miRTarBase - #MIRT468211


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pre-miRNA Information
pre-miRNA hsa-mir-3942   
Genomic Coordinates chr15: 35372256 - 35372364
Description Homo sapiens miR-3942 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3942-3p
Sequence 65| UUUCAGAUAACAGUAUUACAU |85
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 5 15 - 35372296 29233923 MiREDiBase
A-to-I 10 15 - 35372291 23291724, 29233923 MiREDiBase
A-to-I 18 15 - 35372283 23291724, 29233923 MiREDiBase
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN1674243 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1043666670 6 dbSNP
rs1264147291 18 dbSNP
rs1223363654 20 dbSNP
Putative Targets

Gene Information
Gene Symbol SGK1   
Synonyms SGK
Description serum/glucocorticoid regulated kinase 1
Transcript NM_001143676   
Other Transcripts NM_001143677 , NM_001143678 , NM_005627   
Expression
Putative miRNA Targets on SGK1
3'UTR of SGK1
(miRNA target sites are highlighted)		 
>SGK1|NM_001143676|3'UTR
   1 ACCCTGTTAGGGCTTGGTTTTAAAGGATTTTATGTGTGTTTCCGAATGTTTTAGTTAGCCTTTTGGTGGAGCCGCCAGCT
  81 GACAGGACATCTTACAAGAGAATTTGCACATCTCTGGAAGCTTAGCAATCTTATTGCACACTGTTCGCTGGAAGCTTTTT
 161 GAAGAGCACATTCTCCTCAGTGAGCTCATGAGGTTTTCATTTTTATTCTTCCTTCCAACGTGGTGCTATCTCTGAAACGA
 241 GCGTTAGAGTGCCGCCTTAGACGGAGGCAGGAGTTTCGTTAGAAAGCGGACGCTGTTCTAAAAAAGGTCTCCTGCAGATC
 321 TGTCTGGGCTGTGATGACGAATATTATGAAATGTGCCTTTTCTGAAGAGATTGTGTTAGCTCCAAAGCTTTTCCTATCGC
 401 AGTGTTTCAGTTCTTTATTTTCCCTTGTGGATATGCTGTGTGAACCGTCGTGTGAGTGTGGTATGCCTGATCACAGATGG
 481 ATTTTGTTATAAGCATCAATGTGACACTTGCAGGACACTACAACGTGGGACATTGTTTGTTTCTTCCATATTTGGAAGAT
 561 AAATTTATGTGTAGACTTTTTTGTAAGATACGGTTAATAACTAAAATTTATTGAAATGGTCTTGCAATGACTCGTATTCA
 641 GATGCTTAAAGAAAGCATTGCTGCTACAAATATTTCTATTTTTAGAAAGGGTTTTTATGGACCAATGCCCCAGTTGTCAG
 721 TCAGAGCCGTTGGTGTTTTTCATTGTTTAAAATGTCACCTGTAAAATGGGCATTATTTATGTTTTTTTTTTTGCATTCCT
 801 GATAATTGTATGTATTGTATAAAGAACGTCTGTACATTGGGTTATAACACTAGTATATTTAAACTTACAGGCTTATTTGT
 881 AATGTAAACCACCATTTTAATGTACTGTAATTAACATGGTTATAATACGTACAATCCTTCCCTCATCCCATCACACAACT
 961 TTTTTTGTGTGTGATAAACTGATTTTGGTTTGCAATAAAACCTTGAAAAATATTTACATATAAAAAAAA
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' uaCAUUAUGACAAUAGACUUu 5'
            ||::|:||  | |||||| 
Target 5' acGTGGTGCT-ATCTCTGAAa 3'
 218 - 237 130.00 -12.40
2 
miRNA  3' uaCAUUAUGAC--AAUAGACUUu 5'
            | |||: ||  || |||||| 
Target 5' atGAAATG-TGCCTTTTCTGAAg 3'
 346 - 367 128.00 -8.00
3 
miRNA  3' uaCA-UUAUGACAAUAGACUUu 5'
            || :||| || |:| |||| 
Target 5' ttGTGGATA-TGCTGTGTGAAc 3'
 425 - 445 114.00 -8.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN26994521 53 COSMIC
COSN31523955 53 COSMIC
COSN30167455 60 COSMIC
COSN30104028 115 COSMIC
COSN31567234 147 COSMIC
COSN20705502 156 COSMIC
COSN26676976 209 COSMIC
COSN21171288 243 COSMIC
COSN30130155 254 COSMIC
COSN31522137 315 COSMIC
COSN15010832 339 COSMIC
COSN28628592 357 COSMIC
COSN30173276 398 COSMIC
COSN31582668 413 COSMIC
COSN9297750 591 COSMIC
COSN31591732 634 COSMIC
COSN31584617 639 COSMIC
COSN31519872 670 COSMIC
COSN19662937 781 COSMIC
COSN31607670 827 COSMIC
COSN26644620 905 COSMIC
COSN31611299 927 COSMIC
COSN26554018 932 COSMIC
COSN2142575 997 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs926570043 4 dbSNP
rs375654397 6 dbSNP
rs1341276634 7 dbSNP
rs768135465 19 dbSNP
rs527777726 23 dbSNP
rs774837183 28 dbSNP
rs1323999181 32 dbSNP
rs766810780 33 dbSNP
rs182230788 34 dbSNP
rs558510756 36 dbSNP
rs746511000 38 dbSNP
rs1172460528 41 dbSNP
rs372156281 43 dbSNP
rs548281620 44 dbSNP
rs745855329 47 dbSNP
rs1322144828 48 dbSNP
rs769476003 51 dbSNP
rs951165129 54 dbSNP
rs866243756 57 dbSNP
rs1026686420 64 dbSNP
rs1206978945 65 dbSNP
rs995006558 73 dbSNP
rs967334970 74 dbSNP
rs148282184 77 dbSNP
rs899292635 84 dbSNP
rs1039702524 88 dbSNP
rs1182033370 89 dbSNP
rs1007782376 98 dbSNP
rs1181474693 116 dbSNP
rs1424791128 116 dbSNP
rs1362587151 117 dbSNP
rs890470553 122 dbSNP
rs992678632 127 dbSNP
rs1160552175 134 dbSNP
rs1404799126 140 dbSNP
rs970447958 142 dbSNP
rs1338326073 145 dbSNP
rs144017729 146 dbSNP
rs1002330467 154 dbSNP
rs56006088 156 dbSNP
rs761573548 166 dbSNP
rs776360099 170 dbSNP
rs1223157014 171 dbSNP
rs1304515411 173 dbSNP
rs945346138 173 dbSNP
rs1350026285 179 dbSNP
rs1280280998 185 dbSNP
rs1282533546 188 dbSNP
rs1322971385 189 dbSNP
rs546453106 194 dbSNP
rs1258007718 195 dbSNP
rs577499411 208 dbSNP
rs761389375 213 dbSNP
rs866641295 215 dbSNP
rs914022265 219 dbSNP
rs749944895 220 dbSNP
rs1016974376 223 dbSNP
rs1248947510 228 dbSNP
rs1421240435 228 dbSNP
rs936490503 233 dbSNP
rs926441602 234 dbSNP
rs981115948 235 dbSNP
rs1479181383 236 dbSNP
rs189186128 238 dbSNP
rs949356453 239 dbSNP
rs746884554 242 dbSNP
rs537173165 243 dbSNP
rs1296080619 244 dbSNP
rs1377658222 245 dbSNP
rs1316786173 246 dbSNP
rs567739003 247 dbSNP
rs540516618 249 dbSNP
rs574980491 252 dbSNP
rs901371834 253 dbSNP
rs770903591 254 dbSNP
rs149522218 262 dbSNP
rs544339812 263 dbSNP
rs1249817232 266 dbSNP
rs942475922 268 dbSNP
rs80155856 271 dbSNP
rs74813322 272 dbSNP
rs1206248234 276 dbSNP
rs925677394 277 dbSNP
rs576227178 278 dbSNP
rs1026694612 287 dbSNP
rs913156358 291 dbSNP
rs558615801 292 dbSNP
rs56326915 293 dbSNP
rs963894699 293 dbSNP
rs554671835 298 dbSNP
rs1430193001 301 dbSNP
rs1302242187 305 dbSNP
rs1363644697 306 dbSNP
rs756458732 307 dbSNP
rs538910302 311 dbSNP
rs752993672 315 dbSNP
rs376144722 318 dbSNP
rs1368463934 322 dbSNP
rs1381690097 323 dbSNP
rs984139030 324 dbSNP
rs951424133 326 dbSNP
rs55894848 329 dbSNP
rs1229600963 334 dbSNP
rs890742040 336 dbSNP
rs1030579997 338 dbSNP
rs536015632 341 dbSNP
rs901405867 356 dbSNP
rs1485278038 364 dbSNP
rs796452787 371 dbSNP
rs1335811343 372 dbSNP
rs1184210184 393 dbSNP
rs11554162 396 dbSNP
rs1018411759 397 dbSNP
rs1006990782 398 dbSNP
rs1162537196 399 dbSNP
rs904284270 411 dbSNP
rs1426294512 413 dbSNP
rs892431016 415 dbSNP
rs1344482191 417 dbSNP
rs945809868 427 dbSNP
rs1430117610 436 dbSNP
rs1206924391 438 dbSNP
rs567136692 447 dbSNP
rs1292832039 449 dbSNP
rs548247037 450 dbSNP
rs62627406 451 dbSNP
rs979949576 455 dbSNP
rs1213042723 465 dbSNP
rs1407763018 465 dbSNP
rs936739354 469 dbSNP
rs941801174 470 dbSNP
rs186276516 476 dbSNP
rs1357748854 488 dbSNP
rs180843823 490 dbSNP
rs1044936431 496 dbSNP
rs547421321 499 dbSNP
rs1398945010 501 dbSNP
rs951493598 508 dbSNP
rs949236564 511 dbSNP
rs976765705 514 dbSNP
rs917875235 516 dbSNP
rs1404116078 521 dbSNP
rs1165176861 523 dbSNP
rs79927819 524 dbSNP
rs188810026 525 dbSNP
rs929653261 527 dbSNP
rs775535692 528 dbSNP
rs763842021 529 dbSNP
rs1417088197 530 dbSNP
rs1185763843 534 dbSNP
rs1475631591 543 dbSNP
rs1329292932 546 dbSNP
rs1018444269 550 dbSNP
rs1260877218 569 dbSNP
rs1443716658 570 dbSNP
rs1210376993 582 dbSNP
rs1007021662 583 dbSNP
rs1232143498 583 dbSNP
rs904735039 587 dbSNP
rs919565678 591 dbSNP
rs7754021 592 dbSNP
rs1175730364 606 dbSNP
rs1010427665 610 dbSNP
rs759800888 611 dbSNP
rs1335090731 616 dbSNP
rs1354371150 624 dbSNP
rs1440433209 625 dbSNP
rs1310424478 627 dbSNP
rs865786709 633 dbSNP
rs1018427123 634 dbSNP
rs1272690483 639 dbSNP
rs1346487470 640 dbSNP
rs1214552195 643 dbSNP
rs1271811908 650 dbSNP
rs1435896282 656 dbSNP
rs1165802746 663 dbSNP
rs1337280566 669 dbSNP
rs986350031 670 dbSNP
rs1252468167 672 dbSNP
rs1271301396 673 dbSNP
rs1197188220 678 dbSNP
rs1214306328 683 dbSNP
rs1376053409 685 dbSNP
rs955042423 689 dbSNP
rs1479037855 690 dbSNP
rs1173418692 698 dbSNP
rs938335946 700 dbSNP
rs1428250751 703 dbSNP
rs1363093083 705 dbSNP
rs905779744 706 dbSNP
rs1030589452 708 dbSNP
rs1404938789 722 dbSNP
rs184076667 724 dbSNP
rs1399564170 725 dbSNP
rs1436521243 728 dbSNP
rs1269252265 736 dbSNP
rs532938039 743 dbSNP
rs1336978992 745 dbSNP
rs1044300082 752 dbSNP
rs1358449802 762 dbSNP
rs1009786686 773 dbSNP
rs892482209 774 dbSNP
rs1032318568 781 dbSNP
rs1326041057 781 dbSNP
rs530282561 782 dbSNP
rs1170699766 793 dbSNP
rs1391217645 793 dbSNP
rs1453434778 793 dbSNP
rs55984236 793 dbSNP
rs774779984 794 dbSNP
rs1169345359 795 dbSNP
rs1162010104 796 dbSNP
rs1410258739 798 dbSNP
rs1421407956 799 dbSNP
rs930079226 804 dbSNP
rs561489664 813 dbSNP
rs1316935054 815 dbSNP
rs918656910 816 dbSNP
rs977161536 818 dbSNP
rs965315688 819 dbSNP
rs58321558 828 dbSNP
rs1242291414 834 dbSNP
rs1267175211 835 dbSNP
rs1356895955 836 dbSNP
rs1045556306 841 dbSNP
rs1204471408 846 dbSNP
rs3836933 851 dbSNP
rs118055987 853 dbSNP
rs1283718295 853 dbSNP
rs75591900 855 dbSNP
rs1204103754 864 dbSNP
rs1248835616 865 dbSNP
rs544727374 868 dbSNP
rs1022241400 869 dbSNP
rs572802400 881 dbSNP
rs764749703 885 dbSNP
rs1473451180 894 dbSNP
rs1158483434 898 dbSNP
rs1385871358 905 dbSNP
rs552954115 907 dbSNP
rs1320850850 916 dbSNP
rs919824194 928 dbSNP
rs536567255 929 dbSNP
rs1038067168 934 dbSNP
rs942352430 935 dbSNP
rs1370546418 950 dbSNP
rs771278977 954 dbSNP
rs141074164 959 dbSNP
rs556770232 961 dbSNP
rs1210614803 967 dbSNP
rs1269021724 967 dbSNP
rs34857215 967 dbSNP
rs550125547 967 dbSNP
rs1006165586 976 dbSNP
rs1198941313 976 dbSNP
rs1258771163 977 dbSNP
rs887686797 978 dbSNP
rs1048034684 985 dbSNP
rs761413514 986 dbSNP
rs773172955 987 dbSNP
rs986913489 992 dbSNP
rs537936536 1002 dbSNP
rs1428174755 1013 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' uacauUAUGACAAUAGAcuuu 5'
               :|: || |||||    
Target 5' ccaacGUGGUGCUAUCUcug- 3'
 		22 - 41
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 GSM4903825
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID14_NS
Location of target site NM_001143677 | 3UTR | AUUCUUCCUUCCAACGUGGUGCUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903826
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID21_NS
Location of target site NM_001143677 | 3UTR | CCUUCCAACGUGGUGCUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903827
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID14_9124
Location of target site NM_001143676 | 3UTR | GAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903828
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / PID21_9124
Location of target site NM_001143676 | 3UTR | GAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161237
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_001143676 | 3UTR | CUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGUGUUUCAGUUCUUUAUUUUCCCUUGUGGAUAUGCUGUGUGAACCGUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_001143677 | 3UTR | UUUUCAUUUUUAUUCUUCCUUCCAACGUGGUGCUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_001143677 | 3UTR | GGAAGCUUUUUGAAGAGCACAUUCUCCUCAGUGAGCUCAUGAGGUUUUCAUUUUUAUUCUUCCUUCCAACGUGGUGCUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 8 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_001143676 | 3UTR | UCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 9 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_001143677 | 3UTR | UUUUCAUUUUUAUUCUUCCUUCCAACGUGGUGCUAUCUCUGAAACGAGCGUUAGAGUGCCGCCUUAGACGGAGGCAGGAGUUUCGUUAGAAAGCGGACGCUGUUCUAAAAAAGGUCUCCUGCAGAUCUGUCUGGGCUGUGAUGACGAAUAUUAUGAAAUGUGCCUUUUCUGAAGAGAUUGUGUUAGCUCCAAAGCUUUUCCUAUCGCAGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 10 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000367858.5 | 3UTR | UUUUCAUUUUUAUUCUUCCUUCCAACGUGGUGCUAUCUCUG
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
116 hsa-miR-3942-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT093395 TMA16 translation machinery associated 16 homolog 2 2
MIRT134018 SDE2 SDE2 telomere maintenance homolog 2 2
MIRT194942 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT265807 NOTCH2 notch 2 2 2
MIRT287615 NPEPPS aminopeptidase puromycin sensitive 2 2
MIRT444196 SESN3 sestrin 3 2 2
MIRT444480 UBN2 ubinuclein 2 2 2
MIRT446589 FBXO40 F-box protein 40 2 2
MIRT450501 ALPK3 alpha kinase 3 2 2
MIRT455182 AGTRAP angiotensin II receptor associated protein 2 2
MIRT455446 EPB41L4B erythrocyte membrane protein band 4.1 like 4B 2 2
MIRT456385 KLHL12 kelch like family member 12 2 2
MIRT460303 FLCN folliculin 2 2
MIRT461247 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 6
MIRT467948 SLC16A1 solute carrier family 16 member 1 2 2
MIRT468007 SIX4 SIX homeobox 4 2 2
MIRT468211 SGK1 serum/glucocorticoid regulated kinase 1 2 2
MIRT470635 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT471785 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT473557 MATR3 matrin 3 2 2
MIRT475415 ICK intestinal cell kinase 2 2
MIRT476265 GNAL G protein subunit alpha L 2 6
MIRT477135 FAM107B family with sequence similarity 107 member B 2 6
MIRT478433 DAZAP2 DAZ associated protein 2 2 2
MIRT479050 CNOT6L CCR4-NOT transcription complex subunit 6 like 2 8
MIRT480872 BDNF-AS BDNF antisense RNA 2 2
MIRT484229 CLDN1 claudin 1 2 2
MIRT485055 SUCO SUN domain containing ossification factor 2 2
MIRT489871 MPLKIP M-phase specific PLK1 interacting protein 2 2
MIRT492411 SCARB2 scavenger receptor class B member 2 2 2
MIRT499682 KCTD2 potassium channel tetramerization domain containing 2 2 4
MIRT505969 RAB11FIP1 RAB11 family interacting protein 1 2 4
MIRT507708 CNIH cornichon family AMPA receptor auxiliary protein 1 2 4
MIRT511878 GID4 GID complex subunit 4 homolog 2 6
MIRT513411 RTP4 receptor transporter protein 4 2 2
MIRT519873 ZFP30 ZFP30 zinc finger protein 2 4
MIRT520703 TMCO1 transmembrane and coiled-coil domains 1 2 2
MIRT522890 KCNN3 potassium calcium-activated channel subfamily N member 3 2 6
MIRT523781 FAM63B MINDY lysine 48 deubiquitinase 2 2 2
MIRT523950 DYNLT1 dynein light chain Tctex-type 1 2 4
MIRT526894 ATP6V0E2 ATPase H+ transporting V0 subunit e2 2 2
MIRT529167 CCDC25 coiled-coil domain containing 25 2 2
MIRT529703 ZBTB49 zinc finger and BTB domain containing 49 2 2
MIRT530359 PCSK1 proprotein convertase subtilisin/kexin type 1 2 2
MIRT530595 C7orf33 chromosome 7 open reading frame 33 2 4
MIRT531528 CCT6A chaperonin containing TCP1 subunit 6A 2 2
MIRT531992 BARD1 BRCA1 associated RING domain 1 2 2
MIRT539547 AAK1 AP2 associated kinase 1 2 2
MIRT547757 KATNAL1 katanin catalytic subunit A1 like 1 2 2
MIRT549059 CAMSAP1 calmodulin regulated spectrin associated protein 1 2 2
MIRT549836 ECHDC1 ethylmalonyl-CoA decarboxylase 1 2 2
MIRT552698 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 2
MIRT554318 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT556358 MAF MAF bZIP transcription factor 2 2
MIRT557772 FRS2 fibroblast growth factor receptor substrate 2 2 2
MIRT558795 CHEK2 checkpoint kinase 2 2 2
MIRT561367 UBXN2B UBX domain protein 2B 2 2
MIRT561673 RAPGEF2 Rap guanine nucleotide exchange factor 2 2 2
MIRT567898 CSNK1A1 casein kinase 1 alpha 1 2 2
MIRT568456 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT568838 NBPF12 NBPF member 12 2 2
MIRT568846 VPS53 VPS53, GARP complex subunit 2 2
MIRT568856 NBPF1 NBPF member 1 2 2
MIRT568888 NBPF15 NBPF member 15 2 2
MIRT569331 CDC5L cell division cycle 5 like 2 2
MIRT569388 NBPF11 NBPF member 11 2 2
MIRT569398 NBPF14 NBPF member 14 2 2
MIRT569644 NBPF10 NBPF member 10 2 2
MIRT571582 TROVE2 TROVE domain family member 2 2 2
MIRT573027 NBPF3 NBPF member 3 2 2
MIRT573293 UFM1 ubiquitin fold modifier 1 2 2
MIRT608814 SEPT6 septin 6 2 6
MIRT609046 BACH2 BTB domain and CNC homolog 2 2 6
MIRT609517 RAB3IP RAB3A interacting protein 2 2
MIRT611861 SRRM4 serine/arginine repetitive matrix 4 2 2
MIRT612174 EMC3 ER membrane protein complex subunit 3 2 2
MIRT612714 NR2F6 nuclear receptor subfamily 2 group F member 6 2 4
MIRT613305 ARL6IP6 ADP ribosylation factor like GTPase 6 interacting protein 6 2 4
MIRT616357 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT632424 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 2
MIRT636005 SAMD15 sterile alpha motif domain containing 15 2 2
MIRT636534 FAM126B family with sequence similarity 126 member B 2 2
MIRT637275 FGFR1OP FGFR1 oncogene partner 2 2
MIRT639131 ZNF726 zinc finger protein 726 2 2
MIRT641257 C8orf46 chromosome 8 open reading frame 46 2 2
MIRT642930 KRTAP5-9 keratin associated protein 5-9 2 2
MIRT644018 NUCB1 nucleobindin 1 2 2
MIRT645021 MAGEB4 MAGE family member B4 2 2
MIRT646790 EVC2 EvC ciliary complex subunit 2 2 2
MIRT647338 RPH3AL rabphilin 3A like (without C2 domains) 2 2
MIRT647975 PDE12 phosphodiesterase 12 2 2
MIRT650610 NEK4 NIMA related kinase 4 2 2
MIRT651052 ZNF579 zinc finger protein 579 2 2
MIRT651593 WDFY2 WD repeat and FYVE domain containing 2 2 2
MIRT652785 TCEANC2 transcription elongation factor A N-terminal and central domain containing 2 2 2
MIRT656450 MAPK6 mitogen-activated protein kinase 6 2 2
MIRT660086 BTD biotinidase 2 2
MIRT661398 OLR1 oxidized low density lipoprotein receptor 1 2 2
MIRT661759 MICA MHC class I polypeptide-related sequence A 2 2
MIRT666402 SH3D19 SH3 domain containing 19 2 2
MIRT668362 FGD4 FYVE, RhoGEF and PH domain containing 4 2 2
MIRT668895 CREG2 cellular repressor of E1A stimulated genes 2 2 2
MIRT669329 BSND barttin CLCNK type accessory beta subunit 2 2
MIRT672369 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT686261 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 2
MIRT695571 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT701959 MINK1 misshapen like kinase 1 2 2
MIRT702322 KMT2A lysine methyltransferase 2A 2 2
MIRT705209 BRWD1 bromodomain and WD repeat domain containing 1 2 2
MIRT713949 KCTD6 potassium channel tetramerization domain containing 6 2 2
MIRT717082 EBF4 early B-cell factor 4 2 2
MIRT717896 COPS8 COP9 signalosome subunit 8 2 2
MIRT721043 TRIM67 tripartite motif containing 67 2 2
MIRT722194 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT722782 ACADSB acyl-CoA dehydrogenase, short/branched chain 2 2
MIRT725412 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3942-3p Osimertinib 71496458 NSC779217 approved resistant Low Non-Small Cell Lung Cancer tissue
hsa-miR-3942-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-3942-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)

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