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 NPR1   
Synonyms ANPRA, ANPa, GUC2A, GUCY2A, NPRA
Description natriuretic peptide receptor 1
Transcript NM_000906   
Expression
Putative miRNA Targets on NPR1
3'UTR of NPR1
(miRNA target sites are highlighted)
>NPR1|NM_000906|3'UTR
   1 CCTGCCTCCTCTCCTATCCCTCCACACCTCCCTACCCTGTGCCAGAAGCAACAGAGGTGCCAGGCCTCAGCCTCACCCAC
  81 AGCAGCCCCATCGCCAAAGGATGGAAGTAATTTGAATAGCTCAGGTGTGCTGACCCCAGTGAAGACACCAGATAGGACCT
 161 CTGAGAGGGGACTGGCATGGGGGGATCTCAGAGCTTACAGGCTGAGCCAAGCCCACGGCCATGCACAGGGACACTCACAC
 241 AGGCACACGCACCTGCTCTCCACCTGGACTCAGGCCGGGCTGGGCTGTGGATTCCTGATCCCCTCCCCTCCCCATGCTCT
 321 CCTCCCTCAGCCTTGCTACCCTGTGACTTACTGGGAGGAGAAAGAGTCACCTGAAGGGGAACATGAAAAGAGACTAGGTG
 401 AAGAGAGGGCAGGGGAGCCCACATCTGGGGCTGGCCCACAATACCTGCTCCCCCGACCCCCTCCACCCAGCAGTAGACAC
 481 AGTGCACAGGGGAGAAGAGGGGTGGCGCAGAAGGGTTGGGGGCCTGTATGCCTTGCTTCTACCATGAGCAGAGACAATTA
 561 AAATCTTTATTCCAGTGAAAAAAAAAAAAAAAAA
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' uuCCU---CGUUCCGCCGUAGAGa 5'
            |||   ||| || || ||||| 
Target 5' ggGGACTGGCATGGGGGGATCTCa 3'
167 - 190 135.00 -19.10
2
miRNA  3' uucCUCGUUCC----GCCGUAGAga 5'
             |:|||:||    |  |||||  
Target 5' agaGGGCAGGGGAGCCCACATCTgg 3'
404 - 428 108.00 -14.30
3
miRNA  3' uuccucGU-UCCG---CCGUAGAga 5'
                || ||||    ||| ||  
Target 5' cactcaCACAGGCACACGCACCTgc 3'
232 - 256 95.00 -7.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN509727 12 COSMIC
COSN20095394 33 COSMIC
COSN30489575 38 COSMIC
COSN30499692 52 COSMIC
COSN31495642 52 COSMIC
COSN32053225 69 COSMIC
COSN30191864 75 COSMIC
COSN30479760 89 COSMIC
COSN30152790 123 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1037459614 1 dbSNP
rs746552276 2 dbSNP
rs768237899 5 dbSNP
rs1271676661 9 dbSNP
rs781636018 12 dbSNP
rs748660790 13 dbSNP
rs1352904678 15 dbSNP
rs1289312315 16 dbSNP
rs780260155 17 dbSNP
rs770087724 20 dbSNP
rs773624555 22 dbSNP
rs1293107972 26 dbSNP
rs534804540 27 dbSNP
rs763231881 28 dbSNP
rs777597067 29 dbSNP
rs200713339 30 dbSNP
rs397745541 30 dbSNP
rs5777879 30 dbSNP
rs768750313 31 dbSNP
rs145905789 49 dbSNP
rs1442497037 53 dbSNP
rs137857759 59 dbSNP
rs528319036 61 dbSNP
rs1184058569 75 dbSNP
rs1457262959 78 dbSNP
rs1249176042 79 dbSNP
rs945168940 87 dbSNP
rs903227865 89 dbSNP
rs1359311678 92 dbSNP
rs982032355 93 dbSNP
rs867091853 94 dbSNP
rs1033564598 100 dbSNP
rs1296727871 101 dbSNP
rs749305753 108 dbSNP
rs959017285 113 dbSNP
rs1300011708 121 dbSNP
rs937698896 133 dbSNP
rs1360351095 147 dbSNP
rs558672251 155 dbSNP
rs1280592147 158 dbSNP
rs1161845030 160 dbSNP
rs1023340641 164 dbSNP
rs920365319 169 dbSNP
rs1163971503 170 dbSNP
rs1439048693 179 dbSNP
rs1248273906 181 dbSNP
rs1178450039 186 dbSNP
rs970360894 192 dbSNP
rs1302147815 193 dbSNP
rs930421370 197 dbSNP
rs1047909747 200 dbSNP
rs1293020168 213 dbSNP
rs907634744 218 dbSNP
rs1487815461 220 dbSNP
rs940421432 223 dbSNP
rs1217097767 228 dbSNP
rs777562857 232 dbSNP
rs557668401 241 dbSNP
rs1041317200 243 dbSNP
rs1301371184 244 dbSNP
rs1407059742 247 dbSNP
rs901432837 249 dbSNP
rs575861312 250 dbSNP
rs920404600 251 dbSNP
rs746857659 266 dbSNP
rs1362004141 272 dbSNP
rs1235199662 276 dbSNP
rs931956817 277 dbSNP
rs1050762487 278 dbSNP
rs770609458 280 dbSNP
rs1425336372 289 dbSNP
rs1434524623 293 dbSNP
rs1490750136 301 dbSNP
rs1156505277 316 dbSNP
rs1216374352 319 dbSNP
rs780664840 341 dbSNP
rs1263023903 348 dbSNP
rs1359537031 352 dbSNP
rs890343238 356 dbSNP
rs143093761 359 dbSNP
rs61758575 359 dbSNP
rs1312114001 360 dbSNP
rs1281513451 361 dbSNP
rs1225381027 363 dbSNP
rs1300434954 373 dbSNP
rs1346405881 379 dbSNP
rs140810637 380 dbSNP
rs1381441695 382 dbSNP
rs1382595538 384 dbSNP
rs1290397853 412 dbSNP
rs561666848 416 dbSNP
rs769347779 419 dbSNP
rs528955570 423 dbSNP
rs1173674255 431 dbSNP
rs61758576 442 dbSNP
rs1429572433 443 dbSNP
rs1436468740 445 dbSNP
rs1000265339 446 dbSNP
rs958251015 446 dbSNP
rs1264373018 448 dbSNP
rs1054655350 451 dbSNP
rs541167677 455 dbSNP
rs1261757583 456 dbSNP
rs1205659749 458 dbSNP
rs1369867480 465 dbSNP
rs559279053 472 dbSNP
rs563408760 474 dbSNP
rs1257497369 475 dbSNP
rs894635227 480 dbSNP
rs1225591832 484 dbSNP
rs1021015040 492 dbSNP
rs1328403535 495 dbSNP
rs563562189 498 dbSNP
rs775816170 501 dbSNP
rs1382535508 502 dbSNP
rs1381973884 503 dbSNP
rs1238095708 506 dbSNP
rs189006791 507 dbSNP
rs1024987285 508 dbSNP
rs1166796804 510 dbSNP
rs966567031 516 dbSNP
rs1354709562 521 dbSNP
rs981939007 525 dbSNP
rs927889040 529 dbSNP
rs1003182129 534 dbSNP
rs1240520559 536 dbSNP
rs1241837520 537 dbSNP
rs776519004 537 dbSNP
rs1462145499 540 dbSNP
rs532522371 545 dbSNP
rs961792334 545 dbSNP
rs1341772498 546 dbSNP
rs551302777 552 dbSNP
rs1227905448 568 dbSNP
rs569905058 570 dbSNP
rs1312642099 575 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 GSM1084044. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep3 ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' uuccucgUUC-CG-CCGUAGAGa 5'
                 ||| || || ||: | 
Target 5' ccucccaAAGUGCUGGGAUUACa 3'
8 - 30
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 GSM1084044
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noarsenite_rep3
Location of target site ENST00000368680.3 | 3UTR | AUCUCAGCCUCCCAAAGUGCUGGGAUUACAGGC
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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