pre-miRNA Information
pre-miRNA hsa-mir-4301   
Genomic Coordinates chr11: 113450023 - 113450088
Description Homo sapiens miR-4301 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4301
Sequence 11| UCCCACUACUUCACUUGUGA |30
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs184176277 2 dbSNP
rs1191324913 13 dbSNP
rs1369198005 15 dbSNP
rs1036973189 16 dbSNP
rs944900541 18 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PPIC   
Synonyms CYPC
Description peptidylprolyl isomerase C
Transcript NM_000943   
Expression
Putative miRNA Targets on PPIC
3'UTR of PPIC
(miRNA target sites are highlighted)
>PPIC|NM_000943|3'UTR
   1 CACAACTGGCAGAAAACAAGGATATGCTTTGGCAGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGTGTTGTCTTTC
  81 AATTATTTGCTTTTTTTTTTTTACTTTCTTTTTGTATTCTATCCCAGATCACAGGAAAGTTATAAAAATCAAACCGTCAC
 161 CCTTTAGTTTGCTTGAACTTTAGTAAACCACCTGCTTAGGGACTTTGAACTTAAATATATCCCCTTCCTCAAGTGGTGCT
 241 ATTTTAAAACTAAAAAAAACTTTGAATTGGCTATTTTTTTAATGCAATATTTTTTTTCTGAATTCATTATGATCCCCATA
 321 TTGGGTAATGCTGAACATTTATCTGAAACAGATGAGGATATTATTATTTTGTATCCAAACAGAAATTCAGATAAAGGGAA
 401 ATTTGACTAGTGTAATCTGAGATATGTCATAGGGATTTCTTTCTGACAAAAGGGTGCTTTGCTGTTCTTTATATTAAATA
 481 CTTTTAGATCAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1
miRNA  3' aguguucACUUCAUCACccu 5'
                 | ||||:|||   
Target 5' cccttccTCAAGTGGTGcta 3'
222 - 241 101.00 -6.82
2
miRNA  3' aguguucACUU--CAUCAcccu 5'
                 ||||   ||||    
Target 5' gtttgctTGAACTTTAGTaaac 3'
167 - 188 87.00 -5.10
3
miRNA  3' aguguuCAC-UUCAUCACccu 5'
                ||| : || |||   
Target 5' gtgtgtGTGTGTGTTGTGttg 3'
54 - 74 78.00 -5.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN5068179 2 COSMIC
COSN30483451 21 COSMIC
COSN6510237 41 COSMIC
COSN20050036 66 COSMIC
COSN20050034 67 COSMIC
COSN30470072 80 COSMIC
COSN1306243 91 COSMIC
COSN24787946 108 COSMIC
COSN15665927 109 COSMIC
COSN30162499 119 COSMIC
COSN22088707 155 COSMIC
COSN26574747 156 COSMIC
COSN31548185 265 COSMIC
COSN31563790 273 COSMIC
COSN28767871 380 COSMIC
COSN16730628 428 COSMIC
COSN14791497 567 COSMIC
COSN29323315 603 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1407480023 6 dbSNP
rs1446109445 7 dbSNP
rs367741833 13 dbSNP
rs754818746 19 dbSNP
rs370559562 21 dbSNP
rs766018743 22 dbSNP
rs760961856 24 dbSNP
rs966611319 32 dbSNP
rs1022532778 34 dbSNP
rs750629331 36 dbSNP
rs146229593 37 dbSNP
rs776662400 37 dbSNP
rs397999141 38 dbSNP
rs889673529 38 dbSNP
rs534440216 39 dbSNP
rs750956100 39 dbSNP
rs1276792180 41 dbSNP
rs1402259967 44 dbSNP
rs566741336 44 dbSNP
rs757629304 44 dbSNP
rs1341630855 46 dbSNP
rs1476610386 46 dbSNP
rs371305785 48 dbSNP
rs1389183109 64 dbSNP
rs546924735 64 dbSNP
rs10552214 67 dbSNP
rs1165001978 68 dbSNP
rs1366095543 68 dbSNP
rs1404740701 68 dbSNP
rs1427190555 68 dbSNP
rs1431234627 68 dbSNP
rs1491249003 68 dbSNP
rs70988555 68 dbSNP
rs776432929 68 dbSNP
rs879117036 68 dbSNP
rs759094553 69 dbSNP
rs1328194378 71 dbSNP
rs1401011719 72 dbSNP
rs374923857 73 dbSNP
rs1388165287 78 dbSNP
rs1433233167 86 dbSNP
rs1217395423 103 dbSNP
rs528773387 103 dbSNP
rs879309374 103 dbSNP
rs1293309453 104 dbSNP
rs1052129559 108 dbSNP
rs375067091 112 dbSNP
rs1375782890 113 dbSNP
rs1313748779 127 dbSNP
rs984369909 133 dbSNP
rs1436758212 134 dbSNP
rs1184789583 135 dbSNP
rs952975270 143 dbSNP
rs1373856169 146 dbSNP
rs1472911038 148 dbSNP
rs370088217 155 dbSNP
rs41471149 156 dbSNP
rs1470852697 157 dbSNP
rs1338876227 158 dbSNP
rs1462534862 160 dbSNP
rs994767969 162 dbSNP
rs960255813 170 dbSNP
rs940769022 181 dbSNP
rs144971686 188 dbSNP
rs1049679405 194 dbSNP
rs751815540 201 dbSNP
rs567307852 202 dbSNP
rs764327393 207 dbSNP
rs1327466828 215 dbSNP
rs1225754707 220 dbSNP
rs45605533 221 dbSNP
rs1010767619 232 dbSNP
rs893751784 239 dbSNP
rs568220009 240 dbSNP
rs990495191 246 dbSNP
rs1252110486 250 dbSNP
rs939035257 255 dbSNP
rs935135822 259 dbSNP
rs1176608534 260 dbSNP
rs1189639407 260 dbSNP
rs1481256607 260 dbSNP
rs1378411095 261 dbSNP
rs927614009 273 dbSNP
rs1465770575 274 dbSNP
rs901018027 280 dbSNP
rs1277469134 281 dbSNP
rs977862191 283 dbSNP
rs966848797 287 dbSNP
rs1340832647 290 dbSNP
rs1307902023 296 dbSNP
rs1041158533 298 dbSNP
rs1349184091 298 dbSNP
rs942504488 298 dbSNP
rs910883156 307 dbSNP
rs569167704 309 dbSNP
rs745623572 310 dbSNP
rs1230658907 317 dbSNP
rs983818433 320 dbSNP
rs1342193106 322 dbSNP
rs45560934 327 dbSNP
rs989695576 333 dbSNP
rs918821021 336 dbSNP
rs953991548 353 dbSNP
rs1191533297 357 dbSNP
rs1355858600 358 dbSNP
rs1266453724 362 dbSNP
rs1431258020 369 dbSNP
rs1294965268 372 dbSNP
rs15577 380 dbSNP
rs1338966840 384 dbSNP
rs1333729034 390 dbSNP
rs1369235826 395 dbSNP
rs565854333 396 dbSNP
rs998049379 410 dbSNP
rs901890796 412 dbSNP
rs1035868498 415 dbSNP
rs1398682685 419 dbSNP
rs1297191658 426 dbSNP
rs1166670643 428 dbSNP
rs980589450 436 dbSNP
rs1294830317 442 dbSNP
rs1018883508 443 dbSNP
rs1465513194 447 dbSNP
rs1004994190 464 dbSNP
rs1419191378 464 dbSNP
rs1167632264 467 dbSNP
rs374302222 467 dbSNP
rs868222264 472 dbSNP
rs1206681800 478 dbSNP
rs45561935 485 dbSNP
rs1236582437 497 dbSNP
rs1450391259 499 dbSNP
rs1011555424 502 dbSNP
rs1425668673 506 dbSNP
rs891814866 512 dbSNP
rs1349825650 518 dbSNP
rs1049245498 522 dbSNP
rs1456708811 525 dbSNP
rs532211426 534 dbSNP
rs1247720959 537 dbSNP
rs999457043 539 dbSNP
rs1318161782 549 dbSNP
rs900963151 553 dbSNP
rs1311840638 556 dbSNP
rs1319928240 557 dbSNP
rs776092278 559 dbSNP
rs76739889 560 dbSNP
rs528160347 562 dbSNP
rs35413555 567 dbSNP
rs1055425984 568 dbSNP
rs1208302915 573 dbSNP
rs1246448830 581 dbSNP
rs770898737 582 dbSNP
rs1355322876 587 dbSNP
rs746832553 595 dbSNP
rs1283860194 600 dbSNP
rs927645304 603 dbSNP
rs1042046703 604 dbSNP
rs1443122648 617 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 5480.0
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... "PAR-CLIP data was present in GSM714644. RNA binding protein: AGO2. Condition:completeT1 ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
CLIP-seq Support 1 for dataset GSM714644
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repA
Location of target site ENST00000306442.4 | 3UTR | AGUAGUGGGAUCAUGCCUGUGAAUUGCCACUGCACUCCAGUCUGGGCAACAUAGCAAGACCCCAUCUUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
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
83 hsa-miR-4301 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT081134 LDLR low density lipoprotein receptor 2 4
MIRT090911 ARHGEF26 Rho guanine nucleotide exchange factor 26 2 2
MIRT229436 MECP2 methyl-CpG binding protein 2 2 2
MIRT274717 CPSF6 cleavage and polyadenylation specific factor 6 2 2
MIRT350957 BACH1 BTB domain and CNC homolog 1 2 2
MIRT386722 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT446022 PEX3 peroxisomal biogenesis factor 3 2 2
MIRT481303 ATP5G3 ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) 2 14
MIRT483959 ZNF354B zinc finger protein 354B 2 6
MIRT495667 TUBAL3 tubulin alpha like 3 2 2
MIRT496554 TBX15 T-box 15 2 2
MIRT497702 ARL6IP6 ADP ribosylation factor like GTPase 6 interacting protein 6 2 2
MIRT498105 RMND5A required for meiotic nuclear division 5 homolog A 2 2
MIRT512535 SEMA4D semaphorin 4D 2 2
MIRT512556 MFN2 mitofusin 2 2 6
MIRT521465 RABGAP1 RAB GTPase activating protein 1 2 6
MIRT526236 C2orf15 chromosome 2 open reading frame 15 2 2
MIRT526743 HLA-DOB major histocompatibility complex, class II, DO beta 2 2
MIRT527578 BRD7 bromodomain containing 7 2 4
MIRT528038 WT1 Wilms tumor 1 2 2
MIRT528267 GPRIN2 G protein regulated inducer of neurite outgrowth 2 2 2
MIRT528505 HTR7 5-hydroxytryptamine receptor 7 2 4
MIRT528758 RPS27 ribosomal protein S27 2 6
MIRT528999 IPO9 importin 9 2 2
MIRT529701 MRPL30 mitochondrial ribosomal protein L30 2 2
MIRT529781 C17orf82 chromosome 17 open reading frame 82 2 2
MIRT533797 TMEM119 transmembrane protein 119 2 6
MIRT535308 PHF12 PHD finger protein 12 2 2
MIRT535917 MKL2 MKL1/myocardin like 2 2 2
MIRT544892 OSBPL1A oxysterol binding protein like 1A 2 2
MIRT555423 PPIC peptidylprolyl isomerase C 2 2
MIRT562068 KLHL15 kelch like family member 15 2 2
MIRT565623 SLC31A1 solute carrier family 31 member 1 2 2
MIRT565661 SIX1 SIX homeobox 1 2 2
MIRT570138 IL1RL2 interleukin 1 receptor like 2 2 2
MIRT571045 YRDC yrdC N6-threonylcarbamoyltransferase domain containing 2 2
MIRT621232 LMAN1 lectin, mannose binding 1 2 2
MIRT622272 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT623844 GAN gigaxonin 2 2
MIRT626158 NFYA nuclear transcription factor Y subunit alpha 2 2
MIRT626464 CMKLR1 chemerin chemokine-like receptor 1 2 2
MIRT632087 ALDH1A2 aldehyde dehydrogenase 1 family member A2 2 2
MIRT637243 FAM26E calcium homeostasis modulator family member 5 2 2
MIRT642710 FGFR1OP2 FGFR1 oncogene partner 2 2 2
MIRT643611 KANSL3 KAT8 regulatory NSL complex subunit 3 2 2
MIRT644270 PAFAH1B1 platelet activating factor acetylhydrolase 1b regulatory subunit 1 2 2
MIRT645470 SPIN3 spindlin family member 3 2 2
MIRT649193 DNPEP aspartyl aminopeptidase 2 2
MIRT650776 POP4 POP4 homolog, ribonuclease P/MRP subunit 2 2
MIRT651345 ZC2HC1C zinc finger C2HC-type containing 1C 2 2
MIRT652237 TRAPPC3L trafficking protein particle complex 3 like 2 2
MIRT652587 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT654591 PURA purine rich element binding protein A 2 2
MIRT654649 PTAFR platelet activating factor receptor 2 2
MIRT656842 KLF7 Kruppel like factor 7 2 2
MIRT657209 IKZF2 IKAROS family zinc finger 2 2 2
MIRT658513 ETV3 ETS variant 3 2 2
MIRT659448 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT668816 CYLD CYLD lysine 63 deubiquitinase 2 2
MIRT669067 CELSR3 cadherin EGF LAG seven-pass G-type receptor 3 2 2
MIRT677711 ELOF1 elongation factor 1 homolog 2 4
MIRT687146 PTPN12 protein tyrosine phosphatase, non-receptor type 12 2 2
MIRT698498 THOC2 THO complex 2 2 2
MIRT707930 PPP1R3D protein phosphatase 1 regulatory subunit 3D 4 2
MIRT708737 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT710031 POLL DNA polymerase lambda 2 2
MIRT712175 STK4 serine/threonine kinase 4 2 2
MIRT715297 MAPK1 mitogen-activated protein kinase 1 2 2
MIRT716892 AGPAT6 glycerol-3-phosphate acyltransferase 4 2 2
MIRT717378 RBM41 RNA binding motif protein 41 2 2
MIRT718082 CLIC5 chloride intracellular channel 5 2 2
MIRT718721 ANKRD18A ankyrin repeat domain 18A 2 2
MIRT719152 DPYSL5 dihydropyrimidinase like 5 2 2
MIRT719224 CAMK4 calcium/calmodulin dependent protein kinase IV 2 2
MIRT719528 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT719861 KLF2 Kruppel like factor 2 2 2
MIRT720326 CAMK2G calcium/calmodulin dependent protein kinase II gamma 2 2
MIRT721596 SREBF1 sterol regulatory element binding transcription factor 1 2 2
MIRT722020 NEBL nebulette 2 2
MIRT722484 QSOX1 quiescin sulfhydryl oxidase 1 2 2
MIRT722614 TEAD1 TEA domain transcription factor 1 2 2
MIRT723664 RPTN repetin 2 2
MIRT723939 SVOP SV2 related protein 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4301 Cisplatin 5460033 NSC119875 approved sensitive High Hepatocellular Carcinoma cell line (Hep3B, 97L)
hsa-miR-4301 Imatinib 5291 NSC743414 approved resistant High Chronic Myelogenous Leukemia cell line (K562)
hsa-mir-4301 Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-mir-4301 Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-4301 Doxorubicin 31703 NSC123127 approved sensitive cell line (W1)
hsa-mir-4301 Methotrexate 126941 NSC740 approved sensitive cell line (W1)
hsa-mir-4301 Topotecan 60699 NSC609699 approved sensitive cell line (W1)
hsa-miR-4301 Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4301 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)

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