pre-miRNA Information
pre-miRNA hsa-mir-3133   
Genomic Coordinates chr2: 241477905 - 241477982
Description Homo sapiens miR-3133 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3133
Sequence 10| UAAAGAACUCUUAAAACCCAAU |31
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1030052469 1 dbSNP
rs955010137 12 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol YWHAE   
Synonyms 14-3-3E, HEL2, KCIP-1, MDCR, MDS
Description tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon
Transcript NM_006761   
Expression
Putative miRNA Targets on YWHAE
3'UTR of YWHAE
(miRNA target sites are highlighted)
>YWHAE|NM_006761|3'UTR
   1 GACATAAGCCAACAAGAGAAACCATCTCTGACCACCCCCTCCTCCCCATCCCACCCTTTGGAAACTCCCCATTGTCACTG
  81 AGAACCACCAAATCTGACTTTTACATTTGGTCTCAGAATTTAGGTTCCTGCCCTGTTGGTTTTTTTTTTTTTTTTTTAAA
 161 CAGTTTTCAAAAGTTCTTAAAGGCAAGAGTGAATTTCTGTGGATTTTACTGGTCCCAGCTTTTAGGTTCTTTAAGACACT
 241 AACAGGACTACATAGAGGCTTTTTCAGCATTACTGTGTCGTCTCCGTGCCAGATGTGGCAAGATCACCATTAGCAAATGG
 321 AAATTACATTTGAAAGCCATTAGACTTATAGGTGATGCAAGCATCTAAGAGAGAGGTTAATCACACTATAGAGGCATAAG
 401 TGGTATCAGTTTTCATTTTTCTAATTGTTTAAACTGTGTTTTATACCAGTGTTTGCAAGTAATTGGGTGTTAGCTTGAGA
 481 TGGTTAAAGGTGGTTTGGGGAGGGACTTCGTTGTAATGGTTTTGCTGTAAAAAATGTTTCCAACTCCGCTGAAATGTTGC
 561 TGAAAAGCATGGTGCTGGTAACAGTTCAACAATCCGTGGCTGCTCATTCTTGCCTACTTTACTCTCCCACTGAAGCAGGT
 641 TAGCGTTGAAGGTGGTATGGAAAAGCCTGCATGCCTGTTCAATTCTTTTGTTTCTTCTCCTTCCCCCTCCCCCTACCTCC
 721 TTCCCCTCACTCCTCCCCTCCTTCGCTCGCTCAACCTCTTTTGTTCAGTATGTGTAACTTGAAGCTAATTTGTACTACTG
 801 GATATCTGACTGGAGCCACAGATACAGAATCTGTATTGTTCTTACTGAAACACAGCATGGAATTAACATTAAACTTAAAT
 881 AAAACAAACCTAAATTAAAAATGCCAA
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' uaacCCAAAAUUCUCAAGAAAu 5'
              | |||||  :||||||| 
Target 5' cccaGCTTTTA--GGTTCTTTa 3'
214 - 233 158.00 -8.00
2
miRNA  3' uaaccCAAAA-UUCUCAAGAAau 5'
               ||||| || |||||||  
Target 5' aaacaGTTTTCAAAAGTTCTTaa 3'
158 - 180 149.00 -7.20
3
miRNA  3' uaACC-C-AAAAUUCUCAAGaaau 5'
            ||| | |  ||| |||||    
Target 5' caTGGTGCTGGTAACAGTTCaaca 3'
568 - 591 100.00 -5.36
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN1081772 2 COSMIC
COSN30512428 5 COSMIC
COSN30469885 9 COSMIC
COSN30469726 10 COSMIC
COSN30531645 17 COSMIC
COSN2557977 41 COSMIC
COSN27466620 57 COSMIC
COSN30512036 61 COSMIC
COSN30459069 94 COSMIC
COSN1081773 140 COSMIC
COSN1081774 140 COSMIC
COSN1081775 140 COSMIC
COSN20113235 140 COSMIC
COSN21323390 280 COSMIC
COSN32064085 469 COSMIC
COSN31552174 548 COSMIC
COSN32063281 614 COSMIC
COSN31534263 702 COSMIC
COSN30543584 735 COSMIC
COSN31547703 872 COSMIC
COSN20113234 890 COSMIC
COSN8240213 1052 COSMIC
rs7266 275 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs767617096 4 dbSNP
rs759546073 5 dbSNP
rs777629299 6 dbSNP
rs1291006401 7 dbSNP
rs1297960186 8 dbSNP
rs201260042 12 dbSNP
rs201861115 23 dbSNP
rs755827589 23 dbSNP
rs200081243 24 dbSNP
rs1223627095 26 dbSNP
rs71357188 28 dbSNP
rs769662126 31 dbSNP
rs200675311 32 dbSNP
rs1324580470 33 dbSNP
rs376064324 35 dbSNP
rs768292438 36 dbSNP
rs1167851087 40 dbSNP
rs746484615 48 dbSNP
rs1427616716 51 dbSNP
rs183997616 52 dbSNP
rs757961106 53 dbSNP
rs1488066084 54 dbSNP
rs141427759 55 dbSNP
rs576426807 64 dbSNP
rs965430251 67 dbSNP
rs749171502 71 dbSNP
rs558563219 77 dbSNP
rs1324734110 86 dbSNP
rs1200250896 88 dbSNP
rs750364938 90 dbSNP
rs926831392 102 dbSNP
rs1382873379 103 dbSNP
rs1161988872 105 dbSNP
rs1020091837 110 dbSNP
rs1006984528 121 dbSNP
rs1457754641 127 dbSNP
rs1292108113 128 dbSNP
rs933965654 130 dbSNP
rs1172013562 133 dbSNP
rs1432625146 135 dbSNP
rs971013107 136 dbSNP
rs1420533038 138 dbSNP
rs918840272 138 dbSNP
rs1037235508 139 dbSNP
rs57951313 140 dbSNP
rs954155692 140 dbSNP
rs1242374820 141 dbSNP
rs1223591996 142 dbSNP
rs539907098 142 dbSNP
rs988179804 143 dbSNP
rs1240305144 144 dbSNP
rs572917469 145 dbSNP
rs1488334561 146 dbSNP
rs1423691486 147 dbSNP
rs1032451101 157 dbSNP
rs1167634404 158 dbSNP
rs1263476533 158 dbSNP
rs1343797000 158 dbSNP
rs566935846 158 dbSNP
rs776864543 158 dbSNP
rs975541983 158 dbSNP
rs1208349673 159 dbSNP
rs1274242147 159 dbSNP
rs941569138 161 dbSNP
rs1279834422 166 dbSNP
rs1206741420 168 dbSNP
rs1233469907 170 dbSNP
rs910035499 176 dbSNP
rs1221327594 182 dbSNP
rs897401118 184 dbSNP
rs1017444458 186 dbSNP
rs1180691406 187 dbSNP
rs1270147399 189 dbSNP
rs979849683 190 dbSNP
rs1037312608 199 dbSNP
rs181444 200 dbSNP
rs549028552 203 dbSNP
rs1342527104 208 dbSNP
rs554434872 219 dbSNP
rs1387965973 222 dbSNP
rs373719775 239 dbSNP
rs1411242276 241 dbSNP
rs191017017 241 dbSNP
rs1358141526 243 dbSNP
rs549451496 245 dbSNP
rs1464093849 249 dbSNP
rs112459758 250 dbSNP
rs759089575 251 dbSNP
rs1414447596 253 dbSNP
rs112991360 254 dbSNP
rs1383398567 259 dbSNP
rs1434131464 261 dbSNP
rs1295067947 269 dbSNP
rs7266 275 dbSNP
rs191652 276 dbSNP
rs112066507 279 dbSNP
rs557293769 280 dbSNP
rs947806990 284 dbSNP
rs112602907 285 dbSNP
rs916368844 286 dbSNP
rs762443345 289 dbSNP
rs1476593167 291 dbSNP
rs936537268 295 dbSNP
rs757799581 296 dbSNP
rs538978194 301 dbSNP
rs1424005154 307 dbSNP
rs923841376 312 dbSNP
rs1185304234 328 dbSNP
rs1177918367 339 dbSNP
rs113698592 348 dbSNP
rs9393 349 dbSNP
rs112943938 354 dbSNP
rs1318297750 356 dbSNP
rs1346816442 360 dbSNP
rs904909086 362 dbSNP
rs1271038828 371 dbSNP
rs1367128649 371 dbSNP
rs965726678 373 dbSNP
rs1324896082 376 dbSNP
rs779336185 376 dbSNP
rs912567519 386 dbSNP
rs1282756569 387 dbSNP
rs914191493 388 dbSNP
rs1272919092 395 dbSNP
rs985904799 400 dbSNP
rs769458933 405 dbSNP
rs988379223 408 dbSNP
rs954102318 415 dbSNP
rs1245803075 422 dbSNP
rs748180024 423 dbSNP
rs936883368 435 dbSNP
rs546977611 436 dbSNP
rs1471975173 440 dbSNP
rs769556370 440 dbSNP
rs1156799314 447 dbSNP
rs534780118 449 dbSNP
rs567762458 454 dbSNP
rs772187194 459 dbSNP
rs1356271283 465 dbSNP
rs1804637 468 dbSNP
rs995658494 474 dbSNP
rs961556754 477 dbSNP
rs1449943196 489 dbSNP
rs755495296 498 dbSNP
rs745968565 506 dbSNP
rs778922436 509 dbSNP
rs1020113379 510 dbSNP
rs1353420523 526 dbSNP
rs987353615 527 dbSNP
rs549097624 533 dbSNP
rs1224338381 535 dbSNP
rs1269139040 535 dbSNP
rs1046060234 543 dbSNP
rs1234558627 544 dbSNP
rs1011899316 547 dbSNP
rs993396663 548 dbSNP
rs754221755 552 dbSNP
rs1804636 559 dbSNP
rs1366394611 568 dbSNP
rs1015940865 569 dbSNP
rs757507584 570 dbSNP
rs1409322745 571 dbSNP
rs894884855 572 dbSNP
rs1468915302 574 dbSNP
rs766662689 575 dbSNP
rs187647554 576 dbSNP
rs749414755 589 dbSNP
rs756337954 592 dbSNP
rs1232716536 595 dbSNP
rs1002238709 596 dbSNP
rs1179781619 598 dbSNP
rs1459441453 602 dbSNP
rs904981743 602 dbSNP
rs1248590725 603 dbSNP
rs1292099561 609 dbSNP
rs563586904 616 dbSNP
rs1042660122 620 dbSNP
rs1251969526 623 dbSNP
rs1322470488 631 dbSNP
rs552148278 642 dbSNP
rs1437904128 643 dbSNP
rs892657171 645 dbSNP
rs1292276913 674 dbSNP
rs1446266447 681 dbSNP
rs1183930187 682 dbSNP
rs1052576574 685 dbSNP
rs551647681 688 dbSNP
rs747741427 690 dbSNP
rs1386118847 700 dbSNP
rs1461619817 702 dbSNP
rs992908037 702 dbSNP
rs943967172 703 dbSNP
rs1370867379 706 dbSNP
rs1308207165 707 dbSNP
rs912504699 712 dbSNP
rs1336702410 715 dbSNP
rs925486810 716 dbSNP
rs975477395 721 dbSNP
rs1378948228 723 dbSNP
rs985467493 726 dbSNP
rs942686404 730 dbSNP
rs756431195 732 dbSNP
rs1364021536 737 dbSNP
rs912673918 743 dbSNP
rs1460462367 744 dbSNP
rs753302203 745 dbSNP
rs1166447578 749 dbSNP
rs1261214049 750 dbSNP
rs563572315 752 dbSNP
rs987269069 754 dbSNP
rs919986366 758 dbSNP
rs1247110590 759 dbSNP
rs1398637838 760 dbSNP
rs951446162 761 dbSNP
rs974169272 772 dbSNP
rs1374981327 777 dbSNP
rs15219 779 dbSNP
rs1475803886 785 dbSNP
rs1804635 798 dbSNP
rs1804922 801 dbSNP
rs138795901 802 dbSNP
rs919106534 820 dbSNP
rs1217016538 825 dbSNP
rs533653887 828 dbSNP
rs1471208125 837 dbSNP
rs1179585061 838 dbSNP
rs1015763892 841 dbSNP
rs1337961172 841 dbSNP
rs982054510 843 dbSNP
rs971839935 853 dbSNP
rs768119043 860 dbSNP
rs1297329897 862 dbSNP
rs144973335 872 dbSNP
rs3751905 886 dbSNP
rs1193617845 889 dbSNP
rs1325596249 890 dbSNP
rs1011848608 892 dbSNP
rs147204530 892 dbSNP
rs1248568614 895 dbSNP
rs894832192 897 dbSNP
rs1206641564 900 dbSNP
rs1264158149 908 dbSNP
rs1001912230 912 dbSNP
rs969448092 913 dbSNP
rs751148294 914 dbSNP
rs540240223 915 dbSNP
rs1452129232 916 dbSNP
rs1240520584 921 dbSNP
rs1290949673 927 dbSNP
rs572785752 934 dbSNP
rs1403884339 946 dbSNP
rs902301081 948 dbSNP
rs541668109 956 dbSNP
rs1346908001 967 dbSNP
rs1052606578 968 dbSNP
rs943899068 970 dbSNP
rs1306250971 975 dbSNP
rs746470937 975 dbSNP
rs891030121 979 dbSNP
rs1315011001 981 dbSNP
rs201994008 984 dbSNP
rs1240938855 987 dbSNP
rs1178176612 993 dbSNP
rs1301147538 994 dbSNP
rs1351674001 997 dbSNP
rs1001030792 1003 dbSNP
rs1267015162 1006 dbSNP
rs542794269 1008 dbSNP
rs932612117 1013 dbSNP
rs1250464502 1016 dbSNP
rs919933969 1024 dbSNP
rs974112965 1032 dbSNP
rs1040345239 1035 dbSNP
rs182883819 1040 dbSNP
rs1424407198 1041 dbSNP
rs942738479 1048 dbSNP
rs912570164 1059 dbSNP
rs1405062380 1062 dbSNP
rs1421887937 1063 dbSNP
rs1297056345 1085 dbSNP
rs1393710031 1092 dbSNP
rs940114899 1103 dbSNP
rs1307611156 1107 dbSNP
rs1381836086 1115 dbSNP
rs190253759 1120 dbSNP
rs1434218640 1121 dbSNP
rs1243461481 1125 dbSNP
rs1051020029 1127 dbSNP
rs1184799018 1128 dbSNP
rs1222420713 1131 dbSNP
rs1250766298 1132 dbSNP
rs1485587956 1135 dbSNP
rs930072008 1138 dbSNP
rs1179524013 1139 dbSNP
rs981618681 1140 dbSNP
rs1219143584 1146 dbSNP
rs1489138465 1150 dbSNP
rs529456183 1152 dbSNP
rs971996333 1153 dbSNP
rs141457423 1156 dbSNP
rs1169137374 1165 dbSNP
rs963537604 1166 dbSNP
rs767612869 1173 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions C8166
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 GSM1462572. RNA binding protein: AGO2. Condition:C8166 NL4-3 ...

- 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_006761 | 3UTR | AAAGGCAAGAGUGAAUUUCUGUGGAUUUUACUGGUCCCAGCUUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGGGUGUUAGCUUGAGAUGGUUAAAGGUGGUUUGGGGAGGGACUUCGUUGUAAUGGUUUUGCUGUAAAAAAUGUUUCCAACUCCGCUGAAAUGUUGCUGAAAAGCAUGGUGCUGGUAACAGUUCAACAAUCCGUGGCUGCUCAUUCUUGCCUACUUUACUCUCCCACUGAAGCAGGUUAGCGUUGAAGGUGGUAUGGAAAAGCCUGCAUGCCUGUUCAAUUCUUUUGUUUC
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_006761 | 3UTR | UUUUACUGGUCCCAGCUUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGGGUGUUAGCUUGAGAUGGUUAAAGGUGGUUUGGGGAGGGACUUCGUUGUAAUGGUUUUGCUGUAAAAAAUGUUUCCAACUCCGCUGAAAUGUUGCUGAAAAGCAUGGUGCUGGUAACAGUUCAACAAUCCGUGGCUGCUCAUUCUUGCCUACUUUACUCUCCCACUGAAGCAGGUUAGCGUUGAAGGUGGUAUGGAAAAGCCUGCAUGCCUGUUCAAUUCUUUUGUUUC
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_006761 | 3UTR | AAAGGCAAGAGUGAAUUUCUGUGGAUUUUACUGGUCCCAGCUUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGGGUGUUAGCUUGAGAUGGUUAAAGGUGGUUUGGGGAGGGACUUCGUUGUAAUGGUUUUGCUGUAAAAAAUGUUUCCAACUCCGCUGAAAUGUUGCUGAAAAGCAUGGUGCUGGUAACAGUUCAACAAUCCGUGGCUGCUCAUUCUUGCCUACUUUACUCUCCCACUGAAGCAGGUUAGCGUUGAAGGUGGUAUGGAAAAGCCUGCAUGCCUGUUCAAUUCUUUUGUUUC
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_006761 | 3UTR | UCUUAAAGGCAAGAGUGAAUUUCUGUGGAUUUUACUGGUCCCAGCUUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGG
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_006761 | 3UTR | UUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGG
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_006761 | 3UTR | UUUCUGUGGAUUUUACUGGUCCCAGCUUUUAGGUUCUUUAAGACACUAACAGGACUACAUAGAGGCUUUUUCAGCAUUACUGUGUCGUCUCCGUGCCAGAUGUGGCAAGAUCACCAUUAGCAAAUGGAAAUUACAUUUGAAAGCCAUUAGACUUAUAGGUGAUGCAAGCAUCUAAGAGAGAGGUUAAUCACACUAUAGAGGCAUAAGUGGUAUCAGUUUUCAUUUUUCUAAUUGUUUAAACUGUGUUUUAUACCAGUGUUUGCAAGUAAUUGGGUGUUAGCUUGAGAUGGUUAAAGGUGGUUUGGGGAGGGACUUCGUUGUAAUGGUUUUGCUGUAAAAAAUGUUUCCAACUCCGCUGAAAUGUUGCUGAAAAGCAUGGUGCUGGUAACAGUUCAACAAUCCGUGGCUGCUCAUUCUUGCCUACUUUACUCUCCCACUGAAGCAGGUUAGCGUUGAAGGUGGUAUGGAAAAGCCUGCAUGCCUGUUCAAUUCUUUUGUUUC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 7 for dataset GSM1462572
Method / RBP PAR-CLIP / AGO2
Cell line / Condition C8166 / C8166 NL4-3
Location of target site ENST00000264335.8 | 3UTR | UUCUUUAAGACACUAACAG
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
Click to see details
Click to see details
174 hsa-miR-3133 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057804 SLC30A7 solute carrier family 30 member 7 2 2
MIRT075401 ZFHX3 zinc finger homeobox 3 2 2
MIRT088350 MAPRE3 microtubule associated protein RP/EB family member 3 2 6
MIRT107288 FAM73B mitoguardin 2 2 2
MIRT141571 ABHD2 abhydrolase domain containing 2 2 2
MIRT161036 CDV3 CDV3 homolog 2 2
MIRT167732 RNF146 ring finger protein 146 8 3
MIRT209559 PAK2 p21 (RAC1) activated kinase 2 2 2
MIRT214631 SMAD5 SMAD family member 5 2 8
MIRT258393 KIAA0895 KIAA0895 2 2
MIRT272744 ALG10B ALG10B, alpha-1,2-glucosyltransferase 2 2
MIRT309347 SMARCA5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 2 6
MIRT329705 SCD stearoyl-CoA desaturase 2 2
MIRT336556 SDE2 SDE2 telomere maintenance homolog 2 2
MIRT363351 AGO2 argonaute 2, RISC catalytic component 2 4
MIRT386753 TAOK1 TAO kinase 1 2 2
MIRT441580 EXOC5 exocyst complex component 5 2 2
MIRT441735 SEPT8 septin 8 2 2
MIRT441817 LRRC40 leucine rich repeat containing 40 2 2
MIRT442180 TRIM59 tripartite motif containing 59 2 4
MIRT442277 TLX3 T-cell leukemia homeobox 3 2 2
MIRT442489 TBC1D19 TBC1 domain family member 19 2 2
MIRT443242 ANKRD26 ankyrin repeat domain 26 2 2
MIRT443270 ZWINT ZW10 interacting kinetochore protein 2 2
MIRT444114 CEPT1 choline/ethanolamine phosphotransferase 1 2 2
MIRT444725 LAMA2 laminin subunit alpha 2 2 2
MIRT445346 FAM169A family with sequence similarity 169 member A 2 2
MIRT445693 GJB1 gap junction protein beta 1 2 2
MIRT446051 CDC73 cell division cycle 73 2 2
MIRT447746 TMCC3 transmembrane and coiled-coil domain family 3 2 2
MIRT447955 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT449199 ZNF623 zinc finger protein 623 2 2
MIRT449564 GPC5 glypican 5 2 2
MIRT450938 BDP1 B double prime 1, subunit of RNA polymerase III transcription initiation factor IIIB 2 2
MIRT459811 POTED POTE ankyrin domain family member D 2 8
MIRT461692 ZNF426 zinc finger protein 426 2 2
MIRT462014 SNRNP27 small nuclear ribonucleoprotein U4/U6.U5 subunit 27 2 2
MIRT465150 TSC22D2 TSC22 domain family member 2 2 2
MIRT467144 SREK1IP1 SREK1 interacting protein 1 2 2
MIRT474929 KCTD15 potassium channel tetramerization domain containing 15 2 8
MIRT475118 IPPK inositol-pentakisphosphate 2-kinase 2 2
MIRT476844 FIGN fidgetin, microtubule severing factor 2 10
MIRT477336 EPHA2 EPH receptor A2 2 2
MIRT477853 DYRK3 dual specificity tyrosine phosphorylation regulated kinase 3 2 2
MIRT481113 B2M beta-2-microglobulin 2 2
MIRT481296 ATP6V1B2 ATPase H+ transporting V1 subunit B2 2 10
MIRT485094 SLC30A1 solute carrier family 30 member 1 2 4
MIRT491908 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon 2 2
MIRT492458 RBPJ recombination signal binding protein for immunoglobulin kappa J region 2 8
MIRT493341 LAPTM4A lysosomal protein transmembrane 4 alpha 2 12
MIRT494771 AP1G1 adaptor related protein complex 1 gamma 1 subunit 2 2
MIRT497837 GPR26 G protein-coupled receptor 26 2 2
MIRT497958 DGAT2 diacylglycerol O-acyltransferase 2 2 2
MIRT498445 INO80D INO80 complex subunit D 2 2
MIRT498997 HAT1 histone acetyltransferase 1 2 10
MIRT499257 VAV3 vav guanine nucleotide exchange factor 3 2 4
MIRT500067 SFT2D2 SFT2 domain containing 2 2 4
MIRT501385 RBFOX2 RNA binding protein, fox-1 homolog 2 2 10
MIRT503084 BTG2 BTG anti-proliferation factor 2 2 4
MIRT503272 SLC7A5 solute carrier family 7 member 5 2 2
MIRT504341 ASGR2 asialoglycoprotein receptor 2 2 2
MIRT505453 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 6
MIRT505905 RIMS3 regulating synaptic membrane exocytosis 3 2 6
MIRT507917 C7orf60 base methyltransferase of 25S rRNA 2 homolog 2 6
MIRT508174 FRK fyn related Src family tyrosine kinase 2 4
MIRT508287 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 4
MIRT509232 KIF14 kinesin family member 14 2 6
MIRT509481 GNL3L G protein nucleolar 3 like 2 6
MIRT509530 INTU inturned planar cell polarity protein 2 6
MIRT509548 BTLA B and T lymphocyte associated 2 8
MIRT511328 KIAA1522 KIAA1522 2 4
MIRT511427 HSP90AA1 heat shock protein 90 alpha family class A member 1 2 4
MIRT511477 HNRNPC heterogeneous nuclear ribonucleoprotein C (C1/C2) 2 4
MIRT512471 CCDC149 coiled-coil domain containing 149 2 2
MIRT512996 SEZ6L seizure related 6 homolog like 2 2
MIRT514755 ACER3 alkaline ceramidase 3 2 8
MIRT515764 KRTAP5-6 keratin associated protein 5-6 2 2
MIRT517392 TBK1 TANK binding kinase 1 2 4
MIRT518720 FTH1 ferritin heavy chain 1 2 2
MIRT521923 PHIP pleckstrin homology domain interacting protein 2 4
MIRT522849 KIAA2022 neurite extension and migration factor 2 4
MIRT522887 KDELR1 KDEL endoplasmic reticulum protein retention receptor 1 2 2
MIRT523153 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT525149 ZNF256 zinc finger protein 256 2 2
MIRT525941 C11orf74 chromosome 11 open reading frame 74 2 2
MIRT526876 ERCC8 ERCC excision repair 8, CSA ubiquitin ligase complex subunit 2 2
MIRT527366 KRTAP13-2 keratin associated protein 13-2 2 2
MIRT527549 DLGAP5 DLG associated protein 5 2 4
MIRT527604 ANKRD42 ankyrin repeat domain 42 2 2
MIRT527803 KLRD1 killer cell lectin like receptor D1 2 2
MIRT528046 PRKD3 protein kinase D3 2 2
MIRT528397 PGK1 phosphoglycerate kinase 1 2 2
MIRT529673 SLC28A1 solute carrier family 28 member 1 2 2
MIRT530358 HPSE heparanase 2 2
MIRT530908 KIAA1161 myogenesis regulating glycosidase (putative) 2 2
MIRT531169 ZNF333 zinc finger protein 333 2 2
MIRT531438 PAK1 p21 (RAC1) activated kinase 1 2 2
MIRT531562 CENPC1P1 centromere protein C pseudogene 1 1 1
MIRT532783 LDHD lactate dehydrogenase D 2 2
MIRT532848 ZNF699 zinc finger protein 699 2 2
MIRT534287 SLC12A7 solute carrier family 12 member 7 2 2
MIRT535078 PPIG peptidylprolyl isomerase G 2 4
MIRT535968 MFAP3L microfibril associated protein 3 like 2 2
MIRT536163 MAP3K9 mitogen-activated protein kinase kinase kinase 9 2 4
MIRT537417 FBXO47 F-box protein 47 2 2
MIRT538665 CCSAP centriole, cilia and spindle associated protein 2 2
MIRT540291 RGR retinal G protein coupled receptor 2 4
MIRT543332 KIAA1456 KIAA1456 2 2
MIRT543392 CC2D2A coiled-coil and C2 domain containing 2A 2 2
MIRT543891 AIMP1 aminoacyl tRNA synthetase complex interacting multifunctional protein 1 2 2
MIRT545609 SIGLEC9 sialic acid binding Ig like lectin 9 2 2
MIRT545839 ZNF275 zinc finger protein 275 2 2
MIRT546689 RORA RAR related orphan receptor A 2 4
MIRT547513 MAT2A methionine adenosyltransferase 2A 2 4
MIRT549431 ACVR1 activin A receptor type 1 2 2
MIRT550567 MYC MYC proto-oncogene, bHLH transcription factor 2 4
MIRT552517 ZIC5 Zic family member 5 2 2
MIRT552743 YRDC yrdC N6-threonylcarbamoyltransferase domain containing 2 2
MIRT552942 VKORC1L1 vitamin K epoxide reductase complex subunit 1 like 1 2 2
MIRT555752 PDCD10 programmed cell death 10 2 2
MIRT558002 FAM160B1 family with sequence similarity 160 member B1 2 2
MIRT559422 ASF1B anti-silencing function 1B histone chaperone 2 2
MIRT560276 SF1 splicing factor 1 2 2
MIRT560713 ZNF324B zinc finger protein 324B 2 2
MIRT561190 TNFRSF10A TNF receptor superfamily member 10a 2 2
MIRT561817 NUP50 nucleoporin 50 2 2
MIRT562018 LCLAT1 lysocardiolipin acyltransferase 1 2 2
MIRT562847 LINC00346 long intergenic non-protein coding RNA 346 2 2
MIRT563252 SETD6 SET domain containing 6 2 2
MIRT563978 GCC2 GRIP and coiled-coil domain containing 2 2 2
MIRT564383 BAAT bile acid-CoA:amino acid N-acyltransferase 2 2
MIRT566552 PANK3 pantothenate kinase 3 2 2
MIRT566933 LIN28B lin-28 homolog B 2 2
MIRT566989 LBR lamin B receptor 2 2
MIRT567645 EXT1 exostosin glycosyltransferase 1 2 2
MIRT568268 BICD2 BICD cargo adaptor 2 2 2
MIRT571407 MED4 mediator complex subunit 4 2 2
MIRT571784 PPP2CA protein phosphatase 2 catalytic subunit alpha 2 2
MIRT572437 ATM ATM serine/threonine kinase 2 2
MIRT573613 COX6A1P2 cytochrome c oxidase subunit 6A1 pseudogene 2 2 2
MIRT574289 COX6A1 cytochrome c oxidase subunit 6A1 2 2
MIRT574375 YY1 YY1 transcription factor 2 2
MIRT613142 DSEL dermatan sulfate epimerase-like 2 2
MIRT616661 ORAI1 ORAI calcium release-activated calcium modulator 1 2 2
MIRT619345 SASH1 SAM and SH3 domain containing 1 2 2
MIRT626315 ABCC9 ATP binding cassette subfamily C member 9 2 2
MIRT628235 FAM117B family with sequence similarity 117 member B 2 2
MIRT630452 GTPBP8 GTP binding protein 8 (putative) 2 2
MIRT631013 TMEM30B transmembrane protein 30B 2 2
MIRT637315 FBXO18 F-box protein, helicase, 18 2 2
MIRT640658 FRY FRY microtubule binding protein 2 2
MIRT642081 FUT11 fucosyltransferase 11 2 2
MIRT644607 C17orf77 chromosome 17 open reading frame 77 2 2
MIRT644829 DNAJC21 DnaJ heat shock protein family (Hsp40) member C21 2 2
MIRT652465 TMEM2 transmembrane protein 2 2 2
MIRT657514 HAS2 hyaluronan synthase 2 2 2
MIRT658290 FAM86C1 family with sequence similarity 86 member C1 2 2
MIRT659570 CGGBP1 CGG triplet repeat binding protein 1 2 2
MIRT675457 SRP19 signal recognition particle 19 2 2
MIRT687828 ITGB8 integrin subunit beta 8 2 2
MIRT693550 MYO16 myosin XVI 2 2
MIRT697294 ZNF654 zinc finger protein 654 2 2
MIRT699804 SEC24A SEC24 homolog A, COPII coat complex component 2 2
MIRT704867 CD164 CD164 molecule 2 2
MIRT705309 AVL9 AVL9 cell migration associated 2 2
MIRT705323 ATP2A2 ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2 2 2
MIRT707180 HOXC4 homeobox C4 2 2
MIRT709331 CLEC12B C-type lectin domain family 12 member B 2 2
MIRT712321 PER2 period circadian clock 2 2 2
MIRT713817 XRCC2 X-ray repair cross complementing 2 2 2
MIRT713854 HHLA2 HERV-H LTR-associating 2 2 2
MIRT717257 SLC44A1 solute carrier family 44 member 1 2 2
MIRT719956 BLOC1S6 biogenesis of lysosomal organelles complex 1 subunit 6 2 2
MIRT725408 KIF6 kinesin family member 6 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-3133 5-Fluorouracil approved 3385 Microarray CNE cells 22614822 2012 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3133 Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-mir-3133 Androstenedione+Anastrozole sensitive cell line (MCF-7)
hsa-mir-3133 Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-miR-3133 Gefitinib 123631 NSC715055 approved sensitive cell line (PC9)
hsa-miR-3133 Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-3133 Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-3133 Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-3133 Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3133 Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)

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