Accession ID: MIRT036653 [miRNA, hsa-miR-935 :: CKB, target gene]
pre-miRNA Information
pre-miRNA ID hsa-mir-935LinkOut: [miRBase ]
Synonyms MIRN935, hsa-mir-935, MIR935
Description Homo sapiens miR-935 stem-loop
2nd Structure of pre-miRNA
Disease
Mature miRNA Information
Mature miRNA hsa-miR-935
Mature Sequence 56| CCAGUUACCGCUUCCGCUACCGC |78
Evidence Experimental
Experiments Cloned
Putative hsa-miR-935 Targets LinkOut: [ TargetScanS 5.1 | MicroCosm | microRNA.org | miRecords | miRDB | miRo | miRNAMap 2.0 ]
Gene Information
Gene Symbol CKB LinkOut: [ Entrez Gene | BioGPS | Wikipedia | iHop ]
Synonyms B-CK, CKBB
Description creatine kinase, brain
Transcript NM_001823    LinkOut: [ RefSeq ]
Expression LinkOut: [ BioGPS ]
Putative miRNA Targets on CKB LinkOut: [ TargetScan 5.1 | MicroCosm | miRNAMap 2.0 ]
3'UTR of CKB
(miRNA target sites are highlighted)
>CKB|NM_001823|3'UTR
   1 AGCCCGGCCCACACCCGACACCAGCCCTGCTGCTTCCTAACTTATTGCCTGGGCAGTGCCCACCATGCACCCCTGATGTT
  81 CGCCGTCTGGCGAGCCCTTAGCCTTGCTGTAGAGACTTCCGTCACCCTTGGTAGAGTTTATTTTTTTGATGGCTAAGATA
 161 CTGCTGATGCTGAAATAAACTAGGGTTTTGGCCTGCCTGCGTCTG
Target sites Provided by authors  Predicted by miRanda
miRNA-target interactions (Predicted by miRanda)
IDDuplex structurePositionScoreMFE
1
miRNA  3' cgCCAUCGCCUUCGCCAUUGACc 5'
            | |:||  ||   |  |||| 
Target 5' ttGATGGC-TAA---GATACTGc 3'
146 - 164 81.00 -5.50
2
miRNA  3' cgccaucgccuucgccAUUGACc 5'
                          |: ||| 
Target 5' aactagggttttggccTGCCTGc 3'
178 - 200 72.00 -6.90
3
miRNA  3' cgccaucgccuuCGCCAUUGACc 5'
                      || ||  ||| 
Target 5' cccctgatgttcGCCGT--CTGg 3'
70 - 90 67.00 -6.90
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target hsa-miR-935 :: CKB    [ Functional MTI ]
Validation Method CLASH
Conditions Flp-In T-REx 293-hAGO1 cells
Location of target site CDS
Original Description (Extracted from the article) ... Validation of interactions identified by CLASH suppports their reliability. ...

- Helwak, A. Kudla, G. Dudnakova, T. Tollervey, D., 2013, Cell.

miRNA-target interactions (Provided by authors)
IDDuplex structurePosition
1
miRNA  3' cgCCATCGCCT--TCGCCATTGAcc 5'
            || :|||||  ||| | |:||  
Target 5' acGGAGGCGGAGCAGCAGCAGCTca 3'
4 - 28
Article - Helwak, A. Kudla, G. Dudnakova, T. Tollervey, D.
- Cell, 2013
MicroRNAs (miRNAs) play key roles in gene regulation, but reliable bioinformatic or experimental identification of their targets remains difficult. To provide an unbiased view of human miRNA targets, we developed a technique for ligation and sequencing of miRNA-target RNA duplexes associated with human AGO1. Here, we report data sets of more than 18,000 high-confidence miRNA-mRNA interactions. The binding of most miRNAs includes the 5' seed region, but around 60% of seed interactions are noncanonical, containing bulged or mismatched nucleotides. Moreover, seed interactions are generally accompanied by specific, nonseed base pairing. 18% of miRNA-mRNA interactions involve the miRNA 3' end, with little evidence for 5' contacts, and some of these were functionally validated. Analyses of miRNA:mRNA base pairing showed that miRNA species systematically differ in their target RNA interactions, and strongly overrepresented motifs were found in the interaction sites of several miRNAs. We speculate that these affect the response of RISC to miRNA-target binding.
LinkOut: [PMID: 23622248]
MiRNA-Target Expression Profile:

 
MiRNA-Target Expression Profile(TCGA):

 
MiRNA-Target Interaction Network:
Strong evidence (reporter assay, western blot, qRT-PCR or qPCR)
Other evidence
112 hsa-miR-935 Target Genes:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT036639 PURB purine-rich element binding protein B 1 1
MIRT036640 DHFR dihydrofolate reductase 1 1
MIRT036641 IKZF5 IKAROS family zinc finger 5 (Pegasus) 1 1
MIRT036642 ABCB7 ATP-binding cassette, sub-family B (MDR/TAP), member 7 1 1
MIRT036643 USP7 ubiquitin specific peptidase 7 (herpes virus-associated) 1 1
MIRT036644 SHB Src homology 2 domain containing adaptor protein B 1 1
MIRT036645 ZFP37 zinc finger protein 37 homolog (mouse) 1 1
MIRT036646 ASB3 ankyrin repeat and SOCS box containing 3 1 1
MIRT036647 DEDD death effector domain containing 1 1
MIRT036648 NBEA neurobeachin 1 1
MIRT036649 USP24 ubiquitin specific peptidase 24 1 1
MIRT036650 NOL10 nucleolar protein 10 1 1
MIRT036651 PTPRK protein tyrosine phosphatase, receptor type, K 1 1
MIRT036652 KDM3B lysine (K)-specific demethylase 3B 1 1
MIRT036653 CKB creatine kinase, brain 1 1
MIRT036654 TMEM205 transmembrane protein 205 1 1
MIRT036655 TGOLN2 trans-golgi network protein 2 1 1
MIRT036656 ITPR2 inositol 1,4,5-trisphosphate receptor, type 2 1 1
MIRT036657 CCT5 chaperonin containing TCP1, subunit 5 (epsilon) 1 1
MIRT036658 DHX8 DEAH (Asp-Glu-Ala-His) box polypeptide 8 1 1
MIRT036659 HIST1H4L histone cluster 1, H4l 1 1
MIRT036660 EIF4A1 eukaryotic translation initiation factor 4A1 1 1
MIRT036661 SF1 splicing factor 1 1 1
MIRT036662 TUBB tubulin, beta class I 1 1
MIRT036663 NOB1 NIN1/RPN12 binding protein 1 homolog (S. cerevisiae) 1 1
MIRT036664 RNF26 ring finger protein 26 1 1
MIRT036665 NOP2 NOP2 nucleolar protein homolog (yeast) 1 1
MIRT036666 ABCC5 ATP-binding cassette, sub-family C (CFTR/MRP), member 5 1 1
MIRT036667 NR2F2 nuclear receptor subfamily 2, group F, member 2 1 1
MIRT036668 FXN frataxin 1 1
MIRT036669 MRPS16 mitochondrial ribosomal protein S16 1 1
MIRT036670 SUPT5H suppressor of Ty 5 homolog (S. cerevisiae) 1 1
MIRT036671 TALDO1 transaldolase 1 1 1
MIRT036672 VCP valosin containing protein 1 1
MIRT036673 ACTG1 actin, gamma 1 1 1
MIRT036674 RPL26 ribosomal protein L26 1 1
MIRT036675 PXMP2 peroxisomal membrane protein 2, 22kDa 1 1
MIRT036676 CREBBP CREB binding protein 1 1
MIRT036677 NFKBIE nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, epsilon 1 1
MIRT036678 LDHA lactate dehydrogenase A 1 1
MIRT036679 MTFMT mitochondrial methionyl-tRNA formyltransferase 1 1
MIRT036680 THOP1 thimet oligopeptidase 1 1 1
MIRT036681 SREK1IP1 SREK1-interacting protein 1 1 1
MIRT036682 TFDP1 transcription factor Dp-1 1 1
MIRT036683 ACTN4 actinin, alpha 4 1 1
MIRT036684 CBX3 chromobox homolog 3 1 1
MIRT036685 POGK pogo transposable element with KRAB domain 1 1
MIRT036686 RPS9 ribosomal protein S9 1 1
MIRT036687 DPP8 dipeptidyl-peptidase 8 1 1
MIRT036688 MED29 mediator complex subunit 29 1 1
MIRT036689 CANX calnexin 1 1
MIRT036690 DKC1 dyskeratosis congenita 1, dyskerin 1 1
MIRT036691 LMF1 lipase maturation factor 1 1 1
MIRT036692 GTF3C1 general transcription factor IIIC, polypeptide 1, alpha 220kDa 1 1
MIRT036693 SMG7 smg-7 homolog, nonsense mediated mRNA decay factor (C. elegans) 1 1
MIRT036694 LMNB2 lamin B2 1 1
MIRT036695 YBX1 Y box binding protein 1 1 1
MIRT036696 SRSF9 serine/arginine-rich splicing factor 9 1 1
MIRT036697 PKM pyruvate kinase, muscle 1 1
MIRT036698 TMEM181 transmembrane protein 181 1 1
MIRT036699 GNAI2 guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 2 1 1
MIRT036701 APEX1 APEX nuclease (multifunctional DNA repair enzyme) 1 1 1
MIRT070733 HIF1A hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) 1 1
MIRT086368 SSFA2 sperm specific antigen 2 1 4
MIRT157720 CAB39 calcium binding protein 39 1 1
MIRT182289 POU2F1 POU class 2 homeobox 1 1 1
MIRT223697 FZD6 frizzled family receptor 6 1 1
MIRT252496 NWD1 NACHT and WD repeat domain containing 1 1 1
MIRT262862 CDK1 cyclin-dependent kinase 1 1 1
MIRT273428 DAZAP2 DAZ associated protein 2 1 1
MIRT282242 ZFAND6 zinc finger, AN1-type domain 6 1 3
MIRT295130 RPS28 ribosomal protein S28 1 1
MIRT365875 XIAP X-linked inhibitor of apoptosis 1 1
MIRT441445 MTX3 metaxin 3 1 1
MIRT446798 PACS1 phosphofurin acidic cluster sorting protein 1 1 1
MIRT450129 NSUN3 NOP2/Sun domain family, member 3 1 1
MIRT451635 FAM96A family with sequence similarity 96, member A 1 1
MIRT462021 RIF1 RAP1 interacting factor homolog (yeast) 1 1
MIRT466538 TBPL1 TBP-like 1 1 3
MIRT467918 SLC20A1 solute carrier family 20 (phosphate transporter), member 1 1 2
MIRT468895 RRAS2 related RAS viral (r-ras) oncogene homolog 2 1 4
MIRT471872 NUFIP2 nuclear fragile X mental retardation protein interacting protein 2 1 1
MIRT476634 G2E3 G2/M-phase specific E3 ubiquitin protein ligase 1 1
MIRT477177 F3 coagulation factor III (thromboplastin, tissue factor) 1 4
MIRT483952 COL12A1 collagen, type XII, alpha 1 1 1
MIRT486456 MDM2 Mdm2, p53 E3 ubiquitin protein ligase homolog (mouse) 1 1
MIRT488443 H3F3A H3 histone, family 3A 1 3
MIRT497246 FITM2 fat storage-inducing transmembrane protein 2 1 1
MIRT499795 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 1 3
MIRT525303 ALDOA aldolase A, fructose-bisphosphate 1 3
MIRT525847 FAR2 fatty acyl CoA reductase 2 1 1
MIRT532408 CNOT2 CCR4-NOT transcription complex, subunit 2 1 2
MIRT536392 LCOR ligand dependent nuclear receptor corepressor 1 1
MIRT537317 FOXO1 forkhead box O1 1 1
MIRT538014 DNAJC10 DnaJ (Hsp40) homolog, subfamily C, member 10 1 1
MIRT540409 PITPNC1 phosphatidylinositol transfer protein, cytoplasmic 1 1 1
MIRT541235 GPC4 glypican 4 1 2
MIRT546035 VPS4B vacuolar protein sorting 4 homolog B (S. cerevisiae) 1 1
MIRT546289 TMEM200C transmembrane protein 200C 1 2
MIRT553245 TVP23C family with sequence similarity 18, member B2 1 1
MIRT572987 PSEN1 presenilin 1 1 1
MIRT608056 FLT1 fms-related tyrosine kinase 1 (vascular endothelial growth factor/vascular permeability factor receptor) 1 3
MIRT623433 KIAA1161 KIAA1161 1 1
MIRT627058 DCTN6 dynactin 6 1 1
MIRT638320 RNF150 ring finger protein 150 1 1
MIRT649231 CACNG8 calcium channel, voltage-dependent, gamma subunit 8 1 2
MIRT652870 TAB1 TGF-beta activated kinase 1/MAP3K7 binding protein 1 1 1
MIRT654400 RBFOX1 RNA binding protein, fox-1 homolog (C. elegans) 1 1 1
MIRT668525 ESRRG estrogen-related receptor gamma 1 1
MIRT705251 BECN1 beclin 1, autophagy related 1 1
MIRT705392 ATP1B3 ATPase, Na+/K+ transporting, beta 3 polypeptide 1 1
MIRT712832 FSBP fibrinogen silencer binding protein 1 1
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