pre-miRNA Information
pre-miRNA mmu-mir-363   
Genomic Coordinates chrX: 52741693 - 52741767
Synonyms Mirn363, mmu-mir-363, Mir363
Description Mus musculus miR-363 stem-loop
Comment The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies . The 5' end of the miRNA may be offset with respect to previous annotations.
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-363-5p
Sequence 7| CAGGUGGAACACGAUGCAAUUU |28
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Ccdc127   
Synonyms 0610011N22Rik, 5430420E17Rik, A430066A18, AI256405, AW050060, C130002N06
Description coiled-coil domain containing 127
Transcript NM_001168658   
Other Transcripts NM_001168659 , NM_024201   
Expression
Putative miRNA Targets on Ccdc127
3'UTR of Ccdc127
(miRNA target sites are highlighted)
>Ccdc127|NM_001168658|3'UTR
   1 CGAGTACGCCTGCAGTTTTCTCTGAGGAAATCTTGTGGCAGTGTTGCTGCTGGTGACAAATGGTTGAGCCTGATCATCTG
  81 GTCCAGGACTGACCTCAGGGCACTAGAAATGCACAGCCTCTTACAGCACGATTCCAGGACCTACTCCATTTGTTCTAGTG
 161 CTCTGGAAAAGTTTTCCAAAGCAGTTTTGAAAGCTTGCAGCAAAAAAGTACCAAGTTCATTGCTGGTTTCATGAATGTCT
 241 GGATCAAAACTTCCAAAAAGTGGGGTGGAGACCTGGATGTCCTCCCGGTTAGCTCGAAGCAGTACTGCTCGAAGATCCTC
 321 TGCAATCACGTCGTATTTCTGTTGGTCGAATTTGGACACTGACAGTTCATCCTGAGGGTAGATGGCACCCTCGGGGTAGC
 401 AGTCCTTTGGTACTGGGAACTCAATATGGCGAAGCCTAGGGAGTTCGCAGAGTGCAGCAAAAAGGCGCCGGAGAGCACTG
 481 CCTGAGAGCGGGTTTCCAAGAAACTTGAACTGCTGGAGCTGGCTGCAAGGGCTAAGGCCCAGAATCATCATGTTAACATG
 561 GCTGTCTGTGATGTTGCACTCCTCGAGGGTGAGCACTCTCAGTGTTTGGGCAGCCTGGCTCAGCAGCCTGAAGAAGGTAG
 641 AAGGGTACAGGTGTACCAGGTTGTGTCCACTGAGGTCCAGCACCTCCAAGTGGGCAGTGTGGTTACAGTCTGCTAAGAAG
 721 GATATGTCTTCATGATTAAGGGCACAGTTGGCTAGGTCCAACACTCTTAGTGGGGTCTTCAAGGGGCTGTGAGGTAGGCA
 801 AAACATCACAAATGTTATGAGGGTCTCAGGTGAGCTGGAGTTTTGGTGGAGGTGAATAATCTAACCACTTTTCTATCTTA
 881 GAGATCACTGACTGCAGCCTGCCAGAAACTCCAGCTGACTTCATTTCACGTTAGCATATGAGTTAAGAATGATATTTTTA
 961 AGCAAAATTTAAAGAGTCAAAATAATTGGTGAAATGTGAAAGTCACATTTCTTCTAGAAGTCTACAGCTGCTGGGCCTGT
1041 TGAGCAGTCAGTAATTGAACCTAAAATGGACCAACACCACCTTTCAAGTTAGGTAGAGAAGTTATGCACCTGATCTCAGA
1121 ACCATCAGAATATTGACTGTGAGAACAGCAAAGGATAGAATTAGCTTGAAAGAGAGTGCTGCCACTCTGATGACAATAGG
1201 ACCAGTAATGGTTTTCAGGGCTGAGAAGGAAGTCCAGCAGCCTGAATGTGGCCTCCATAACCCTGAATTCACTATTCAGC
1281 CAGTATCCTCTGTGGGGAGGTGTGTCTGAAATAACTTCTCCACCCAGGGGTCATGAGAATATACATTTTCTGGCACCCTG
1361 GACCTTTCTGGGAACACACCCTTCACTGCCCTTATTAAACAAGACAGTATGTGGTGGGGTCTTGTTCTGTCCCTACTTAC
1441 TAACTTGTTCTTGCTGCCTCTCCACTACTTGCCCATAAATGATAACCTATTATTGGGACAGTACTCTCCACATGAAACTA
1521 CCCTGACTTCAGAACTAACTGGCAGCTACCCTACTACCCTTCTTCATAGTACAGTTGCTAAGGAGGAGATTGCAGTACCA
1601 GGATTTCAGGTGTGGCAATCCAGCTAAACTGCTGACAAGGTTCTCACTATGCTAAACTACCTTCCCATTCCTATCCTGGG
1681 AAAATGTTTTAAGACACTAAATATTGGGTAATTCGTTATACAACACTAGTCAGTAGAAGATCTGGTTGTGACTTTTGTGT
1761 TGTTTACTTTCTAGTTCCTCTTTCTCATGTCTTCTTCCTTCTACCTCCTCCTCCCTCCCTCTCTGATGCTGAGAACTAAA
1841 ACTAGGGTCCTGCTCGTTGGTATCAGGAACCAGCTTGCCAGATTGCCTCTGAACCCAGTGATGTCACCCATAGGGAACAG
1921 AGACATGCACATCTGTTACCATGGCAATCACATTCCCAGAGTCCATTTCCCACCCTTACCTGTGAGCCTAAATAAAAGGT
2001 AGACCCTTCCTGACCTTTGGCCCTTCTTTCTCTCTTTTCTCCCTTTGTCTCTGTCCACCCCAACCCACCCCAATAAACCT
2081 CTGCCACATGGAACTGCATTGGCCTGGTGTGGTCTGTCTGGATGAGAGCTGCCATTCCAGCACAACCCTGCTAGTGCTTT
2161 ATCACTCAACTACCCTATACCCTCAGCTCTTGTGTTTGTTTTTGTTTGTTGAAATAAGCCTCTCTTTGTAGCTGACCTCA
2241 AGCACTGGGATTATGGGCAAGCCCCATGGCCGAGTTTTTGTTCATTGAAAGGCGTCTTCCAAACTGGATCAGTGTTCTGA
2321 TTCTTTCCTAATGGCTCTTAACTCTTGCTGGTCTGACCAACACATTCCCAGAGAACATTGTGTAAACAGATCCTATCCCT
2401 GTTCCTCAGTGACTCCAGAATACTTTACCAGGCCCTGTACCCAATTCTCTGAGACTTACCTAAGCAATGTTTGGATCTTC
2481 CCAGTGAGTGTAGAGAAAGCCACACTTAGCTCAGTGAGCTGGTTCATCTGGCTGAGCTCCCAGGCAATAGAGGTAAGGAG
2561 AAGATCCTCGCCCTCTGGATCTGGGGCACAAGTTGGGGGAGCATCGAAGGCCTTGGTGGGCAAGGTGAGTGAGGTCAGCT
2641 GAGGGAAGCCCACCTGGGTCAGCAGCTGCTGCACATGGCCAGCATGCAGCCGGACATTGTGTACTACCTCCAACTTTCTA
2721 AGGTTGCCTGGCCCAGCCAGGCCAAGAACTTGTAGGAGCTGCCCAGGGCTCAGGCTGTCTGCCCGGAGTGAAGGGCAACA
2801 GACCTGCAGAGGTGCTGGGCCTAATGGCTTCAGGGCCTGCACCACCATGTCAAAGTTGCCTTCTGTGACAAAGAGGTCAG
2881 CAAAGACTTCAATGGGGTGCCCAGCTGAACAGGGCTGTCCTTGGAGCTGGCAGCAGGTCCTGGCCAGCACCTTGGTACGG
2961 CCCCACCTTCCTAGTGCCCTCCCACAAGGACATTGCTGCACCTGTACGTCCTGGATGCCGGTGAAATCAGCTACCCGAAG
3041 GCGGTTGCTCCCACTTTTCAGCACATGGTCAGCTATGCCCTGCATACAGGCCTCCAGGCAGGCCTTGCAGGCACGATCAC
3121 GCAGGTCTTCAGGGTGGTCAGTGTTTGGCCTCAGTAGCACAGCCAGCCGGAACTCCTCCAGTGGCCAGTGACTCAGCAGA
3201 GCACGGGTTACATCTGCCTGCTCTAGCAGGTAACTGGCCTTGAACAGAAGTGGGTAGAGGTTGTAGGCTATATTGTCCAG
3281 GTTCTCCTGGACCAGCTGGGAGTGGGACACTAACGCTTCAGCAGAAATGAAACGAAGCGACCTCATCGTGCCCCTGGTCA
3361 GAGTGGCGCTGTCCCCGATGTTCTTCCCAAAGTGTGCGAGTGTTGTGGCTATTTATAGCTGCTGCTGCTTCTGGACTCAA
3441 GCCCAGAAAGTGGTAAACTGGCCCTTGTGGTCATCTGACTGCTATTTTGGTCCTTAGGTACCAGTTTGGCAGTAACTGTG
3521 GAGGCATCTGTCTGTCTTATGGCACCCTGCTGGTGAAAGCAGAGCTGCTTGATTTTGTTGTCCGAAGTGGGACCACTAAG
3601 AGGCTCTAGATACTTGCACAAGTAGCCTAAGGCTTACAATACAAATGGATATTCTGCCCAGATGGGGCCTATCCCAGTCA
3681 AAAGATCTGAGGGAAGCAAAATCCTGAACTGCACTTGGATGGATGAAACAGTGGTCTTTGGGTAATACCTAGGGGGTCTT
3761 TTTCCTAATACCTAGGAGTCAGGAATGCAAGGGCCAGGAATGTGGGGTAGATATCTCAGACAACTCTTTTAAGAATACTG
3841 GCCATGAAGCTGCATCATCTTTTATCCCCAAGATCCTTCATTGCAGAAGTGGGAGAAACAATTTCACCGAAAAAGAATAC
3921 GGACTGGGCCTGGAGAGATGGCTCCGTGGTTAAGAGCACTGAGTGCTCTTCCAGAGTTCCAGCGTTCAATTCCCAGCAAC
4001 CACATAGTGGTTCATGACCATCTGTAATGGAATCCCATGCCCACTTCTGGTGTGTCTGAAGAGAGTGGCAGTGTACTCAT
4081 ATACATAAATAAACAAATCTAAAAATAAATGTGATATGTATTTCCAGTGACACTCAGTTGGAGAAAACTAATTTTAAAAG
4161 GGTGGGGAGAGATGGGCTAGTGAAGGTGATGCTGCAAATAAATGCAGGTACCTATAGGTACCTATAGGCTGTGGGTTCAC
4241 AGCCCTAGCATAGGTAGGTATTGAGTGGTTAAATCCTGCACTTTCATCATCCCTATCACCTGGAATGGGCAGCTCATAGG
4321 TTCCCGTGGTGCCAGCTTTATAGGAGAGTCATAATAGAGAAAGAGAGAGGTAAGAGGCACAGTGGCCATTCCAGGAAAGT
4401 GTCCTGTCCTCAGGTGTACCCCAGTTTTCCTGTGTGACTTTTTTCCCTCCTAATACAGAGCTTTATCTCTCCCAGAGACC
4481 CTGCCATCGGCAGAGATGGGAATGCGTTGCCATGGTGGAGCCCCAAGCACTGCTAGGTGGGTAGGATCTATATGGAAGGT
4561 AATCCATGACAGGATTTTGCCCTAATGTCACCCCTTGCCCCCTCCCCAATCTTAGCCTCTGAAGTATTACCATGTCTGCT
4641 AAATAAGAGCCCAAGACCAGTGATACCAAATGTCTATCCTTTAAGGAATAAACTTTGAAGTACATGTGGCTAGGTTATTA
4721 CTGATCTATGTCTAAATTCACTACTGTATGAATCACTTTGAAACACGTTTAGAAATATTAGTATGTATAGTGAATTAACA
4801 TGTTCCAGGAATACCTTGAATTTCCTGCCATGCTTATGGAATTCACAAGTGAAATGGATACTTAAACTATTACACTTATT
4881 TGTGTGTGTACATGTGTATGTGTGTGTACCCAAGCACAGGCATGTGTGTGCCACAGTATGCATGTGGAGGTCAGAGGACA
4961 GCTTGCATGCGGTAATTCTTTCCTTTTATAATGTGAGTTCTGGGGATCTAACTCTGGTTGTCAAGCAGCAAAGGCGTGTG
5041 CCTACAAAACCACCTTGTTGGCGCTGAAATGGATAATTTGGCATCATATATCTGCCTATGTAATAAAGTTTGTTTTTTTA
5121 TTGATTCTTTTTGTGATTGCTTCTCAAATAAAGTTGTATTGCAAAACTCA
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' uuuAACGUAGCACAAGGUGGac 5'
             |||: || || ||||||  
Target 5' cctTTGTCTC-TG-TCCACCcc 3'
2042 - 2061 137.00 -11.70
2
miRNA  3' uuUAACGUAGCA-CAAGGUGGAc 5'
            ||  | || |  |||:|||| 
Target 5' tcATGTCTTCTTCCTTCTACCTc 3'
1785 - 1807 136.00 -7.40
3
miRNA  3' uuUAA--CGUAGCACA-AGGUGGAc 5'
            |||  ||||| | | ||::||| 
Target 5' taATTTGGCATCATATATCTGCCTa 3'
5074 - 5098 134.00 -10.80
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 ...

- 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 GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_001168659 | 3UTR | AGACAGGGUUUCUCUGUAUAGCCCUGGCUGUCCUGGAACUCACUUUGUAGACCAGGCUGGCCUCGAACUCAGAAAUCCACCUGCCUCUGCCUCCCAAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751763
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 4
Location of target site NM_001168659 | 3UTR | GGUUUUUCAAGACAGGGUUUCUCUGUAUAGCCCUGGCUGUCCUGGAACUCACUUUGUAGACCAGGCUGGCCUCGAACUCAGAAAUCCACCUGCCUCUGCCUCCCAAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM622572
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / WT2
Location of target site NM_024201 | 3UTR | CUGCCUCUGCCUCCCAAGUGUUGGGAUUAAAGGC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
76 mmu-miR-363-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT577239 Zfp933 zinc finger protein 933 2 4
MIRT578026 Pfas phosphoribosylformylglycinamidine synthase (FGAR amidotransferase) 2 2
MIRT578034 Pde4c phosphodiesterase 4C, cAMP specific 2 2
MIRT578102 Nup133 nucleoporin 133 2 2
MIRT578143 Nfatc4 nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 4 2 6
MIRT578431 Nmrk2 nicotinamide riboside kinase 2 1 1
MIRT579036 Cts8 cathepsin 8 2 4
MIRT579251 Car5b carbonic anhydrase 5b, mitochondrial 2 4
MIRT579607 4930519G04Rik RIKEN cDNA 4930519G04 gene 2 4
MIRT581397 Rbms2 RNA binding motif, single stranded interacting protein 2 2 4
MIRT585497 Ttc26 tetratricopeptide repeat domain 26 2 4
MIRT585507 Tspan31 tetraspanin 31 2 4
MIRT585583 Tox4 TOX high mobility group box family member 4 2 4
MIRT585842 Slc3a2 solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2 2 2
MIRT586452 Nploc4 NPL4 homolog, ubiquitin recognition factor 2 4
MIRT587010 Gngt1 guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1 2 4
MIRT588115 Aco1 aconitase 1 2 4
MIRT589171 Rab11b RAB11B, member RAS oncogene family 2 2
MIRT589338 Ostf1 osteoclast stimulating factor 1 2 4
MIRT589488 Mzt1 mitotic spindle organizing protein 1 2 4
MIRT589617 Lrrc58 leucine rich repeat containing 58 2 4
MIRT589816 Hnrnpab heterogeneous nuclear ribonucleoprotein A/B 2 4
MIRT590086 Evi2b ecotropic viral integration site 2b 2 2
MIRT590799 2810474O19Rik RIKEN cDNA 2810474O19 gene 2 2
MIRT590993 Slc28a3 solute carrier family 28 (sodium-coupled nucleoside transporter), member 3 2 4
MIRT592906 Mmachc methylmalonic aciduria cblC type, with homocystinuria 2 4
MIRT593320 Slc25a51 solute carrier family 25, member 51 1 2
MIRT594758 Ttn titin 2 2
MIRT594872 Magt1 magnesium transporter 1 2 2
MIRT595323 Gfap glial fibrillary acidic protein 2 2
MIRT595614 Abce1 ATP-binding cassette, sub-family E (OABP), member 1 2 2
MIRT596863 Ttc23 tetratricopeptide repeat domain 23 2 2
MIRT597329 Senp5 SUMO/sentrin specific peptidase 5 2 2
MIRT597745 Polr1b polymerase (RNA) I polypeptide B 2 2
MIRT597779 Plin3 perilipin 3 2 2
MIRT597900 Paxip1 PAX interacting (with transcription-activation domain) protein 1 2 2
MIRT598014 Nop16 NOP16 nucleolar protein 2 2
MIRT598196 Mrgprb1 MAS-related GPR, member B1 2 2
MIRT598360 Man2a2 mannosidase 2, alpha 2 2 2
MIRT598933 Git2 G protein-coupled receptor kinase-interactor 2 2 2
MIRT599064 Epb4.2 erythrocyte membrane protein band 4.2 2 2
MIRT599072 Eif2b1 eukaryotic translation initiation factor 2B, subunit 1 (alpha) 2 2
MIRT599119 Dynll1 dynein light chain LC8-type 1 2 2
MIRT599271 D14Abb1e family with sequence similarity 208, member A 2 2
MIRT599613 Birc5 baculoviral IAP repeat-containing 5 2 2
MIRT599909 Abcc9 ATP-binding cassette, sub-family C (CFTR/MRP), member 9 2 2
MIRT600060 Smco1 single-pass membrane protein with coiled-coil domains 1 1 1
MIRT600067 Knop1 lysine rich nucleolar protein 1 1 1
MIRT600320 Stxbp5l syntaxin binding protein 5-like 2 2
MIRT600337 Strbp spermatid perinuclear RNA binding protein 2 2
MIRT600524 Ppargc1a peroxisome proliferative activated receptor, gamma, coactivator 1 alpha 2 2
MIRT600646 Med18 mediator complex subunit 18 2 2
MIRT600683 Mapre1 microtubule-associated protein, RP/EB family, member 1 2 2
MIRT600802 C5ar2 complement component 5a receptor 2 1 1
MIRT601265 9930104L06Rik RIKEN cDNA 9930104L06 gene 2 2
MIRT601726 Rfxank regulatory factor X-associated ankyrin-containing protein 2 2
MIRT601751 Rasl12 RAS-like, family 12 2 2
MIRT601888 Pctp phosphatidylcholine transfer protein 2 2
MIRT602148 Irgm2 immunity-related GTPase family M member 2 2 2
MIRT602904 Fam219b family with sequence similarity 219, member B 1 1
MIRT603138 Ufd1l ubiquitin recognition factor in ER-associated degradation 1 2 2
MIRT603213 Tnfrsf26 tumor necrosis factor receptor superfamily, member 26 2 2
MIRT603268 Svopl SV2 related protein homolog (rat)-like 2 2
MIRT603291 Spib Spi-B transcription factor (Spi-1/PU.1 related) 2 2
MIRT603922 Hist1h2br histone cluster 1 H2br 2 2
MIRT603924 Hist1h2bq histone cluster 1, H2bq 2 2
MIRT604014 Fut4 fucosyltransferase 4 2 2
MIRT604105 Dll3 delta-like 3 (Drosophila) 2 2
MIRT604166 Cyb5d2 cytochrome b5 domain containing 2 2 2
MIRT604313 Ccdc127 coiled-coil domain containing 127 2 2
MIRT605041 Efr3b EFR3 homolog B 2 2
MIRT605716 Gpr157 G protein-coupled receptor 157 2 2
MIRT605741 Gipc1 GIPC PDZ domain containing family, member 1 2 2
MIRT605747 Fam96a family with sequence similarity 96, member A 2 2
MIRT606125 Tnfrsf10b tumor necrosis factor receptor superfamily, member 10b 2 2
MIRT606693 Cnnm3 cyclin M3 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-363 Emodin NULL 3220 Microarray K562 cells 23744534 2013 down-regualted
miR-363 Emodin NULL 3220 Quantitative real-time PCR K562 cells 23744534 2013 down-regualted
miR-363 Formaldehyde NULL 712 Microarray Human lung epithelial cells (A549) 21147603 2011 down-regulated
miR-363 Arsenic trioxide approved 14888 Quantitative real-time PCR acute promyelocytic leukemia 22072212 2012 up-regulated
miR-363 Bicalutamide approved 2375 Microarray prostate 22674191 2012 down-regulated
miR-363 17beta-estradiol (E2) approved 5757 Microarray rat breast 17700064 2007 up-regulated
miR-363 Acetaminophen approved 1983 Microarray rat liver 17965554 2007 up-regulated
miR-363 Carbon tetrachloride NULL 5943 Microarray rat liver 17965554 2007 up-regulated
miR-363 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 down-regulated

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