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 SYTL4   
Synonyms SLP4
Description synaptotagmin like 4
Transcript NM_001129896   
Other Transcripts NM_001174068 , NM_080737   
Expression
Putative miRNA Targets on SYTL4
3'UTR of SYTL4
(miRNA target sites are highlighted)
>SYTL4|NM_001129896|3'UTR
   1 GTCCCTGTCCTCTTCTGCAGGTCCAGCCCTGGCGAGGGCAGGTCAGAGGAAGTGAAGAAATCAAGAGCAAAGATTTATAA
  81 TTTAATGTGTATGTGTGTATGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTATGTGTACAAACATGTATTTTCTGCAAA
 161 TCTCATTATGCTGGCTAGAGTGATGCAGACTTGTTCTTCTTTTTAAAGCAGTCTCAAGAATAAGCATTTCTTTAAAATGT
 241 TTCTGTGTATAATCTAGTTTATTTTCAGAGTCCATTTTTTCTTATGTCTTTATAAGGTTCACTTAACTTAAAAACAGCTT
 321 TTAAAACAACTTTTTATCTTCTGTCTTGCTATCATTGTTCCTACTTCCCTAGGAAGCCCTGGCTACCTTTCGCATTAGGA
 401 CCAGTCTGGGTTTTAAGGCTCTGGGAAGCAGGGTTGGTTAGTAAAGACAGGAATGTTGGGGAGAGGTGAGTAGTTCCTTC
 481 CTCTTTCTCCTCTCCAATTTATGCTTTTAACTTATTTTCTACCTGGATAAACTTCTGGAACTTGGCTTTTAAATTTAACT
 561 TTTCTAGTTTTTAAGCAGTTTCCACCTTGCTTTGGTCTAATGCTTTTCTTTGAAATGCTAACAGAATTCCCAAGCTTTTT
 641 CCAGTTCTAGATATCTTTACTAGACCTTTGGGGGACTCTTATAATGGAGCTGCTTTTGAAAAGCACTTTAATTAGATAAT
 721 GTATTTTGACTAAATCACGAGGATGCCCAGTGAGAGCTTCTAGCTGATCTCAGAGGACCAGAGTGACTGAGGGTAAAGTG
 801 TCTCACAGCCCATGCTGAATTTTCTGCATTTTAAACTGATACTGCAGTCATTGGAGAGAGAGCTCCTCATTTCTCGAATG
 881 AAAGATGAGATATATTCATCCTCATGTACCACATCTGTCTTAGTGTTTGCGTCTGGGGTGTGTTATCAAACAGAGCATGG
 961 TCTACATCCCACTGTGTCAACCAGAAGAGCCAAGTGTTATCTCAATTGGCCCAGTGTTTCTCCAGGCTGGGGACTGTTAA
1041 GGGCTCTAAGGGAATGTAGACAGAGTCTCCCTGTTATTCTGACTTCCTGCTTGATGAGCTTTCAGTTCCTGTTTTTGCTA
1121 TTGTTTCCTAAATTTGACCTACATATTACATGGGTGTAGTGTGTTGAGGCTTTTCAAAGAAGGGTCTAGTGAGCTAAGTT
1201 TCATCTTCTGGTACTCATTGATCAAACTGACCTTTCTATTCTCATAAGCGTTTCTACCCAAAGTTGTGTGTGGAAGGAGT
1281 GTATAGCAGAGAGGAAATCCCTTTCAACAGAGTCAGCTGCTAACTGATTTCCTATAAGCACACTGGATTAAGGGCAGCCA
1361 CAGTGGTTTCTACTGTATGTATGAACCGAATGGAGGAATGTTTTCAAAGATTGATTTGGTGTGGATTGCAATTGTAATGG
1441 AAGGCATAACTTGGGATCCCGGGCTGTAACTTGCTCTTTTGTTTCCCACCCCCCTGACATGTATGTGTGCTTTAATAAAG
1521 CTTTCTCACTTGTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
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' ttaagCAGTTTCCACCTTGctt 3'
571 - 592 117.00 -11.92
2
miRNA  3' augcggUCAGUU---AUGGAACACu 5'
                |||| |   | :||| || 
Target 5' tttcagAGTCCATTTTTTCTTATGt 3'
263 - 287 104.00 -5.50
3
miRNA  3' augCGGUCAGUU---A-UGGAACACu 5'
             |: || :||   | |:||| || 
Target 5' ctaGTGAGCTAAGTTTCATCTTCTGg 3'
1186 - 1211 103.00 -8.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs8780 1493 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs754334762 1 dbSNP
rs1158334183 3 dbSNP
rs1396068936 7 dbSNP
rs766996024 26 dbSNP
rs1049930392 29 dbSNP
rs1182373295 32 dbSNP
rs200526563 33 dbSNP
rs186949124 34 dbSNP
rs1205556285 38 dbSNP
rs767752854 41 dbSNP
rs765447537 42 dbSNP
rs1264317460 46 dbSNP
rs762011855 51 dbSNP
rs781443908 54 dbSNP
rs111678811 66 dbSNP
rs988109782 72 dbSNP
rs868529234 99 dbSNP
rs867713233 105 dbSNP
rs201385766 107 dbSNP
rs1275192337 109 dbSNP
rs1436222003 110 dbSNP
rs1421664793 111 dbSNP
rs747241183 113 dbSNP
rs1192101464 115 dbSNP
rs1476018865 115 dbSNP
rs199736998 115 dbSNP
rs777259322 115 dbSNP
rs1488290483 117 dbSNP
rs1394972684 118 dbSNP
rs1463551286 123 dbSNP
rs1330115393 131 dbSNP
rs1491229255 132 dbSNP
rs1491291837 133 dbSNP
rs1491453352 133 dbSNP
rs4828041 133 dbSNP
rs55934817 133 dbSNP
rs67841104 134 dbSNP
rs1491418814 135 dbSNP
rs60877328 135 dbSNP
rs747727989 137 dbSNP
rs10623103 139 dbSNP
rs1195797901 139 dbSNP
rs1267098694 139 dbSNP
rs1429416959 139 dbSNP
rs868135029 139 dbSNP
rs750128469 140 dbSNP
rs772500425 140 dbSNP
rs867772362 140 dbSNP
rs778906164 147 dbSNP
rs1022779689 157 dbSNP
rs1297174053 168 dbSNP
rs1013398038 184 dbSNP
rs1216218531 186 dbSNP
rs1339812914 196 dbSNP
rs757189558 202 dbSNP
rs753767538 204 dbSNP
rs1265023563 215 dbSNP
rs1416422993 217 dbSNP
rs1486326984 226 dbSNP
rs1399707025 231 dbSNP
rs1260131587 233 dbSNP
rs1488235643 238 dbSNP
rs1189346766 263 dbSNP
rs763845887 270 dbSNP
rs952200357 274 dbSNP
rs796241020 286 dbSNP
rs1462737180 300 dbSNP
rs760488435 302 dbSNP
rs1168675008 307 dbSNP
rs1477525375 310 dbSNP
rs1454021818 312 dbSNP
rs1419242137 327 dbSNP
rs986655411 332 dbSNP
rs1358443770 338 dbSNP
rs993520169 343 dbSNP
rs1313339181 348 dbSNP
rs1190650601 351 dbSNP
rs1422439761 353 dbSNP
rs898040015 361 dbSNP
rs370671348 391 dbSNP
rs7063127 392 dbSNP
rs1241504682 400 dbSNP
rs1284303992 404 dbSNP
rs1353526880 405 dbSNP
rs1212053635 437 dbSNP
rs889270170 443 dbSNP
rs1050656235 445 dbSNP
rs754066518 450 dbSNP
rs767268332 456 dbSNP
rs914336509 457 dbSNP
rs759211133 460 dbSNP
rs1259562682 466 dbSNP
rs934348560 483 dbSNP
rs1316702829 485 dbSNP
rs1419282934 490 dbSNP
rs924504623 494 dbSNP
rs1006137743 495 dbSNP
rs1418801595 506 dbSNP
rs774004760 510 dbSNP
rs1246824018 514 dbSNP
rs1338610064 518 dbSNP
rs1464514217 519 dbSNP
rs41310707 543 dbSNP
rs762246741 576 dbSNP
rs1393359843 585 dbSNP
rs1307271359 590 dbSNP
rs1376460773 593 dbSNP
rs1235425579 594 dbSNP
rs971309841 613 dbSNP
rs915725251 616 dbSNP
rs1034002190 622 dbSNP
rs191190551 629 dbSNP
rs1199997583 657 dbSNP
rs1438728945 674 dbSNP
rs1329508278 681 dbSNP
rs1193989116 683 dbSNP
rs1465199329 691 dbSNP
rs1396708287 695 dbSNP
rs1431353260 699 dbSNP
rs760950494 738 dbSNP
rs768937564 739 dbSNP
rs747391721 740 dbSNP
rs1463541968 742 dbSNP
rs1329424813 747 dbSNP
rs952192357 764 dbSNP
rs1441968988 775 dbSNP
rs1306055677 776 dbSNP
rs1456894507 780 dbSNP
rs1219156066 785 dbSNP
rs780311378 791 dbSNP
rs1027740659 795 dbSNP
rs972450301 804 dbSNP
rs1296847624 807 dbSNP
rs962051532 821 dbSNP
rs772295113 824 dbSNP
rs1199938808 841 dbSNP
rs138601724 843 dbSNP
rs1457020519 845 dbSNP
rs1213991953 857 dbSNP
rs1248233982 861 dbSNP
rs906927248 875 dbSNP
rs889405835 876 dbSNP
rs1420086941 880 dbSNP
rs1421199086 891 dbSNP
rs1168584633 892 dbSNP
rs1029542699 894 dbSNP
rs1462152517 906 dbSNP
rs778994011 909 dbSNP
rs1348369912 930 dbSNP
rs757339687 931 dbSNP
rs1176324996 938 dbSNP
rs1011078742 939 dbSNP
rs186394828 940 dbSNP
rs1273329155 944 dbSNP
rs1316828991 958 dbSNP
rs1233366402 992 dbSNP
rs1291513778 995 dbSNP
rs1054226731 996 dbSNP
rs1220509681 999 dbSNP
rs1242534534 1000 dbSNP
rs1211102028 1005 dbSNP
rs1354209213 1010 dbSNP
rs934442116 1033 dbSNP
rs1489217831 1047 dbSNP
rs1191494034 1049 dbSNP
rs1262564382 1057 dbSNP
rs1475538971 1059 dbSNP
rs902836096 1073 dbSNP
rs1045411267 1077 dbSNP
rs1405030088 1093 dbSNP
rs949961742 1094 dbSNP
rs1239534276 1096 dbSNP
rs1160255338 1098 dbSNP
rs1378790840 1109 dbSNP
rs1347371669 1127 dbSNP
rs1398686905 1143 dbSNP
rs915837585 1149 dbSNP
rs1307358339 1165 dbSNP
rs1356676686 1180 dbSNP
rs1414817782 1184 dbSNP
rs1285483586 1201 dbSNP
rs1353787101 1205 dbSNP
rs183497469 1220 dbSNP
rs1284679423 1227 dbSNP
rs1355673358 1230 dbSNP
rs1371985183 1236 dbSNP
rs1214184794 1244 dbSNP
rs1052675845 1249 dbSNP
rs936918158 1250 dbSNP
rs991691291 1259 dbSNP
rs775864729 1260 dbSNP
rs1235855179 1270 dbSNP
rs755921711 1294 dbSNP
rs1390672366 1297 dbSNP
rs1472582098 1310 dbSNP
rs1178059497 1321 dbSNP
rs920646808 1326 dbSNP
rs972129423 1334 dbSNP
rs986132688 1341 dbSNP
rs1455678580 1342 dbSNP
rs1376556766 1343 dbSNP
rs932079967 1356 dbSNP
rs1378791952 1364 dbSNP
rs1335600069 1367 dbSNP
rs752553478 1378 dbSNP
rs1438763312 1382 dbSNP
rs190632064 1387 dbSNP
rs185769832 1388 dbSNP
rs976321167 1420 dbSNP
rs1237640266 1440 dbSNP
rs1308311194 1442 dbSNP
rs1348475516 1443 dbSNP
rs1202159389 1450 dbSNP
rs987478213 1460 dbSNP
rs953719639 1482 dbSNP
rs8780 1493 dbSNP
rs1205581354 1494 dbSNP
rs1178379593 1496 dbSNP
rs1355602309 1496 dbSNP
rs1011465222 1500 dbSNP
rs777068334 1529 dbSNP
rs140612294 1538 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 GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_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 GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000372989.1 | 3UTR | GAGUGAGUGUGUGUGU
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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