miRTarBase - #MIRT446333


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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 ATP5C1   
Synonyms ATP5C, ATP5CL1
Description ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1
Transcript NM_001001973   
Other Transcripts NM_005174   
Expression
Putative miRNA Targets on ATP5C1
3'UTR of ATP5C1
(miRNA target sites are highlighted)		 
>ATP5C1|NM_001001973|3'UTR
   1 TGAAAATCAAGTTCCATCCTCAGACAAGAGGTAAAGAAGGAAAATTCAGCCAGTTGATTTTGTTTTTAGCTTACTGCTGC
  81 CTTTGTCCGAAGAAACTGTTCCTCCATTATTTGAATTACTGAAGACAGCAAGATATTTGTAAATTATCTTAAAATAAACA
 161 ACTTAAAATAAAAAAAAAAAAAAAAAA
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' aggggaagggacgguaUAGGAGu 5'
                          |||||| 
Target 5' -tgaaaatcaagttccATCCTCa 3'
 1 - 22 120.00 -11.40
2 
miRNA  3' aggggaAGGGACGGU--AUAGGAgu 5'
                | ::||: |  ||||:|  
Target 5' gcaagaTATTTGTAAATTATCTTaa 3'
 128 - 152 111.00 -5.30
3 
miRNA  3' agggGAAGG--GACGG-UAUAGGagu 5'
              ||| |  |||||  |:|||   
Target 5' ttagCTTACTGCTGCCTTTGTCCgaa 3'
 66 - 91 105.00 -14.60
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN20123315 16 COSMIC
COSN13286322 29 COSMIC
COSN163552 112 COSMIC
COSN29538888 553 COSMIC
COSN24851862 569 COSMIC
COSN18734623 638 COSMIC
COSN13286327 652 COSMIC
COSN30191816 718 COSMIC
COSN8863021 746 COSMIC
COSN26967276 757 COSMIC
COSN31553555 769 COSMIC
COSN30180049 773 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1177369341 9 dbSNP
rs752380920 16 dbSNP
rs1333295524 22 dbSNP
rs1410145466 23 dbSNP
rs758417200 26 dbSNP
rs896331197 34 dbSNP
rs1306443292 37 dbSNP
rs777761249 45 dbSNP
rs370656869 51 dbSNP
rs764405241 52 dbSNP
rs756877860 53 dbSNP
rs1021121139 71 dbSNP
rs370519736 74 dbSNP
rs1460449118 86 dbSNP
rs1243258588 89 dbSNP
rs1205102835 100 dbSNP
rs548085160 103 dbSNP
rs981852462 109 dbSNP
rs2853759 112 dbSNP
rs937656617 125 dbSNP
rs1318630871 127 dbSNP
rs1314124700 136 dbSNP
rs1355579677 138 dbSNP
rs1227702120 143 dbSNP
rs957684441 144 dbSNP
rs1337487162 149 dbSNP
rs990903325 150 dbSNP
rs554921141 152 dbSNP
rs35665884 158 dbSNP
rs1047669097 162 dbSNP
rs886268605 169 dbSNP
rs537635437 170 dbSNP
rs761164498 178 dbSNP
rs1228616202 181 dbSNP
rs944582234 183 dbSNP
rs745703814 185 dbSNP
rs1463267745 186 dbSNP
rs1260678968 187 dbSNP
rs901262267 202 dbSNP
rs922431187 203 dbSNP
rs1213673433 213 dbSNP
rs996830945 216 dbSNP
rs764515376 221 dbSNP
rs1360133819 234 dbSNP
rs1315782162 237 dbSNP
rs1248346098 242 dbSNP
rs932483999 257 dbSNP
rs1319245445 262 dbSNP
rs1028723226 268 dbSNP
rs1049625265 270 dbSNP
rs893835827 274 dbSNP
rs558713975 278 dbSNP
rs1292203296 286 dbSNP
rs1424554142 290 dbSNP
rs1011154810 294 dbSNP
rs1366813207 307 dbSNP
rs1021256891 312 dbSNP
rs966826862 322 dbSNP
rs1281042506 324 dbSNP
rs982282672 325 dbSNP
rs188078125 326 dbSNP
rs576997000 334 dbSNP
rs1037018940 341 dbSNP
rs1198470122 344 dbSNP
rs1490491381 356 dbSNP
rs1057447 370 dbSNP
rs1202948391 373 dbSNP
rs990609670 377 dbSNP
rs920243276 379 dbSNP
rs1228407943 382 dbSNP
rs1188941041 384 dbSNP
rs762318768 393 dbSNP
rs905993468 394 dbSNP
rs1346556717 397 dbSNP
rs11255369 399 dbSNP
rs957605228 400 dbSNP
rs983331514 421 dbSNP
rs191274113 423 dbSNP
rs944508846 441 dbSNP
rs1198402104 442 dbSNP
rs548401039 447 dbSNP
rs534438623 448 dbSNP
rs966361398 454 dbSNP
rs1179869340 460 dbSNP
rs1465097271 476 dbSNP
rs932714960 477 dbSNP
rs1049870869 480 dbSNP
rs1196529084 489 dbSNP
rs1341722738 500 dbSNP
rs542117345 509 dbSNP
rs182687000 510 dbSNP
rs1297265292 515 dbSNP
rs953857161 518 dbSNP
rs1363470404 519 dbSNP
rs1324669802 520 dbSNP
rs1285609398 525 dbSNP
rs537362688 536 dbSNP
rs748225673 539 dbSNP
rs367550299 546 dbSNP
rs77414607 549 dbSNP
rs1036965598 562 dbSNP
rs918559186 565 dbSNP
rs902778155 567 dbSNP
rs769698522 573 dbSNP
rs1045771019 579 dbSNP
rs905935848 583 dbSNP
rs565075422 589 dbSNP
rs1035581815 593 dbSNP
rs1156739259 609 dbSNP
rs1469562047 612 dbSNP
rs1364372838 614 dbSNP
rs1183923631 616 dbSNP
rs1439570531 617 dbSNP
rs1001655509 619 dbSNP
rs959597207 622 dbSNP
rs1012404182 626 dbSNP
rs751141179 627 dbSNP
rs751743353 632 dbSNP
rs371656914 633 dbSNP
rs745600834 641 dbSNP
rs377177197 647 dbSNP
rs773358121 650 dbSNP
rs1302199786 658 dbSNP
rs774791070 660 dbSNP
rs1236585348 662 dbSNP
rs1439096643 667 dbSNP
rs757368412 667 dbSNP
rs748393648 669 dbSNP
rs763317117 670 dbSNP
rs767432800 685 dbSNP
rs368643040 686 dbSNP
rs1477021794 687 dbSNP
rs1171759586 689 dbSNP
rs750974975 689 dbSNP
rs772596842 699 dbSNP
rs773658919 700 dbSNP
rs1328789840 707 dbSNP
rs766482605 709 dbSNP
rs907769106 722 dbSNP
rs1452883889 723 dbSNP
rs1010414229 725 dbSNP
rs776565215 726 dbSNP
rs759822260 729 dbSNP
rs372668000 736 dbSNP
rs566072579 737 dbSNP
rs1173319465 738 dbSNP
rs4655 746 dbSNP
rs1183107218 750 dbSNP
rs1029362218 754 dbSNP
rs1457408723 755 dbSNP
rs371291701 759 dbSNP
rs985248297 768 dbSNP
rs931873311 770 dbSNP
rs1207356635 773 dbSNP
rs1357984146 774 dbSNP
rs1050233482 775 dbSNP
rs1313735583 780 dbSNP
rs1246155268 784 dbSNP
rs1384383629 789 dbSNP
rs1267979840 797 dbSNP
rs1429630349 804 dbSNP
rs575094807 811 dbSNP
rs909680912 812 dbSNP
rs946669066 814 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions BC-1
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 GSM796037. RNA binding protein: AGO2. Condition:4-Thiouridine PAR-CLIP data was present in GSM796038. RNA binding protein: AGO2. Condition:4-Thiouridine ...

- Gottwein E; Corcoran DL; Mukherjee N; et al., 2011, Cell host & microbe.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' aggggaagggacgguaUAGGAGu 5'
                          |||||| 
Target 5' -------ucaaguuccAUCCUCa 3'
 		1 - 16
Article - Gottwein E; Corcoran DL; Mukherjee N; et al.
- Cell host & microbe, 2011
Primary effusion lymphoma (PEL) is caused by Kaposi's sarcoma-associated herpesvirus (KSHV) and frequently also harbors Epstein-Barr virus (EBV). The expression of KSHV- and EBV-encoded microRNAs (miRNAs) in PELs suggests a role for these miRNAs in latency and lymphomagenesis. Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites. In addition to a known viral analog of cellular miR-155, we show that KSHV encodes a viral miRNA that mimics cellular miR-142-3p function. In summary, this study identifies an extensive list of KSHV miRNA targets, which are likely to influence viral replication and pathogenesis.
LinkOut: [PMID: 22100165]
CLIP-seq Support 1 for dataset GSM796037
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-1 / 4-Thiouridine
Location of target site ENST00000356708.7 | 3UTR | UCAAGUUCCAUCCUCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22100165 / GSE32109
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM796038
Method / RBP PAR-CLIP / AGO2
Cell line / Condition BC-1 / 4-Thiouridine
Location of target site ENST00000356708.7 | 3UTR | UCAAGUUCCAUCCUCAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 22100165 / GSE32109
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
STAD 0.922 0.13 1.000 0.5 3 Click to see details
HNSC -0.871 0.16 -1.000 0.5 3 Click to see details
LUSC -0.767 0.22 -1.000 0.5 3 Click to see details
THCA 0.47 0.34 0.500 0.33 3 Click to see details
THCA 0.47 0.34 0.500 0.33 3 Click to see details
THCA 0.47 0.34 0.500 0.33 3 Click to see details
THCA 0.47 0.34 0.500 0.33 3 Click to see details
THCA 0.47 0.34 0.500 0.33 3 Click to see details
THCA 0.47 0.34 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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