pre-miRNA Information
pre-miRNA hsa-mir-4524a   
Genomic Coordinates chr17: 69099564 - 69099632
Description Homo sapiens miR-4524a stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4524a-5p
Sequence 6| AUAGCAGCAUGAACCUGUCUCA |27
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1322445998 8 dbSNP
rs1350790266 13 dbSNP
rs1263495678 21 dbSNP
Putative Targets

Gene Information
Gene Symbol C3orf38   
Synonyms -
Description chromosome 3 open reading frame 38
Transcript NM_173824   
Expression
Putative miRNA Targets on C3orf38
3'UTR of C3orf38
(miRNA target sites are highlighted)
>C3orf38|NM_173824|3'UTR
   1 GGTAGTGGAAATGAGACATTGCTGAACAAAAGAGAACTGGGTTTACCTGACCCTCTAAAGCGCTAAGTACTGTCAGCCTG
  81 AAAAAAATCTTCTATACAGAAACTCTTCCAAATACTATATCAGTAATGTCTGAATGATTTCAGATGTGAAAATTGACATA
 161 TTTTAGTTGAAATACCTTTCTGGACTACAGACTTACATATCATGTGAATACTTACCTATTTCTACCCGAGTTGCAGCAAG
 241 TATTCTGAAAGCTTAATGCAAATAAATCCCACTTTAGATCTTACAGCTAACTGTGTGCCTTAGAAACCAGGTAATATTTT
 321 CCTTTTACTTAGTGAATATTCTGCTAATATCTGCACTTTTCATGTGGGAAAGGATTAATAATGGTCCAGGCTTCCCCTCT
 401 TTAAGTTTCATGTTTACTTTTGTCTAACTCTGGATAATTGTATTTTACAAATGCATCTCACTGTAGTATATTTTTAAAAC
 481 TATTAAATATTTTAGAGATGTTTAACGTAAACTCAAAGTTCTCATTTTAGAAAATTTAAATAACATTCTTTTTGCAAAAA
 561 AGTCCAATAATTTAACAGTTGAAGAAAAACTTACTACCTCTTTAAAGATTTGAGAAACATTTTTCAAAGTTATCAGCTGT
 641 AGTCCAAGCTAAATATCTTTTGTAATCTGCAACATTTTCCTTACTGTTTTTGGGCAGTGATAAATGCTGTTCTCGAAATA
 721 GACTTTATTCTTACCTAGGCTTCAGACAACAGTTTTATAGAGCAGTTACTGTAATACAATATAAAGGAAATATGCTGTTG
 801 AAATTTTAAAGGTATGCCCAGTTCCTAACTTTTAAACGAATTACCGTTCTTCCTCTTGGCTGATCTTGGCAGAGATGACA
 881 AAAAAAACCCCAAAACAACCCATGCATGTATAATGTGTGTATACACATATACATAAGTATACATATACTCCCACATTATA
 961 ACTTAGAATATTTAGTTTTTTACCTGTTACTAGGTTTGAGTTACATGGTTGAGTTGCCAAATTATTTACATGCTTTGTTT
1041 AAATTCTTCATCACCTAGCAACTGTTTGCTGATCATGGATTTACTTAGTTACTTTAATTTATAAAATTACCATTTGGAAA
1121 AGAACTCAATTGGGAAATGTGATGACGTATTGTACATGTTACTTTTTCCTTTGCTATAATCATCTAGGGAGACTGATAAG
1201 AATTTTGGAAATGGGAGCCTGGAAACTCATCTTTGTTTTTTTAATGCTATGCCTCTTACGAGGAATACGAATTGGTATGT
1281 CCTAAAATAAGAACTTAATAAAGGAGGGAAATCCCTTTTGTCTGCTATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1361 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1441 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' acUCUGUC-C-AAGUACGACGAua 5'
            :|:||| | |  ||||||:|  
Target 5' ttGGGCAGTGATAAATGCTGTTct 3'
690 - 713 124.00 -13.90
2
miRNA  3' acUCUGUCC-AAGUACGACGAUa 5'
            | | |||   :||||||:|: 
Target 5' atATAAAGGAAATATGCTGTTGa 3'
779 - 801 124.00 -13.30
3
miRNA  3' acucuGUC-CAAGUACGACGAUa 5'
               :|| |  :|| |||||| 
Target 5' ttactTAGTGAATATTCTGCTAa 3'
325 - 347 121.00 -7.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30102540 16 COSMIC
COSN26968677 38 COSMIC
COSN1283085 62 COSMIC
COSN30143747 86 COSMIC
COSN30109575 95 COSMIC
COSN30459625 122 COSMIC
COSN28202271 173 COSMIC
COSN28202269 214 COSMIC
COSN28202254 233 COSMIC
COSN28202270 254 COSMIC
COSN28202267 306 COSMIC
COSN28202261 371 COSMIC
COSN28202268 496 COSMIC
COSN28202255 511 COSMIC
COSN7715660 516 COSMIC
COSN28202250 804 COSMIC
COSN30030758 899 COSMIC
COSN7715661 1024 COSMIC
COSN27267718 1323 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs753043969 4 dbSNP
rs1238994031 6 dbSNP
rs1334549804 9 dbSNP
rs375832169 17 dbSNP
rs1333520830 18 dbSNP
rs1405542192 21 dbSNP
rs192135826 22 dbSNP
rs371947917 24 dbSNP
rs1412494635 28 dbSNP
rs201228824 34 dbSNP
rs1358860350 42 dbSNP
rs113250573 49 dbSNP
rs1452937745 54 dbSNP
rs1378466153 57 dbSNP
rs1179966287 59 dbSNP
rs574978125 62 dbSNP
rs1242077119 63 dbSNP
rs7427416 64 dbSNP
rs1314883893 73 dbSNP
rs542420870 75 dbSNP
rs1226661773 77 dbSNP
rs1298222981 79 dbSNP
rs1204976661 80 dbSNP
rs1344127485 81 dbSNP
rs891494160 93 dbSNP
rs1240898485 94 dbSNP
rs553555418 95 dbSNP
rs998250774 100 dbSNP
rs543854564 109 dbSNP
rs1450431525 117 dbSNP
rs1341351312 118 dbSNP
rs1334547403 120 dbSNP
rs545373957 127 dbSNP
rs563774940 147 dbSNP
rs531493812 152 dbSNP
rs1016694027 155 dbSNP
rs1384100819 158 dbSNP
rs1160989567 160 dbSNP
rs1201706531 166 dbSNP
rs116765324 168 dbSNP
rs562019757 169 dbSNP
rs1427387847 182 dbSNP
rs1193168747 185 dbSNP
rs1161331331 192 dbSNP
rs1265918835 202 dbSNP
rs1218027170 203 dbSNP
rs1359409381 205 dbSNP
rs148554289 209 dbSNP
rs1230153858 214 dbSNP
rs1025503787 215 dbSNP
rs1451724827 219 dbSNP
rs377012355 222 dbSNP
rs1338168245 226 dbSNP
rs566823081 228 dbSNP
rs763630589 229 dbSNP
rs1394732509 236 dbSNP
rs993235457 237 dbSNP
rs1024397775 238 dbSNP
rs527813597 246 dbSNP
rs1166987704 247 dbSNP
rs1477025643 264 dbSNP
rs1426194479 266 dbSNP
rs1194911785 269 dbSNP
rs1490326638 273 dbSNP
rs970515590 285 dbSNP
rs577504187 287 dbSNP
rs145577723 293 dbSNP
rs1452265499 300 dbSNP
rs926130295 308 dbSNP
rs1217067824 310 dbSNP
rs1320321781 311 dbSNP
rs936139194 319 dbSNP
rs989094617 331 dbSNP
rs913482389 356 dbSNP
rs1273022059 363 dbSNP
rs1437929107 374 dbSNP
rs933673742 376 dbSNP
rs1231835921 385 dbSNP
rs570897720 387 dbSNP
rs1302362380 389 dbSNP
rs182154896 400 dbSNP
rs1051166615 408 dbSNP
rs1312522152 409 dbSNP
rs889556622 413 dbSNP
rs1258570314 420 dbSNP
rs1485298239 423 dbSNP
rs775056859 428 dbSNP
rs1193445483 442 dbSNP
rs751297208 444 dbSNP
rs1205135341 460 dbSNP
rs1249208200 462 dbSNP
rs1466603666 464 dbSNP
rs1232341489 466 dbSNP
rs147736141 467 dbSNP
rs1459245997 468 dbSNP
rs1038067732 471 dbSNP
rs898363773 477 dbSNP
rs1311415299 497 dbSNP
rs1252809923 498 dbSNP
rs993954804 506 dbSNP
rs1025557642 507 dbSNP
rs1368282142 508 dbSNP
rs1307885233 512 dbSNP
rs1434106338 517 dbSNP
rs896356255 529 dbSNP
rs1378568788 532 dbSNP
rs1362206420 541 dbSNP
rs1465809144 542 dbSNP
rs1357813360 544 dbSNP
rs1178740838 550 dbSNP
rs1415523104 556 dbSNP
rs1407966705 560 dbSNP
rs1014266540 562 dbSNP
rs1441641771 567 dbSNP
rs568754561 580 dbSNP
rs1183256982 582 dbSNP
rs1482422935 586 dbSNP
rs1254006976 596 dbSNP
rs1212049307 597 dbSNP
rs1312698894 598 dbSNP
rs9826925 608 dbSNP
rs1309472835 609 dbSNP
rs1395059447 615 dbSNP
rs1376578937 628 dbSNP
rs1390788421 636 dbSNP
rs773627370 662 dbSNP
rs970063403 663 dbSNP
rs1360386895 666 dbSNP
rs980620541 669 dbSNP
rs767190440 689 dbSNP
rs1438673575 692 dbSNP
rs1421548781 695 dbSNP
rs763332723 696 dbSNP
rs1325111829 701 dbSNP
rs1380962504 715 dbSNP
rs554374609 716 dbSNP
rs545198732 720 dbSNP
rs1258616752 723 dbSNP
rs1183317057 725 dbSNP
rs1483461096 727 dbSNP
rs957563183 735 dbSNP
rs749963946 736 dbSNP
rs988937543 738 dbSNP
rs1355812098 742 dbSNP
rs1286083586 743 dbSNP
rs6781333 747 dbSNP
rs934207874 749 dbSNP
rs545535481 751 dbSNP
rs1228499838 753 dbSNP
rs1314433177 754 dbSNP
rs557328228 756 dbSNP
rs986500812 762 dbSNP
rs1340331044 764 dbSNP
rs575586615 770 dbSNP
rs942368996 772 dbSNP
rs76582253 782 dbSNP
rs1489012194 787 dbSNP
rs1370355228 791 dbSNP
rs1165773962 794 dbSNP
rs929815455 795 dbSNP
rs1422609236 796 dbSNP
rs1191298139 816 dbSNP
rs1489222002 834 dbSNP
rs1262421866 839 dbSNP
rs1208657120 840 dbSNP
rs546505611 846 dbSNP
rs368445546 847 dbSNP
rs1316975245 855 dbSNP
rs1013899320 856 dbSNP
rs1023536921 858 dbSNP
rs1341608370 860 dbSNP
rs1414344317 867 dbSNP
rs1459926190 873 dbSNP
rs1301206114 875 dbSNP
rs1385100207 880 dbSNP
rs905891537 881 dbSNP
rs1231565302 888 dbSNP
rs1001532077 889 dbSNP
rs191782505 894 dbSNP
rs749017143 901 dbSNP
rs1372201392 902 dbSNP
rs111576255 905 dbSNP
rs955548941 907 dbSNP
rs987489167 908 dbSNP
rs754845971 920 dbSNP
rs1213835790 921 dbSNP
rs1353092845 922 dbSNP
rs1457040831 928 dbSNP
rs1255767827 932 dbSNP
rs1200853574 934 dbSNP
rs550565121 942 dbSNP
rs1255878902 944 dbSNP
rs1231666028 945 dbSNP
rs911471607 949 dbSNP
rs1232077346 965 dbSNP
rs777857040 974 dbSNP
rs540845828 978 dbSNP
rs1289805765 987 dbSNP
rs964091007 990 dbSNP
rs1255718031 1018 dbSNP
rs559619907 1019 dbSNP
rs146271889 1068 dbSNP
rs1250017134 1076 dbSNP
rs560077016 1093 dbSNP
rs1171834863 1120 dbSNP
rs117216688 1123 dbSNP
rs1379370638 1129 dbSNP
rs929700879 1130 dbSNP
rs1254242043 1131 dbSNP
rs1474270718 1134 dbSNP
rs1181296588 1136 dbSNP
rs1046900924 1147 dbSNP
rs567283358 1148 dbSNP
rs1438083650 1149 dbSNP
rs182500670 1150 dbSNP
rs1255874037 1151 dbSNP
rs1199152373 1153 dbSNP
rs1425449299 1155 dbSNP
rs1281671252 1156 dbSNP
rs917768751 1157 dbSNP
rs949237207 1158 dbSNP
rs1333259691 1163 dbSNP
rs1394076946 1170 dbSNP
rs1404197347 1172 dbSNP
rs1174211655 1177 dbSNP
rs1418520646 1182 dbSNP
rs1377909633 1183 dbSNP
rs771154966 1185 dbSNP
rs1159979687 1213 dbSNP
rs1470298832 1223 dbSNP
rs187156027 1230 dbSNP
rs1444502959 1231 dbSNP
rs1258770416 1236 dbSNP
rs905068460 1243 dbSNP
rs1430154266 1249 dbSNP
rs1001542184 1250 dbSNP
rs550174500 1260 dbSNP
rs1300867957 1261 dbSNP
rs116049896 1269 dbSNP
rs536182921 1270 dbSNP
rs1399296720 1278 dbSNP
rs547667726 1282 dbSNP
rs1230579376 1304 dbSNP
rs563741056 1310 dbSNP
rs1400787261 1316 dbSNP
rs1341979011 1328 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545212. RNA binding protein: AGO1. Condition:Control PAR-CLIP data was present in GSM545214. RNA binding protein: AGO3. Condition:Control PAR-CLIP data was present in GSM545216. RNA binding protein: AGO2. Condition:miR-124 transfection PAR-CLIP data was present in GSM545217. RNA binding protein: AGO2. Condition:miR-7 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

Article - Hafner M; Landthaler M; Burger L; Khorshid 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]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 285237.0
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 GSM714645. 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]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 285237.0
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 GSM1065667. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065668. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine "PAR-CLIP data was present in GSM1065670. RNA binding protein: AGO2. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
Experimental Support 4 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions MCF7
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 SRR1045082. RNA binding protein: AGO2. Condition:Untreated ...

- Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology.

Article - Farazi TA; Ten Hoeve JJ; Brown M; et al.
- Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
CLIP-seq Support 1 for dataset GSM545212
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / Control
Location of target site ENST00000486971.1 | 3UTR | AUAUUCUGCUAAUAUCUGCACUUUUCAU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM545214
Method / RBP PAR-CLIP / AGO3
Cell line / Condition HEK293 / Control
Location of target site ENST00000486971.1 | 3UTR | AAUAUUCUGCUAAUAUCUGCACUUUUCA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM545216
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-124 transfection
Location of target site ENST00000486971.1 | 3UTR | AAUAUUCUGCUAAUAUCUGCACUUUUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM545217
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-7 transfection
Location of target site ENST00000486971.1 | 3UTR | CUAAUAUCUGCACUUUUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000486971.1 | 3UTR | AAUAUUCUGCUAAUAUCUGCACUUUUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1065667
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_6
Location of target site ENST00000486971.1 | 3UTR | AAUAUUCUGCUAAUAUCUGCACUUUUCAUGUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1065668
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_7
Location of target site ENST00000486971.1 | 3UTR | CUAAUAUCUGCACUUUUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM1065669
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_8
Location of target site ENST00000486971.1 | 3UTR | CUAAUAUCUGCACUUUUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM1065670
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / 4-thiouridine, 3_ML_LG
Location of target site ENST00000486971.1 | 3UTR | CUAAUAUCUGCACUUUUCAUGUGGG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset SRR1045082
Method / RBP PAR-CLIP / AGO2
Cell line / Condition MCF7 / Untreated
Location of target site ENST00000486971.1 | 3UTR | CUAAUAUCUGCACUUUUCAUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 24398324 / SRX388831
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
180 hsa-miR-4524a-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT055251 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT055826 PLEKHA1 pleckstrin homology domain containing A1 2 2
MIRT060573 CCND1 cyclin D1 2 2
MIRT061013 C1ORF21 chromosome 1 open reading frame 21 2 6
MIRT064694 CCND2 cyclin D2 2 4
MIRT075268 SNTB2 syntrophin beta 2 2 4
MIRT079668 NAPG NSF attachment protein gamma 2 12
MIRT081651 CCNE1 cyclin E1 2 4
MIRT082996 PNPLA6 patatin like phospholipase domain containing 6 2 2
MIRT083463 RALGAPB Ral GTPase activating protein non-catalytic beta subunit 2 4
MIRT085755 RIF1 replication timing regulatory factor 1 2 2
MIRT086022 UBR3 ubiquitin protein ligase E3 component n-recognin 3 (putative) 2 2
MIRT087431 ZNRF3 zinc and ring finger 3 2 2
MIRT088786 SOCS5 suppressor of cytokine signaling 5 2 2
MIRT089221 ACTR2 ARP2 actin related protein 2 homolog 2 2
MIRT093696 PI4K2B phosphatidylinositol 4-kinase type 2 beta 2 6
MIRT095090 SEC24A SEC24 homolog A, COPII coat complex component 2 4
MIRT096249 CANX calnexin 2 2
MIRT100215 PPP1R11 protein phosphatase 1 regulatory inhibitor subunit 11 2 2
MIRT100746 VEGFA vascular endothelial growth factor A 2 12
MIRT100904 CD2AP CD2 associated protein 2 2
MIRT102647 UBN2 ubinuclein 2 2 10
MIRT103882 FOXK1 forkhead box K1 2 2
MIRT104246 DMTF1 cyclin D binding myb like transcription factor 1 2 2
MIRT106310 ZFHX4 zinc finger homeobox 4 2 6
MIRT107696 RECK reversion inducing cysteine rich protein with kazal motifs 2 2
MIRT114943 CHAC1 ChaC glutathione specific gamma-glutamylcyclotransferase 1 2 2
MIRT117671 SCAMP4 secretory carrier membrane protein 4 2 2
MIRT133799 SKI SKI proto-oncogene 2 2
MIRT140167 SPRED1 sprouty related EVH1 domain containing 1 2 2
MIRT142279 DCTN5 dynactin subunit 5 2 8
MIRT143288 N4BP1 NEDD4 binding protein 1 2 2
MIRT165939 CREBRF CREB3 regulatory factor 2 2
MIRT175251 PSAT1 phosphoserine aminotransferase 1 2 6
MIRT186381 PNRC2 proline rich nuclear receptor coactivator 2 2 2
MIRT191470 PPM1A protein phosphatase, Mg2+/Mn2+ dependent 1A 2 2
MIRT196480 TAOK1 TAO kinase 1 2 2
MIRT201470 SNRPB2 small nuclear ribonucleoprotein polypeptide B2 2 8
MIRT204615 HSPE1-MOB4 HSPE1-MOB4 readthrough 2 8
MIRT204646 MOB4 MOB family member 4, phocein 2 8
MIRT204749 BZW1 basic leucine zipper and W2 domains 1 2 12
MIRT206031 NUP50 nucleoporin 50 2 6
MIRT211196 FGF2 fibroblast growth factor 2 2 4
MIRT229353 ZNF449 zinc finger protein 449 2 2
MIRT247138 WEE1 WEE1 G2 checkpoint kinase 2 4
MIRT249461 ZNF691 zinc finger protein 691 2 4
MIRT256314 CDC42SE2 CDC42 small effector 2 2 2
MIRT258419 WIPI2 WD repeat domain, phosphoinositide interacting 2 2 2
MIRT265083 CHEK1 checkpoint kinase 1 2 2
MIRT270561 SETD1B SET domain containing 1B 2 2
MIRT274749 RAB3IP RAB3A interacting protein 2 2
MIRT277515 PPP2R5C protein phosphatase 2 regulatory subunit B'gamma 2 4
MIRT289642 CBX2 chromobox 2 2 2
MIRT301001 MTMR3 myotubularin related protein 3 2 2
MIRT307149 CTDSPL CTD small phosphatase like 2 4
MIRT309021 USP53 ubiquitin specific peptidase 53 2 2
MIRT314100 PIK3R1 phosphoinositide-3-kinase regulatory subunit 1 2 8
MIRT319338 CAPZA2 capping actin protein of muscle Z-line alpha subunit 2 2 2
MIRT320619 ZNRF2 zinc and ring finger 2 2 2
MIRT324285 LURAP1L leucine rich adaptor protein 1 like 2 2
MIRT446498 ASCC1 activating signal cointegrator 1 complex subunit 1 2 2
MIRT448437 TLL1 tolloid like 1 2 2
MIRT461537 ACTR3B ARP3 actin related protein 3 homolog B 2 2
MIRT463162 ZNF367 zinc finger protein 367 2 10
MIRT463493 ZC3H10 zinc finger CCCH-type containing 10 2 2
MIRT465154 TSC22D2 TSC22 domain family member 2 2 2
MIRT466418 TFAP2A transcription factor AP-2 alpha 2 8
MIRT468278 SFT2D2 SFT2 domain containing 2 2 2
MIRT469399 REL REL proto-oncogene, NF-kB subunit 2 6
MIRT471941 NR6A1 nuclear receptor subfamily 6 group A member 1 2 2
MIRT473688 MAPK8 mitogen-activated protein kinase 8 2 4
MIRT479618 CDC25A cell division cycle 25A 2 2
MIRT482098 AKT3 AKT serine/threonine kinase 3 2 4
MIRT483995 ATAD5 ATPase family, AAA domain containing 5 2 12
MIRT485205 PRKAR2A protein kinase cAMP-dependent type II regulatory subunit alpha 2 8
MIRT498763 C3orf38 chromosome 3 open reading frame 38 2 8
MIRT498961 ORC4 origin recognition complex subunit 4 2 8
MIRT499440 ODF2L outer dense fiber of sperm tails 2 like 2 8
MIRT500080 L2HGDH L-2-hydroxyglutarate dehydrogenase 2 8
MIRT500305 ZNF622 zinc finger protein 622 2 8
MIRT500410 ZMAT3 zinc finger matrin-type 3 2 8
MIRT500789 TLK1 tousled like kinase 1 2 6
MIRT500930 SRPR SRP receptor alpha subunit 2 6
MIRT500943 SREK1 splicing regulatory glutamic acid and lysine rich protein 1 2 8
MIRT501068 SMAD7 SMAD family member 7 2 8
MIRT501711 PARD6B par-6 family cell polarity regulator beta 2 2
MIRT502627 DDX3X DEAD-box helicase 3, X-linked 2 8
MIRT502910 CDCA4 cell division cycle associated 4 2 8
MIRT502935 CDC37L1 cell division cycle 37 like 1 2 8
MIRT504531 ZNF620 zinc finger protein 620 2 6
MIRT505106 YTHDC1 YTH domain containing 1 2 6
MIRT505337 TMEM245 transmembrane protein 245 2 6
MIRT505383 TMEM100 transmembrane protein 100 2 2
MIRT505678 SESTD1 SEC14 and spectrin domain containing 1 2 6
MIRT506157 PLAG1 PLAG1 zinc finger 2 8
MIRT506183 PHKA1 phosphorylase kinase regulatory subunit alpha 1 2 6
MIRT506475 MYO5A myosin VA 2 6
MIRT506826 KIF23 kinesin family member 23 2 6
MIRT507160 GAS2L3 growth arrest specific 2 like 3 2 2
MIRT507511 DYNLL2 dynein light chain LC8-type 2 2 4
MIRT507845 CCNE2 cyclin E2 2 6
MIRT510403 ZNF507 zinc finger protein 507 2 2
MIRT518078 TRIM35 tripartite motif containing 35 2 2
MIRT518982 NNT nicotinamide nucleotide transhydrogenase 2 4
MIRT521045 SLC2A3 solute carrier family 2 member 3 2 4
MIRT521190 SBNO1 strawberry notch homolog 1 2 6
MIRT522088 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 4
MIRT524846 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT527787 TMEM44 transmembrane protein 44 2 4
MIRT537803 EFNB2 ephrin B2 2 4
MIRT540830 GNAT1 G protein subunit alpha transducin 1 2 4
MIRT541140 PISD phosphatidylserine decarboxylase 2 2
MIRT541419 CBX4 chromobox 4 2 2
MIRT543517 PRSS21 protease, serine 21 2 2
MIRT543824 GSG1 germ cell associated 1 2 2
MIRT544959 UGT2B4 UDP glucuronosyltransferase family 2 member B4 2 2
MIRT545179 MAP4K2 mitogen-activated protein kinase kinase kinase kinase 2 2 4
MIRT545335 CCDC83 coiled-coil domain containing 83 2 2
MIRT545518 RSL24D1 ribosomal L24 domain containing 1 2 2
MIRT545670 DECR1 2,4-dienoyl-CoA reductase 1 2 2
MIRT545931 ZBTB44 zinc finger and BTB domain containing 44 2 4
MIRT546102 USP48 ubiquitin specific peptidase 48 2 4
MIRT546598 SALL1 spalt like transcription factor 1 2 4
MIRT546626 RTN4 reticulon 4 2 2
MIRT547651 KPNA3 karyopherin subunit alpha 3 2 2
MIRT547987 HCFC2 host cell factor C2 2 4
MIRT548717 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT548931 CDK17 cyclin dependent kinase 17 2 2
MIRT549067 CACUL1 CDK2 associated cullin domain 1 2 2
MIRT549266 ASH1L ASH1 like histone lysine methyltransferase 2 2
MIRT550460 OSCAR osteoclast associated, immunoglobulin-like receptor 2 4
MIRT550806 FAM229B family with sequence similarity 229 member B 2 2
MIRT552024 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT552334 ZNF704 zinc finger protein 704 2 2
MIRT552732 YRDC yrdC N6-threonylcarbamoyltransferase domain containing 2 2
MIRT553795 SZRD1 SUZ RNA binding domain containing 1 2 4
MIRT554694 RNF149 ring finger protein 149 2 2
MIRT555133 PTPRD protein tyrosine phosphatase, receptor type D 2 2
MIRT555264 PRDM4 PR/SET domain 4 2 2
MIRT556848 KANK1 KN motif and ankyrin repeat domains 1 2 4
MIRT557474 GPR27 G protein-coupled receptor 27 2 4
MIRT558018 EXT1 exostosin glycosyltransferase 1 2 2
MIRT558498 CYP26B1 cytochrome P450 family 26 subfamily B member 1 2 4
MIRT558579 CREBL2 cAMP responsive element binding protein like 2 2 4
MIRT558610 COX6B1 cytochrome c oxidase subunit 6B1 2 4
MIRT558650 CNKSR3 CNKSR family member 3 2 2
MIRT558986 CA8 carbonic anhydrase 8 2 2
MIRT559141 BTN3A3 butyrophilin subfamily 3 member A3 2 2
MIRT559327 ATP5G3 ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) 2 2
MIRT562021 LANCL1 LanC like 1 2 2
MIRT562869 KIAA1456 KIAA1456 2 2
MIRT563074 SLC25A12 solute carrier family 25 member 12 2 2
MIRT563496 DLGAP3 DLG associated protein 3 2 2
MIRT563890 RAPH1 Ras association (RalGDS/AF-6) and pleckstrin homology domains 1 2 2
MIRT564311 CCNT1 cyclin T1 2 2
MIRT564942 XKR7 XK related 7 2 2
MIRT564979 WNK3 WNK lysine deficient protein kinase 3 2 2
MIRT565423 TEF TEF, PAR bZIP transcription factor 2 2
MIRT566824 MAP3K7 mitogen-activated protein kinase kinase kinase 7 2 2
MIRT571961 KIF5B kinesin family member 5B 2 2
MIRT575877 Cask calcium/calmodulin-dependent serine protein kinase (MAGUK family) 2 3
MIRT576523 Txlna taxilin alpha 2 2
MIRT614693 TRAK1 trafficking kinesin protein 1 2 2
MIRT616065 ZC3H14 zinc finger CCCH-type containing 14 2 2
MIRT618838 ASAH2B N-acylsphingosine amidohydrolase 2B 2 2
MIRT624626 ATXN2 ataxin 2 2 2
MIRT624652 ASAH2 N-acylsphingosine amidohydrolase 2 2 2
MIRT640314 MMAB methylmalonic aciduria (cobalamin deficiency) cblB type 2 2
MIRT659248 CUL3 cullin 3 2 2
MIRT680972 DCAF17 DDB1 and CUL4 associated factor 17 2 2
MIRT682261 RS1 retinoschisin 1 2 2
MIRT682505 GLP2R glucagon like peptide 2 receptor 2 2
MIRT693904 HNRNPA1L2 heterogeneous nuclear ribonucleoprotein A1-like 2 2 2
MIRT699214 SLCO3A1 solute carrier organic anion transporter family member 3A1 2 2
MIRT699373 SLC30A6 solute carrier family 30 member 6 2 2
MIRT699451 SLC16A9 solute carrier family 16 member 9 2 2
MIRT701230 OCRL OCRL, inositol polyphosphate-5-phosphatase 2 2
MIRT702849 HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 2 2
MIRT706163 CASK calcium/calmodulin dependent serine protein kinase 2 3
MIRT718990 UTP15 UTP15, small subunit processome component 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4524a-5p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-4524a-5p Cetuximab resistant tissue (colorectal carcinoma)

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