pre-miRNA Information
pre-miRNA hsa-mir-4708   
Genomic Coordinates chr14: 65335117 - 65335183
Description Homo sapiens miR-4708 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4708-5p
Sequence 9| AGAGAUGCCGCCUUGCUCCUU |29
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1017378847 9 dbSNP
rs750825813 10 dbSNP
rs1297395738 19 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol TIMM8A   
Synonyms DDP, DDP1, DFN1, MTS, TIM8
Description translocase of inner mitochondrial membrane 8A
Transcript NM_004085   
Other Transcripts NM_001145951   
Expression
Putative miRNA Targets on TIMM8A
3'UTR of TIMM8A
(miRNA target sites are highlighted)
>TIMM8A|NM_004085|3'UTR
   1 TCTCAGCATTACCTCTTTGGAAAAGGAAGGTAGTTCAAGAAATGAAGAGCTGTTGATGGGATGATTGAAGAAACAGCTAT
  81 GAGAGGATTGGCTCCCATCTTTTGTTACTCTTGGGACATCCTGTCATCTGAGAATGAACAAAGACCAATTTTTTGTGTGT
 161 GAAGCTTAAGGGTCATATGTTTGCTTGTATTTTTTAATGCTAATCTTGTGAAAATAATTGACAGGCGAAAGAAAACTCTA
 241 TTTAGATGCATATTACTGTACATGGGACTATGCTTTTCTCAAAGCCCCATTAACTGCTTCCTATAATTTTGATAGTGGGA
 321 CCACATACGTAAAAATCTCTCATTTGTGTGGAGTCATTTCTGATTTCAGGGGAGATCCTTGTGTTTATCAGAAAGGGCAG
 401 AAGTAGGGGAAGAATAATTTGGTATCCTTATCTAGTGTTTGATTGTCAATGCTGGAGAAAAATATCTGTAAGAGTGTTTA
 481 TACAGTACACTTCAGTTATCTTGATCTCCCTTTCCTATATGATGATTTGCTTAAATATCCATATTAAGTAAGTCTCAAGG
 561 TAGGGTAGGCAGCCTGAGAGTCTAGAGGCCTTTAGTTATAAAGGAATCTAGCCAGTGAACATAATTCTTATTACTAGACT
 641 GCCACAAGGAAGAAATTAACTTACCCTGTATATCAGGGTACAAAAAATTCAGTGATGTGCCTAAATAAGTTATAAAGATT
 721 TAGGCCAATCAGAAGCTAACAGCAGTTTCAGGTAGAGGTGCATGCCTAATGTTAGTTAGTGTAGATTCCATTTACTGCAT
 801 TCTTCTGATCACTGAAATAAAAGCTATATAAGATTCAACTCTGAAAAAAAAAAAAAAAAA
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' uuccuCGUUCCGCCGUAGAGa 5'
               |:: || | |||:|| 
Target 5' catttGTGTGGAGTCATTTCt 3'
341 - 361 108.00 -9.10
2
miRNA  3' uuccucguuccgccGUAGAGa 5'
                        |||||: 
Target 5' agaggattggctccCATCTTt 3'
82 - 102 104.00 -13.30
3
miRNA  3' uuCCUCGUUCCGCCGUAGAga 5'
            ||: ||   :| |||||  
Target 5' ttGGGACATCCTGTCATCTga 3'
111 - 131 103.00 -8.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
21394 506 ClinVar
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs185711695 25 dbSNP
rs1402589367 26 dbSNP
rs782762708 29 dbSNP
rs782801850 30 dbSNP
rs782214090 43 dbSNP
rs1455861527 46 dbSNP
rs181919155 50 dbSNP
rs1383990084 72 dbSNP
rs1447690258 79 dbSNP
rs1283007618 95 dbSNP
rs2071224 97 dbSNP
rs782076826 121 dbSNP
rs1287134051 122 dbSNP
rs1326405745 128 dbSNP
rs1205209879 129 dbSNP
rs781800592 132 dbSNP
rs1263306666 158 dbSNP
rs1441688216 174 dbSNP
rs1207751757 189 dbSNP
rs1234568207 206 dbSNP
rs3027653 226 dbSNP
rs782638910 227 dbSNP
rs1411362514 240 dbSNP
rs1471610366 245 dbSNP
rs183928551 252 dbSNP
rs1178863987 257 dbSNP
rs1407100680 263 dbSNP
rs368774526 302 dbSNP
rs1414330287 323 dbSNP
rs1332577374 324 dbSNP
rs1356843757 325 dbSNP
rs782017070 328 dbSNP
rs1348092492 329 dbSNP
rs1224803088 343 dbSNP
rs782526107 355 dbSNP
rs1343812319 358 dbSNP
rs1217311681 368 dbSNP
rs1274881402 384 dbSNP
rs782704764 396 dbSNP
rs1249454810 398 dbSNP
rs1482150675 422 dbSNP
rs1201685177 432 dbSNP
rs1378471750 435 dbSNP
rs79564479 436 dbSNP
rs1170988349 437 dbSNP
rs1422135803 443 dbSNP
rs1430726047 447 dbSNP
rs1307975942 466 dbSNP
rs781892837 468 dbSNP
rs1406285231 469 dbSNP
rs1303203720 472 dbSNP
rs1329953369 473 dbSNP
rs782102842 477 dbSNP
rs1271505027 484 dbSNP
rs1339842505 489 dbSNP
rs879947933 493 dbSNP
rs1227373875 499 dbSNP
rs868979856 500 dbSNP
rs868969312 501 dbSNP
rs1331509900 506 dbSNP
rs4024308 506 dbSNP
rs782333734 506 dbSNP
rs868980473 507 dbSNP
rs1361470087 509 dbSNP
rs1224884886 519 dbSNP
rs3027654 521 dbSNP
rs1451070908 523 dbSNP
rs1197030405 529 dbSNP
rs1244003687 530 dbSNP
rs1450554035 535 dbSNP
rs1168319805 539 dbSNP
rs1388913096 581 dbSNP
rs1427133892 583 dbSNP
rs1164299270 590 dbSNP
rs1389392320 606 dbSNP
rs1384504054 617 dbSNP
rs1319941739 627 dbSNP
rs1326655611 630 dbSNP
rs782036530 641 dbSNP
rs1295103258 649 dbSNP
rs1246665825 665 dbSNP
rs1264722467 668 dbSNP
rs1355747684 682 dbSNP
rs1208124631 688 dbSNP
rs371672469 688 dbSNP
rs78682730 688 dbSNP
rs1188110178 703 dbSNP
rs1246605640 719 dbSNP
rs1446750692 724 dbSNP
rs1188866142 745 dbSNP
rs1368383619 752 dbSNP
rs1455988813 755 dbSNP
rs1159767129 760 dbSNP
rs1388990239 775 dbSNP
rs781979163 781 dbSNP
rs1318079187 795 dbSNP
rs1408037885 805 dbSNP
rs1396336725 813 dbSNP
rs375049891 828 dbSNP
rs1242761872 832 dbSNP
rs782301849 832 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.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' uucCUCGUUCCGCCGUAGAGa 5'
             |||::|| |  |||||| 
Target 5' agaGAGUGAGACUCCAUCUCa 3'
20 - 40
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 ENST00000372902.3 | 3UTR | AGCCGCUCCAGCCUGGGUGAGAGAGUGAGACUCCAUCUCA
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
94 hsa-miR-4708-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT095681 RBM27 RNA binding motif protein 27 2 4
MIRT104033 USP42 ubiquitin specific peptidase 42 2 6
MIRT114773 CMPK1 cytidine/uridine monophosphate kinase 1 2 2
MIRT246923 CCND1 cyclin D1 2 2
MIRT392569 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT443949 LRIT3 leucine rich repeat, Ig-like and transmembrane domains 3 2 2
MIRT446695 PAPPA pappalysin 1 2 2
MIRT447383 VOPP1 vesicular, overexpressed in cancer, prosurvival protein 1 2 2
MIRT449321 FAM120AOS family with sequence similarity 120A opposite strand 2 2
MIRT449717 C1orf61 chromosome 1 open reading frame 61 2 2
MIRT449738 TAB2 TGF-beta activated kinase 1/MAP3K7 binding protein 2 2 2
MIRT450531 PGLS 6-phosphogluconolactonase 2 2
MIRT455650 YARS tyrosyl-tRNA synthetase 2 2
MIRT458036 MRPL12 mitochondrial ribosomal protein L12 2 2
MIRT463468 ZC3HAV1L zinc finger CCCH-type containing, antiviral 1 like 2 2
MIRT466677 TAF1D TATA-box binding protein associated factor, RNA polymerase I subunit D 2 4
MIRT467789 SLC2A14 solute carrier family 2 member 14 2 2
MIRT468167 SGPL1 sphingosine-1-phosphate lyase 1 2 2
MIRT468652 SECISBP2L SECIS binding protein 2 like 2 6
MIRT469380 RER1 retention in endoplasmic reticulum sorting receptor 1 2 2
MIRT470346 PPP2R5E protein phosphatase 2 regulatory subunit B'epsilon 2 2
MIRT472418 NCKAP1 NCK associated protein 1 2 2
MIRT474612 KLF3 Kruppel like factor 3 2 2
MIRT478703 CSRNP2 cysteine and serine rich nuclear protein 2 2 2
MIRT481008 BBC3 BCL2 binding component 3 2 4
MIRT483098 TFPI tissue factor pathway inhibitor 2 2
MIRT485113 SHISA6 shisa family member 6 2 2
MIRT497533 ZNF607 zinc finger protein 607 2 2
MIRT500644 TUBB2A tubulin beta 2A class IIa 2 6
MIRT500890 STRN striatin 2 4
MIRT501900 MED13 mediator complex subunit 13 2 2
MIRT506646 MAPK1 mitogen-activated protein kinase 1 2 4
MIRT512675 ENO4 enolase family member 4 2 2
MIRT516977 OR7D2 olfactory receptor family 7 subfamily D member 2 2 2
MIRT528754 RPS27 ribosomal protein S27 2 6
MIRT539670 ZBTB44 zinc finger and BTB domain containing 44 2 2
MIRT544129 PPIL1 peptidylprolyl isomerase like 1 2 2
MIRT546382 STOX2 storkhead box 2 2 4
MIRT562143 IGFBP5 insulin like growth factor binding protein 5 2 2
MIRT568713 TMEM30B transmembrane protein 30B 2 2
MIRT571029 CENPP centromere protein P 2 2
MIRT572781 ZNF277 zinc finger protein 277 2 2
MIRT573162 SLC30A9 solute carrier family 30 member 9 2 2
MIRT609126 NUDT3 nudix hydrolase 3 2 2
MIRT609284 OAS3 2'-5'-oligoadenylate synthetase 3 2 2
MIRT613430 GALNT6 polypeptide N-acetylgalactosaminyltransferase 6 2 2
MIRT613770 TTC38 tetratricopeptide repeat domain 38 2 2
MIRT616645 LRAT lecithin retinol acyltransferase 2 4
MIRT630892 SLC25A33 solute carrier family 25 member 33 2 2
MIRT636526 FAXC failed axon connections homolog 2 4
MIRT641394 NUBPL nucleotide binding protein like 2 2
MIRT641412 SCN2B sodium voltage-gated channel beta subunit 2 2 2
MIRT642528 CERS4 ceramide synthase 4 2 2
MIRT643186 HYPK huntingtin interacting protein K 2 2
MIRT647800 FRMD8 FERM domain containing 8 2 2
MIRT652150 TRIM71 tripartite motif containing 71 2 2
MIRT652602 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT661606 C2orf15 chromosome 2 open reading frame 15 2 2
MIRT666339 SKAP2 src kinase associated phosphoprotein 2 2 2
MIRT670414 ELP2 elongator acetyltransferase complex subunit 2 2 2
MIRT671122 ZNF573 zinc finger protein 573 2 2
MIRT671155 ANKRD9 ankyrin repeat domain 9 2 2
MIRT671338 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT671869 ZNF429 zinc finger protein 429 2 2
MIRT671974 IKZF3 IKAROS family zinc finger 3 2 2
MIRT672064 KIAA0930 KIAA0930 2 2
MIRT672654 SLC25A16 solute carrier family 25 member 16 2 4
MIRT672673 GTF2H5 general transcription factor IIH subunit 5 2 2
MIRT672771 UBE2V2 ubiquitin conjugating enzyme E2 V2 2 2
MIRT672929 LRRC2 leucine rich repeat containing 2 2 2
MIRT673159 C1orf50 chromosome 1 open reading frame 50 2 2
MIRT673272 RUNDC1 RUN domain containing 1 2 2
MIRT673332 THAP1 THAP domain containing 1 2 2
MIRT673351 SLC35F6 solute carrier family 35 member F6 2 2
MIRT673667 ZNF440 zinc finger protein 440 2 2
MIRT673904 DCTN6 dynactin subunit 6 2 2
MIRT674096 PLEKHA1 pleckstrin homology domain containing A1 2 2
MIRT674401 MYCBP MYC binding protein 2 2
MIRT674525 PRR23A proline rich 23A 2 2
MIRT674793 NPR1 natriuretic peptide receptor 1 2 2
MIRT674833 ADAMTS4 ADAM metallopeptidase with thrombospondin type 1 motif 4 2 2
MIRT675066 FGD6 FYVE, RhoGEF and PH domain containing 6 2 2
MIRT675080 CCR6 C-C motif chemokine receptor 6 2 2
MIRT675126 FSD2 fibronectin type III and SPRY domain containing 2 2 2
MIRT679401 IL10RB interleukin 10 receptor subunit beta 2 2
MIRT689229 RPS19 ribosomal protein S19 2 2
MIRT694008 PPIL4 peptidylprolyl isomerase like 4 2 2
MIRT699671 SFT2D2 SFT2 domain containing 2 2 2
MIRT706213 ACOT9 acyl-CoA thioesterase 9 2 2
MIRT706548 GJD2 gap junction protein delta 2 2 2
MIRT707418 RRP7A ribosomal RNA processing 7 homolog A 2 2
MIRT710648 GLUL glutamate-ammonia ligase 2 2
MIRT719393 NPCA1 Nasopharyngeal carcinoma 1 2 2
MIRT720166 PNPO pyridoxamine 5'-phosphate oxidase 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4708-5p Fulvestrant 17756771 NSC719276 approved sensitive High Breast Cancer cell line (MCF-7)
hsa-miR-4708-5p Tamoxifen 2733525 NSC180973 approved resistant High Breast Cancer cell line (MCF-7)
hsa-miR-4708-5p Tripterygium wilfordii Hook F sensitive tissue
hsa-miR-4708-5p Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-4708-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-4708-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)

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