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 DEPTOR   
Synonyms DEP.6, DEPDC6
Description DEP domain containing MTOR interacting protein
Transcript NM_022783   
Expression
Putative miRNA Targets on DEPTOR
3'UTR of DEPTOR
(miRNA target sites are highlighted)
>DEPTOR|NM_022783|3'UTR
   1 GCTCCTGGGCCTCCCAGCCCTCCAGTGGCCTGTGGGTGAGGGAAGCCAGAATGACACAAAGCAATGCAAAGACAAGATTG
  81 CCATGCAAATGGATGGTTTTGGACATACGAGTCTTCTCCGCACATACATGTCTAAAGTTGAGTTTTATACACTGAATGTG
 161 GAAGAACCGGGTATCATATCTTTTTTAAAAAATGTCAGTGTAGAAAACATTTGGGAAACCATTTTCCTACATGATAGAAC
 241 TGCCTTACTAGATTTCTATTTGTAGCTCTCATTCATTGTTTTTTATCTTAGTTTGCAGAAAGGTGTTGAAATGCTTCTCT
 321 AGCCCAAACAGCGACATGCTAAAGTCCCCTTCTTCAGAGTCAATAGAGTAGTTGTTAAAGGTTTTAAATTGTACTTTCTC
 401 CAAAATTAGCATGCAGCTATTTAATAGGGAATCTAGATTTCACCAAGATTCAAATCAAAGCAACATTTAAAGGAATAAGA
 481 CCTGTTCACTAGCATTTTCAAGGGGGTTCTAAAGCATTCAAGTGCTTAAAAGCCATAAAAAATGACTTCTTAATTCCTGC
 561 CTTTAGTGTCAACTTTTAAGTTAATACAGGTTTCAATTGTGGCATTAGGAAAAAAAAAAACCTTGTGATGCTATGGTTGG
 641 GGGTAGTTAGGGAGAGACTACATGAAATTGTGTGCCCCTATTTTCTTTCTGATCCTAAATCATTTTGTTTTATAAATCAG
 721 CTATAGCATCTTTCTAGAATTAATCCTGAATATGTTGAATGTTAAAATAGAGAAGTTTGTATATACACATAATTAAAAAT
 801 CAACCCTTCTGGCAAGATTTCACTTTGAAGGTGTCTGTTTTTAAGGGAAGGCTAAAACTTTGCTGATATGTGATAAAACT
 881 TGAACTCTAAATTGCCTCCTTAGCCTGAATTTTTACTAGCTTTCTAGTGTAACATATTCTAAGGACATGACATGCTGCTT
 961 ATTTGGGGGGATTATTTTTCACCAAAATGATCATCTTGTGTTGTAACTTTTCAGCTCACTTGTATATACGCACGTTTTCA
1041 TTTTTGGTCTAGAAAATAGTGCATTTTGGGGCTCAGCGTGCAGAGGAAATTCCTCAAAGTGCCAAATTAGGCAGTCAGGA
1121 AATACTAAATTCTTCATTCCAAATAATGGATCTGAATGATGACGTTAATTTTTTATCATGCATTAACAAAATAAAATATG
1201 AGAATTGTACCACA
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' augcggucagUUAUGGAACACu 5'
                    || |||||||| 
Target 5' aggaaaaaaaAAAACCTTGTGa 3'
607 - 628 152.00 -12.70
2
miRNA  3' auGCGG-UCAGUUA-UGGAACACu 5'
            | || |  ::|| |:|||||| 
Target 5' ttCACCAAAATGATCATCTTGTGt 3'
978 - 1001 136.00 -11.10
3
miRNA  3' augcggUCAGUUAUGGAACACu 5'
                | ||||  |||| || 
Target 5' attaaaAATCAA-CCCTTCTGg 3'
792 - 812 119.00 -6.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30581872 12 COSMIC
COSN30503851 15 COSMIC
COSN7664527 51 COSMIC
COSN31507754 72 COSMIC
COSN30141077 78 COSMIC
COSN30492295 109 COSMIC
COSN14321740 120 COSMIC
COSN22634956 138 COSMIC
COSN20105858 621 COSMIC
COSN27555317 621 COSMIC
COSN28935566 621 COSMIC
rs6985424 1034 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1439438341 7 dbSNP
rs114152495 16 dbSNP
rs761399741 17 dbSNP
rs117391704 19 dbSNP
rs990586809 23 dbSNP
rs760591262 27 dbSNP
rs1305174916 29 dbSNP
rs1196724863 33 dbSNP
rs531476050 36 dbSNP
rs543528408 43 dbSNP
rs1177544022 46 dbSNP
rs978061247 47 dbSNP
rs375434258 53 dbSNP
rs148829767 59 dbSNP
rs533384501 62 dbSNP
rs949276336 74 dbSNP
rs966062045 87 dbSNP
rs113921675 88 dbSNP
rs923760342 90 dbSNP
rs765421883 92 dbSNP
rs974815549 96 dbSNP
rs922051298 97 dbSNP
rs1174468896 101 dbSNP
rs1419271821 105 dbSNP
rs1478460690 106 dbSNP
rs930791056 109 dbSNP
rs1179248821 110 dbSNP
rs551920178 112 dbSNP
rs1237401887 113 dbSNP
rs1186313994 117 dbSNP
rs935254855 119 dbSNP
rs908092586 120 dbSNP
rs143583737 121 dbSNP
rs1045986916 125 dbSNP
rs527937004 128 dbSNP
rs1352478150 132 dbSNP
rs1051534 135 dbSNP
rs1055508577 138 dbSNP
rs1225243983 141 dbSNP
rs1389270717 154 dbSNP
rs1283493155 155 dbSNP
rs752547040 157 dbSNP
rs1357465831 161 dbSNP
rs1313512873 169 dbSNP
rs1386207398 170 dbSNP
rs1358797336 172 dbSNP
rs1161811241 174 dbSNP
rs1401651490 176 dbSNP
rs947374183 177 dbSNP
rs1161954729 178 dbSNP
rs755934084 187 dbSNP
rs1187968133 188 dbSNP
rs1487789946 201 dbSNP
rs1011379683 202 dbSNP
rs372336068 204 dbSNP
rs1233462891 214 dbSNP
rs545187890 220 dbSNP
rs1226564755 221 dbSNP
rs1020555519 222 dbSNP
rs1293995461 232 dbSNP
rs1327432391 233 dbSNP
rs1218080620 238 dbSNP
rs1338806703 241 dbSNP
rs1290825855 244 dbSNP
rs1431996611 257 dbSNP
rs1030917316 259 dbSNP
rs886573598 263 dbSNP
rs1463480380 267 dbSNP
rs1419141841 268 dbSNP
rs1165096929 269 dbSNP
rs967258190 286 dbSNP
rs1008133423 288 dbSNP
rs1016501452 292 dbSNP
rs1187925519 308 dbSNP
rs1485965168 319 dbSNP
rs1245913634 322 dbSNP
rs764154354 330 dbSNP
rs966030860 333 dbSNP
rs187504453 334 dbSNP
rs191961721 338 dbSNP
rs1316126179 340 dbSNP
rs1297752821 345 dbSNP
rs1215414761 348 dbSNP
rs1209660146 356 dbSNP
rs556215921 359 dbSNP
rs375005841 369 dbSNP
rs183071839 382 dbSNP
rs778275583 390 dbSNP
rs1352287827 391 dbSNP
rs956544779 392 dbSNP
rs10112515 393 dbSNP
rs1191588731 408 dbSNP
rs1455399029 411 dbSNP
rs78301478 413 dbSNP
rs1197964581 418 dbSNP
rs1479595006 420 dbSNP
rs1253152973 422 dbSNP
rs572297403 428 dbSNP
rs1205238086 445 dbSNP
rs1457328456 447 dbSNP
rs947427979 461 dbSNP
rs796557651 466 dbSNP
rs1039006312 471 dbSNP
rs1237019998 481 dbSNP
rs750048082 484 dbSNP
rs11287916 485 dbSNP
rs188643071 488 dbSNP
rs542880454 494 dbSNP
rs758138475 499 dbSNP
rs1051826901 514 dbSNP
rs1055880341 516 dbSNP
rs1462044243 520 dbSNP
rs1005035342 527 dbSNP
rs1171343298 535 dbSNP
rs199758694 543 dbSNP
rs947104522 552 dbSNP
rs1041494890 564 dbSNP
rs576087019 568 dbSNP
rs1177711331 569 dbSNP
rs1348222871 570 dbSNP
rs1037986838 572 dbSNP
rs543416242 572 dbSNP
rs1012465979 573 dbSNP
rs542951834 581 dbSNP
rs193275717 586 dbSNP
rs1008102377 588 dbSNP
rs1023730985 593 dbSNP
rs576834271 597 dbSNP
rs545278374 598 dbSNP
rs899760329 601 dbSNP
rs1267786698 604 dbSNP
rs1357075396 609 dbSNP
rs1308301775 610 dbSNP
rs1375619189 610 dbSNP
rs34065301 610 dbSNP
rs1157890472 611 dbSNP
rs1451356605 611 dbSNP
rs35951219 613 dbSNP
rs1272656884 619 dbSNP
rs1423128899 619 dbSNP
rs1003723410 620 dbSNP
rs1029429593 623 dbSNP
rs1190086014 626 dbSNP
rs1486154421 635 dbSNP
rs1183233660 639 dbSNP
rs1262735814 653 dbSNP
rs1051541 655 dbSNP
rs952103625 663 dbSNP
rs556706132 675 dbSNP
rs184244614 676 dbSNP
rs1261632915 679 dbSNP
rs1423063314 681 dbSNP
rs1030734340 683 dbSNP
rs1333250687 689 dbSNP
rs1290921427 690 dbSNP
rs1234582325 714 dbSNP
rs956569657 723 dbSNP
rs989268256 729 dbSNP
rs1370132216 732 dbSNP
rs1380117238 733 dbSNP
rs1425281199 735 dbSNP
rs962184656 753 dbSNP
rs1289160343 756 dbSNP
rs1167407214 762 dbSNP
rs915195565 767 dbSNP
rs528013297 771 dbSNP
rs981583125 779 dbSNP
rs1167271092 790 dbSNP
rs549248656 796 dbSNP
rs1368204710 800 dbSNP
rs975265449 803 dbSNP
rs541809921 804 dbSNP
rs1430482052 805 dbSNP
rs1262873171 807 dbSNP
rs933310816 815 dbSNP
rs1308282055 823 dbSNP
rs1467573501 843 dbSNP
rs560973974 844 dbSNP
rs531617647 855 dbSNP
rs1215067826 863 dbSNP
rs1052304013 879 dbSNP
rs1269036861 880 dbSNP
rs1327765778 881 dbSNP
rs907939477 895 dbSNP
rs937611862 897 dbSNP
rs1392250826 898 dbSNP
rs991779277 900 dbSNP
rs1461852899 908 dbSNP
rs1395903765 912 dbSNP
rs1166166097 915 dbSNP
rs112738740 916 dbSNP
rs549728873 919 dbSNP
rs1378846779 926 dbSNP
rs1041854555 932 dbSNP
rs1255229310 936 dbSNP
rs1394669750 948 dbSNP
rs1315346316 949 dbSNP
rs1271691039 965 dbSNP
rs1193557188 966 dbSNP
rs1341117469 970 dbSNP
rs902936579 979 dbSNP
rs1233352620 982 dbSNP
rs943820294 983 dbSNP
rs1040915119 986 dbSNP
rs1441554134 988 dbSNP
rs899729454 993 dbSNP
rs1344439911 995 dbSNP
rs1369028547 996 dbSNP
rs1327004163 999 dbSNP
rs997149306 1009 dbSNP
rs34510729 1012 dbSNP
rs1411729701 1018 dbSNP
rs1397536265 1019 dbSNP
rs1173226252 1023 dbSNP
rs528532651 1030 dbSNP
rs906216757 1031 dbSNP
rs6985424 1034 dbSNP
rs1255635576 1047 dbSNP
rs1439679377 1050 dbSNP
rs1231668035 1051 dbSNP
rs1031204449 1055 dbSNP
rs892215895 1078 dbSNP
rs887768032 1079 dbSNP
rs1022090241 1082 dbSNP
rs1345215080 1092 dbSNP
rs1282216202 1094 dbSNP
rs1234732952 1096 dbSNP
rs963815630 1098 dbSNP
rs539075508 1129 dbSNP
rs1277672024 1139 dbSNP
rs975752320 1140 dbSNP
rs1336458984 1141 dbSNP
rs77131105 1164 dbSNP
rs565853540 1165 dbSNP
rs1377485743 1176 dbSNP
rs1313941053 1180 dbSNP
rs1006262307 1181 dbSNP
rs954904187 1183 dbSNP
rs1014927275 1205 dbSNP
rs1406484366 1208 dbSNP
rs987482243 1211 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 ENST00000286234.5 | 3UTR | AUUAGGAAAAAAAAAAAC
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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