Accession ID: MIRT028711 [miRNA, hsa-miR-27a-3p :: VPS35, target gene]
pre-miRNA Information
pre-miRNA ID hsa-mir-27aLinkOut: [miRBase ]
Description Homo sapiens miR-27a stem-loop
Comment This miRNA was previously named miR-27 but is renamed here to avoid confusion with the more recently described miR-27b (MIR:MI0000440).
2nd Structure of pre-miRNA
Disease
Mature miRNA Information
Mature miRNA hsa-miR-27a-3p
Mature Sequence 51| UUCACAGUGGCUAAGUUCCGC |71
Evidence Experimental
Experiments Cloned
Putative hsa-miR-27a-3p Targets LinkOut: [ TargetScanS 5.1 | MicroCosm | microRNA.org | miRecords | miRDB | miRo | miRNAMap 2.0 ]
Gene Information
Gene Symbol VPS35 LinkOut: [ Entrez Gene | BioGPS | Wikipedia | iHop ]
Synonyms DKFZp434E1211, DKFZp434P1672, FLJ10752, FLJ13588, FLJ20388, MEM3
Description vacuolar protein sorting 35 homolog (S. cerevisiae)
Transcript NM_0182    LinkOut: [ RefSeq ]
Expression LinkOut: [ BioGPS ]
Putative miRNA Targets on VPS35 LinkOut: [ TargetScan 5.1 | MicroCosm | miRNAMap 2.0 ]
3'UTR of VPS35
(miRNA target sites are highlighted)
>VPS35|NM_0182|3'UTR
   1 TAAAAAGGAAATAGCTCACCATACTCCTTTCCATGTACATCCAGTGAGGGTTTTATTACGCTAGGTTTCCCTTCCATAGA
  81 TTGTGCCTTTCAGAAATGCTGAGGTAGGTTTCCCATTTCTTACCTGTGATGTGTTTTACCCAGCACCTCCGGACACTCAC
 161 CTTCAGGACCTTAATAAAATTATTCACTTGGTAAGTGTTCAAGTCTTTCTGATCACCCCAAGTAGCATGACTGATCTGCA
 241 ATTTAAAATTCCTGTGATCTGTAAAAAAAAAAAAAAAAAAAAAAACAAAACCCACAAGCACTTATCTTGGCTACTAATGA
 321 AGCTCTCCTTTTTTTTGTTTGTTTGTTTGCTTCATTGTTGATTGTGTATTTTCTTCATTCCTGGGGAGTACTAACCCAAA
 401 AGCGTCTGTCTCTTGTTTTCTAGTCCAGTTTGAGATTAATTTAGAAGAAAGGAATACTGTATGTGAAATTCATCTTGGGC
 481 TTTCCCCTAAATTGCAAGATAAGGCCATGTGTAAGATTTTCCCTAAAACTAGAATATATTAATGCATGTTTGAGAATTTT
 561 AAAGCACCATGGTCAAAACCAGAAGCTATATTTTGCATATTTGGACTCAGCCATCCATTAAGAACCCATGTTGTCCTCTG
 641 GACATATTTATCAATATAATTGGGTTTTAAATAGTATAAAAGAAAACTTGTGATCTATATAATTTATGTATCACCTTCAT
 721 TGTAAATTTAGCAGGAAATGCATCACAATTATGATTTTTTTTTTTGCACCAGTGAAACAATAAAGATGCTATTAACAAAA
 801 AAAAAAAAAAA
Target sites Provided by authors  Predicted by miRanda
miRNA-target interactions (Predicted by miRanda)
IDDuplex structurePositionScoreMFE
1
miRNA  3' cgCCUUGAA--UCGGUGACACUu 5'
            | ||:||  | :: |||||| 
Target 5' ctGCAATTTAAAATTCCTGTGAt 3'
236 - 258 125.00 -8.80
2
miRNA  3' cgccuuGAAUCGGUGACACUu 5'
                |||| |  |||||| 
Target 5' ccatttCTTA-C--CTGTGAt 3'
113 - 130 121.00 -7.30
3
miRNA  3' cgccuugAAUCGGUGACACuu 5'
                 ||: : |:||||  
Target 5' tgcttcaTTGTTGATTGTGta 3'
348 - 368 110.00 -5.80
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target hsa-miR-27a-3p :: VPS35    [ Functional MTI ]
Validation Method Sequencing
Article - Hafner, M. Landthaler, M. Burger, L. et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
MiRNA-Target Expression Profile:

 
MiRNA-Target Interaction Network:
Strong evidence (reporter assay, western blot, qRT-PCR or qPCR)
Other evidence
109 hsa-miR-27a-3p Target Genes:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT000107 RUNX1 runt-related transcription factor 1 1 1
MIRT001088 FOXO1 forkhead box O1 4 3
MIRT001210 PHB prohibitin 5 3
MIRT001769 ZBTB10 zinc finger and BTB domain containing 10 3 2
MIRT001770 MYT1 myelin transcription factor 1 3 1
MIRT002401 SP4 Sp4 transcription factor 3 2
MIRT002402 SP3 Sp3 transcription factor 3 2
MIRT002403 SP1 Sp1 transcription factor 3 2
MIRT005357 HIPK2 homeodomain interacting protein kinase 2 3 1
MIRT005425 THRB thyroid hormone receptor, beta (erythroblastic leukemia viral (v-erb-a) oncogene homolog 2, avian) 3 1
MIRT005511 SPRY2 sprouty homolog 2 (Drosophila) 5 1
MIRT006100 WEE1 WEE1 homolog (S. pombe) 2 1
MIRT006221 APC adenomatous polyposis coli 2 1
MIRT006357 FBXW7 F-box and WD repeat domain containing 7 3 2
MIRT006431 IGF1 insulin-like growth factor 1 (somatomedin C) 3 1
MIRT006521 PAX3 paired box 3 2 1
MIRT006557 MMP13 matrix metallopeptidase 13 (collagenase 3) 1 1
MIRT007005 Mstn myostatin 1 1
MIRT007024 WDR77 WD repeat domain 77 1 1
MIRT007123 ABCA1 ATP-binding cassette, sub-family A (ABC1), member 1 1 1
MIRT007124 PDS5B PDS5, regulator of cohesion maintenance, homolog B (S. cerevisiae) 1 1
MIRT007313 NFE2L2 nuclear factor (erythroid-derived 2)-like 2 1 1
MIRT007360 EGFR epidermal growth factor receptor (erythroblastic leukemia viral (v-erb-b) oncogene homolog, avian) 1 1
MIRT028684 GCA grancalcin, EF-hand calcium binding protein 1 1
MIRT028685 FADD Fas (TNFRSF6)-associated via death domain 1 1
MIRT028686 PEX7 peroxisomal biogenesis factor 7 1 1
MIRT028687 TERF2IP telomeric repeat binding factor 2, interacting protein 1 1
MIRT028688 LIMA1 LIM domain and actin binding 1 1 1
MIRT028689 GRWD1 glutamate-rich WD repeat containing 1 1 1
MIRT028690 TIAL1 TIA1 cytotoxic granule-associated RNA binding protein-like 1 1 1
MIRT028691 GNB5 guanine nucleotide binding protein (G protein), beta 5 1 1
MIRT028692 STAU1 staufen, RNA binding protein, homolog 1 (Drosophila) 1 1
MIRT028693 LMNB2 lamin B2 1 1
MIRT028694 RPS6KA5 ribosomal protein S6 kinase, 90kDa, polypeptide 5 1 1
MIRT028695 SETD1B SET domain containing 1B 1 1
MIRT028696 TMTC3 transmembrane and tetratricopeptide repeat containing 3 1 1
MIRT028697 ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein 1 1
MIRT028698 RPP25L chromosome 9 open reading frame 23 1 1
MIRT028699 ARL6IP1 ADP-ribosylation factor-like 6 interacting protein 1 1 1
MIRT028700 FIZ1 FLT3-interacting zinc finger 1 1 1
MIRT028701 FAM49B family with sequence similarity 49, member B 1 1
MIRT028702 LYSMD3 LysM, putative peptidoglycan-binding, domain containing 3 1 1
MIRT028703 PJA2 praja ring finger 2 1 1
MIRT028704 ALDH9A1 aldehyde dehydrogenase 9 family, member A1 1 1
MIRT028705 SETD7 SET domain containing (lysine methyltransferase) 7 1 1
MIRT028706 LITAF lipopolysaccharide-induced TNF factor 1 1
MIRT028707 SUV420H1 suppressor of variegation 4-20 homolog 1 (Drosophila) 1 1
MIRT028708 TMEM30A transmembrane protein 30A 1 1
MIRT028709 RNF182 ring finger protein 182 1 1
MIRT028710 MMS22L chromosome 6 open reading frame 167 1 1
MIRT028711 VPS35 vacuolar protein sorting 35 homolog (S. cerevisiae) 1 1
MIRT028712 PLAG1 pleiomorphic adenoma gene 1 1 1
MIRT028713 SPICE1 coiled-coil domain containing 52 1 1
MIRT028714 SPATA13 spermatogenesis associated 13 1 1
MIRT028715 USP25 ubiquitin specific peptidase 25 1 1
MIRT028716 LBR lamin B receptor 1 1
MIRT028717 MYO9A myosin IXA 1 1
MIRT028718 ECT2 epithelial cell transforming sequence 2 oncogene 1 1
MIRT028719 GPT2 glutamic pyruvate transaminase (alanine aminotransferase) 2 1 1
MIRT028720 PRR14L chromosome 22 open reading frame 30 1 1
MIRT028721 HOXC6 homeobox C6 1 1
MIRT028722 FOXP4 forkhead box P4 1 2
MIRT028723 C6orf120 chromosome 6 open reading frame 120 1 1
MIRT028724 MBTD1 mbt domain containing 1 1 1
MIRT028725 DPY19L3 dpy-19-like 3 (C. elegans) 1 1
MIRT028726 MKLN1 muskelin 1, intracellular mediator containing kelch motifs 1 1
MIRT028727 FAM69A family with sequence similarity 69, member A 1 1
MIRT028728 RMND5A required for meiotic nuclear division 5 homolog A (S. cerevisiae) 1 1
MIRT028729 AMOTL2 angiomotin like 2 1 1
MIRT028730 ARL4C ADP-ribosylation factor-like 4C 1 1
MIRT028731 DNAJC27 DnaJ (Hsp40) homolog, subfamily C, member 27 1 1
MIRT028732 KCTD14 potassium channel tetramerisation domain containing 14 1 1
MIRT028733 EIF2S2 eukaryotic translation initiation factor 2, subunit 2 beta, 38kDa 1 1
MIRT028734 AFF4 AF4/FMR2 family, member 4 1 1
MIRT028735 MIER3 mesoderm induction early response 1, family member 3 1 1
MIRT028736 FAM217B chromosome 20 open reading frame 177 1 1
MIRT028737 MKNK2 MAP kinase interacting serine/threonine kinase 2 1 1
MIRT028738 TMEM170B transmembrane protein 170B 1 1
MIRT028739 GPAM glycerol-3-phosphate acyltransferase, mitochondrial 1 1
MIRT028740 LIFR leukemia inhibitory factor receptor alpha 1 1
MIRT028741 ABHD17C family with sequence similarity 108, member C1 1 1
MIRT028742 INO80D INO80 complex subunit D 1 1
MIRT028743 ZNF800 zinc finger protein 800 1 1
MIRT028744 TP53 tumor protein p53 1 1
MIRT050013 APBB2 amyloid beta (A4) precursor protein-binding, family B, member 2 1 1
MIRT050014 RPS18 ribosomal protein S18 1 1
MIRT050015 SERBP1 SERPINE1 mRNA binding protein 1 1 1
MIRT050016 DUSP5 dual specificity phosphatase 5 1 1
MIRT050017 CEP55 centrosomal protein 55kDa 1 1
MIRT050018 ZNF778 zinc finger protein 778 1 1
MIRT050019 RPL19 ribosomal protein L19 1 1
MIRT050020 IMPA1 inositol(myo)-1(or 4)-monophosphatase 1 1 1
MIRT050021 MYO1C myosin IC 1 1
MIRT050022 BMI1 BMI1 polycomb ring finger oncogene 1 1
MIRT050023 RPTOR regulatory associated protein of MTOR, complex 1 1 1
MIRT050024 LENG1 leukocyte receptor cluster (LRC) member 1 1 1
MIRT050025 KMT2D myeloid/lymphoid or mixed-lineage leukemia 2 1 1
MIRT050026 BRAT1 chromosome 7 open reading frame 27 1 1
MIRT050027 SEC16A SEC16 homolog A (S. cerevisiae) 1 1
MIRT050028 CUL1 cullin 1 1 1
MIRT050029 ZNF638 zinc finger protein 638 1 1
MIRT050030 THOC3 THO complex 3 1 1
MIRT050031 ATN1 atrophin 1 1 1
MIRT050032 PFAS phosphoribosylformylglycinamidine synthase 1 1
MIRT050033 ATP7B ATPase, Cu++ transporting, beta polypeptide 1 1
MIRT050034 FAM21C family with sequence similarity 21, member C 1 1
MIRT050035 RPS24 ribosomal protein S24 1 1
MIRT050036 NME2 non-metastatic cells 2, protein (NM23B) expressed in 1 1
MIRT050037 SUN2 Sad1 and UNC84 domain containing 2 1 1