Accession ID: MIRT047015 [miRNA, hsa-miR-204-5p :: HSP90AA1, target gene]
pre-miRNA Information
pre-miRNA ID hsa-mir-204LinkOut: [miRBase ]
Description Homo sapiens miR-204 stem-loop
Comment This human miRNA was predicted by computational methods using conservation with mouse and Fugu rubripes sequences .
2nd Structure of pre-miRNA
Disease
Mature miRNA Information
Mature miRNA hsa-miR-204-5p
Mature Sequence 33| UUCCCUUUGUCAUCCUAUGCCU |54
Evidence Experimental
Experiments Cloned
Putative hsa-miR-204-5p Targets LinkOut: [ TargetScanS 5.1 | MicroCosm | microRNA.org | miRecords | miRDB | miRo | miRNAMap 2.0 ]
Gene Information
Gene Symbol HSP90AA1 LinkOut: [ Entrez Gene | BioGPS | Wikipedia | iHop ]
Synonyms FLJ31884, HSP86, HSP89A, HSP90A, HSP90N, HSPC1, HSPCA, HSPCAL1, HSPCAL4, HSPN, Hsp89, Hsp90, LAP2
Description heat shock protein 90kDa alpha (cytosolic), class A member 1
Transcript NM_0010179    LinkOut: [ RefSeq ]
Other Transcripts NM_0053   
Expression LinkOut: [ BioGPS ]
Putative miRNA Targets on HSP90AA1 LinkOut: [ TargetScan 5.1 | MicroCosm | miRNAMap 2.0 ]
3'UTR of HSP90AA1
(miRNA target sites are highlighted)
>HSP90AA1|NM_0010179|3'UTR
   1 TAATCTCTGGCTGAGGGATGACTTACCTGTTCAGTACTCTACAATTCCTCTGATAATATATTTTCAAGGATGTTTTTCTT
  81 TATTTTTGTTAATATTAAAAAGTCTGTATGGCATGACAACTACTTTAAGGGGAAGATAAGATTTCTGTCTACTAAGTGAT
 161 GCTGTGATACCTTAGGCACTAAAGCAGAGCTAGTAATGCTTTTTGAGTTTCATGTTGGTTTATTTTCACAGATTGGGGTA
 241 ACGTGCACTGTAAGACGTATGTAACATGATGTTAACTTTGTGGTCTAAAGTGTTTAGCTGTCAAGCCGGATGCCTAAGTA
 321 GACCAAATCTTGTTATTGAAGTGTTCTGAGCTGTATCTTGATGTTTAGAAAAGTATTCGTTACATCTTGTAGGATCTACT
 401 TTTTGAACTTTTCATTCCCTGTAGTTGACAATTCTGCATGTACTAGTCCTCTAGAAATAGGTTAAACTGAAGCAACTTGA
 481 TGGAAGGATCTCTCCACAGGGCTTGTTTTCCAAAGAAAAGTATTGTTTGGAGGAGCAAAGTTAAAAGCCTACCTAAGCAT
 561 ATCGTAAAGCTGTTCAAAAATAACTCAGACCCAGTCTTGTGGATGGAAATGTAGTGCTCGAGTCACATTCTGCTTAAAGT
 641 TGTAACAAATACAGATGAGTTAAAAGATATTGTGTGACAGTGTCTTATTTAGGGGGAAAGGGGAGTATCTGGATGACAGT
 721 TAGTGCCAAAATGTAAAACATGAGGCGCTAGCAGGAGATGGTTAAACACTAGCTGCTCCAAGGGTTGACATGGTCTTCCC
 801 AGCATGTACTCAGCAGGTGTGGGGTGGAGCACACGTAGGCACAGAAAACAGGAATGCAGACAACATGCATCCCCTGCGTC
 881 CATGAGTTACATGTGTTCTCTTAGTGTCCACGTTGTTTTGATGTTATTCATGGAATACCTTCTGTGTTAAATACAGTCAC
 961 TTAATTCCTTGGCCTTAAAA
Target sites Provided by authors  Predicted by miRanda
miRNA-target interactions (Predicted by miRanda)
IDDuplex structurePositionScoreMFE
1
miRNA  3' ucCGUAUCCUACUG---------UUUCCCUu 5'
            |:||:| |||||         ||:|||| 
Target 5' ctGTATGGCATGACAACTACTTTAAGGGGAa 3'
104 - 134 144.00 -19.40
2
miRNA  3' uccguAUCCUACUGUUUCCCUu 5'
               ||||: || ||:|||| 
Target 5' ttattTAGGGGGA-AAGGGGAg 3'
685 - 705 144.00 -15.50
3
miRNA  3' uccguauccuACUGUUUCCCUu 5'
                    ||:| :||||| 
Target 5' ---taatctcTGGCTGAGGGAt 3'
1 - 19 108.00 -10.50
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target hsa-miR-204-5p :: HSP90AA1    [ Functional MTI ]
Validation Method CLASH
Conditions Flp-In T-REx 293-hAGO1 cells
Location of target site 3'UTR
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.

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 Interaction Network:
Strong evidence (reporter assay, western blot, qRT-PCR or qPCR)
Other evidence
89 hsa-miR-204-5p Target Genes:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT000189 MEIS1 Meis homeobox 1 4 2
MIRT000190 HOXA10 homeobox A10 2 2
MIRT000191 MCL1 myeloid cell leukemia sequence 1 (BCL2-related) 1 1
MIRT000192 BCL2 B-cell CLL/lymphoma 2 2 1
MIRT003271 TGFBR1 transforming growth factor, beta receptor 1 2 1
MIRT003272 TGFBR2 transforming growth factor, beta receptor II (70/80kDa) 3 2
MIRT003273 SNAI2 snail homolog 2 (Drosophila) 2 1
MIRT003546 MEIS2 Meis homeobox 2 3 1
MIRT004651 SNAI1 snail homolog 1 (Drosophila) 2 1
MIRT005337 SPDEF SAM pointed domain containing ets transcription factor 3 1
MIRT005524 THRB thyroid hormone receptor, beta (erythroblastic leukemia viral (v-erb-a) oncogene homolog 2, avian) 4 1
MIRT005784 CDX2 caudal type homeobox 2 1 1
MIRT005814 AKAP1 A kinase (PRKA) anchor protein 1 1 1
MIRT005815 AP1S1 adaptor-related protein complex 1, sigma 1 subunit 1 1
MIRT005816 AP1S2 adaptor-related protein complex 1, sigma 2 subunit 3 1
MIRT005817 ARHGAP29 Rho GTPase activating protein 29 1 1
MIRT005818 ATP2B1 ATPase, Ca++ transporting, plasma membrane 1 2 2
MIRT005819 BCL2L2 BCL2-like 2 4 1
MIRT005820 BIRC2 baculoviral IAP repeat-containing 2 4 1
MIRT005821 CDH2 cadherin 2, type 1, N-cadherin (neuronal) 1 1
MIRT005822 COL5A3 collagen, type V, alpha 3 1 1
MIRT005823 CXCL3 chemokine (C-X-C motif) ligand 3 1 1
MIRT005824 EDEM1 ER degradation enhancer, mannosidase alpha-like 1 3 1
MIRT005825 EZR ezrin 4 2
MIRT005826 FARP1 FERM, RhoGEF (ARHGEF) and pleckstrin domain protein 1 (chondrocyte-derived) 1 1
MIRT005827 FZD1 frizzled homolog 1 (Drosophila) 3 1
MIRT005828 HAS2 hyaluronan synthase 2 1 1
MIRT005829 IL11 interleukin 11 2 2
MIRT005830 IL1B interleukin 1, beta 1 1
MIRT005831 IL1RAP interleukin 1 receptor accessory protein 1 1
MIRT005832 IL8 interleukin 8 1 1
MIRT005833 ITGB3 integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61) 1 1
MIRT005834 JARID2 jumonji, AT rich interactive domain 2 1 1
MIRT005835 M6PR mannose-6-phosphate receptor (cation dependent) 4 1
MIRT005836 MAPRE2 microtubule-associated protein, RP/EB family, member 2 1 1
MIRT005837 MYOC myocilin, trabecular meshwork inducible glucocorticoid response 1 1
MIRT005838 PLAT plasminogen activator, tissue 1 1
MIRT005839 PLAUR plasminogen activator, urokinase receptor 1 1
MIRT005840 RAB22A RAB22A, member RAS oncogene family 4 2
MIRT005841 RAB40B RAB40B, member RAS oncogene family 3 1
MIRT005842 SERINC3 serine incorporator 3 3 1
MIRT005843 SERP1 stress-associated endoplasmic reticulum protein 1 4 1
MIRT005844 SERPINE1 serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1 1 1
MIRT005845 TCF12 transcription factor 12 4 2
MIRT005846 TCF4 transcription factor 4 3 1
MIRT006344 FOXC1 forkhead box C1 2 1
MIRT006449 MAP1LC3B microtubule-associated protein 1 light chain 3 beta 2 1
MIRT006460 CREB5 cAMP responsive element binding protein 5 3 1
MIRT006461 ELOVL6 ELOVL family member 6, elongation of long chain fatty acids (FEN1/Elo2, SUR4/Elo3-like, yeast) 3 1
MIRT006895 RUNX2 runt-related transcription factor 2 3 1
MIRT007100 SOX4 SRY (sex determining region Y)-box 4 4 2
MIRT007101 EFNB2 ephrin-B2 3 1
MIRT007116 ALPL alkaline phosphatase, liver/bone/kidney 1 1
MIRT007117 SOST sclerostin 1 1
MIRT024972 SPARC secreted protein, acidic, cysteine-rich (osteonectin) 1 1
MIRT024973 AURKB aurora kinase B 1 1
MIRT024974 CDC25B cell division cycle 25 homolog B (S. pombe) 1 1
MIRT024975 ARPC1B actin related protein 2/3 complex, subunit 1B, 41kDa 1 1
MIRT024976 SHC1 SHC (Src homology 2 domain containing) transforming protein 1 1 1
MIRT024977 HMGA2 high mobility group AT-hook 2 1 1
MIRT024978 FBN2 fibrillin 2 1 1
MIRT024979 ERF Ets2 repressor factor 1 1
MIRT024980 EFNB1 ephrin-B1 1 1
MIRT024981 MMP3 matrix metallopeptidase 3 (stromelysin 1, progelatinase) 1 1
MIRT024982 CTSC cathepsin C 1 1
MIRT024983 CDH11 cadherin 11, type 2, OB-cadherin (osteoblast) 1 1
MIRT024984 MMP9 matrix metallopeptidase 9 (gelatinase B, 92kDa gelatinase, 92kDa type IV collagenase) 1 1
MIRT024985 ITGB4 integrin, beta 4 1 1
MIRT024986 HOXB7 homeobox B7 1 1
MIRT024987 BMP1 bone morphogenetic protein 1 1 1
MIRT047009 BPTF bromodomain PHD finger transcription factor 1 1
MIRT047010 PRKAR1A protein kinase, cAMP-dependent, regulatory, type I, alpha (tissue specific extinguisher 1) 1 1
MIRT047011 WNK3 WNK lysine deficient protein kinase 3 1 1
MIRT047012 ST3GAL1 ST3 beta-galactoside alpha-2,3-sialyltransferase 1 1 1
MIRT047013 GIGYF1 GRB10 interacting GYF protein 1 1 1
MIRT047014 RPLP1 ribosomal protein, large, P1 1 1
MIRT047015 HSP90AA1 heat shock protein 90kDa alpha (cytosolic), class A member 1 1 1
MIRT047016 CCNT2 cyclin T2 1 1
MIRT047017 IPO7 importin 7 1 1
MIRT047018 TEC transient erythroblastopenia of childhood 1 1
MIRT047019 UTP14A UTP14, U3 small nucleolar ribonucleoprotein, homolog A (yeast) 1 1
MIRT047020 HACL1 2-hydroxyacyl-CoA lyase 1 1 1
MIRT047021 ENO1 enolase 1, (alpha) 1 1
MIRT047022 USP14 ubiquitin specific peptidase 14 (tRNA-guanine transglycosylase) 1 1
MIRT047023 BRD2 bromodomain containing 2 1 1
MIRT047024 HIST2H4B histone cluster 2, H4b 1 1
MIRT047025 CSDE1 cold shock domain containing E1, RNA-binding 1 1
MIRT047026 RPL3 ribosomal protein L3 1 1
MIRT047027 BEX2 brain expressed X-linked 2 1 1