pre-miRNA Information
pre-miRNA hsa-mir-4316   
Genomic Coordinates chr17: 77396984 - 77397054
Description Homo sapiens miR-4316 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4316
Sequence 11| GGUGAGGCUAGCUGGUG |27
Evidence Experimental
Experiments SOLiD
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs989002279 5 dbSNP
rs957742923 17 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol ZNF277   
Synonyms NRIF4, ZNF277P
Description zinc finger protein 277
Transcript NM_021994   
Expression
Putative miRNA Targets on ZNF277
3'UTR of ZNF277
(miRNA target sites are highlighted)
>ZNF277|NM_021994|3'UTR
   1 GAGTACTTGAAAACCTAGAAGAAACTACCACAGAAGCAATTTTTCATGTTTTTCTCCTATGAGACAGATATGAAAGAACA
  81 ATTTAAATTTGAACATCAACAAAAGATTGGTCCTTGGTGAAATAAACTTTTCAAAAATGAATGTTCTTTTCAAAAAATAA
 161 AGTAGAAAAATGCACTTACTAAGAACATGAAAAAAAATGAAGTAGGAAAATAAGATGAAGACTTTGTATTTTGGCTGTAA
 241 AGTTTTATTGTGTGATCATCTTAAATTATCTCACTTCATTAAACTCATAATTATATATAGAAGTATATGTCAATTACAAA
 321 GAAATGAAATGTTCAAATTATTTATAAACCTGATTTTTCAATCAGTAGTTTCAGTCTCCTCCCCAAGGACCTTCTTCATC
 401 CAACAAGTTGCAAAATTTGAATATCCCTTCTGTACTATATTGGGTGAGCTGTAAATGTAATGACTAAAAGAAAAGCCACA
 481 GAAGAAAGAAGAAATGGTCAAAGACGTGGATAATATGCAAATTGGCCATTATATTAGAACAATCAAGAGCTGACTGTGTT
 561 ATTACCACTTTCTGCCTAGGGTGGCCAAATTCCCTAGAAATAGACATCAAGCCAGTTAACTTCACTTTTCCCTGCAATTT
 641 GTATGTCACTAACATTTAAATGCCATTTTTTAAAAACATAACCACAATACCATTATGACACCTAAAAAACATTAACATTA
 721 ACTTAATATCATCTGTTTTCAGTTTTTCCCACTTGTCTCAAAATGTATGTTTACAATATTATCAGTTTCATTACTGATGA
 801 ATATTATATGCCTCCTGATAAGATGTACTGAGGAGGACAGAATATCACTTTTGTAGATTTATACCAAAAATGCATAATTT
 881 GGATATAATGAAGAAACAGTCAAATCCAAGTTTGAGGCTGGGCACAGTAGCTCATATCTGTAATCCCAGCACTTTGGGAG
 961 GCCAAGGCAGAGGATCACATGAGGTCAGGAGTTCAAGATCAGCCTGGCCAACGTGGCAAAACCCCATCTCTACGAAAAAT
1041 ACACAGATTAGCCAGGCATGGTGGAATGCACCTATAGTCCCAGCTACTTGGGAGGCTGAAGCACAAGAATCGCTTGAATC
1121 CAGGAGGCAAAAGTTGCAGTGAGCCGAGATCACACCACTGCAGTTCAGCCTGGGCAACAGACCAAGACTCTGTCTCAAAA
1201 AAAGG
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' guGGUCGAUCGGAGUGg 5'
            ||||:|| |:|||| 
Target 5' agCCAGTTAACTTCACt 3'
610 - 626 123.00 -17.60
2
miRNA  3' guGGUCGAUCGGAGUgg 5'
            ||| || |:||||  
Target 5' tcCCA-CTTGTCTCAaa 3'
747 - 762 118.00 -11.00
3
miRNA  3' guGGUC-GA-UCGGAGUgg 5'
            | || ||  |:||||  
Target 5' acCAAGACTCTGTCTCAaa 3'
1181 - 1199 107.00 -9.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN20076221 9 COSMIC
COSN30448689 16 COSMIC
COSN29969564 22 COSMIC
COSN30179756 26 COSMIC
COSN28672238 31 COSMIC
COSN26678353 37 COSMIC
COSN30448338 58 COSMIC
COSN31572927 96 COSMIC
COSN31593609 111 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1404588876 6 dbSNP
rs1162519451 17 dbSNP
rs1222753383 18 dbSNP
rs1281315499 22 dbSNP
rs1319682179 27 dbSNP
rs192816480 29 dbSNP
rs764788865 30 dbSNP
rs1330187636 32 dbSNP
rs991231454 40 dbSNP
rs1022845777 45 dbSNP
rs1033556918 47 dbSNP
rs576349148 47 dbSNP
rs753756411 58 dbSNP
rs757208872 80 dbSNP
rs537058322 81 dbSNP
rs1434792970 82 dbSNP
rs138058026 94 dbSNP
rs1013174430 95 dbSNP
rs116672577 96 dbSNP
rs1379036278 100 dbSNP
rs987843681 101 dbSNP
rs1160906684 120 dbSNP
rs1441020054 123 dbSNP
rs911884396 125 dbSNP
rs576081517 128 dbSNP
rs1186224553 152 dbSNP
rs943495064 157 dbSNP
rs1257770269 162 dbSNP
rs1200851897 167 dbSNP
rs1296310443 174 dbSNP
rs977854476 175 dbSNP
rs1047547 184 dbSNP
rs1039075637 187 dbSNP
rs1218775695 190 dbSNP
rs925477118 190 dbSNP
rs1283713610 203 dbSNP
rs958228255 207 dbSNP
rs1274934466 208 dbSNP
rs1342510075 216 dbSNP
rs1313659313 222 dbSNP
rs541957008 223 dbSNP
rs562252874 244 dbSNP
rs922145281 251 dbSNP
rs1300424832 253 dbSNP
rs946858497 254 dbSNP
rs1042663564 256 dbSNP
rs902725994 262 dbSNP
rs1162149178 264 dbSNP
rs1471498480 269 dbSNP
rs1248375964 272 dbSNP
rs1369839498 280 dbSNP
rs998542707 285 dbSNP
rs1188147269 287 dbSNP
rs933322741 287 dbSNP
rs1047550 288 dbSNP
rs907853647 289 dbSNP
rs1388328196 298 dbSNP
rs1447563189 299 dbSNP
rs895482356 303 dbSNP
rs1012697126 305 dbSNP
rs1208166877 317 dbSNP
rs1037785312 326 dbSNP
rs1266278056 337 dbSNP
rs1218317569 338 dbSNP
rs1022691673 343 dbSNP
rs1451446489 344 dbSNP
rs898364454 345 dbSNP
rs931113320 351 dbSNP
rs1331061135 359 dbSNP
rs1322071079 362 dbSNP
rs963223912 365 dbSNP
rs1384905700 370 dbSNP
rs1392326383 391 dbSNP
rs758214147 405 dbSNP
rs1420992954 422 dbSNP
rs1172584526 426 dbSNP
rs560022312 431 dbSNP
rs1475596440 433 dbSNP
rs1196589429 436 dbSNP
rs895041697 436 dbSNP
rs973603894 437 dbSNP
rs1453243557 438 dbSNP
rs1013435552 441 dbSNP
rs1403926754 458 dbSNP
rs1316352770 462 dbSNP
rs1260170575 480 dbSNP
rs1215559963 482 dbSNP
rs1026238921 491 dbSNP
rs1047551 495 dbSNP
rs987402504 506 dbSNP
rs911915575 507 dbSNP
rs943361087 510 dbSNP
rs1445326622 511 dbSNP
rs1032050795 516 dbSNP
rs1319137749 519 dbSNP
rs1332907182 523 dbSNP
rs974812965 538 dbSNP
rs1362334994 541 dbSNP
rs958456782 542 dbSNP
rs1424260843 543 dbSNP
rs368964744 547 dbSNP
rs1355286575 550 dbSNP
rs1479004256 562 dbSNP
rs1226383928 565 dbSNP
rs1178110814 568 dbSNP
rs1029268408 572 dbSNP
rs1240290224 583 dbSNP
rs946907957 588 dbSNP
rs1205553289 589 dbSNP
rs1442029586 597 dbSNP
rs1042918897 604 dbSNP
rs1221283829 611 dbSNP
rs924127721 612 dbSNP
rs1349252652 628 dbSNP
rs747194676 636 dbSNP
rs564036260 638 dbSNP
rs1373948855 664 dbSNP
rs1246144653 672 dbSNP
rs895495280 673 dbSNP
rs1332764020 677 dbSNP
rs1442535375 679 dbSNP
rs1358210686 689 dbSNP
rs1332009200 692 dbSNP
rs1415896983 697 dbSNP
rs1376031458 708 dbSNP
rs940701743 708 dbSNP
rs1437728219 712 dbSNP
rs973900776 725 dbSNP
rs1177850744 729 dbSNP
rs1472626507 732 dbSNP
rs920659381 732 dbSNP
rs1212689517 759 dbSNP
rs931164166 760 dbSNP
rs1466293211 770 dbSNP
rs776752241 775 dbSNP
rs531290914 779 dbSNP
rs748659486 782 dbSNP
rs1189344954 785 dbSNP
rs1308600223 786 dbSNP
rs1044169659 790 dbSNP
rs894968204 792 dbSNP
rs772617299 795 dbSNP
rs549559581 799 dbSNP
rs1416419880 803 dbSNP
rs994587575 804 dbSNP
rs1026605823 807 dbSNP
rs1417860563 809 dbSNP
rs1362366793 816 dbSNP
rs1159944005 819 dbSNP
rs770328156 820 dbSNP
rs999167235 822 dbSNP
rs1183768201 824 dbSNP
rs1475645180 825 dbSNP
rs1262967358 830 dbSNP
rs185200941 831 dbSNP
rs1489588236 837 dbSNP
rs1032520786 843 dbSNP
rs1457064083 853 dbSNP
rs1009257164 860 dbSNP
rs1215883707 862 dbSNP
rs1320544003 865 dbSNP
rs773523458 868 dbSNP
rs995908616 875 dbSNP
rs1355695029 878 dbSNP
rs529187438 892 dbSNP
rs1277393779 899 dbSNP
rs763320253 900 dbSNP
rs1029196441 901 dbSNP
rs1289334943 904 dbSNP
rs1458355076 907 dbSNP
rs954852010 909 dbSNP
rs1166962580 914 dbSNP
rs547169758 925 dbSNP
rs1320707242 926 dbSNP
rs115344679 933 dbSNP
rs1423163709 940 dbSNP
rs1015140295 941 dbSNP
rs1478966871 948 dbSNP
rs376388455 962 dbSNP
rs190197861 964 dbSNP
rs1285623136 976 dbSNP
rs1379565258 982 dbSNP
rs760285975 985 dbSNP
rs1487775808 1002 dbSNP
rs1227614182 1007 dbSNP
rs564740107 1013 dbSNP
rs973402489 1014 dbSNP
rs920571629 1016 dbSNP
rs1256957427 1027 dbSNP
rs1216607400 1030 dbSNP
rs968573815 1034 dbSNP
rs1296000935 1035 dbSNP
rs1218617116 1038 dbSNP
rs1365399251 1048 dbSNP
rs1328069663 1061 dbSNP
rs570052876 1064 dbSNP
rs962047106 1068 dbSNP
rs537449163 1070 dbSNP
rs1329509859 1071 dbSNP
rs1209426195 1072 dbSNP
rs1374038326 1076 dbSNP
rs939524173 1078 dbSNP
rs1427801986 1079 dbSNP
rs916452682 1088 dbSNP
rs1468507237 1096 dbSNP
rs949182329 1108 dbSNP
rs1196425001 1110 dbSNP
rs1481392924 1112 dbSNP
rs544328604 1113 dbSNP
rs1232241021 1121 dbSNP
rs1440777153 1124 dbSNP
rs916793031 1137 dbSNP
rs1305445884 1140 dbSNP
rs34118662 1144 dbSNP
rs1189833000 1146 dbSNP
rs1238315464 1147 dbSNP
rs948373020 1159 dbSNP
rs574259588 1164 dbSNP
rs1393428637 1165 dbSNP
rs533681296 1170 dbSNP
rs1397469991 1188 dbSNP
rs935009744 1193 dbSNP
rs1464800519 1197 dbSNP
rs1180554318 1204 dbSNP
rs1313450426 1205 dbSNP
rs1174760541 1206 dbSNP
rs1182177754 1206 dbSNP
rs1250718735 1206 dbSNP
rs1439599636 1206 dbSNP
rs535344897 1206 dbSNP
rs58956925 1206 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 GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' guggucgaucGGAGUGg 5'
                    |||||| 
Target 5' aaggcuguguCCUCACa 3'
2 - 18
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 GSM1084064
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_noemetine_AbnovaAb
Location of target site ENST00000361822.3 | 3UTR | AAAGGCUGUGUCCUCACAGGACAAAAGGAUGGAAGGAC
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
74 hsa-miR-4316 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT080624 PMAIP1 phorbol-12-myristate-13-acetate-induced protein 1 2 2
MIRT095088 SEC24A SEC24 homolog A, COPII coat complex component 2 4
MIRT123331 CALU calumenin 2 2
MIRT154964 RRM2 ribonucleotide reductase regulatory subunit M2 2 2
MIRT370850 TGFBR2 transforming growth factor beta receptor 2 2 2
MIRT442955 SGCD sarcoglycan delta 2 2
MIRT448240 ZNF774 zinc finger protein 774 2 2
MIRT451710 OLR1 oxidized low density lipoprotein receptor 1 2 2
MIRT452072 ATP6V0B ATPase H+ transporting V0 subunit b 2 2
MIRT455665 GLO1 glyoxalase I 2 2
MIRT460354 TXNDC16 thioredoxin domain containing 16 2 2
MIRT461908 NECAB3 N-terminal EF-hand calcium binding protein 3 2 2
MIRT462047 HOXC13 homeobox C13 2 2
MIRT462735 EFNB1 ephrin B1 2 2
MIRT463409 ZC3HAV1L zinc finger CCCH-type containing, antiviral 1 like 2 2
MIRT464952 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT465052 TSR1 TSR1, ribosome maturation factor 2 2
MIRT467549 SMARCD1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 2 4
MIRT470226 PRRC2A proline rich coiled-coil 2A 2 2
MIRT474081 LMBR1L limb development membrane protein 1 like 2 2
MIRT474481 KLHDC8B kelch domain containing 8B 2 2
MIRT474704 KIF3A kinesin family member 3A 2 2
MIRT474897 KCTD21 potassium channel tetramerization domain containing 21 2 2
MIRT475203 IL2RB interleukin 2 receptor subunit beta 2 2
MIRT477664 EFHD2 EF-hand domain family member D2 2 2
MIRT477775 E2F3 E2F transcription factor 3 2 2
MIRT477940 DPM2 dolichyl-phosphate mannosyltransferase subunit 2, regulatory 2 2
MIRT478224 DDX52 DExD-box helicase 52 2 2
MIRT479904 CCDC117 coiled-coil domain containing 117 2 2
MIRT480639 BSCL2 BSCL2, seipin lipid droplet biogenesis associated 2 2
MIRT482435 ADM adrenomedullin 2 10
MIRT483908 GNB1L G protein subunit beta 1 like 2 2
MIRT484161 FAM71B family with sequence similarity 71 member B 2 2
MIRT484405 SNX19 sorting nexin 19 2 2
MIRT485426 LASP1 LIM and SH3 protein 1 2 2
MIRT489788 KRT80 keratin 80 2 4
MIRT490813 ASB1 ankyrin repeat and SOCS box containing 1 2 4
MIRT491176 LAMA5 laminin subunit alpha 5 2 2
MIRT491573 HSDL1 hydroxysteroid dehydrogenase like 1 2 2
MIRT492633 PLXNA1 plexin A1 2 2
MIRT492984 NAV1 neuron navigator 1 2 2
MIRT496441 RAB11FIP4 RAB11 family interacting protein 4 2 2
MIRT501829 NCOA3 nuclear receptor coactivator 3 2 2
MIRT502165 KIAA0195 transmembrane protein 94 2 2
MIRT508652 DIABLO diablo IAP-binding mitochondrial protein 2 4
MIRT509554 ACTG1 actin gamma 1 2 4
MIRT520033 YOD1 YOD1 deubiquitinase 2 6
MIRT523969 DVL3 dishevelled segment polarity protein 3 2 2
MIRT526150 KIAA1456 KIAA1456 2 2
MIRT530330 ARHGAP1 Rho GTPase activating protein 1 2 2
MIRT539985 SLC24A4 solute carrier family 24 member 4 2 4
MIRT540851 NUP155 nucleoporin 155 2 2
MIRT542326 LIMD1 LIM domains containing 1 2 2
MIRT558908 CBX5 chromobox 5 2 2
MIRT563663 SMC4 structural maintenance of chromosomes 4 2 2
MIRT565433 SURF4 surfeit 4 2 2
MIRT567773 DGAT2 diacylglycerol O-acyltransferase 2 2 2
MIRT615573 NCS1 neuronal calcium sensor 1 2 2
MIRT627336 TTLL7 tubulin tyrosine ligase like 7 2 2
MIRT632965 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT634307 SNTN sentan, cilia apical structure protein 2 2
MIRT641569 RAX retina and anterior neural fold homeobox 2 2
MIRT660509 ARL5A ADP ribosylation factor like GTPase 5A 2 2
MIRT662703 C10orf111 chromosome 10 open reading frame 111 2 4
MIRT663214 ZNF277 zinc finger protein 277 2 2
MIRT665318 YIPF4 Yip1 domain family member 4 2 2
MIRT695264 CD209 CD209 molecule 2 2
MIRT696231 LIN9 lin-9 DREAM MuvB core complex component 2 2
MIRT698867 SRPR SRP receptor alpha subunit 2 2
MIRT702700 IPO9 importin 9 2 2
MIRT704236 DHDDS dehydrodolichyl diphosphate synthase subunit 2 2
MIRT704935 CCDC120 coiled-coil domain containing 120 2 2
MIRT724285 KCNMB1 potassium calcium-activated channel subfamily M regulatory beta subunit 1 2 2
MIRT735579 VEGFA vascular endothelial growth factor A 3 0
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-4316 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-miR-4316 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-4316 Docetaxel+Cisplatin+5-Fluorouracil resistant tissue (hypopharyngeal squamous cell carcinoma)

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