pre-miRNA Information
pre-miRNA hsa-mir-4457   
Genomic Coordinates chr5: 1309310 - 1309377
Description Homo sapiens miR-4457 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4457
Sequence 43| UCACAAGGUAUUGACUGGCGUA |64
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1031676297 8 dbSNP
rs1249861366 14 dbSNP
rs115769169 17 dbSNP
rs968846507 19 dbSNP
rs540870271 20 dbSNP
rs993130937 22 dbSNP
Putative Targets

Gene Information
Gene Symbol FOXR2   
Synonyms FOXN6
Description forkhead box R2
Transcript NM_198451   
Expression
Putative miRNA Targets on FOXR2
3'UTR of FOXR2
(miRNA target sites are highlighted)
>FOXR2|NM_198451|3'UTR
   1 AATGCCATTGCTCCCTTTTGGAACACTGCCTTCCTTACTGTGCCTACTTATCCCCTGACATTCATTAATCTCTAAACTTA
  81 CCCAGCCTGGTTGGTGCCAAGTCTGTCTTTAGCTACTGTTACAATAATGGTGTTAAGTAAAGTTAGAGGTGGGTACAGGG
 161 GAGACAGAACTTAAATCCAGGTGGAGAGTCATGGAAAGTCGCACGAGGAGAGTGGCTGTTGTTCCAAATTTTGAGCAAAG
 241 GAAAAGAAATCCTAGAAACAATGGCATAGAAACTAAGGAAAGAAGGGTGTGTTTTGTGAAAGAAAGGAATTTTGTTTATA
 321 GAGAGTATTTTCACACATGAAAGTGAACAGTGGAATATAAAGCATAAAAGGCAGGATGGAGCCGAGCCATGGAGAACCTC
 401 GAGTGCCATGTGAAGAGAATTTGACTTGTGATGAAGAATCAAGTTTCCCCTTCTACCATTCATCAGCTACATCTCCTTTT
 481 TAAGTAACCCATTTTATCCTTCAGAACCTCACTTTTCTATTTCTGGCCCTGGACTTCTAAGCCTTGTTTCTTTGTCATCC
 561 AATTCCAATATTGACAAATAATTCTAAACAGCTACTTTTAGTTTGTATGTTTAACGTCCTGTGAAATATTCCTGTATTAA
 641 CCCCAAGCCTTTTGATGATAAAGCTTTATTTTCTATTATTTTTAGTTCTCAAGATTTTATTGAGGATATGCTAATGTGTC
 721 AAGGTCCATCTTAGATGCTGAGGATAAAAAGCTGAGGGATACTAGTGGGAGACATATTTATAATGTAAATATGATGAAAC
 801 AGATGTGAGAAATTGACATGGAAATGGGGAGACATTCTTCCTGGGAAAGACATGAAAGGGCATTGGAAAAAATACATTTT
 881 GAGCTAGTTTTGAAGAATAAATGGCAAACTGGAGTAGAGGCATTACAGAGACAACAATGTGAACAAAGTGGATGGAGTGT
 961 TTGGGGGAATGGCATGAAGTTCAGTGTGACTTAACTACATGAGGACCGTGAGTGACTAAGAGAAAACTATTAGGTGTTTG
1041 GACTTCATCTTGTGGGTTTTTAGGAGCCAAGAGACATCAGTGGAGTTTTGCTAAAAAACAAAAAAAGAAACAAGCCAGCA
1121 GCAACAACAAACACTACAGCATTTGTTTTTCTAATTTCAAAATTATCTTTAACATCTTTTCTATGCAAATAAACTTTTGT
1201 TTATCAGATTTAAGCATAGCTTTTTGCTTCAATGATATTAACATATATCCAGGAGAAAATAGATTTTTAGGTATAAATTT
1281 AGTTGCAAAACCTTCATAATGGGGGTACAAAAACGCCTGTAAGCTACAAAAGCAATTAATTCAATATAATTGTAACTATT
1361 TTCAAAGTTCACATTTTTATAATGATGTATTATACCTCATACAAAATTGTATATTTAGGTTAAATCACAAAACAACATAT
1441 GCAAACAGTATTTTTTGAAAAAAATTGTAAATGCTACTTCTGTATCATAAGGCAAAGACCAAGTTAACAGAATACCTTGG
1521 AATTAATAAAATATTCTGCAT
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' auGCGGUC---AGUUAUGGAACAcu 5'
            | |::|   || | :||||||  
Target 5' ggCCCTGGACTTCTAAGCCTTGTtt 3'
525 - 549 132.00 -8.50
2
miRNA  3' augcGGUCAGUUAUGGAACACu 5'
              :::| |   |:|||||| 
Target 5' gtgtTTGGACTTCATCTTGTGg 3'
1034 - 1055 130.00 -10.40
3
miRNA  3' auGCGGUCAGUUAUGGAACACu 5'
            :|||| |:: | |||| || 
Target 5' aaTGCCA-TTGCTCCCTTTTGg 3'
1 - 21 127.00 -11.62
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs965532541 19 dbSNP
rs1458046670 21 dbSNP
rs1357031030 22 dbSNP
rs1416113614 25 dbSNP
rs367680749 26 dbSNP
rs1028518297 30 dbSNP
rs371513632 39 dbSNP
rs1422554656 40 dbSNP
rs759262427 41 dbSNP
rs984229445 44 dbSNP
rs747348414 45 dbSNP
rs775337290 47 dbSNP
rs762698400 49 dbSNP
rs1278231494 52 dbSNP
rs910147382 53 dbSNP
rs940241676 58 dbSNP
rs769118802 71 dbSNP
rs776712597 73 dbSNP
rs916893396 80 dbSNP
rs943503607 86 dbSNP
rs1210727358 87 dbSNP
rs7884414 88 dbSNP
rs975242416 97 dbSNP
rs1242383662 99 dbSNP
rs769919848 106 dbSNP
rs1309925310 112 dbSNP
rs1232360352 120 dbSNP
rs1329149709 121 dbSNP
rs925771880 125 dbSNP
rs1387032584 126 dbSNP
rs1283492952 153 dbSNP
rs1379844729 154 dbSNP
rs773379471 169 dbSNP
rs1360528848 172 dbSNP
rs905588365 180 dbSNP
rs935834212 181 dbSNP
rs1054257408 183 dbSNP
rs935844700 191 dbSNP
rs1379804365 196 dbSNP
rs763158461 201 dbSNP
rs139149987 202 dbSNP
rs775618237 203 dbSNP
rs750582683 205 dbSNP
rs1010569764 206 dbSNP
rs1488661404 215 dbSNP
rs1382658182 220 dbSNP
rs186221540 225 dbSNP
rs1205418315 226 dbSNP
rs1279627120 227 dbSNP
rs1274746341 238 dbSNP
rs1440170051 247 dbSNP
rs1342744202 255 dbSNP
rs879041211 256 dbSNP
rs758537552 257 dbSNP
rs1233735502 262 dbSNP
rs1339549704 265 dbSNP
rs1275914373 283 dbSNP
rs764020624 289 dbSNP
rs1401397101 321 dbSNP
rs1237366279 328 dbSNP
rs905544702 336 dbSNP
rs1413309624 337 dbSNP
rs1445783736 339 dbSNP
rs1173625888 340 dbSNP
rs780223322 342 dbSNP
rs1017112988 346 dbSNP
rs998302466 353 dbSNP
rs748098451 364 dbSNP
rs1237016005 365 dbSNP
rs1185479586 376 dbSNP
rs769810519 384 dbSNP
rs753583404 385 dbSNP
rs1398955490 401 dbSNP
rs984260744 402 dbSNP
rs867959911 408 dbSNP
rs1317079356 429 dbSNP
rs995443933 462 dbSNP
rs1220158137 467 dbSNP
rs1017018882 471 dbSNP
rs1445205471 472 dbSNP
rs961645678 481 dbSNP
rs1341697534 492 dbSNP
rs950984002 499 dbSNP
rs1340928697 505 dbSNP
rs1454513341 528 dbSNP
rs1446627247 530 dbSNP
rs1398635648 537 dbSNP
rs1173270815 543 dbSNP
rs777729231 555 dbSNP
rs987463472 561 dbSNP
rs973383038 571 dbSNP
rs1425555643 576 dbSNP
rs1161634919 585 dbSNP
rs1473820418 587 dbSNP
rs761473834 592 dbSNP
rs949772264 600 dbSNP
rs749019104 607 dbSNP
rs1018925688 617 dbSNP
rs764826929 630 dbSNP
rs1318272874 637 dbSNP
rs1288741637 642 dbSNP
rs1226196954 645 dbSNP
rs1199332277 646 dbSNP
rs749901548 655 dbSNP
rs1240149874 657 dbSNP
rs73489626 665 dbSNP
rs780521741 666 dbSNP
rs926056759 669 dbSNP
rs1349589353 676 dbSNP
rs1321844863 689 dbSNP
rs1246777272 698 dbSNP
rs935829005 710 dbSNP
rs988642077 711 dbSNP
rs1054332319 716 dbSNP
rs147042315 725 dbSNP
rs913140563 725 dbSNP
rs1194382148 729 dbSNP
rs1374952431 742 dbSNP
rs944227729 744 dbSNP
rs1477168415 745 dbSNP
rs1480839351 750 dbSNP
rs755443206 762 dbSNP
rs1219008434 768 dbSNP
rs1406911979 769 dbSNP
rs946011426 770 dbSNP
rs1291923326 774 dbSNP
rs926936942 774 dbSNP
rs937017052 778 dbSNP
rs1040674768 782 dbSNP
rs901734667 796 dbSNP
rs998605878 797 dbSNP
rs1312098170 808 dbSNP
rs1241430274 834 dbSNP
rs1367413861 841 dbSNP
rs1273437329 843 dbSNP
rs1438923943 848 dbSNP
rs1350665950 853 dbSNP
rs1387862411 864 dbSNP
rs1297769691 867 dbSNP
rs781561084 876 dbSNP
rs1417972815 883 dbSNP
rs1362464847 899 dbSNP
rs898263082 910 dbSNP
rs191026427 918 dbSNP
rs1424288339 933 dbSNP
rs995014382 936 dbSNP
rs1478858012 941 dbSNP
rs1328932012 944 dbSNP
rs1047961207 945 dbSNP
rs1487027376 947 dbSNP
rs886617814 957 dbSNP
rs1312091089 963 dbSNP
rs770019507 963 dbSNP
rs1019227682 967 dbSNP
rs1221318238 973 dbSNP
rs1275135782 975 dbSNP
rs889869713 976 dbSNP
rs1005589260 995 dbSNP
rs1398322101 997 dbSNP
rs1226082765 1000 dbSNP
rs996601816 1008 dbSNP
rs1464858391 1009 dbSNP
rs1017086171 1020 dbSNP
rs957717846 1030 dbSNP
rs1450310435 1031 dbSNP
rs1415962957 1036 dbSNP
rs1429656568 1037 dbSNP
rs1192554393 1047 dbSNP
rs1476633289 1050 dbSNP
rs1264752058 1051 dbSNP
rs961825438 1053 dbSNP
rs138893623 1054 dbSNP
rs749358037 1067 dbSNP
rs994324501 1068 dbSNP
rs1481438107 1076 dbSNP
rs1254797199 1081 dbSNP
rs377699919 1085 dbSNP
rs1324732257 1090 dbSNP
rs1024992070 1092 dbSNP
rs1217108979 1097 dbSNP
rs1289953538 1100 dbSNP
rs913027545 1100 dbSNP
rs771193253 1102 dbSNP
rs1395555185 1106 dbSNP
rs1323158455 1108 dbSNP
rs1201922257 1112 dbSNP
rs1454252535 1113 dbSNP
rs979769609 1115 dbSNP
rs1301023250 1116 dbSNP
rs1450106497 1122 dbSNP
rs981294888 1123 dbSNP
rs775569065 1125 dbSNP
rs1463777867 1142 dbSNP
rs927232767 1142 dbSNP
rs926945462 1153 dbSNP
rs937005949 1159 dbSNP
rs1170661600 1165 dbSNP
rs957144777 1174 dbSNP
rs1253390726 1176 dbSNP
rs1184171738 1182 dbSNP
rs1038483047 1185 dbSNP
rs1238000179 1199 dbSNP
rs1388295809 1207 dbSNP
rs1197119755 1210 dbSNP
rs989883793 1211 dbSNP
rs1459335260 1218 dbSNP
rs913091644 1220 dbSNP
rs1244259582 1241 dbSNP
rs1320053812 1242 dbSNP
rs749998933 1260 dbSNP
rs1248132472 1262 dbSNP
rs1383411567 1263 dbSNP
rs1330534456 1270 dbSNP
rs1444347360 1274 dbSNP
rs919679000 1275 dbSNP
rs149319984 1281 dbSNP
rs1457085054 1287 dbSNP
rs768494127 1289 dbSNP
rs1407400727 1291 dbSNP
rs1166258379 1292 dbSNP
rs1287174708 1301 dbSNP
rs1445822549 1310 dbSNP
rs931879837 1315 dbSNP
rs1049756561 1316 dbSNP
rs1459378582 1323 dbSNP
rs1251668195 1342 dbSNP
rs1209535923 1350 dbSNP
rs1046853448 1353 dbSNP
rs1263074165 1359 dbSNP
rs889776039 1360 dbSNP
rs1354657006 1365 dbSNP
rs886585220 1393 dbSNP
rs1005615401 1396 dbSNP
rs1209654314 1412 dbSNP
rs1353023539 1422 dbSNP
rs1269813242 1433 dbSNP
rs1490907050 1434 dbSNP
rs1040628662 1437 dbSNP
rs1237798791 1437 dbSNP
rs1038434753 1444 dbSNP
rs1180025182 1451 dbSNP
rs1251166050 1454 dbSNP
rs900788363 1458 dbSNP
rs897208852 1466 dbSNP
rs1472289423 1475 dbSNP
rs1419807884 1478 dbSNP
rs994749946 1484 dbSNP
rs1307437733 1485 dbSNP
rs1161175108 1488 dbSNP
rs1388109933 1491 dbSNP
rs1304531995 1509 dbSNP
rs1424784789 1510 dbSNP
rs1024436923 1521 dbSNP
rs972094336 1533 dbSNP
rs1033391102 1534 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000339140.3 | 3UTR | UGAAGAGAAUUUGACUUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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-4457 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT098032 SOBP sine oculis binding protein homolog 2 2
MIRT202580 PCMTD2 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2 2 6
MIRT247137 WEE1 WEE1 G2 checkpoint kinase 2 4
MIRT349266 PTBP1 polypyrimidine tract binding protein 1 2 2
MIRT363756 EIF4EBP1 eukaryotic translation initiation factor 4E binding protein 1 2 2
MIRT443586 FAM84B family with sequence similarity 84 member B 2 2
MIRT452333 EIF5AL1 eukaryotic translation initiation factor 5A-like 1 2 2
MIRT453864 ZBTB40 zinc finger and BTB domain containing 40 2 4
MIRT471486 PDE4D phosphodiesterase 4D 2 4
MIRT476290 GMFB glia maturation factor beta 2 8
MIRT479897 CCDC117 coiled-coil domain containing 117 2 4
MIRT484251 ANK1 ankyrin 1 2 2
MIRT491473 TMEM214 transmembrane protein 214 2 2
MIRT493804 GAN gigaxonin 2 6
MIRT499252 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT502271 HNRNPA1 heterogeneous nuclear ribonucleoprotein A1 2 4
MIRT504651 RPL9 ribosomal protein L9 2 6
MIRT505211 UBN2 ubinuclein 2 2 8
MIRT508952 SNRPB small nuclear ribonucleoprotein polypeptides B and B1 2 4
MIRT512691 POP1 POP1 homolog, ribonuclease P/MRP subunit 2 2
MIRT513320 SCUBE3 signal peptide, CUB domain and EGF like domain containing 3 2 2
MIRT513870 HOXA5 homeobox A5 2 2
MIRT517342 ZNF529 zinc finger protein 529 2 4
MIRT518947 LSG1 large 60S subunit nuclear export GTPase 1 2 2
MIRT520867 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 2
MIRT528325 GIGYF2 GRB10 interacting GYF protein 2 2 2
MIRT531990 SLCO1B3 solute carrier organic anion transporter family member 1B3 2 2
MIRT533298 USP46 ubiquitin specific peptidase 46 2 2
MIRT545257 TRIM36 tripartite motif containing 36 2 4
MIRT547038 POGZ pogo transposable element derived with ZNF domain 2 2
MIRT556103 MOAP1 modulator of apoptosis 1 2 2
MIRT558321 DR1 down-regulator of transcription 1 2 2
MIRT558521 CSRNP3 cysteine and serine rich nuclear protein 3 2 2
MIRT560906 TMED10 transmembrane p24 trafficking protein 10 2 2
MIRT568448 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT570586 OTUD7B OTU deubiquitinase 7B 2 2
MIRT572799 SIGLEC14 sialic acid binding Ig like lectin 14 2 2
MIRT573863 C9orf78 chromosome 9 open reading frame 78 2 2
MIRT575058 P2ry1 purinergic receptor P2Y, G-protein coupled 1 2 5
MIRT609931 SLC38A1 solute carrier family 38 member 1 2 4
MIRT610836 ZNF585A zinc finger protein 585A 2 4
MIRT611474 P2RY1 purinergic receptor P2Y1 2 7
MIRT613569 YY2 YY2 transcription factor 2 2
MIRT618626 GREB1 growth regulation by estrogen in breast cancer 1 2 2
MIRT620606 SAP30 Sin3A associated protein 30 2 2
MIRT621017 CLSTN3 calsyntenin 3 2 4
MIRT635314 FAM179A TOG array regulator of axonemal microtubules 2 2 2
MIRT635919 GLTSCR2 NOP53 ribosome biogenesis factor 2 2
MIRT640598 TM9SF4 transmembrane 9 superfamily member 4 2 2
MIRT641784 YWHAB tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein beta 2 4
MIRT644067 IQCE IQ motif containing E 2 2
MIRT648288 TRAPPC2L trafficking protein particle complex 2 like 2 2
MIRT658085 FOXR2 forkhead box R2 2 2
MIRT659077 DEPTOR DEP domain containing MTOR interacting protein 2 2
MIRT665307 ZBTB37 zinc finger and BTB domain containing 37 2 2
MIRT665975 SYTL4 synaptotagmin like 4 2 2
MIRT666302 SLC25A25 solute carrier family 25 member 25 2 2
MIRT674906 RASSF9 Ras association domain family member 9 2 2
MIRT680086 THAP1 THAP domain containing 1 2 2
MIRT681488 DIP2A disco interacting protein 2 homolog A 2 2
MIRT691244 DFNB59 pejvakin 2 2
MIRT692362 AGTRAP angiotensin II receptor associated protein 2 2
MIRT693035 MB21D1 Mab-21 domain containing 1 2 2
MIRT693837 STAT5A signal transducer and activator of transcription 5A 2 2
MIRT694479 LRTOMT leucine rich transmembrane and O-methyltransferase domain containing 2 2
MIRT696070 ZNF264 zinc finger protein 264 2 2
MIRT696578 TTC21B tetratricopeptide repeat domain 21B 2 2
MIRT696760 MTFMT mitochondrial methionyl-tRNA formyltransferase 2 2
MIRT697307 ZNF652 zinc finger protein 652 2 2
MIRT700152 RNF115 ring finger protein 115 2 2
MIRT701056 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT701198 OTUD3 OTU deubiquitinase 3 2 2
MIRT701335 NSD1 nuclear receptor binding SET domain protein 1 2 2
MIRT702656 ITGA3 integrin subunit alpha 3 2 2
MIRT703618 FBXO45 F-box protein 45 2 2
MIRT704673 CHTOP chromatin target of PRMT1 2 2
MIRT708894 ZNF780A zinc finger protein 780A 2 2
MIRT711620 DGKH diacylglycerol kinase eta 2 2
MIRT713745 TMEM81 transmembrane protein 81 2 2
MIRT719712 CD101 CD101 molecule 2 2
MIRT720294 DLGAP3 DLG associated protein 3 2 2
MIRT722606 CCDC152 coiled-coil domain containing 152 2 2
MIRT724566 ACSBG1 acyl-CoA synthetase bubblegum family member 1 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-4457 Dabrafenib 44462760 NSC764134 approved sensitive cell line (A375)
hsa-miR-4457 Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-4457 Osimertinib 71496458 NSC779217 approved sensitive cell line (PC9)
hsa-miR-4457 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)

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