miRTarBase - #MIRT480240


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pre-miRNA Information
pre-miRNA hsa-mir-4752   
Genomic Coordinates chr19: 54282109 - 54282180
Description Homo sapiens miR-4752 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4752
Sequence 10| UUGUGGAUCUCAAGGAUGUGCU |31
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1396679933 1 dbSNP
rs1387430085 16 dbSNP
rs1008027103 19 dbSNP
rs1351805459 21 dbSNP
Putative Targets

Gene Information
Gene Symbol C8orf58   
Synonyms -
Description chromosome 8 open reading frame 58
Transcript NM_001013842   
Expression
Putative miRNA Targets on C8orf58
3'UTR of C8orf58
(miRNA target sites are highlighted)		 
>C8orf58|NM_001013842|3'UTR
   1 GACCTCTCGGTGCACCTGGTGACCCTGGGTGGAGGGGACTTGCTGTGAAGTCTTCCTCGCCCTCTGCCCTCTTGCTGCTT
  81 CTCCACATTGCCAGGAAAAGCTGCTGACGCCTGCCCTCCTCTCTTGAGTCGAGGGCTGAATCTTTCTCCTCTAAGCAGTC
 161 TGGTCAGGAACCTTGGTTTCTTGAGAGGCCCCCAAGATGCCGCAGCTCCAGGGCTCTTCCTCCTCACCAGAAATCCCTGG
 241 GCTTCCACAATGTGAACTCACTCATTGTCAGGTGTCCGTGGAGTGTTTTTGGCATGGTGACCTGTCTGGGCCCAGCATGT
 321 TGCAGATGTGTATTTATGCGCAATGGTATGCATATCTCTGTGTGACTGTCAGTGTTGCAAGCTGGCTGGATCCAACCATC
 401 TCTTCTGAAATAATGCATCCAAAGGGTTGATATTCTGGGGGAGGTCACTGCAGAAGGATGGAACTGACCTTTATTCCCCA
 481 GTGGGCAGTTACTGAGCTTTCCTCCTCAGAGCCATGCTGGCAGCCCTGGGACAGAGAACGGTGTGGCTTTGGCTGCCTCT
 561 GCATGGAATCTTGCCCCGGACTCCTGAAGACTGCACAAGGAATGAGGAAGATCAGGGACAACCTGGGAACTGAATAACTT
 641 TCAAAGCCAGTGCTCAGCTTCTCTGCTCCGTACTAGCGTTTACAGGTCTTAATTCAAACCAGATGCCTGTACTAGTTTTT
 721 AGACCCCAAGTCAACCTTTCTGAGCCACAGCTTCCCGCTGGGAATAATGATGCCTGCCCTATCTACCTCACAGACTTGTT
 801 ATGAGGATAAAGTGAGATTAAACTGCCTCAAAGTGCTTTGTAAA
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' ucgUGUAGGAACUC-UAGGUGUu 5'
             | |||| ||:|  |||||| 
Target 5' cagAAATCCCTGGGCTTCCACAa 3'
 228 - 250 135.00 -18.10
2 
miRNA  3' ucGUGUAGGAACUCUAGGUGUu 5'
            || | |:||  || ||||| 
Target 5' gtCA-ACCTTTCTGAGCCACAg 3'
 730 - 750 127.00 -13.20
3 
miRNA  3' ucguguaggaacucuAGGUGUu 5'
                         |||||| 
Target 5' ccctcttgctgcttcTCCACAt 3'
 67 - 88 120.00 -8.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30150630 7 COSMIC
COSN26968815 9 COSMIC
COSN30480502 9 COSMIC
COSN30494964 26 COSMIC
COSN30474012 33 COSMIC
COSN17177942 44 COSMIC
COSN31590891 60 COSMIC
COSN5110742 60 COSMIC
COSN31535241 110 COSMIC
COSN31515923 147 COSMIC
COSN20091770 217 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs775428629 2 dbSNP
rs375342942 4 dbSNP
rs768441202 9 dbSNP
rs776773199 10 dbSNP
rs368352306 13 dbSNP
rs765357384 14 dbSNP
rs1187167196 17 dbSNP
rs1392595564 19 dbSNP
rs773207976 25 dbSNP
rs1175412147 26 dbSNP
rs1357548764 32 dbSNP
rs372279433 36 dbSNP
rs766947375 43 dbSNP
rs1406457659 45 dbSNP
rs1434108485 46 dbSNP
rs752143676 48 dbSNP
rs1368388328 51 dbSNP
rs755329055 53 dbSNP
rs768008713 54 dbSNP
rs753522278 59 dbSNP
rs756898848 60 dbSNP
rs778463530 68 dbSNP
rs981545326 69 dbSNP
rs1197294146 70 dbSNP
rs1211791171 72 dbSNP
rs759594557 73 dbSNP
rs112182952 75 dbSNP
rs1181630587 78 dbSNP
rs779896080 87 dbSNP
rs978168612 93 dbSNP
rs746958111 95 dbSNP
rs748013206 101 dbSNP
rs1423150305 104 dbSNP
rs974449987 106 dbSNP
rs1176983447 107 dbSNP
rs539225708 109 dbSNP
rs748374199 110 dbSNP
rs1318256045 114 dbSNP
rs769962950 120 dbSNP
rs541999787 121 dbSNP
rs1408741089 122 dbSNP
rs1348110794 124 dbSNP
rs1292933734 125 dbSNP
rs762901241 126 dbSNP
rs1375111321 129 dbSNP
rs766572215 131 dbSNP
rs774943203 132 dbSNP
rs1391615616 139 dbSNP
rs765357590 146 dbSNP
rs1171247614 148 dbSNP
rs886272083 150 dbSNP
rs774308862 152 dbSNP
rs560636968 156 dbSNP
rs767961416 158 dbSNP
rs182712577 160 dbSNP
rs74591859 176 dbSNP
rs1158496574 181 dbSNP
rs1040216156 190 dbSNP
rs1471625119 194 dbSNP
rs900222271 197 dbSNP
rs1182720636 199 dbSNP
rs552167838 201 dbSNP
rs3735902 202 dbSNP
rs564123209 203 dbSNP
rs1280554148 204 dbSNP
rs1198587067 209 dbSNP
rs1462572550 210 dbSNP
rs187125121 214 dbSNP
rs749382402 215 dbSNP
rs1010485481 217 dbSNP
rs1250100228 221 dbSNP
rs1239295468 235 dbSNP
rs1484494940 246 dbSNP
rs1201135590 250 dbSNP
rs766228029 251 dbSNP
rs775522005 257 dbSNP
rs1474384400 266 dbSNP
rs981982445 270 dbSNP
rs1196115690 278 dbSNP
rs1034536103 279 dbSNP
rs150650211 286 dbSNP
rs974207199 287 dbSNP
rs919922298 290 dbSNP
rs568997291 295 dbSNP
rs982750624 303 dbSNP
rs1243531017 313 dbSNP
rs996468955 318 dbSNP
rs907765653 321 dbSNP
rs1285737949 324 dbSNP
rs536455322 329 dbSNP
rs1311760720 330 dbSNP
rs1355176429 331 dbSNP
rs1282019056 332 dbSNP
rs1247761107 338 dbSNP
rs1383905283 340 dbSNP
rs865871607 341 dbSNP
rs557619901 344 dbSNP
rs796455031 351 dbSNP
rs1319032461 353 dbSNP
rs900357490 355 dbSNP
rs1165631700 359 dbSNP
rs760961656 359 dbSNP
rs562871656 369 dbSNP
rs1385617854 376 dbSNP
rs1187768925 379 dbSNP
rs1447545295 381 dbSNP
rs1401533798 383 dbSNP
rs931711869 384 dbSNP
rs1298395339 386 dbSNP
rs1363151789 389 dbSNP
rs1193832047 390 dbSNP
rs1450501592 393 dbSNP
rs1287142591 395 dbSNP
rs1224185338 398 dbSNP
rs1359787495 401 dbSNP
rs1274367336 415 dbSNP
rs1226701940 420 dbSNP
rs1364672379 427 dbSNP
rs968278021 429 dbSNP
rs1436394392 438 dbSNP
rs1329355165 442 dbSNP
rs1305093888 443 dbSNP
rs1425528018 444 dbSNP
rs969698145 460 dbSNP
rs974042023 461 dbSNP
rs1461201577 469 dbSNP
rs1421433738 477 dbSNP
rs1168363077 478 dbSNP
rs764011423 482 dbSNP
rs192346010 487 dbSNP
rs1266137557 500 dbSNP
rs1201045068 503 dbSNP
rs1490403008 506 dbSNP
rs919590260 515 dbSNP
rs929594137 520 dbSNP
rs1046766620 522 dbSNP
rs1214368373 523 dbSNP
rs1285234748 525 dbSNP
rs1054240709 528 dbSNP
rs1293826351 533 dbSNP
rs1314463571 534 dbSNP
rs566595161 540 dbSNP
rs1009865775 541 dbSNP
rs1306359974 544 dbSNP
rs1019969772 547 dbSNP
rs907418146 554 dbSNP
rs1040929070 572 dbSNP
rs770878626 574 dbSNP
rs1484715794 578 dbSNP
rs1003143666 579 dbSNP
rs1034910763 595 dbSNP
rs900691235 596 dbSNP
rs1448263786 597 dbSNP
rs958929448 604 dbSNP
rs1410589189 605 dbSNP
rs1175058936 610 dbSNP
rs995549380 622 dbSNP
rs1026988553 624 dbSNP
rs951475857 626 dbSNP
rs1043987510 631 dbSNP
rs1265486162 640 dbSNP
rs369733597 643 dbSNP
rs1224694150 646 dbSNP
rs904123930 651 dbSNP
rs1269131115 652 dbSNP
rs982718423 654 dbSNP
rs1433757765 659 dbSNP
rs1172929668 665 dbSNP
rs912583789 666 dbSNP
rs1392767464 668 dbSNP
rs1420961310 669 dbSNP
rs774279468 670 dbSNP
rs754036047 671 dbSNP
rs1403664430 672 dbSNP
rs921752866 678 dbSNP
rs1470266350 679 dbSNP
rs931873389 680 dbSNP
rs1387260033 701 dbSNP
rs575869967 706 dbSNP
rs1054291590 707 dbSNP
rs1156396451 709 dbSNP
rs1420469349 711 dbSNP
rs1013701595 715 dbSNP
rs533837821 716 dbSNP
rs757829746 721 dbSNP
rs1180943777 723 dbSNP
rs1023871976 724 dbSNP
rs1245356156 727 dbSNP
rs1464891981 731 dbSNP
rs1370179981 735 dbSNP
rs1218091970 736 dbSNP
rs1054246 741 dbSNP
rs558620201 743 dbSNP
rs1303289280 745 dbSNP
rs1226853194 753 dbSNP
rs945790738 754 dbSNP
rs762139755 757 dbSNP
rs139756943 758 dbSNP
rs538587892 761 dbSNP
rs1454845627 763 dbSNP
rs1345299297 767 dbSNP
rs1163546092 771 dbSNP
rs536515539 772 dbSNP
rs1387462751 780 dbSNP
rs1184670083 782 dbSNP
rs1056090921 796 dbSNP
rs868332838 798 dbSNP
rs919802083 802 dbSNP
rs374082158 803 dbSNP
rs995600193 807 dbSNP
rs1486212192 808 dbSNP
rs1298206366 827 dbSNP
rs750789979 831 dbSNP
rs1361946124 835 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
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 GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ucgUGUAGGAACUC-UAGGUGUu 5'
             | |||| ||:|  |||||| 
Target 5' ---AAAUCCCUGGGCUUCCACAa 3'
 		1 - 20
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000289989.5 | 3UTR | AAAUCCCUGGGCUUCCACAAUGUGAACUCACUCAUUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
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
57 hsa-miR-4752 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT291951 TPM4 tropomyosin 4 2 2
MIRT293610 PVR poliovirus receptor 2 2
MIRT454768 STOML3 stomatin like 3 2 2
MIRT463215 ZNF131 zinc finger protein 131 2 2
MIRT464138 VPS28 VPS28, ESCRT-I subunit 2 2
MIRT469361 REST RE1 silencing transcription factor 2 6
MIRT470819 PLXND1 plexin D1 2 2
MIRT478874 CREBRF CREB3 regulatory factor 2 2
MIRT480240 C8orf58 chromosome 8 open reading frame 58 2 2
MIRT480544 BZW1 basic leucine zipper and W2 domains 1 2 2
MIRT480923 BCAT1 branched chain amino acid transaminase 1 2 4
MIRT497342 RPP25L ribonuclease P/MRP subunit p25 like 2 2
MIRT498823 DNTTIP2 deoxynucleotidyltransferase terminal interacting protein 2 2 8
MIRT498927 TMEM106B transmembrane protein 106B 2 8
MIRT499583 INTU inturned planar cell polarity protein 2 4
MIRT500117 ZNF106 zinc finger protein 106 2 4
MIRT500473 ZC3H11A zinc finger CCCH-type containing 11A 2 2
MIRT501907 MBD4 methyl-CpG binding domain 4, DNA glycosylase 2 4
MIRT519636 ZNF772 zinc finger protein 772 2 4
MIRT533402 TXLNG taxilin gamma 2 2
MIRT546181 TPRG1L tumor protein p63 regulated 1 like 2 2
MIRT546486 SKI SKI proto-oncogene 2 4
MIRT549398 AKAP11 A-kinase anchoring protein 11 2 2
MIRT552282 CBY1 chibby family member 1, beta catenin antagonist 2 4
MIRT558980 CA8 carbonic anhydrase 8 2 2
MIRT559812 ZNF83 zinc finger protein 83 2 2
MIRT559923 SOD2 superoxide dismutase 2 2 2
MIRT560257 TMEM236 transmembrane protein 236 2 2
MIRT560419 ANGPTL3 angiopoietin like 3 2 2
MIRT560548 SIGLEC14 sialic acid binding Ig like lectin 14 2 2
MIRT560803 PPIP5K2 diphosphoinositol pentakisphosphate kinase 2 2 2
MIRT560882 SULT1B1 sulfotransferase family 1B member 1 2 2
MIRT560996 C8orf37 chromosome 8 open reading frame 37 2 2
MIRT561089 DNAJC10 DnaJ heat shock protein family (Hsp40) member C10 2 2
MIRT561192 LDHD lactate dehydrogenase D 2 2
MIRT561834 NREP neuronal regeneration related protein 2 2
MIRT561997 LPP LIM domain containing preferred translocation partner in lipoma 2 2
MIRT562394 EIF4E eukaryotic translation initiation factor 4E 2 2
MIRT566265 PTAR1 protein prenyltransferase alpha subunit repeat containing 1 2 2
MIRT572724 NUP188 nucleoporin 188 2 2
MIRT620359 CD55 CD55 molecule (Cromer blood group) 2 2
MIRT623578 IREB2 iron responsive element binding protein 2 2 2
MIRT627122 GRN granulin precursor 2 2
MIRT640725 PHF13 PHD finger protein 13 2 2
MIRT651578 WDR26 WD repeat domain 26 2 2
MIRT655000 PLAG1 PLAG1 zinc finger 2 2
MIRT659673 CD86 CD86 molecule 2 2
MIRT667164 NRXN1 neurexin 1 2 2
MIRT674926 C1orf116 chromosome 1 open reading frame 116 2 2
MIRT687377 NT5DC3 5'-nucleotidase domain containing 3 2 2
MIRT690438 REPIN1 replication initiator 1 2 2
MIRT695288 TK1 thymidine kinase 1 2 2
MIRT699809 SDHD succinate dehydrogenase complex subunit D 2 2
MIRT710100 HEY2 hes related family bHLH transcription factor with YRPW motif 2 2 2
MIRT717882 GBP4 guanylate binding protein 4 2 2
MIRT719957 SAMD15 sterile alpha motif domain containing 15 2 2
MIRT725588 CDH7 cadherin 7 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-4752 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-4752 Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)

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