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 ANKRD18A   
Synonyms -
Description ankyrin repeat domain 18A
Transcript NM_147195   
Expression
Putative miRNA Targets on ANKRD18A
3'UTR of ANKRD18A
(miRNA target sites are highlighted)
>ANKRD18A|NM_147195|3'UTR
   1 GCACTTGCTCCCGTCTACTTTCTTTTGTAGAATCCACTGGTAAGCCACATCTAATGAAGAGATTAACCATAAAATCTTAA
  81 GGAAAAGTTGTATGATTTAAAAGATCATAAAACTTTATTACTGGGCTATTTACATGAAATTTTAATTGTTTCTCATATAA
 161 TATAAAACATCATAATCTTTACTAAAGTAGAATATTTTCATGTCACATATGGTGTATATTTATATGTTATTTTAAATGAT
 241 GTTTTTTAGCCTCCTTAAGTTTTAAGTGGATCTTGCAAATGAACACCAGCGTTATTGAGTTTGGCCTACTCAAATTGCCT
 321 GAATGTCAGCTGTTTAAACAGCCAAACAACCAAGTCATCATTGATACTTTAGTAAAGGTCATCGAGGGCTTCTTTGCATT
 401 TTACAGTTTTTATTACCATATGTAGTAGGAGACTTAAAGAGTATCTGCCAGGTTTGTCCATACTAGTGTTACGGTTTTCT
 481 TCTTGTAGCTCAATAGTATTTTGTGTGGAGATACTTTGAAGCTCTGTAAATATCTGGTTACTCCTCAAAACCCACTAGAT
 561 TTAGCATTTCATGGATGACTTGTGTTTGAACAAGTATTACTGTGATGGTTGCCAGATGATTGTTTTTCTTATTTTCTTCT
 641 TTGTTCTACATGGAGAAATAAAACCAATAAATAAAGGAGAA
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' ttACCA-T-ATGTAGTAGGa 3'
413 - 430 116.00 -8.40
2
miRNA  3' aguGUUC--AC---U-UCAUCACccu 5'
             ||:|  ||   | | |||||   
Target 5' tgcCAGGTTTGTCCATACTAGTGtta 3'
446 - 471 103.00 -5.20
3
miRNA  3' aguguucacuucaUCACCcu 5'
                       |||||  
Target 5' tccttaagttttaAGTGGat 3'
252 - 271 100.00 -6.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM6600448 8 COSMIC
COSM7940861 10 COSMIC
COSM6861801 13 COSMIC
COSM1598333 22 COSMIC
COSM8876640 22 COSMIC
COSN19623946 56 COSMIC
COSN30447108 61 COSMIC
COSN26560348 74 COSMIC
COSN30510128 74 COSMIC
COSN30485213 82 COSMIC
COSN30534676 87 COSMIC
COSN2529185 106 COSMIC
COSN30134061 118 COSMIC
COSN30469013 123 COSMIC
COSN14393249 136 COSMIC
COSN31554763 141 COSMIC
COSN30540753 177 COSMIC
COSN16495631 233 COSMIC
COSN28664626 240 COSMIC
COSN14730917 315 COSMIC
COSN20499451 386 COSMIC
COSN20495967 388 COSMIC
COSN20497156 390 COSMIC
COSN26802869 511 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs578175423 12 dbSNP
rs556466572 13 dbSNP
rs1304033882 16 dbSNP
rs1324973679 21 dbSNP
rs1384340150 24 dbSNP
rs755874180 26 dbSNP
rs1442066668 27 dbSNP
rs908269525 29 dbSNP
rs1183549363 37 dbSNP
rs1443091872 38 dbSNP
rs1256617866 39 dbSNP
rs184227277 40 dbSNP
rs1210375456 44 dbSNP
rs1446138142 45 dbSNP
rs567562545 49 dbSNP
rs7023650 50 dbSNP
rs765972007 51 dbSNP
rs55960030 56 dbSNP
rs773015190 61 dbSNP
rs58957943 63 dbSNP
rs1284633746 64 dbSNP
rs1448989851 65 dbSNP
rs140529454 66 dbSNP
rs1467316230 67 dbSNP
rs764897266 68 dbSNP
rs1296608808 69 dbSNP
rs760979902 70 dbSNP
rs775897263 74 dbSNP
rs772505198 75 dbSNP
rs964299504 82 dbSNP
rs1404160995 85 dbSNP
rs774482050 87 dbSNP
rs1335447947 94 dbSNP
rs1017631948 98 dbSNP
rs1346673795 103 dbSNP
rs1391382829 108 dbSNP
rs1399958954 115 dbSNP
rs566861497 118 dbSNP
rs1320455353 128 dbSNP
rs979821281 129 dbSNP
rs1273260514 133 dbSNP
rs1465786314 144 dbSNP
rs573666169 145 dbSNP
rs1416749848 146 dbSNP
rs1320783658 147 dbSNP
rs968120417 148 dbSNP
rs1020964040 168 dbSNP
rs1368893849 172 dbSNP
rs1009698010 173 dbSNP
rs1192859000 176 dbSNP
rs896618406 186 dbSNP
rs1035595082 187 dbSNP
rs1180922475 187 dbSNP
rs1168351951 204 dbSNP
rs1002492971 207 dbSNP
rs905425758 212 dbSNP
rs191531032 214 dbSNP
rs1366309822 216 dbSNP
rs1399866975 218 dbSNP
rs753520905 222 dbSNP
rs533196788 224 dbSNP
rs1458311459 226 dbSNP
rs1284021218 234 dbSNP
rs200409646 240 dbSNP
rs566063973 248 dbSNP
rs886866185 248 dbSNP
rs933726708 258 dbSNP
rs1285173291 275 dbSNP
rs562752254 277 dbSNP
rs1283793230 287 dbSNP
rs199619821 290 dbSNP
rs550931326 291 dbSNP
rs1471911802 295 dbSNP
rs1185664249 298 dbSNP
rs1375374545 299 dbSNP
rs1419163868 303 dbSNP
rs1310753393 304 dbSNP
rs942655016 305 dbSNP
rs1348857526 308 dbSNP
rs529095757 309 dbSNP
rs1401816918 314 dbSNP
rs1333873297 321 dbSNP
rs1321158844 329 dbSNP
rs1445280857 331 dbSNP
rs561815037 339 dbSNP
rs1383124529 343 dbSNP
rs1238783986 346 dbSNP
rs1306526765 351 dbSNP
rs925836737 353 dbSNP
rs979469091 360 dbSNP
rs556919095 361 dbSNP
rs1437694068 363 dbSNP
rs77696195 369 dbSNP
rs1020996660 377 dbSNP
rs572859814 383 dbSNP
rs960770323 384 dbSNP
rs76370208 386 dbSNP
rs115382662 387 dbSNP
rs74372039 388 dbSNP
rs79915426 390 dbSNP
rs1002760414 394 dbSNP
rs545761091 395 dbSNP
rs370382355 398 dbSNP
rs78161171 406 dbSNP
rs145739264 417 dbSNP
rs1471142926 421 dbSNP
rs77208148 422 dbSNP
rs1337878285 433 dbSNP
rs1017570667 439 dbSNP
rs1406339057 439 dbSNP
rs1352031911 443 dbSNP
rs745631932 448 dbSNP
rs778889009 461 dbSNP
rs112835728 462 dbSNP
rs1366214469 464 dbSNP
rs1225106359 466 dbSNP
rs374018536 472 dbSNP
rs1457432367 473 dbSNP
rs75866423 482 dbSNP
rs1197021995 488 dbSNP
rs77527111 489 dbSNP
rs78963810 511 dbSNP
rs573997667 516 dbSNP
rs918961236 526 dbSNP
rs971773216 527 dbSNP
rs1438116525 532 dbSNP
rs1331347843 535 dbSNP
rs188499434 543 dbSNP
rs1297249584 544 dbSNP
rs997966449 551 dbSNP
rs112666212 559 dbSNP
rs1481738619 561 dbSNP
rs1362297193 590 dbSNP
rs534146945 599 dbSNP
rs1301913195 608 dbSNP
rs1424469056 618 dbSNP
rs1039555282 622 dbSNP
rs1479103363 626 dbSNP
rs1398240640 628 dbSNP
rs1247491275 643 dbSNP
rs753884138 646 dbSNP
rs1343505473 648 dbSNP
rs942498360 650 dbSNP
rs1317093658 660 dbSNP
rs941665292 664 dbSNP
rs1225032321 665 dbSNP
rs547698016 670 dbSNP
rs1340402101 672 dbSNP
rs1209304337 676 dbSNP
rs1339934976 676 dbSNP
rs1042914435 681 dbSNP
rs183438807 682 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HeLa
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 Chi_124B_2A8_130_50. RNA binding protein: AGO. Condition:HeLa cell miR-124 + B ...

- Chi SW; Zang JB; Mele A; Darnell RB, 2009, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' aguguucacuucaUCACCCu 5'
                       |||||| 
Target 5' ----------cagAGUGGGa 3'
1 - 10
Article - Chi SW; Zang JB; Mele A; Darnell RB
- Nature, 2009
MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions.
LinkOut: [PMID: 19536157]
CLIP-seq Support 1 for dataset Chi_124B_2A8_130_50
Method / RBP HITS-CLIP / AGO
Cell line / Condition HeLa / HeLa cell miR-124 + B
Location of target site ENST00000313339.3 | 3UTR | CAGAGUGGGAGGCAGAGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 19536157 / Chi_HITSCLIP
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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