Accession ID: MIRT004027 [miRNA, hsa-miR-101-3p :: ARID1A, target gene]
pre-miRNA Information
pre-miRNA ID hsa-mir-101-1LinkOut: [miRBase ]
Description Homo sapiens miR-101-1 stem-loop
Comment Reference .
2nd Structure of pre-miRNA
Disease
Mature miRNA Information
Mature miRNA hsa-miR-101-3p
Mature Sequence 47| UACAGUACUGUGAUAACUGAA |67
Evidence Experimental
Experiments Cloned
Putative hsa-miR-101-3p Targets LinkOut: [ TargetScanS 5.1 | MicroCosm | microRNA.org | miRecords | miRDB | miRo | miRNAMap 2.0 ]
Gene Information
Gene Symbol ARID1A LinkOut: [ Entrez Gene | BioGPS | Wikipedia | iHop ]
Synonyms B120, BAF250, BAF250a, BM029, C1orf4, P270, SMARCF1
Description AT rich interactive domain 1A (SWI-like)
Transcript NM_0060    LinkOut: [ RefSeq ]
Other Transcripts NM_1391   
Expression LinkOut: [ BioGPS ]
Putative miRNA Targets on ARID1A LinkOut: [ TargetScan 5.1 | MicroCosm | miRNAMap 2.0 ]
3'UTR of ARID1A
(miRNA target sites are highlighted)
>ARID1A|NM_0060|3'UTR
   1 TGACAGCCGTGGGACACCTCCCCCCCCCGTGTGTGTGTGCGTGTGTGGAGAACTTAGAAACTGACTGTTGCCCTTTATTT
  81 ATGCAAAACCACCTCAGAATCCAGTTTACCCTGTGCTGTCCAGCTTCTCCCTTGGGAAAAAGTCTCTCCTGTTTCTCTCT
 161 CCTCCTTCCACCTCCCCTCCCTCCATCACCTCACGCCTTTCTGTTCCTTGTCCTCACCTTACTCCCCTCAGGACCCTACC
 241 CCACCCTCTTTGAAAAGACAAAGCTCTGCCTACATAGAAGACTTTTTTTATTTTAACCAAAGTTACTGTTGTTTACAGTG
 321 AGTTTGGGGAAAAAAAATAAAATAAAAATGGCTTTCCCAGTCCTTGCATCAACGGGATGCCACATTTCATAACTGTTTTT
 401 AATGGTAAAAAAAAAAAAAAAAAATACAAAAAAAAATTCTGAAGGACAAAAAAGGTGACTGCTGAACTGTGTGTGGTTTA
 481 TTGTTGTACATTCACAATCTTGCAGGAGCCAAGAAGTTCGCAGTTGTGAACAGACCCTGTTCACTGGAGAGGCCTGTGCA
 561 GTAGAGTGTAGACCCTTTCATGTACTGTACTGTACACCTGATACTGTAAACATACTGTAATAATAATGTCTCACATGGAA
 641 ACAGAAAACGCTGGGTCAGCAGCAAGCTGTAGTTTTTAAAAATGTTTTTAGTTAAACGTTGAGGAGAAAAAAAAAAAAGG
 721 CTTTTCCCCCAAAGTATCATGTGTGAACCTACAACACCCTGACCTCTTTCTCTCCTCCTTGATTGTATGAATAACCCTGA
 801 GATCACCTCTTAGAACTGGTTTTAACCTTTAGCTGCAGCGGCTACGCTGCCACGTGTGTATATATATGACGTTGTACATT
 881 GCACATACCCTTGGATCCCCACAGTTTGGTCCTCCTCCCAGCTACCCCTTTATAGTATGACGAGTTAACAAGTTGGTGAC
 961 CTGCACAAAGCGAGACACAGCTATTTAATCTCTTGCCAGATATCGCCCCTCTTGGTGCGATGCTGTACAGGTCTCTGTAA
1041 AAAGTCCTTGCTGTCTCAGCAGCCAATCAACTTATAGTTTATTTTTTTCTGGGTTTTTGTTTTGTTTTGTTTTCTTTCTA
1121 ATCGAGGTGTGAAAAAGTTCTAGGTTCAGTTGAAGTTCTGATGAAGAAACACAATTGAGATTTTTTCAGTGATAAAATCT
1201 GCATATTTGTATTTCAACAATGTAGCTAAAACTTGATGTAAATTCCTCCTTTTTTTCCTTTTTTGGCTTAATGAATATCA
1281 TTTATTCAGTATGAAATCTTTATACTATATGTTCCACGTGTTAAGAATAAATGTACATTAAATCTTGGTAAGACTTT
Target sites Provided by authors  Predicted by miRanda
miRNA-target interactions (Predicted by miRanda)
IDDuplex structurePositionScoreMFE
1
miRNA  3' aagucAAUA-GUGUCAUGACAu 5'
               | || :|| ||||||| 
Target 5' cccttTCATGTACTGTACTGTa 3'
573 - 594 152.00 -12.90
2
miRNA  3' aaGUCAAUAGUGUCAUGACAu 5'
            |||||  | | ||:|||| 
Target 5' tcCAGTTTACCCTGTGCTGTc 3'
100 - 120 147.00 -12.50
3
miRNA  3' aaGUCAA--UAGUGUC-AUGACAu 5'
            :| ||  | || || |||||| 
Target 5' ttTATTTTAACCAAAGTTACTGTt 3'
287 - 310 125.00 -6.80
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target hsa-miR-101-3p :: ARID1A    [ Functional MTI ]
Validation Method Western blot ,
Conditions SK-BR-3
Location of target site 3'UTR
Tools used in this research TargetScan
Original Description (Extracted from the article) ... miR-101 overexpression also leads to repression of EZH2's tight binding partners in the PRC2 complex: EED and, to a lesser extent, SUZ12.//miR-101 binding sites were found in EED (fig. S2) but not in SUZ12.//In addition to EZH2 and EED, we tested four predicted targets of miR-101 (table S2) that have been implicated in cancer pathways, including n-Myc, c-Fos, AT-rich interactive domain 1A (also called SWI-like and ARID1A), and fibrillin 2 (FBN2). None of these putative miR-101 targets were affected by overexpression of miR-101 (Fig. 1D). ...

- Varambally, S. Cao, Q. Mani, R. S. Shankar, et al., 2008, Science.

Article - Varambally, S. Cao, Q. Mani, R. S. Shankar, et al.
- Science, 2008
Enhancer of zeste homolog 2 (EZH2) is a mammalian histone methyltransferase that contributes to the epigenetic silencing of target genes and regulates the survival and metastasis of cancer cells. EZH2 is overexpressed in aggressive solid tumors by mechanisms that remain unclear. Here we show that the expression and function of EZH2 in cancer cell lines are inhibited by microRNA-101 (miR-101). Analysis of human prostate tumors revealed that miR-101 expression decreases during cancer progression, paralleling an increase in EZH2 expression. One or both of the two genomic loci encoding miR-101 were somatically lost in 37.5% of clinically localized prostate cancer cells (6 of 16) and 66.7% of metastatic disease cells (22 of 33). We propose that the genomic loss of miR-101 in cancer leads to overexpression of EZH2 and concomitant dysregulation of epigenetic pathways, resulting in cancer progression.
LinkOut: [PMID: 19008416]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target hsa-miR-101-3p :: ARID1A    [ 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
174 hsa-miR-101-3p Target Genes:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT000378 MYCN v-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian) 3 4
MIRT000379 ATXN1 ataxin 1 5 2
MIRT000381 EZH2 enhancer of zeste homolog 2 (Drosophila) 5 10
MIRT000430 APP amyloid beta (A4) precursor protein 4 2
MIRT001219 FOS FBJ murine osteosarcoma viral oncogene homolog 4 5
MIRT002436 ICOS inducible T-cell co-stimulator 1 1
MIRT003921 MCL1 myeloid cell leukemia sequence 1 (BCL2-related) 4 4
MIRT003965 COX2 cytochrome c oxidase subunit II 2 1
MIRT004012 FBN2 fibrillin 2 2 1
MIRT004027 ARID1A AT rich interactive domain 1A (SWI-like) 3 2
MIRT004084 SUZ12 suppressor of zeste 12 homolog (Drosophila) 2 1
MIRT004086 EED embryonic ectoderm development 2 1
MIRT004297 PTGS2 prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase) 4 3
MIRT005560 ATM ataxia telangiectasia mutated 3 1
MIRT005602 ATP5B ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide 4 1
MIRT005876 DUSP1 dual specificity phosphatase 1 3 1
MIRT006149 STMN1 stathmin 1 4 2
MIRT006150 RAB5A RAB5A, member RAS oncogene family 5 2
MIRT006151 ATG4D ATG4 autophagy related 4 homolog D (S. cerevisiae) 4 1
MIRT007091 SOX9 SRY (sex determining region Y)-box 9 3 1
MIRT007188 DNMT3A DNA (cytosine-5-)-methyltransferase 3 alpha 3 1
MIRT007375 FMR1 fragile X mental retardation 1 1 1
MIRT027240 PPP4R1 protein phosphatase 4, regulatory subunit 1 1 1
MIRT027241 CERK ceramide kinase 1 1
MIRT027242 ANKFY1 ankyrin repeat and FYVE domain containing 1 1 1
MIRT027243 GMEB2 glucocorticoid modulatory element binding protein 2 1 1
MIRT027244 TGFBR3 transforming growth factor, beta receptor III 1 1
MIRT027245 MRPL44 mitochondrial ribosomal protein L44 1 1
MIRT027246 MKNK2 MAP kinase interacting serine/threonine kinase 2 1 1
MIRT027247 UBE2B ubiquitin-conjugating enzyme E2B (RAD6 homolog) 1 1
MIRT027248 VEGFA vascular endothelial growth factor A 1 1
MIRT027249 CDC123 cell division cycle 123 homolog (S. cerevisiae) 1 1
MIRT027250 TOR1AIP1 torsin A interacting protein 1 1 1
MIRT027251 MSH2 mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli) 1 1
MIRT027252 ZNF567 zinc finger protein 567 1 1
MIRT027253 TMEM192 transmembrane protein 192 1 1
MIRT027254 PRPF38B PRP38 pre-mRNA processing factor 38 (yeast) domain containing B 1 1
MIRT027255 CDC7 cell division cycle 7 homolog (S. cerevisiae) 1 1
MIRT027256 LYSMD3 LysM, putative peptidoglycan-binding, domain containing 3 1 1
MIRT027257 RAB8B RAB8B, member RAS oncogene family 1 1
MIRT027258 PIP4K2A phosphatidylinositol-5-phosphate 4-kinase, type II, alpha 1 1
MIRT027259 KLHL23 kelch-like 23 (Drosophila) 1 1
MIRT027260 SLC7A2 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 1 1
MIRT027261 SLC38A2 solute carrier family 38, member 2 1 1
MIRT027262 REEP5 receptor accessory protein 5 1 1
MIRT027263 ZNF792 zinc finger protein 792 1 1
MIRT027264 LIN7C lin-7 homolog C (C. elegans) 1 1
MIRT027265 MAP2K1 mitogen-activated protein kinase kinase 1 1 1
MIRT027266 TMEM168 transmembrane protein 168 1 1
MIRT027267 DIMT1 DIM1 dimethyladenosine transferase 1-like (S. cerevisiae) 1 1
MIRT027268 INA internexin neuronal intermediate filament protein, alpha 1 1
MIRT027269 XIAP X-linked inhibitor of apoptosis 1 1
MIRT027270 NR2F2 nuclear receptor subfamily 2, group F, member 2 1 1
MIRT027271 KCNG3 potassium voltage-gated channel, subfamily G, member 3 1 1
MIRT027272 CCDC125 coiled-coil domain containing 125 1 1
MIRT027273 RAB11FIP1 RAB11 family interacting protein 1 (class I) 1 1
MIRT027274 GFPT2 glutamine-fructose-6-phosphate transaminase 2 1 1
MIRT027275 CHAMP1 zinc finger protein 828 1 1
MIRT027276 MNX1 motor neuron and pancreas homeobox 1 1 1
MIRT027277 FRMD6 FERM domain containing 6 1 1
MIRT027278 PLAG1 pleiomorphic adenoma gene 1 1 1
MIRT027279 AP3M1 adaptor-related protein complex 3, mu 1 subunit 1 1
MIRT027280 MPPE1 metallophosphoesterase 1 1 1
MIRT027281 MRPL42 mitochondrial ribosomal protein L42 1 1
MIRT027282 RAC1 ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1) 1 1
MIRT027283 SREK1IP1 SFRS12-interacting protein 1 1 1
MIRT027284 OTUD4 OTU domain containing 4 1 1
MIRT027285 C10orf88 chromosome 10 open reading frame 88 1 1
MIRT027286 KIAA1462 KIAA1462 1 1
MIRT027287 MORC3 MORC family CW-type zinc finger 3 1 1
MIRT027288 TGIF2 TGFB-induced factor homeobox 2 1 1
MIRT027289 AKAP11 A kinase (PRKA) anchor protein 11 1 1
MIRT027290 AP1S3 adaptor-related protein complex 1, sigma 3 subunit 1 1
MIRT027291 STAMBP STAM binding protein 1 1
MIRT027292 UBE2D3 ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast) 1 1
MIRT027293 AP1G1 adaptor-related protein complex 1, gamma 1 subunit 1 1
MIRT027294 KDM3B lysine (K)-specific demethylase 3B 1 1
MIRT027295 NUPL2 nucleoporin like 2 1 1
MIRT027296 KDM6B lysine (K)-specific demethylase 6B 1 1
MIRT027297 MBNL2 muscleblind-like 2 (Drosophila) 1 1
MIRT027298 RANBP9 RAN binding protein 9 1 1
MIRT027299 ICK intestinal cell (MAK-like) kinase 1 1
MIRT027300 MTSS1L metastasis suppressor 1-like 1 1
MIRT027301 ZBTB21 zinc finger protein 295 1 1
MIRT027302 ARID5B AT rich interactive domain 5B (MRF1-like) 1 1
MIRT027303 ABHD17C family with sequence similarity 108, member C1 1 1
MIRT027304 MRGBP chromosome 20 open reading frame 20 1 1
MIRT027305 MOB4 MOB1, Mps One Binder kinase activator-like 3 (yeast) 1 1
MIRT027306 INO80D INO80 complex subunit D 1 1
MIRT027307 MEIS1 Meis homeobox 1 1 1
MIRT027308 DCTD dCMP deaminase 1 1
MIRT027309 KCTD14 potassium channel tetramerisation domain containing 14 1 1
MIRT027310 BIRC5 baculoviral IAP repeat-containing 5 1 1
MIRT027311 ZCCHC2 zinc finger, CCHC domain containing 2 1 1
MIRT027312 RPS6KA5 ribosomal protein S6 kinase, 90kDa, polypeptide 5 1 1
MIRT027313 ACVR2B activin A receptor, type IIB 1 1
MIRT027314 MKLN1 muskelin 1, intracellular mediator containing kelch motifs 1 1
MIRT027315 MBTD1 mbt domain containing 1 1 1
MIRT027316 AMMECR1L AMME chromosomal region gene 1-like 1 1
MIRT027317 KIF2C kinesin family member 2C 1 1
MIRT027318 JUN jun oncogene 1 1
MIRT027319 USP25 ubiquitin specific peptidase 25 1 1
MIRT027320 RARS2 arginyl-tRNA synthetase 2, mitochondrial 1 1
MIRT027321 CD46 CD46 molecule, complement regulatory protein 1 1
MIRT027322 NOP2 NOP2 nucleolar protein homolog (yeast) 1 1
MIRT027323 LTN1 ring finger protein 160 1 1
MIRT027324 FZD6 frizzled homolog 6 (Drosophila) 1 1
MIRT027325 VAPA VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa 1 1
MIRT027326 XPO7 exportin 7 1 1
MIRT027327 BTG2 BTG family, member 2 1 1
MIRT027328 MMS22L chromosome 6 open reading frame 167 1 1
MIRT027329 FOXP4 forkhead box P4 1 1
MIRT027330 RPL7L1 ribosomal protein L7-like 1 1 1
MIRT027331 SPATA2 spermatogenesis associated 2 1 1
MIRT027332 FBXO11 F-box protein 11 1 1
MIRT027333 RNF44 ring finger protein 44 1 1
MIRT027334 E2F3 E2F transcription factor 3 1 1
MIRT027335 LMNB1 lamin B1 1 1
MIRT027336 TMTC3 transmembrane and tetratricopeptide repeat containing 3 1 1
MIRT027337 HOXA9 homeobox A9 1 1
MIRT027338 FAR1 fatty acyl CoA reductase 1 1 1
MIRT027339 GPAM glycerol-3-phosphate acyltransferase, mitochondrial 1 1
MIRT027340 ADO 2-aminoethanethiol (cysteamine) dioxygenase 1 1
MIRT027341 RTN4 reticulon 4 1 1
MIRT027342 ELAVL2 ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen B) 1 1
MIRT027343 CTR9 Ctr9, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) 1 1
MIRT027344 CERS2 LAG1 homolog, ceramide synthase 2 1 1
MIRT027345 LZIC leucine zipper and CTNNBIP1 domain containing 1 1
MIRT027346 VEZT vezatin, adherens junctions transmembrane protein 1 1
MIRT027347 SMARCD1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 1 1
MIRT027348 RIOK2 RIO kinase 2 (yeast) 1 1
MIRT027349 CBX4 chromobox homolog 4 (Pc class homolog, Drosophila) 1 1
MIRT027350 SEPT11 septin 11 1 1
MIRT027351 QSER1 glutamine and serine rich 1 1 1
MIRT027352 MYO9A myosin IXA 1 1
MIRT027353 CAPN2 calpain 2, (m/II) large subunit 1 1
MIRT027354 TFAP4 transcription factor AP-4 (activating enhancer binding protein 4) 1 1
MIRT027355 SSFA2 sperm specific antigen 2 1 1
MIRT027356 TBC1D12 TBC1 domain family, member 12 1 1
MIRT027357 SPAG1 sperm associated antigen 1 1 1
MIRT027358 ZNF800 zinc finger protein 800 1 1
MIRT027359 C7orf60 chromosome 7 open reading frame 60 1 1
MIRT027360 BLOC1S6 pallidin homolog (mouse) 1 1
MIRT027361 SPIRE1 spire homolog 1 (Drosophila) 1 1
MIRT027362 FRS2 fibroblast growth factor receptor substrate 2 1 1
MIRT027363 TMEM170B transmembrane protein 170B 1 1
MIRT027364 AFF4 AF4/FMR2 family, member 4 1 1
MIRT027365 GNB1 guanine nucleotide binding protein (G protein), beta polypeptide 1 1 1
MIRT027366 LBR lamin B receptor 1 1
MIRT027367 ZFX zinc finger protein, X-linked 1 1
MIRT027368 KLF12 Kruppel-like factor 12 1 1
MIRT027369 PHF3 PHD finger protein 3 1 1
MIRT027370 C1orf52 chromosome 1 open reading frame 52 1 1
MIRT027371 TSPAN12 tetraspanin 12 1 1
MIRT027372 FAM217B chromosome 20 open reading frame 177 1 1
MIRT027373 SUB1 SUB1 homolog (S. cerevisiae) 1 1
MIRT027374 BCL9 B-cell CLL/lymphoma 9 1 1
MIRT027375 SACM1L SAC1 suppressor of actin mutations 1-like (yeast) 1 1
MIRT027376 ARAP2 ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2 1 1
MIRT027377 TRERF1 transcriptional regulating factor 1 1 1
MIRT027378 NUFIP2 nuclear fragile X mental retardation protein interacting protein 2 1 1
MIRT027379 PIP5K1C phosphatidylinositol-4-phosphate 5-kinase, type I, gamma 1 1
MIRT027380 PAFAH1B1 platelet-activating factor acetylhydrolase 1b, regulatory subunit 1 (45kDa) 1 1
MIRT027381 DDIT4 DNA-damage-inducible transcript 4 1 1
MIRT027382 TGFBR1 transforming growth factor, beta receptor 1 1 1
MIRT027383 LRCH2 leucine-rich repeats and calponin homology (CH) domain containing 2 1 1
MIRT027384 LIFR leukemia inhibitory factor receptor alpha 1 1
MIRT027385 FBXW7 F-box and WD repeat domain containing 7 1 1
MIRT027386 POU2F1 POU class 2 homeobox 1 1 1
MIRT027387 CBFA2T2 core-binding factor, runt domain, alpha subunit 2; translocated to, 2 1 1
MIRT027388 LCOR ligand dependent nuclear receptor corepressor 1 1
MIRT027389 AEBP2 AE binding protein 2 1 1
MIRT027390 NEK7 NIMA (never in mitosis gene a)-related kinase 7 1 1
MIRT027391 MFSD6 major facilitator superfamily domain containing 6 1 1