miRTarBase - #MIRT478433


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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 DAZAP2   
Synonyms PRTB
Description DAZ associated protein 2
Transcript NM_001136264   
Other Transcripts NM_001136266 , NM_001136267 , NM_001136268 , NM_001136269 , NM_014764   
Expression
Putative miRNA Targets on DAZAP2
3'UTR of DAZAP2
(miRNA target sites are highlighted)		 
>DAZAP2|NM_001136264|3'UTR
   1 GGAACCAAGGCCACCTCTGTGCCGGGAAAGACATCACATACCTTCAGCACTTCTCACAATGTAACTGCTTTAGTCATATT
  81 AACCTGAAGTTGCAGTTTAGACACATGTTGTTGGGGTGTCTTTCTGGTGCCCAAACTTTCAGGCACTTTTCAAATTTAAT
 161 AAGGAACCATGTAATGGTAGCAGTACCTCCCTAAAGCATTTTGAGGTAGGGGAGGTATCCATTCATAAAATGAATGTGGG
 241 TGAAGCCGCCCTAAGGATTTTCCTTTAATTTCTCTGGAGTAATACTGTACCATACTGGTCTTTGCTTTTAGTAATAAAAC
 321 ATCAAATTAGGTTTGGAGGGAACTTTGATCTTCCTAAGAATTAAAGTTGCCAAATTATTCTGATTGGTCTTTAATCTCCT
 401 TTAAGTCTTTGATATATATTACTTGTTATAAATGGAACGCATTAGTTGTCTGCCTTTTCCTTTCCATCCCTTGCCCCACC
 481 CATCCCATCTCCAACCCTAGTCTTCCATTTCCTCCCGCCAGTCTCCATTGAATCAATGGTGCAGGACAGAAAGCCAGTCA
 561 GACTAATTTCCTTCTTTCCTCGCACTTCTCCCCACTCGTCATCTTTTAACTAGTGTTTCACAAGGATCCTCTGAAACCCT
 641 CTCTGTGCCCCAAGTACAGATGCCATTACTTCTGCTTTCGTATCTCCTCAGGCAAAAGTGGAGGGTGCCTTATGGGCCCT
 721 CCTCATAGGTTGTCTCTGCATACACGAACCTAACCCAAATTTGCTTTGGTGCCAGAAAAACTGAGCTATGTTTGAACAAA
 801 GATGTCGTGCAAACTGTACTGTGAACAACAGTTGGTTTAAAATATGAGGGGCAAGGAGGAGGATGCATTTCAAAAGCTTG
 881 ATTGATGTGTTCAGAGCTAAATTAAGAGGAGTTTTCAGATCAAAAACTGGTTACCATTTTTTGTCAGAGTGTCTGATGCG
 961 GCCACTCATTCGGCTCCCCAGAATTCCTAGACTGGGTTAATAGGGTCATATTGTGAATGTCTCACTACAAAATGACTTGA
1041 GTCCAGTGAAATCTCATTAGGGTTTAAGAATATTTCAGGGATCCTTAATGTTTTGATTTTTGTTTTCTGAAATTGGATTT
1121 TATTTTATTTTATCTTATAATTTCAGTTCATCTAAATTGTGTGTTCTGTACATGTGATGTTTGACTGTACCATTGACTGT
1201 TATGGAAGTTCAGCGTTGTATGTCTCTCTCTACACTGTGGTGCACTTAACTTGTGGAATTTTTATACTAAAAATGTAGAA
1281 TAAAGACTATTTTGAAGATTTGAATAAAGTGATGAAGTTGCATTACACCTCACTGCAAGGATTCTTTACTTAGCTTGTTT
1361 TTAGATTTCTTCTATATATATTTTATTTATATCCCATCTAGAATTCAGCTAGGTGCTGCTGCTGCTCTGTTTCCTTTGAT
1441 GACGCTTTGAAATAAAGGCAGGAGTACAAGCCTAAAAAAAAAAAAAAAAAA
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' uacAUU-AUGACAAUAGACUUu 5'
             |:| | :|||| |||||| 
Target 5' tttTGATTTTTGTTTTCTGAAa 3'
 1091 - 1112 134.00 -10.90
2 
miRNA  3' uaCAUUAUGAC---A-AUAGACUUu 5'
            | || ||||   | |:|:|||| 
Target 5' caGAAAAACTGAGCTATGTTTGAAc 3'
 773 - 797 127.00 -5.80
3 
miRNA  3' uaCAUUAUGACAAUAGACUUu 5'
            || |||:  | | ||||| 
Target 5' taGTCATAT--TAACCTGAAg 3'
 71 - 89 123.00 -6.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSM8179832 11 COSMIC
COSM2009239 25 COSMIC
COSM6640143 32 COSMIC
COSM2009240 46 COSMIC
COSM8638713 54 COSMIC
COSM7639144 76 COSMIC
COSM8719256 101 COSMIC
COSM9112114 111 COSMIC
COSM9834883 111 COSMIC
COSM4879998 125 COSMIC
COSM9834884 131 COSMIC
COSM9579709 141 COSMIC
COSM9834885 141 COSMIC
COSM4042675 148 COSMIC
COSM9857964 152 COSMIC
COSM1739875 166 COSMIC
COSM9834886 176 COSMIC
COSM9834887 185 COSMIC
COSN30160074 225 COSMIC
COSN31515730 273 COSMIC
COSN30526686 315 COSMIC
COSN31485493 343 COSMIC
COSN31548028 412 COSMIC
COSN28722043 471 COSMIC
COSN28798880 479 COSMIC
COSN30542021 518 COSMIC
COSN24470830 663 COSMIC
COSN26649497 795 COSMIC
COSN20722565 972 COSMIC
COSN31570941 1049 COSMIC
COSN21848396 1122 COSMIC
COSN31609023 1271 COSMIC
COSN31515538 1273 COSMIC
COSN5834608 1279 COSMIC
COSN31568582 1370 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs377252029 6 dbSNP
rs1444879102 11 dbSNP
rs1321523231 12 dbSNP
rs779908029 14 dbSNP
rs1049467 18 dbSNP
rs780268345 20 dbSNP
rs749383352 21 dbSNP
rs1356278307 22 dbSNP
rs866151968 23 dbSNP
rs201854240 24 dbSNP
rs374168708 25 dbSNP
rs748645128 26 dbSNP
rs772739085 43 dbSNP
rs1273115172 45 dbSNP
rs1237312012 47 dbSNP
rs1442851717 51 dbSNP
rs773665805 54 dbSNP
rs1388517124 56 dbSNP
rs373137618 58 dbSNP
rs776209061 59 dbSNP
rs1194425333 60 dbSNP
rs759069912 62 dbSNP
rs1246428707 63 dbSNP
rs764700099 69 dbSNP
rs1453823665 76 dbSNP
rs752647176 76 dbSNP
rs758289456 79 dbSNP
rs1416463152 80 dbSNP
rs190665763 81 dbSNP
rs764040405 85 dbSNP
rs1340353423 89 dbSNP
rs1401170814 95 dbSNP
rs1278257723 101 dbSNP
rs751297697 104 dbSNP
rs746969932 106 dbSNP
rs1170336145 109 dbSNP
rs757111801 121 dbSNP
rs780242085 124 dbSNP
rs768400345 127 dbSNP
rs749523180 135 dbSNP
rs1485275086 137 dbSNP
rs1194362350 139 dbSNP
rs746420669 141 dbSNP
rs1299393933 147 dbSNP
rs1388262116 148 dbSNP
rs755057505 150 dbSNP
rs1476920867 153 dbSNP
rs1272850169 160 dbSNP
rs987071954 162 dbSNP
rs1346044700 170 dbSNP
rs377433711 174 dbSNP
rs1479147558 180 dbSNP
rs1171139324 182 dbSNP
rs1402007396 183 dbSNP
rs776378700 189 dbSNP
rs1403859391 194 dbSNP
rs1300666893 196 dbSNP
rs1361876745 197 dbSNP
rs1410677356 199 dbSNP
rs1015602736 206 dbSNP
rs1481731111 209 dbSNP
rs748284553 211 dbSNP
rs1182027233 215 dbSNP
rs1331284058 222 dbSNP
rs1234985252 226 dbSNP
rs567234272 228 dbSNP
rs1252488156 233 dbSNP
rs1272833304 240 dbSNP
rs1346932287 242 dbSNP
rs948850857 247 dbSNP
rs980314694 248 dbSNP
rs536198616 249 dbSNP
rs1345866857 250 dbSNP
rs980592380 254 dbSNP
rs1407852894 255 dbSNP
rs775859943 272 dbSNP
rs1348711188 274 dbSNP
rs938558274 281 dbSNP
rs14678 286 dbSNP
rs1197419482 290 dbSNP
rs1443268477 291 dbSNP
rs760873231 292 dbSNP
rs1358771802 294 dbSNP
rs1174171357 306 dbSNP
rs1471176274 310 dbSNP
rs552716848 330 dbSNP
rs1430351838 346 dbSNP
rs1159084577 348 dbSNP
rs182906473 349 dbSNP
rs1230705337 353 dbSNP
rs1052999201 354 dbSNP
rs891448299 355 dbSNP
rs947076145 373 dbSNP
rs1205119086 374 dbSNP
rs1235409481 374 dbSNP
rs1470930155 379 dbSNP
rs574069333 385 dbSNP
rs544746793 388 dbSNP
rs1042721105 401 dbSNP
rs1480309011 406 dbSNP
rs1331107409 413 dbSNP
rs572861649 415 dbSNP
rs1309294015 420 dbSNP
rs1224436388 423 dbSNP
rs1378467942 426 dbSNP
rs1174790553 430 dbSNP
rs187567108 439 dbSNP
rs900219048 440 dbSNP
rs1408902235 455 dbSNP
rs562967636 460 dbSNP
rs1050309711 461 dbSNP
rs1160412962 466 dbSNP
rs1422746372 467 dbSNP
rs1328211840 470 dbSNP
rs15839 477 dbSNP
rs1185053661 478 dbSNP
rs891331325 490 dbSNP
rs578210065 498 dbSNP
rs1206556534 504 dbSNP
rs1486701669 505 dbSNP
rs1352851703 512 dbSNP
rs1243904816 513 dbSNP
rs1444548722 517 dbSNP
rs1008890435 518 dbSNP
rs1248520715 522 dbSNP
rs138200161 529 dbSNP
rs190893016 536 dbSNP
rs1297373967 540 dbSNP
rs1430864303 549 dbSNP
rs1015885498 555 dbSNP
rs763165216 556 dbSNP
rs1284997619 560 dbSNP
rs961351065 567 dbSNP
rs995483692 574 dbSNP
rs1347677655 579 dbSNP
rs1164919195 580 dbSNP
rs1027001264 582 dbSNP
rs1389202667 583 dbSNP
rs970512665 586 dbSNP
rs1217957754 589 dbSNP
rs1430098040 591 dbSNP
rs1270197430 594 dbSNP
rs1209240704 595 dbSNP
rs764393840 598 dbSNP
rs1204677610 599 dbSNP
rs1224774585 601 dbSNP
rs1360202558 611 dbSNP
rs1245752148 615 dbSNP
rs1274214712 621 dbSNP
rs1328567899 622 dbSNP
rs1296734389 624 dbSNP
rs980213684 627 dbSNP
rs1489745529 629 dbSNP
rs183437083 637 dbSNP
rs542971167 644 dbSNP
rs1344140153 646 dbSNP
rs928450366 648 dbSNP
rs1424773431 651 dbSNP
rs1130598 663 dbSNP
rs1431933351 666 dbSNP
rs1463198170 671 dbSNP
rs988669890 680 dbSNP
rs762092834 681 dbSNP
rs79990195 683 dbSNP
rs1255610504 685 dbSNP
rs551460767 686 dbSNP
rs1418071214 687 dbSNP
rs1270997156 688 dbSNP
rs112397706 697 dbSNP
rs1199995136 699 dbSNP
rs1411715820 706 dbSNP
rs1490536903 708 dbSNP
rs1273924919 712 dbSNP
rs1329677796 715 dbSNP
rs1365155020 718 dbSNP
rs776926358 720 dbSNP
rs1194361749 726 dbSNP
rs1403366797 727 dbSNP
rs947317953 737 dbSNP
rs1252304971 741 dbSNP
rs1042667390 746 dbSNP
rs1285769522 747 dbSNP
rs1406017424 749 dbSNP
rs921614168 752 dbSNP
rs1326268594 759 dbSNP
rs1396734907 763 dbSNP
rs113479053 768 dbSNP
rs1399246747 791 dbSNP
rs1051557904 799 dbSNP
rs891278165 804 dbSNP
rs560246340 807 dbSNP
rs530580240 808 dbSNP
rs1179720051 813 dbSNP
rs1439816584 819 dbSNP
rs1251545836 826 dbSNP
rs897383397 828 dbSNP
rs117882905 830 dbSNP
rs187326882 836 dbSNP
rs1224729728 843 dbSNP
rs1329057200 845 dbSNP
rs1356764592 846 dbSNP
rs1240595595 847 dbSNP
rs1224270935 852 dbSNP
rs1271414957 853 dbSNP
rs1335780973 859 dbSNP
rs754989656 874 dbSNP
rs970123863 875 dbSNP
rs1449924578 878 dbSNP
rs1002012634 883 dbSNP
rs567524207 885 dbSNP
rs1408112303 889 dbSNP
rs1035803032 891 dbSNP
rs1240840085 899 dbSNP
rs536171824 911 dbSNP
rs1168523635 912 dbSNP
rs1160179730 915 dbSNP
rs1384706554 922 dbSNP
rs10876156 928 dbSNP
rs1364389055 937 dbSNP
rs1165704261 946 dbSNP
rs1460142883 946 dbSNP
rs1245412490 947 dbSNP
rs1204681435 951 dbSNP
rs752549380 960 dbSNP
rs1282793081 965 dbSNP
rs1207349177 972 dbSNP
rs1399875327 973 dbSNP
rs1316015322 980 dbSNP
rs1283080852 982 dbSNP
rs1804087 984 dbSNP
rs1431422654 987 dbSNP
rs538667949 990 dbSNP
rs1130641 1000 dbSNP
rs1379950691 1002 dbSNP
rs531183779 1006 dbSNP
rs921585425 1011 dbSNP
rs1434131204 1012 dbSNP
rs931698243 1021 dbSNP
rs1320211543 1024 dbSNP
rs1401214806 1029 dbSNP
rs1385839952 1030 dbSNP
rs1162989967 1039 dbSNP
rs1051936014 1040 dbSNP
rs911623900 1046 dbSNP
rs1184387238 1051 dbSNP
rs940437003 1051 dbSNP
rs11555478 1086 dbSNP
rs1240652714 1089 dbSNP
rs1196035703 1090 dbSNP
rs1448067857 1091 dbSNP
rs146146716 1117 dbSNP
rs373390567 1117 dbSNP
rs1219579401 1123 dbSNP
rs570998465 1123 dbSNP
rs750889518 1123 dbSNP
rs192230455 1124 dbSNP
rs1048669387 1128 dbSNP
rs749397615 1130 dbSNP
rs1271702654 1137 dbSNP
rs1431458998 1139 dbSNP
rs1194529492 1142 dbSNP
rs1242538893 1153 dbSNP
rs1001518070 1159 dbSNP
rs1367462800 1161 dbSNP
rs1164454595 1164 dbSNP
rs1409599023 1167 dbSNP
rs537613123 1177 dbSNP
rs1417881988 1179 dbSNP
rs1169983840 1181 dbSNP
rs1442848132 1182 dbSNP
rs1476050084 1187 dbSNP
rs1036112856 1194 dbSNP
rs551711588 1195 dbSNP
rs1490699116 1202 dbSNP
rs1185554208 1203 dbSNP
rs895869830 1204 dbSNP
rs1305381743 1212 dbSNP
rs1010278173 1215 dbSNP
rs557601567 1216 dbSNP
rs968553922 1223 dbSNP
rs1156543080 1229 dbSNP
rs1386888416 1230 dbSNP
rs1207090549 1231 dbSNP
rs1401152198 1240 dbSNP
rs1406620727 1244 dbSNP
rs1335999183 1246 dbSNP
rs1303820003 1264 dbSNP
rs1441815651 1266 dbSNP
rs978637806 1276 dbSNP
rs1403889624 1288 dbSNP
rs1140398 1306 dbSNP
rs1410900869 1322 dbSNP
rs751449021 1323 dbSNP
rs777618382 1341 dbSNP
rs1481697995 1361 dbSNP
rs987127853 1363 dbSNP
rs1176096790 1367 dbSNP
rs1035517058 1381 dbSNP
rs895691390 1383 dbSNP
rs1013063583 1385 dbSNP
rs1236452826 1387 dbSNP
rs746678770 1389 dbSNP
rs1460707075 1390 dbSNP
rs1261015229 1392 dbSNP
rs184668320 1399 dbSNP
rs971846387 1410 dbSNP
rs968886784 1414 dbSNP
rs931491960 1417 dbSNP
rs1371211431 1422 dbSNP
rs1300126399 1423 dbSNP
rs1443200037 1425 dbSNP
rs76567392 1425 dbSNP
rs1335118179 1427 dbSNP
rs1471267859 1435 dbSNP
rs1049057269 1436 dbSNP
rs999794608 1443 dbSNP
rs937596680 1444 dbSNP
rs1460405492 1450 dbSNP
rs1205602271 1452 dbSNP
rs1177490306 1464 dbSNP
rs141787286 1465 dbSNP
rs541596133 1469 dbSNP
rs1205294723 1470 dbSNP
rs150498248 1472 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.

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 GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_001136266 | 3UTR | ACUACAAAAUGACUUGAGUCCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUAAUUUCAGUUCAUCUAAAUUGUGUGUUCUGUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_001136266 | 3UTR | UCACUACAAAAUGACUUGAGUCCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903835
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_c
Location of target site NM_001136266 | 3UTR | ACAAAAUGACUUGAGUCCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_001136266 | 3UTR | CCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_001136266 | 3UTR | CUCACUACAAAAUGACUUGAGUCCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_001136266 | 3UTR | CAAAAUGACUUGAGUCCAGUGAAAUCUCAUUAGGGUUUAAGAAUAUUUCAGGGAUCCUUAAUGUUUUGAUUUUUGUUUUCUGAAAUUGGAUUUUAUUUUAUUUUAUCUUAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000412716.3 | 3UTR | CCAGUCAGACUAAUUUCCUUCUUUCCUCGCACUUCUCCCCACUCGUCAUCUUUUAACUAGUGUUUCACAAGGAUCCUCUGAAACCCUCUCUGUGCCCCAAG
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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