miRTarBase - #MIRT600923


—
pre-miRNA Information
pre-miRNA mmu-mir-3079   
Genomic Coordinates chr15: 76290879 - 76290968
Description Mus musculus miR-3079 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA mmu-miR-3079-5p
Sequence 15| UUUGAUCUGAUGAGCUAAGCUGG |37
Evidence Experimental
Experiments Illumina
Putative Targets

Gene Information
Gene Symbol Exoc8   
Synonyms AI414418, EXO84, Exo84p, R74783, SEC84
Description exocyst complex component 8
Transcript NM_198103   
Expression
Putative miRNA Targets on Exoc8
3'UTR of Exoc8
(miRNA target sites are highlighted)		 
>Exoc8|NM_198103|3'UTR
   1 GGCTCTGCTCTGTGTCTTTGTGTGTGTACGTGTACACGTGCTACAGATGCGTCATTTGTATTTACATTACACAATGTCAG
  81 CACATTCCTCAGAGACACAGACAGCATATAAAAGTGCCCTCTGAAAAATGCAGTCAAAAGGAGAAAGATAATGTGTTAAG
 161 CATCACATACAACCCCCCAATACTGGGACTGTCAAGAGCACATACCATGTCTTGCTCTGTTTTTTAATAATTCTTTAAGT
 241 AGAGTGTATGGTCACACCAGAACATTTCAGGCTACTCTTTAACTTGAAAGACACTTCTCACGTTAGCACATCTAGGAGCA
 321 GTGCACTTCCATGCTGCCTAGAAAAATATTAGGTCCACAGGGTTTAAGTATGTTGTAAAACATTCCAAGTCAACAAAATG
 401 GCTTCGTAATGGTCAGTGCTGTGTGACACACCTGTGTCCTGTACTGAGACAGATCAACATGAAAAGAAATGAGTTGGGAA
 481 AACTGGTTTGGGATAAATTTCAATATGTGGGCCTCAGGTCTGTCAGTATTTGTAGCATGTGGAAGGAAGCCTTTATAAAA
 561 CTTTGCAGGCATCCAAAAGTCACTGAAAAGTAGCATGTTCCATGGCTAATTGGATGCATCTTTTTGGGGGAGGTGGGAGA
 641 ATCACAAGGACTACGTTGAATTTTTAACATATTCCAGAACTGAATGGATTTGCTGCTGCAGCGTGTTTTGCCATGTTCAG
 721 GAAGTAAGTCTTGCTGAAAAGCCACACCAAGGATCCTAGCAGTAGGCGGGTAAGTGACTCCAGCCCCTGCAGACACTTCA
 801 CCACCAGCCTGGGTTTGGAGGCACTGAGACTTCTGGCAAATGCAGAACTCCCTGTCTGAGAAGAGTTCAGGCTGTGTGTA
 881 GGTTAGGAGTTTTAAAAAAAAGAATGCAATGTCACTCCTTAAGAATGCCAGAGATTTGGTTTTGGTCATTTTGTTTTCTT
 961 GAGATAAGTTTCAGCCCAGACTGGTTTTGGGCTGGTGCTGTAACCAAGGATGACCTTGAATTTCTAATCCTGACTCCACA
1041 TCCCAAGGGCTGGGATTACAGGAATGTGCCATAATGCTATTTATGCTGTGTTGGAGAAAAAAAACCCTGGCTTTCTCATA
1121 CTAGGCAAGCACCCTACCCACTGCTACACCTGCTGCCCTGATGGTTTTTGAAACTTAGTAACTGAGTAGAGATGCACATA
1201 CCTCAAGCACAGGGAAGGGACCTTCTGTGACTCTTCAAATGCTGTGCTGCATTTTAAAAAACAAGAGCCTGGCATGCTGG
1281 TGCACACTTTTAATCAGAGCACTGGGAGGCAGGAGCAAGCGGATCTCTGAGTTCAAGGCCAGCCTGATCAACAAGGTGAA
1361 TTTCAGGACAGCCAGGGATCTGTAGAGACCCTGCCTTAAAAACAACTTTTAAGAGAATTCCAGATTGTAATACTTACTTC
1441 AGGTTGTTGAGTAGGGATAGGTGGGTAGGTGGAGCCCCTAAGCTTTTATTTTTTTTTCTTTTTCTTTTTTTGGTTTTTTT
1521 TTTGTTTTTTTGTTTTGTTTTTTGTTTTTTCAAGGGTTTCTCTGTATAGCCTTGGCTGTACTGAAACTCACTCTGTAGAC
1601 CAGGCTATCCTTGAACTCAGAAATCCTCCTGCCTCTGCCTCTGCCTCCCAAGTGCTGGGATCAAAGGCATGCGCCACCAT
1681 GCCCGGCTTGCCCCTGATTTCTAAAGTGAGCTCTGCTCTGATCACTTAATGTCCTGTTAGAATGTGGGTGCTGAAACCCA
1761 TTTTCCCACTAGCTTGTAGCTGTGGGTTTTGTCAACGATGCCATGTTTTTATGTCCATTGGGTCTAAAGGCTATTTCTTG
1841 TCTCTTGAATAAAAGAGGTAGTAGTAAGCCATAAAATGATGTAAAACCCTAAATGGCTTCTGCAGTGATTCAGGGTTGTT
1921 AAGACTCCTCAGCTTCATTAACTCATCAGGCCAGCAGTTTCTCTGTCTTTTTCTAGCTCTCCATGCATAGAAAGATCGCA
2001 GAGGTCACCACTGCAGCCTTCCACTTTCCCATGTTAGGGTTTGTTGATTTAAATCAACAATGAAGACCAAGCGGGTCTTG
2081 AACTCACAGAGGTCATCCTGCCTCTGCCTCCTGAGTGCTGGGATTAAATTATGCTCCACTATGCCTTGCTAAGTTAGAGT
2161 TTTCTACATAACCATAACTGGATGTCCCAGCCAAACAAATGTACTCATTTCTCTTAAGCTCACTGGACTTGGATTTGATG
2241 AAATTGTGTGGCTGCGATGCCGATTTGGTGCCACTTGGAATTTAATAGATAAACCGTGCATAAGGCCTCGAGGTGTAAGA
2321 AGGCTAACATGTTTCCCCACATAATAAATGGCTGTATCTTTATGGAAATGGAAGTAGAGAACTTTATTCTGCTAAGAACG
2401 GGCTAATGTGTTCCTCTGTGTAGCTGAGGGAATGCAGTCTGGGAAATCTGCAGGAAGCTTGAAGGATTGTCTAGCAGTGG
2481 TAGTTCCACACATGCTGACGTGCTGTGACATTAACCACCTTTTGTTTGCTTTAAAACTAACTGCATAGACCAGGAATCAC
2561 AGACTGGGTTAATTTCAGTTAGAGAATTCAGCCTCTGATGAGAGCCTCCTGTCATGAAATGCTCAAAGTCATTGCTGTGA
2641 CTTTGGTATTACCGTGATTGCCAGCACATTCATCCTGCACCTGGTATTAGTTAGGGCTAAGCAGCTGGGGCTTGCTGCAG
2721 ATGCAAGCATTGCTGAACACTACACTTTGATGTACTGTGAGAAACAACCTTTAAACTGATAAAGCTTTATAGCATTCTCA
2801 CTGGATAGAACTGATTGCTATAACATTCTGTTTATTTACTTGTTTTGAGACGGGTCTCACTCTAGTCCTCTGCCTCCTGA
2881 GTGCTGGGATTAAAGACATGCTCAGCTAGGTGTGGTGACACACAGTTTTTATTCCAGAATTGCAGAGGCAGAAGCAAGAG
2961 GATCTTTCGGTAGCCAGGGTTACCTAGTGAGACAGACCCTGTCTGAGAGAGAGAGCCAGGCCTCTCGGCACACCCTTTAA
3041 TCCCCAGCACTTGGGAAGAAGCAGGCAGATCTGAGTTTGAGGCCAGCCTTGTCTACATAATGAATTCCAGGACAACTAGG
3121 ACTACATAGATGCTGTTACCACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACCAGAGAACTGGAGAGATGGCTT
3201 AGTGGTTAAGAGCACTGGCTGCTCTTCTAGAAGTCCTGAGTTCAATTCCCAGGAACCACATGGTGGCTTAAAAAGAAAAC
3281 AAGCAAACAAAAAATAACATTTGCTGCTCTCGAGGGCAGGCTCAGGATTAGTACGCAAAATCATTAGTCCACTTTCAGCA
3361 AATGACACCTTCTGGCCTTGGGTACTGCACACGTGTTCATACACAATGTAAAAAATCTTTGAAAACTTGTAGTAAAAGTT
3441 ATACGTATGGATAGATTGTGTGCGCAATATAAGCCTTTCCTTGCTTATCTTGTTTATGGGAATACATGTATAAAGTTCAT
3521 GTCTAGCTAGGTGCTGCTATGCCAAACCAGGCCCTTTTTGTTGTTACATACATTAACCCATCTACTGTGTCCTGCAGATG
3601 TCTCCAACGGTAGTGTTTCTCCTGGCCTTTTAGCTCCTCTGGTGGCAGACTTGACTGTGGCAGAAGGAATTGTCTTATGC
3681 ATCCAGGTCCCTCTTGTCACGGTTTTGATACAGGAACCACCATGTCAGATGTCCATGGTCCACTTCTTGGCCACAGGAGC
3761 ATTAAACTTGGTGTGCTGGCTGATTTCACCTTTACTCACCATTTTCCTGGAGTTACCCACGATGCCTTCTTGGTGCATTT
3841 GCTGTGACACAGAGAACCAAATCCCAAAGAACCAAACTATCCTTTCTTAATTTAGATAAACACTGCCAAACTTGACCACC
3921 AGGAAAGTTGTGTAGTCTCCCCAAACGACAGGAAAATTCTATTTCCATTAATCCTCATAATTATTCATTTTGTGATAAAT
4001 GTAAACTTCCAATGTAGTAAGACTTAAAACCACCTTTGTTTGTTTGTGAGATAGGGCCTGTGTAGCCTCGAACCTCCTTG
4081 GAAGCCTATTTAGGTCAGGTTGGTCTTGAGCTGCAGGACCCCATTGCTGCTGCCTCACATGTAGAGAAAAGGTATCACCA
4161 CACCAGGCTTATTCACTCAGTTATGTGACAGTGTGTCTTGGTGCTGGAAAGCAGGTGTTAAAAGCCCTGGAGCTGGAGTC
4241 GCAGGTGTTCCGGGTCACCTAACGTGGGTGGAAGGATGTGAACTCAGGTCCAATGGAAGCGCAAGTGCCCTTACCTTTGT
4321 GCATCTCTCCAGCCCCACATTTATGTACACTTTGAATAATACTCTTTTTGAGAGGGGGATGAGGCTTAGTACAGTGCTTG
4401 CCTAGCATGCACAAGGCCCTGATCTATCCCCAGCACTGTACACACTGCATGATAGTGCATGCCTGTAATCTCAGCACTGA
4481 GGTAGAGGCAGGAGGATCTGAGGCTCGCTCATCCTCAGCTACCTGGTGAGTTCAAGGCCAACACCCGACTGGTTGCAGCC
4561 TGTGTTGTTGGGTGATTAAGAACATTTGCTGCTCTTGAGGGCAGGTTCAGTTCCCAGGACTCAGGTAAGCAGCATGGGCG
4641 TGTTGACACGTGCCTGCAGCTGATAGGGCTGTGACCTGCCCACCAGTCCACAGCCAGGGTCTCTGTTAAATGGGACTGCT
4721 TATTTCAACATGCAGGAATCCCCTCTAGCTTCCCAAAGCAGCAGATGCTGTCAGAGCACCTGTCTGTCACTTGTGGCCTA
4801 GCACAGCGGCTGCCCGAGGCCCTGGGAATAGATGCACAACCTGGGGATTTGGAGACAGAACCACACAGAGTTTCAGTGAC
4881 TTTGCTTGGTTCTCAGACTCAAATGCCTGTCCCCAATGACTGAACGGCACCCCAGATGCATATACTGATGAGAATGAACC
4961 CCTCAGGATGAGATCAGTCATTATTTTGTTTTGGGGGGGTGCAGGATGTACTGAAAAGATCAGAAAGGACCAGTGCCTGT
5041 CCACTTTCTGTCCACTTTCTGTGGTCCTGAGTGCGCATGGACTCAGCGCCCATCCAAACCTAAGGCGAACCTGTGAGAGC
5121 CTTCATTCTGGACTTCAGCTTTCAGGACACAAAAAATAAAAGGCTGTGTTGAGGGCAAAAAAAAAAAAAAAAAAAAA
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' ggucGA-AUCGAGU-AGUCUAGUUu 5'
              || || || |  |||||||| 
Target 5' tgtcCTGTA-CTGAGACAGATCAAc 3'
 435 - 458 150.00 -9.90
2 
miRNA  3' gguCGAAUCGAGUAGUCU-AGUUu 5'
             ||||:|:|| ||||| |||| 
Target 5' tttGCTTGGTTC-TCAGACTCAAa 3'
 4881 - 4903 147.00 -19.90
3 
miRNA  3' ggucGAAUCGAGUAGUCUAGUUu 5'
              || ||   || ||||||: 
Target 5' acccCTCAG--GATGAGATCAGt 3'
 4958 - 4978 135.00 -10.30
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 GSM622573. RNA binding protein: AGO2. Condition:KO1 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 GSM4751758
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of iBAT 3
Location of target site NM_198103 | 3UTR | CUCCCAAGUGCUGGGAUCAAAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4751760
Method / RBP HITS-CLIP / AGO
Cell line / Condition adipose tissue / RNA sequencing of eWAT 1
Location of target site NM_198103 | 3UTR | CUGGGAUCAAAGGCAU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE142677
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM622573
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / KO1
Location of target site NM_198103 | 3UTR | AGAAAUCCUCCUGCCUCUGCCUCUGCCUCCCAAGUGCUGGGAUCAAAGGCAUGCGCCAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM622574
Method / RBP HITS-CLIP / AGO2
Cell line / Condition mESCs / KO2
Location of target site NM_198103 | 3UTR | GAACUCAGAAAUCCUCCUGCCUCUGCCUCUGCCUCCCAAGUGCUGGGAUCAAAGGCAUGCGCCAC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21258322 / GSE25310
CLIP-seq Viewer Link
13 mmu-miR-3079-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT581346 Trmt10a tRNA methyltransferase 10A 1 2
MIRT581662 Ppp4r2 protein phosphatase 4, regulatory subunit 2 2 2
MIRT583982 Ddx26b integrator complex subunit 6 like 2 2
MIRT585121 Zfp935 zinc finger protein 935 2 2
MIRT594303 Opcml opioid binding protein/cell adhesion molecule-like 2 2
MIRT597606 Ptk6 PTK6 protein tyrosine kinase 6 2 2
MIRT597838 Pigyl phosphatidylinositol glycan anchor biosynthesis, class Y-like 1 1
MIRT599206 Ddhd2 DDHD domain containing 2 2 2
MIRT600923 Exoc8 exocyst complex component 8 2 2
MIRT601313 Zfp830 zinc finger protein 830 2 2
MIRT602402 Fadd Fas (TNFRSF6)-associated via death domain 2 2
MIRT604556 Vcan versican 2 2
MIRT606428 Fam65b RHO family interacting cell polarization regulator 2 2 2

Error report submission