miRTarBase - #MIRT451211


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pre-miRNA Information
pre-miRNA hsa-mir-3679   
Genomic Coordinates chr2: 134127125 - 134127192
Description Homo sapiens miR-3679 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3679-5p
Sequence 6| UGAGGAUAUGGCAGGGAAGGGGA |28
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 17 2 + 134127146 26487287 MiREDiBase
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN28578769 23 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1490236859 15 dbSNP
rs982355045 16 dbSNP
rs1053094244 17 dbSNP
rs893220051 23 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PIN1   
Synonyms DOD, UBL5
Description peptidylprolyl cis/trans isomerase, NIMA-interacting 1
Transcript NM_006221   
Expression
Putative miRNA Targets on PIN1
3'UTR of PIN1
(miRNA target sites are highlighted)		 
>PIN1|NM_006221|3'UTR
   1 GGGTGGGGAGCCCAGGCCTGGCCTCGGGGCAGGGCAGGGCGGCTAGGCCGGCCAGCTCCCCCTTGCCCGCCAGCCAGTGG
  81 CCGAACCCCCCACTCCCTGCCACCGTCACACAGTATTTATTGTTCCCACAATGGCTGGGAGGGGGCCCTTCCAGATTGGG
 161 GGCCCTGGGGTCCCCACTCCCTGTCCATCCCCAGTTGGGGCTGCGACCGCCAGATTCTCCCTTAAGGAATTGACTTCAGC
 241 AGGGGTGGGAGGCTCCCAGACCCAGGGCAGTGTGGTGGGAGGGGTGTTCCAAAGAGAAGGCCTGGTCAGCAGAGCCGCCC
 321 CGTGTCCCCCCAGGTGCTGGAGGCAGACTCGAGGGCCGAATTGTTTCTAGTTAGGCCACGCTCCTCTGTTCAGTCGCAAA
 401 GGTGAACACTCATGCGGCCCAGCCATGGGCCCTCTGAGCAACTGTGCAGCACCCTTTCACCCCCAATTAAACCCAGAACC
 481 ACTGCTCTGCAAAAAAAAAAAAAAAAAA
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' agggGAAG--GGACGGUAUAGGAGu 5'
              || |  || |||| ||:||| 
Target 5' ggggCTGCGACC-GCCAGATTCTCc 3'
 197 - 220 116.00 -16.50
2 
miRNA  3' agGGGA----AGG---GACGGUAUAGG-AGu 5'
            ||||    |||   || || |:||| || 
Target 5' ggCCCTGGGGTCCCCACT-CCCTGTCCATCc 3'
 161 - 190 110.00 -26.20
3 
miRNA  3' aggggaaGGGACGGUAUAGGAGu 5'
                 ||| | | |: |||| 
Target 5' tggggagCCCAGGCCTGGCCTCg 3'
 4 - 26 108.00 -17.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30149595 9 COSMIC
COSN17463032 37 COSMIC
COSN31592834 41 COSMIC
COSN30510358 43 COSMIC
COSN30510353 44 COSMIC
COSN31546083 57 COSMIC
COSN17462037 58 COSMIC
COSN28849911 146 COSMIC
COSN19668608 147 COSMIC
COSN24395119 194 COSMIC
COSN30561796 206 COSMIC
COSN31494569 206 COSMIC
COSN13846729 220 COSMIC
COSN30480469 278 COSMIC
COSN24804631 289 COSMIC
COSN30464648 305 COSMIC
COSN30145826 308 COSMIC
COSN26989103 317 COSMIC
COSN26989106 318 COSMIC
COSN26989107 322 COSMIC
COSN30541512 327 COSMIC
COSN30101087 330 COSMIC
COSN15619140 332 COSMIC
COSN30611916 341 COSMIC
COSN30541517 392 COSMIC
COSN30500687 394 COSMIC
COSN30663412 417 COSMIC
COSN26989104 418 COSMIC
COSN31492793 460 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs766822401 3 dbSNP
rs774818838 4 dbSNP
rs1303592896 6 dbSNP
rs1385276404 8 dbSNP
rs1156641422 9 dbSNP
rs1454314296 11 dbSNP
rs1039131575 15 dbSNP
rs1438646354 25 dbSNP
rs757626665 25 dbSNP
rs759256615 26 dbSNP
rs373192122 27 dbSNP
rs781615417 27 dbSNP
rs1224314602 28 dbSNP
rs767021779 30 dbSNP
rs752256906 35 dbSNP
rs1254678131 36 dbSNP
rs1214478049 37 dbSNP
rs371600243 41 dbSNP
rs764075453 42 dbSNP
rs936144902 43 dbSNP
rs753753440 50 dbSNP
rs757081469 51 dbSNP
rs1242973168 56 dbSNP
rs889472890 58 dbSNP
rs1470780214 59 dbSNP
rs944433631 61 dbSNP
rs1406453042 62 dbSNP
rs778709813 63 dbSNP
rs531226317 69 dbSNP
rs34412035 70 dbSNP
rs1049424984 71 dbSNP
rs1334419226 78 dbSNP
rs1405037501 82 dbSNP
rs549785418 83 dbSNP
rs571445899 84 dbSNP
rs1047644228 87 dbSNP
rs773900738 88 dbSNP
rs1164706136 89 dbSNP
rs749845787 90 dbSNP
rs771519886 92 dbSNP
rs1325218525 94 dbSNP
rs1201429370 96 dbSNP
rs774871613 97 dbSNP
rs753585881 102 dbSNP
rs746328327 103 dbSNP
rs759755250 105 dbSNP
rs767268378 106 dbSNP
rs774993731 107 dbSNP
rs1211905582 110 dbSNP
rs760280318 111 dbSNP
rs763563070 113 dbSNP
rs753303893 116 dbSNP
rs1272578875 118 dbSNP
rs1175917844 120 dbSNP
rs894590850 130 dbSNP
rs757207853 140 dbSNP
rs765098800 141 dbSNP
rs1330724793 142 dbSNP
rs1446724851 143 dbSNP
rs750234439 145 dbSNP
rs758120498 147 dbSNP
rs768074795 151 dbSNP
rs1346801606 153 dbSNP
rs1276296167 155 dbSNP
rs781528786 157 dbSNP
rs1331512671 160 dbSNP
rs11540414 163 dbSNP
rs756366987 165 dbSNP
rs778024674 166 dbSNP
rs1271392007 168 dbSNP
rs1012992485 171 dbSNP
rs1223933436 177 dbSNP
rs1271713150 178 dbSNP
rs1466784743 180 dbSNP
rs1379799230 186 dbSNP
rs749324777 189 dbSNP
rs1198800745 194 dbSNP
rs532486600 195 dbSNP
rs753797738 196 dbSNP
rs746301950 198 dbSNP
rs1417179703 200 dbSNP
rs182032317 205 dbSNP
rs775248690 206 dbSNP
rs760349244 208 dbSNP
rs768247214 209 dbSNP
rs1322377292 210 dbSNP
rs1326636888 212 dbSNP
rs1320180685 213 dbSNP
rs1432517149 218 dbSNP
rs776129590 219 dbSNP
rs1033703799 220 dbSNP
rs1339090368 221 dbSNP
rs968745113 224 dbSNP
rs979130522 231 dbSNP
rs755119133 235 dbSNP
rs761244297 237 dbSNP
rs138973404 240 dbSNP
rs750312383 246 dbSNP
rs1434035336 247 dbSNP
rs1262577605 249 dbSNP
rs762849503 250 dbSNP
rs1191253629 258 dbSNP
rs766120927 262 dbSNP
rs751324758 266 dbSNP
rs779230821 271 dbSNP
rs778075661 272 dbSNP
rs1422728291 276 dbSNP
rs1397559612 277 dbSNP
rs754038335 279 dbSNP
rs757401994 280 dbSNP
rs779524466 283 dbSNP
rs746329101 284 dbSNP
rs780304222 285 dbSNP
rs536714595 287 dbSNP
rs1317680165 289 dbSNP
rs918942197 290 dbSNP
rs1381198362 295 dbSNP
rs372582123 301 dbSNP
rs761368897 303 dbSNP
rs769162158 305 dbSNP
rs554779527 308 dbSNP
rs1283745586 317 dbSNP
rs1461986007 318 dbSNP
rs762825388 319 dbSNP
rs1183953067 320 dbSNP
rs748347273 322 dbSNP
rs751405625 323 dbSNP
rs1210700660 326 dbSNP
rs1280723212 326 dbSNP
rs759401271 327 dbSNP
rs764470890 328 dbSNP
rs754091603 329 dbSNP
rs559703384 330 dbSNP
rs537029594 331 dbSNP
rs1470041727 332 dbSNP
rs758842131 333 dbSNP
rs920301824 335 dbSNP
rs778527530 350 dbSNP
rs780539909 351 dbSNP
rs781117286 352 dbSNP
rs1237739184 356 dbSNP
rs377091474 358 dbSNP
rs370315019 359 dbSNP
rs558957674 360 dbSNP
rs1205851718 365 dbSNP
rs748768881 367 dbSNP
rs1459772402 368 dbSNP
rs113254905 371 dbSNP
rs774417858 376 dbSNP
rs1441736734 377 dbSNP
rs1439554030 379 dbSNP
rs759454535 380 dbSNP
rs1239098283 381 dbSNP
rs368042262 381 dbSNP
rs1207994496 382 dbSNP
rs939231850 389 dbSNP
rs1480497152 390 dbSNP
rs1178087514 392 dbSNP
rs775383362 393 dbSNP
rs761961065 396 dbSNP
rs1299167866 397 dbSNP
rs765440978 398 dbSNP
rs750473383 405 dbSNP
rs758497573 408 dbSNP
rs766849847 410 dbSNP
rs1225451060 413 dbSNP
rs1464344959 414 dbSNP
rs1281542749 416 dbSNP
rs1350973123 416 dbSNP
rs541335704 417 dbSNP
rs1232246173 418 dbSNP
rs903258217 418 dbSNP
rs1251727374 419 dbSNP
rs1481557942 420 dbSNP
rs1202889850 424 dbSNP
rs755373011 427 dbSNP
rs781561941 430 dbSNP
rs1013456938 431 dbSNP
rs1413425594 432 dbSNP
rs553105039 437 dbSNP
rs1375406464 447 dbSNP
rs755729391 449 dbSNP
rs777477585 451 dbSNP
rs1171537163 452 dbSNP
rs748806899 459 dbSNP
rs770454642 461 dbSNP
rs774471250 463 dbSNP
rs745830137 464 dbSNP
rs1406843919 467 dbSNP
rs1185936244 468 dbSNP
rs775438484 475 dbSNP
rs1367148965 479 dbSNP
rs3178950 482 dbSNP
rs769551257 486 dbSNP
rs368303631 488 dbSNP
rs765441527 491 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' aggggaagggacgguaUAGGAGu 5'
                          |||||| 
Target 5' ---------------aAUCCUCa 3'
 		1 - 8
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 ENST00000593087.1 | 3UTR | AAUCCUCAUCUUCCUG
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
THCA 0.93 0.12 1.000 0.5 3 Click to see details
STAD -0.824 0.19 -0.500 0.33 3 Click to see details
LUSC -0.203 0.43 0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
HNSC -0.072 0.48 -0.500 0.33 3 Click to see details
55 hsa-miR-3679-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT114494 PNN pinin, desmosome associated protein 2 2
MIRT169967 DNAJB9 DnaJ heat shock protein family (Hsp40) member B9 2 6
MIRT182181 POU2F1 POU class 2 homeobox 1 2 2
MIRT189380 TXLNA taxilin alpha 2 4
MIRT364735 TOR1B torsin family 1 member B 2 2
MIRT445477 KDM6A lysine demethylase 6A 2 2
MIRT446333 ATP5C1 ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 2 2
MIRT446386 SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein 2 2
MIRT446971 SLCO4C1 solute carrier organic anion transporter family member 4C1 2 2
MIRT449793 C1orf109 chromosome 1 open reading frame 109 2 2
MIRT451211 PIN1 peptidylprolyl cis/trans isomerase, NIMA-interacting 1 2 2
MIRT452098 NUCB2 nucleobindin 2 2 2
MIRT454036 DDT D-dopachrome tautomerase 2 2
MIRT461708 ZNF426 zinc finger protein 426 2 2
MIRT464957 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT465775 TMOD3 tropomodulin 3 2 2
MIRT466925 STC2 stanniocalcin 2 2 2
MIRT471388 PDPR pyruvate dehydrogenase phosphatase regulatory subunit 2 2
MIRT473585 MAT2A methionine adenosyltransferase 2A 2 2
MIRT476070 GRIN2A glutamate ionotropic receptor NMDA type subunit 2A 2 2
MIRT477324 EPHA2 EPH receptor A2 2 2
MIRT478244 DDX3X DEAD-box helicase 3, X-linked 2 4
MIRT480449 C16orf72 chromosome 16 open reading frame 72 2 6
MIRT481866 ANKRD50 ankyrin repeat domain 50 2 2
MIRT492032 TSG101 tumor susceptibility 101 2 4
MIRT493737 GRAP2 GRB2-related adaptor protein 2 2 2
MIRT495623 PPP1R1C protein phosphatase 1 regulatory inhibitor subunit 1C 2 2
MIRT497590 SLC23A1 solute carrier family 23 member 1 2 2
MIRT504702 ZNF117 zinc finger protein 117 2 2
MIRT507794 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT510653 TMED7 transmembrane p24 trafficking protein 7 2 4
MIRT525534 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT531149 CYGB cytoglobin 2 2
MIRT536003 MED13 mediator complex subunit 13 2 2
MIRT537056 GPR180 G protein-coupled receptor 180 2 2
MIRT538297 CSNK2A1 casein kinase 2 alpha 1 2 2
MIRT544755 C8orf33 chromosome 8 open reading frame 33 2 2
MIRT544927 MIS18BP1 MIS18 binding protein 1 2 2
MIRT556973 HSPA4L heat shock protein family A (Hsp70) member 4 like 2 2
MIRT561714 PPP2R2A protein phosphatase 2 regulatory subunit Balpha 2 2
MIRT563632 ZNF460 zinc finger protein 460 2 2
MIRT564705 ZNF322P1 zinc finger protein 322 pseudogene 1 2 2
MIRT572190 CALU calumenin 2 2
MIRT573900 MKI67 marker of proliferation Ki-67 2 2
MIRT576073 Poteg POTE ankyrin domain family, member G 2 2
MIRT576150 Hmox1 heme oxygenase 1 2 2
MIRT614848 PLEKHA6 pleckstrin homology domain containing A6 2 4
MIRT647592 FAM109B family with sequence similarity 109 member B 2 2
MIRT657009 KCNMB4 potassium calcium-activated channel subfamily M regulatory beta subunit 4 2 2
MIRT691268 GET4 golgi to ER traffic protein 4 2 2
MIRT695778 DENR density regulated re-initiation and release factor 2 2
MIRT698089 TPM1 tropomyosin 1 2 2
MIRT732571 IGLL5 immunoglobulin lambda like polypeptide 5 1 0
MIRT733722 NEDD4L neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase 3 0
MIRT734354 GREM1 gremlin 1, DAN family BMP antagonist 1 0
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-3679-5p 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-3679 Doxorubicin 31703 NSC123127 approved sensitive High Hepatocellular Carcinoma cell line (HepG2)
hsa-miR-3679-5p Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-3679-5p Doxorubicin 31703 NSC123127 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-3679-5p Curcumin 969516 NSC32982 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-3679-5p Osimertinib 71496458 NSC779217 approved resistant Low Non-Small Cell Lung Cancer tissue
hsa-miR-3679-5p Etoposide 36462 NSC141540 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-3679-5p Doxorubicin 31703 NSC123127 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-3679-5p Paclitaxel 36314 NSC125973 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-3679-5p Vinorelbine 44424639 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-3679-5p Vincristine 5978 approved resistant High Colorectal Cancer cell line (HCT8)
hsa-miR-3679-5p Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-3679-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-3679-5p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-3679-5p Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-miR-3679-5p Osimertinib 71496458 NSC779217 approved resistant cell line (H1975)
hsa-miR-3679-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3679-5p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM16)
hsa-miR-3679-5p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3679-5p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (100 ng/ml)

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