadillo repeat containing, X-linked 6 2 4
MIRT592358 Angel1 angel homolog 1 2 2
MIRT592371 4930444A02Rik protein-O-mannose kinase 2 2
MIRT592405 Tacc1 transforming, acidic coiled-coil containing protein 1 2 4
MIRT592434 Spsb4 splA/ryanodine receptor domain and SOCS box containing 4 2 2
MIRT592663 Itgav integrin alpha V 2 2
MIRT592714 Fbxo21 F-box protein 21 2 4
MIRT592809 Bicd1 bicaudal D homolog 1 (Drosophila) 2 6
MIRT597927 Pacsin2 protein kinase C and casein kinase substrate in neurons 2 2 2
MIRT598101 Ncl nucleolin 2 2
MIRT598641 Idua iduronidase, alpha-L- 2 2
MIRT599013 Fgd4 FYVE, RhoGEF and PH domain containing 4 2 2
MIRT600260 Trim2 tripartite motif-containing 2 2 2
MIRT600290 Tifab TRAF-interacting protein with forkhead-associated domain, family member B 2 2
MIRT601128 Bri3bp Bri3 binding protein 2 2
MIRT601134 Bcl11b B cell leukemia/lymphoma 11B 2 2
MIRT603790 Lpcat2b lysophosphatidylcholine acyltransferase 2B 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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