pre-miRNA Information
pre-miRNA hsa-mir-500b   
Genomic Coordinates chrX: 50010672 - 50010750
Description Homo sapiens miR-500b stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-500b-3p
Sequence 51| GCACCCAGGCAAGGAUUCUG |70
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs782140253 8 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol POM121L7
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions MDA-MB-231
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 GSM1395170. RNA binding protein: AGO. Condition:MDA-MB-231 AGO HITS-CLIP Replicate 2 ...

- Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al., 2014, Breast cancer research and treatment.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gucUUAGGAACGGACCCACg 5'
             | |||  ||||||||| 
Target 5' ugcACUCC-AGCCUGGGUGa 3'
18 - 36
Article - Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al.
- Breast cancer research and treatment, 2014
miRNAs regulate the expression of genes in both normal physiology and disease. While miRNAs have been demonstrated to play a pivotal role in aspects of cancer biology, these reports have generally focused on the regulation of single genes. Such single-gene approaches have significant limitations, relying on miRNA expression levels and heuristic predictions of mRNA-binding sites. This results in only circumstantial evidence of miRNA-target interaction and typically leads to large numbers of false positive predictions. Here, we used a genome-wide approach (high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation, HITS-CLIP) to define direct miRNA-mRNA interactions in three breast cancer subtypes (estrogen receptor positive, Her2 amplified, and triple negative). Focusing on steroid receptor signaling, we identified two novel regulators of the ER pathway (miR-9-5p and miR-193a/b-3p), which together target multiple genes involved in ER signaling. Moreover, this approach enabled the definition of miR-9-5p as a global regulator of steroid receptor signaling in breast cancer. We show that miRNA targets and networks defined by HITS-CLIP under physiologic conditions are predictive of patient outcomes and provide global insight into miRNA regulation in breast cancer.
LinkOut: [PMID: 24906430]
CLIP-seq Support 1 for dataset GSM1395170
Method / RBP HITS-CLIP / AGO
Cell line / Condition MDA-MB-231 / MDA-MB-231 AGO HITS-CLIP Replicate 2
Location of target site ENST00000329949.3 | 3UTR | AGCUGAGAUCGCGCCACUGCACUCCAGCCUGGGUGACAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 24906430 / GSE57855
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
172 hsa-miR-500b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059905 HDGF heparin binding growth factor 2 4
MIRT235394 KDELR1 KDEL endoplasmic reticulum protein retention receptor 1 2 4
MIRT442246 PYGO1 pygopus family PHD finger 1 2 2
MIRT443591 ZNF439 zinc finger protein 439 2 4
MIRT453280 EFTUD2 elongation factor Tu GTP binding domain containing 2 2 2
MIRT463540 ZBTB7A zinc finger and BTB domain containing 7A 2 2
MIRT465589 TNRC6B trinucleotide repeat containing 6B 2 2
MIRT469462 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT485449 KCTD15 potassium channel tetramerization domain containing 15 2 4
MIRT486682 WDR81 WD repeat domain 81 2 2
MIRT489078 POLM DNA polymerase mu 2 2
MIRT493734 GREM2 gremlin 2, DAN family BMP antagonist 2 2
MIRT494872 DYNLL2 dynein light chain LC8-type 2 2 2
MIRT496130 RNF103-CHMP3 RNF103-CHMP3 readthrough 2 2
MIRT496489 CHMP3 charged multivesicular body protein 3 2 2
MIRT496924 CLMN calmin 2 2
MIRT497297 TMEM119 transmembrane protein 119 2 2
MIRT499103 AGRN agrin 2 2
MIRT508979 CXorf38 chromosome X open reading frame 38 2 2
MIRT509911 NIPAL1 NIPA like domain containing 1 2 2
MIRT512820 ARRDC2 arrestin domain containing 2 2 4
MIRT512827 KBTBD6 kelch repeat and BTB domain containing 6 2 4
MIRT515360 MRPL52 mitochondrial ribosomal protein L52 2 2
MIRT516610 TRIM58 tripartite motif containing 58 2 2
MIRT517053 TLDC1 TBC/LysM-associated domain containing 1 2 2
MIRT517637 ZNF491 zinc finger protein 491 2 2
MIRT518270 LEAP2 liver enriched antimicrobial peptide 2 2 2
MIRT518625 STAR steroidogenic acute regulatory protein 2 2
MIRT518887 N4BP2L2 NEDD4 binding protein 2 like 2 2 2
MIRT519026 PAICS phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase 2 2
MIRT520365 UBE2G2 ubiquitin conjugating enzyme E2 G2 2 2
MIRT521106 SLC1A5 solute carrier family 1 member 5 2 2
MIRT521943 PHC3 polyhomeotic homolog 3 2 2
MIRT522253 NPEPPS aminopeptidase puromycin sensitive 2 2
MIRT522853 KIAA1551 KIAA1551 2 2
MIRT522868 KIAA1549 KIAA1549 2 2
MIRT524207 DDX19B DEAD-box helicase 19B 2 2
MIRT526004 ARHGAP27 Rho GTPase activating protein 27 2 2
MIRT527769 RRAD RRAD, Ras related glycolysis inhibitor and calcium channel regulator 2 2
MIRT527827 TMEM74B transmembrane protein 74B 2 2
MIRT527861 SMOC1 SPARC related modular calcium binding 1 2 2
MIRT528040 WT1 Wilms tumor 1 2 2
MIRT529802 ZDHHC8 zinc finger DHHC-type containing 8 2 2
MIRT531723 TARS threonyl-tRNA synthetase 2 2
MIRT531996 BARD1 BRCA1 associated RING domain 1 2 2
MIRT533338 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT533621 TNFRSF13C TNF receptor superfamily member 13C 2 2
MIRT533652 TMOD2 tropomodulin 2 2 2
MIRT534397 SENP3 SUMO1/sentrin/SMT3 specific peptidase 3 2 2
MIRT538686 CCDC80 coiled-coil domain containing 80 2 2
MIRT540444 RBM43 RNA binding motif protein 43 2 2
MIRT542586 ZC3H12C zinc finger CCCH-type containing 12C 2 8
MIRT542796 PLEKHA3 pleckstrin homology domain containing A3 2 4
MIRT542991 ERC1 ELKS/RAB6-interacting/CAST family member 1 2 2
MIRT544424 ZNF460 zinc finger protein 460 2 4
MIRT545740 ESF1 ESF1 nucleolar pre-rRNA processing protein homolog 2 4
MIRT552618 ZBTB8A zinc finger and BTB domain containing 8A 2 2
MIRT554456 SAMD8 sterile alpha motif domain containing 8 2 2
MIRT569663 PRIM1 DNA primase subunit 1 2 2
MIRT569924 PCSK9 proprotein convertase subtilisin/kexin type 9 2 2
MIRT570140 IL1RL2 interleukin 1 receptor like 2 2 2
MIRT573558 TMEM120B transmembrane protein 120B 2 2
MIRT574282 OPRD1 opioid receptor delta 1 2 2
MIRT575335 Fbxo6 F-box protein 6 2 2
MIRT607057 IDS iduronate 2-sulfatase 2 2
MIRT607078 POM121L7 POM121 transmembrane nucleoporin like 7 pseudogene 2 2
MIRT607500 HEBP2 heme binding protein 2 2 2
MIRT607530 ABL2 ABL proto-oncogene 2, non-receptor tyrosine kinase 2 2
MIRT607808 RHBDL2 rhomboid like 2 2 2
MIRT608079 ZFP14 ZFP14 zinc finger protein 2 2
MIRT609119 NUDT3 nudix hydrolase 3 2 2
MIRT609745 PTCH1 patched 1 2 2
MIRT612904 HIF1AN hypoxia inducible factor 1 alpha subunit inhibitor 2 2
MIRT618720 PCSK2 proprotein convertase subtilisin/kexin type 2 2 2
MIRT618778 HLA-E major histocompatibility complex, class I, E 2 2
MIRT619015 SLC2A6 solute carrier family 2 member 6 2 2
MIRT623223 MSANTD4 Myb/SANT DNA binding domain containing 4 with coiled-coils 2 2
MIRT623819 GEMIN6 gem nuclear organelle associated protein 6 2 2
MIRT625704 OPTN optineurin 2 2
MIRT626437 CHDH choline dehydrogenase 2 2
MIRT628087 KAT7 lysine acetyltransferase 7 2 2
MIRT628936 APOB apolipoprotein B 2 2
MIRT633543 PGBD5 piggyBac transposable element derived 5 2 2
MIRT634348 SGOL1 shugoshin 1 2 2
MIRT634611 KIAA1919 major facilitator superfamily domain containing 4B 2 2
MIRT635243 QPRT quinolinate phosphoribosyltransferase 2 2
MIRT636681 BTLA B and T lymphocyte associated 2 2
MIRT636923 ZNF845 zinc finger protein 845 2 2
MIRT637606 ZNF554 zinc finger protein 554 2 2
MIRT639242 RANGAP1 Ran GTPase activating protein 1 2 2
MIRT640835 POLR3A RNA polymerase III subunit A 2 2
MIRT642098 FBXL2 F-box and leucine rich repeat protein 2 2 2
MIRT643087 PTPLAD2 3-hydroxyacyl-CoA dehydratase 4 1 1
MIRT643934 C17orf104 meiosis specific with coiled-coil domain 2 2
MIRT644353 FXN frataxin 2 2
MIRT645628 SF3A3 splicing factor 3a subunit 3 2 2
MIRT645754 FAM213A family with sequence similarity 213 member A 2 2
MIRT646329 MVB12B multivesicular body subunit 12B 2 2
MIRT646817 COX19 COX19, cytochrome c oxidase assembly factor 2 2
MIRT647019 ADCY2 adenylate cyclase 2 2 2
MIRT647621 IGSF9B immunoglobulin superfamily member 9B 2 2
MIRT648517 PIGG phosphatidylinositol glycan anchor biosynthesis class G 2 2
MIRT648871 ABCA6 ATP binding cassette subfamily A member 6 2 2
MIRT649620 ITPKC inositol-trisphosphate 3-kinase C 2 2
MIRT650062 CCDC134 coiled-coil domain containing 134 2 2
MIRT650734 TNFSF8 TNF superfamily member 8 2 2
MIRT652389 TMEM55A phosphatidylinositol-4,5-bisphosphate 4-phosphatase 2 2 2
MIRT654352 RBM27 RNA binding motif protein 27 2 2
MIRT655796 NOVA2 NOVA alternative splicing regulator 2 2 2
MIRT657329 HNRNPK heterogeneous nuclear ribonucleoprotein K 2 2
MIRT657734 GOSR1 golgi SNAP receptor complex member 1 2 2
MIRT660613 ANO6 anoctamin 6 2 2
MIRT661243 ARL17B ADP ribosylation factor like GTPase 17B 2 2
MIRT662245 PGBD4 piggyBac transposable element derived 4 2 2
MIRT662921 MED18 mediator complex subunit 18 2 2
MIRT662963 JPH2 junctophilin 2 2 2
MIRT663347 ZNF74 zinc finger protein 74 2 2
MIRT663528 MASTL microtubule associated serine/threonine kinase like 2 2
MIRT663547 CCR6 C-C motif chemokine receptor 6 2 2
MIRT663977 ZNF786 zinc finger protein 786 2 2
MIRT664084 METTL2B methyltransferase like 2B 2 2
MIRT664358 C16orf45 chromosome 16 open reading frame 45 2 2
MIRT664421 TIGD6 tigger transposable element derived 6 2 2
MIRT664476 ZYG11B zyg-11 family member B, cell cycle regulator 2 2
MIRT664979 TDRD1 tudor domain containing 1 2 2
MIRT665128 PYCRL pyrroline-5-carboxylate reductase 3 2 2
MIRT666259 SLC31A1 solute carrier family 31 member 1 2 2
MIRT666321 SLC16A10 solute carrier family 16 member 10 2 2
MIRT666881 POLQ DNA polymerase theta 2 2
MIRT668469 FADS6 fatty acid desaturase 6 2 2
MIRT669554 ALG14 ALG14, UDP-N-acetylglucosaminyltransferase subunit 2 2
MIRT669835 ISCA2 iron-sulfur cluster assembly 2 2 2
MIRT670185 CCDC142 coiled-coil domain containing 142 2 2
MIRT672020 PXMP4 peroxisomal membrane protein 4 2 2
MIRT672070 KIAA0930 KIAA0930 2 2
MIRT672475 RTTN rotatin 2 2
MIRT672851 ICOSLG inducible T-cell costimulator ligand 2 2
MIRT673090 AK1 adenylate kinase 1 2 2
MIRT673581 KDELC2 KDEL motif containing 2 2 2
MIRT674586 SLC35B4 solute carrier family 35 member B4 2 2
MIRT675001 STRN3 striatin 3 2 2
MIRT679018 MTMR10 myotubularin related protein 10 2 2
MIRT679680 STAT3 signal transducer and activator of transcription 3 2 2
MIRT682833 FLG2 filaggrin family member 2 2 2
MIRT682886 SAR1A secretion associated Ras related GTPase 1A 2 2
MIRT683442 AP3B2 adaptor related protein complex 3 beta 2 subunit 2 2
MIRT687040 RNF115 ring finger protein 115 2 2
MIRT691957 RHOH ras homolog family member H 2 2
MIRT694625 ZFPM1 zinc finger protein, FOG family member 1 2 2
MIRT695637 SLC26A2 solute carrier family 26 member 2 2 2
MIRT697640 WRN Werner syndrome RecQ like helicase 2 2
MIRT702009 MIDN midnolin 2 2
MIRT702034 MOGAT1 monoacylglycerol O-acyltransferase 1 2 2
MIRT704789 CDK6 cyclin dependent kinase 6 2 2
MIRT705728 AMMECR1L AMMECR1 like 2 2
MIRT705879 ADM adrenomedullin 2 2
MIRT706220 ACOT9 acyl-CoA thioesterase 9 2 2
MIRT708418 CERS4 ceramide synthase 4 2 2
MIRT709114 C3orf18 chromosome 3 open reading frame 18 2 2
MIRT709595 ITPA inosine triphosphatase 2 2
MIRT710945 MRPL45 mitochondrial ribosomal protein L45 2 2
MIRT712345 NLN neurolysin 2 2
MIRT712530 CYTH2 cytohesin 2 2 2
MIRT714019 ASCC1 activating signal cointegrator 1 complex subunit 1 2 2
MIRT717287 ARMC12 armadillo repeat containing 12 2 2
MIRT717733 FGF1 fibroblast growth factor 1 2 2
MIRT718083 CLIC5 chloride intracellular channel 5 2 2
MIRT718562 MUC20 mucin 20, cell surface associated 2 2
MIRT721639 MYLK3 myosin light chain kinase 3 2 2
MIRT722632 C8A complement C8 alpha chain 2 2
MIRT723177 CDCA4 cell division cycle associated 4 2 2
MIRT725523 FAM229B family with sequence similarity 229 member B 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-500b Methotrexate 126941 NSC740 approved resistant cell line (W1)
hsa-miR-500b-3p Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (AsPC-1)
hsa-miR-500b-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-500b-3p Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-500b-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-500b-3p Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)
hsa-miR-500b-3p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)

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