pre-miRNA Information
pre-miRNA hsa-mir-3192   
Genomic Coordinates chr20: 18470615 - 18470691
Description Homo sapiens miR-3192 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3192-5p
Sequence 10| UCUGGGAGGUUGUAGCAGUGGAA |32
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs906254403 3 dbSNP
rs554130490 4 dbSNP
rs773140898 6 dbSNP
rs376614009 11 dbSNP
rs899297329 12 dbSNP
rs1330418015 18 dbSNP
rs1402597660 21 dbSNP
rs995052311 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol DDX19A   
Synonyms DDX19-DDX19L, DDX19L
Description DEAD-box helicase 19A
Transcript NM_018332   
Expression
Putative miRNA Targets on DDX19A
3'UTR of DDX19A
(miRNA target sites are highlighted)
>DDX19A|NM_018332|3'UTR
   1 GAAGCTCCACCAGCCACTGATGCCAGCCCTGGCACTGCCCCTGCACAGGAGACAAGTGCATTTAGGGCACAGGCCCCGAC
  81 ATCACCCCAAGGACAACGGCAGAAGTAGAGAGAAACTACCTACCTCACTTCAAATTATGTTTGGACTTGACAAAAATAGG
 161 TGCAAATGATGGGGGGCAATAGAAGAAAAAATTTGCATTTTGGAAAATTGGGTCCTTTCCCCACTTTTTTAAAGCCACAT
 241 TCCCCCATCTTTATAATAATCTGGTCACAGTGGTAGTCGCTGGCCCCAGGACCCCCTCCTGATTTTGGCTAGGCATCGTG
 321 GAACCAGCTCCAGCCCCTGAAGAAACGATAGATGTGCAGGTTGTGCGGAAGAGGCTGAGTGGAAAATGGTGTGAGCCCCA
 401 CCGCTGTGCATCGAATGAGGGAAGTGGCAGCAGAGAGGCCAGAGCTGCCCCCTCTCTGTCTCTTCAATGGACCCTTCACA
 481 AGTGTTTCTCCTGCCCTTGGGGCTGTCTTCCTTCTCCTGAAATCCAGAGACTTTCTTGCTCATCCCTTCTCCCTTTCACT
 561 TCTGTTCTCTGCTGCAGAAAGCAGACTTGCATATCCCTGATGAGCAGCTCGGCTACTTTTGTAAACTTCAGATTTGGAGA
 641 GAAACACGAAAGTCTGAATCCTGACCCCTTGAGAGAGAGTGATCTGGCGAGGGCCGATGAAGGGGCTGGGCCTGGTCTTG
 721 CCTTCTCTTCTCTCGGTTGCTCCCTCTGCCTAGGCCCCTGGTACTCAGTCACGGCAGCCAGGAGACCCCAGGTGAGTTTC
 801 TGAGCGCATACGTAGTTGGTTCTTACCCCCAGGTGTCACACGGGGCCGAGAGCTGAGCAAGAATTTGGAATGGAAGTTAT
 881 GACCAAGGGAATTATGCTGTTCATTTATAATAGTGGACATTATGGAGAGCTCTGATTCCTACATAATATGAATAAGGATG
 961 GATAGGCCGGGCGTGGTGGCTCATGCCTATAATCCCAGCACGTTGGGAGGCTGAGGCGGGCGGATCGGTTGAGCTCAGGC
1041 GTTCGGGACCAGCCTGGCCAACATGATGAAACCCCGTCTCTACCAAAAATAGAAAAAAATATAGCCGGGCCTGGTGGCGC
1121 ACGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGTAGGAGGATCGCTTGAGCCTGGGTAGAGGCTGCTGTGAGCTGAAAT
1201 GGCGCCACTGCACTCCAGCCTGGGTAACAGAGCGAGACCCCGACTCAATAAATAAATAAGGATGGATAAATTGTAGCGTA
1281 TGCACCATTCATTATGCTAAGACATTTTAAAGTAATTATGAGAAACGCTCTACTAATGATTTGTTTTTATTTGTATTTTT
1361 CTGCTTATTAGACAAATATATACTCATTTTAAAAAGGAAAAAAAAAAAAAAAAA
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' aaGGUGACGAUGUUGGAGGGUCu 5'
            :||:  |||:||  |||||| 
Target 5' gcTCATGCCTATAA--TCCCAGc 3'
979 - 999 136.00 -14.50
2
miRNA  3' aagGUGACGAUGUUGGAGGGUCu 5'
             |||  ||::|:  |||||| 
Target 5' gcgCACGCCTGTAG--TCCCAGc 3'
1117 - 1137 131.00 -16.00
3
miRNA  3' aaGGUGACGAUGUUGGAGGGUCu 5'
            |||  |||:|  ||||:| | 
Target 5' ggCCAGAGCTGCCCCCTCTCTGt 3'
437 - 459 121.00 -19.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN19693471 4 COSMIC
COSN8865848 7 COSMIC
COSN30145761 8 COSMIC
COSN30107253 65 COSMIC
COSN31479459 75 COSMIC
COSN30478118 78 COSMIC
COSN30496864 79 COSMIC
COSN30152775 89 COSMIC
COSN31505718 89 COSMIC
COSN30576483 98 COSMIC
COSN31506884 101 COSMIC
COSN30135690 107 COSMIC
COSN31547715 113 COSMIC
COSN30500253 128 COSMIC
COSN30126209 193 COSMIC
COSN30169129 266 COSMIC
COSN6547027 736 COSMIC
COSN8236715 1230 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs765045880 2 dbSNP
rs762777724 4 dbSNP
rs747192985 5 dbSNP
rs750461709 5 dbSNP
rs535001358 6 dbSNP
rs754148451 7 dbSNP
rs768731867 7 dbSNP
rs753166726 8 dbSNP
rs776638412 9 dbSNP
rs758827381 10 dbSNP
rs1160468641 11 dbSNP
rs1358702598 12 dbSNP
rs1282957491 19 dbSNP
rs778349000 24 dbSNP
rs746448043 26 dbSNP
rs770451690 27 dbSNP
rs1336577184 28 dbSNP
rs917880002 29 dbSNP
rs368159872 35 dbSNP
rs375379525 38 dbSNP
rs1240793493 41 dbSNP
rs775133048 42 dbSNP
rs1290520639 46 dbSNP
rs762869761 47 dbSNP
rs768406322 50 dbSNP
rs774356242 52 dbSNP
rs1431400458 59 dbSNP
rs1058430 61 dbSNP
rs1058432 64 dbSNP
rs919799037 67 dbSNP
rs1455841530 69 dbSNP
rs571921407 71 dbSNP
rs538828112 74 dbSNP
rs1420346246 77 dbSNP
rs1046876153 78 dbSNP
rs1055278908 79 dbSNP
rs1297254383 81 dbSNP
rs111798739 93 dbSNP
rs1486510952 97 dbSNP
rs943762311 98 dbSNP
rs1040722641 99 dbSNP
rs1326449354 101 dbSNP
rs1469513032 102 dbSNP
rs117023031 103 dbSNP
rs1232335798 115 dbSNP
rs1231770569 125 dbSNP
rs1297524240 140 dbSNP
rs961520369 143 dbSNP
rs143885836 144 dbSNP
rs554541655 146 dbSNP
rs1050629281 164 dbSNP
rs1361269950 169 dbSNP
rs904056646 170 dbSNP
rs1296929888 171 dbSNP
rs1433052962 175 dbSNP
rs1396820890 176 dbSNP
rs1326748823 181 dbSNP
rs1000967523 193 dbSNP
rs998046016 194 dbSNP
rs769445452 198 dbSNP
rs1348484939 202 dbSNP
rs1029569353 203 dbSNP
rs373971062 209 dbSNP
rs1249851051 210 dbSNP
rs573110235 224 dbSNP
rs1187249545 225 dbSNP
rs954044306 225 dbSNP
rs1455166225 227 dbSNP
rs1253090804 235 dbSNP
rs1358502277 236 dbSNP
rs985388281 240 dbSNP
rs1487336694 248 dbSNP
rs148629795 250 dbSNP
rs559351379 255 dbSNP
rs1190903104 264 dbSNP
rs114589283 266 dbSNP
rs989321213 269 dbSNP
rs1236410833 278 dbSNP
rs1373209313 279 dbSNP
rs1014055682 280 dbSNP
rs1386418193 290 dbSNP
rs1365800287 293 dbSNP
rs1371013406 294 dbSNP
rs1462527265 297 dbSNP
rs950223673 314 dbSNP
rs1024979670 315 dbSNP
rs969794523 318 dbSNP
rs980720645 319 dbSNP
rs937577597 329 dbSNP
rs545204442 331 dbSNP
rs1054763909 335 dbSNP
rs888123101 338 dbSNP
rs1005277045 340 dbSNP
rs1252293071 341 dbSNP
rs1177450622 347 dbSNP
rs1037218306 350 dbSNP
rs1212919161 357 dbSNP
rs1348584729 364 dbSNP
rs563511662 365 dbSNP
rs184231985 367 dbSNP
rs982632191 368 dbSNP
rs1290569726 370 dbSNP
rs1310537939 378 dbSNP
rs908343992 387 dbSNP
rs549050081 388 dbSNP
rs943803696 397 dbSNP
rs1350195199 398 dbSNP
rs557055038 402 dbSNP
rs1041188133 403 dbSNP
rs762762482 404 dbSNP
rs1272686185 405 dbSNP
rs1464065066 407 dbSNP
rs188337644 410 dbSNP
rs528037375 411 dbSNP
rs1050658269 414 dbSNP
rs546594213 415 dbSNP
rs377468775 418 dbSNP
rs1032991746 422 dbSNP
rs957625836 424 dbSNP
rs1256656289 427 dbSNP
rs1198689874 434 dbSNP
rs1262583364 436 dbSNP
rs1482281521 436 dbSNP
rs1240016215 440 dbSNP
rs904129031 443 dbSNP
rs1286816074 446 dbSNP
rs1185179835 448 dbSNP
rs1235585491 453 dbSNP
rs139303124 455 dbSNP
rs971551593 459 dbSNP
rs1386475435 461 dbSNP
rs200530683 468 dbSNP
rs927452949 469 dbSNP
rs892590772 473 dbSNP
rs1013713090 478 dbSNP
rs1367679993 482 dbSNP
rs1188036481 483 dbSNP
rs1185258478 485 dbSNP
rs937548192 491 dbSNP
rs1263946367 494 dbSNP
rs1205840196 495 dbSNP
rs1464596363 497 dbSNP
rs770683038 502 dbSNP
rs1459429703 503 dbSNP
rs1025474012 504 dbSNP
rs1335827676 514 dbSNP
rs1345750470 515 dbSNP
rs1373583003 519 dbSNP
rs1452749755 532 dbSNP
rs909531257 536 dbSNP
rs144119432 542 dbSNP
rs1328748342 545 dbSNP
rs1295647269 565 dbSNP
rs1385840285 576 dbSNP
rs1357592028 585 dbSNP
rs1461654618 587 dbSNP
rs1389736737 590 dbSNP
rs1161317818 591 dbSNP
rs1415555758 596 dbSNP
rs969444649 603 dbSNP
rs1292918589 605 dbSNP
rs1002186778 606 dbSNP
rs1026965013 611 dbSNP
rs1225566935 612 dbSNP
rs1246270482 620 dbSNP
rs896870556 638 dbSNP
rs952621420 644 dbSNP
rs982655420 648 dbSNP
rs908410170 649 dbSNP
rs1282991118 650 dbSNP
rs1033373272 652 dbSNP
rs965579443 655 dbSNP
rs1441180082 657 dbSNP
rs200206359 671 dbSNP
rs369385588 671 dbSNP
rs1321319253 677 dbSNP
rs1411401204 678 dbSNP
rs1396986949 679 dbSNP
rs536452392 681 dbSNP
rs113264966 689 dbSNP
rs1195619706 690 dbSNP
rs971435548 692 dbSNP
rs1246294565 696 dbSNP
rs554724933 697 dbSNP
rs774315392 698 dbSNP
rs1034493199 704 dbSNP
rs1205063080 705 dbSNP
rs573303581 706 dbSNP
rs1281808349 709 dbSNP
rs1234452215 715 dbSNP
rs1343701659 718 dbSNP
rs1376987772 722 dbSNP
rs1272678071 729 dbSNP
rs936929390 733 dbSNP
rs1053116074 735 dbSNP
rs940955321 736 dbSNP
rs1377253261 747 dbSNP
rs1312456412 759 dbSNP
rs1491512860 766 dbSNP
rs1424552165 767 dbSNP
rs1491407218 767 dbSNP
rs892671326 773 dbSNP
rs1298874435 774 dbSNP
rs780822912 775 dbSNP
rs1181964452 776 dbSNP
rs1482349979 777 dbSNP
rs1373237922 781 dbSNP
rs371922008 790 dbSNP
rs558941423 791 dbSNP
rs905294764 796 dbSNP
rs1348993595 800 dbSNP
rs1002261866 806 dbSNP
rs1026996288 807 dbSNP
rs889605342 809 dbSNP
rs1205992567 812 dbSNP
rs888446050 813 dbSNP
rs1358634630 815 dbSNP
rs1332353161 822 dbSNP
rs1480033003 826 dbSNP
rs1176648011 827 dbSNP
rs193188248 828 dbSNP
rs1015913810 829 dbSNP
rs545364280 831 dbSNP
rs868484044 838 dbSNP
rs7193168 842 dbSNP
rs182897667 844 dbSNP
rs1235209596 848 dbSNP
rs542855934 849 dbSNP
rs764432154 852 dbSNP
rs1267054018 858 dbSNP
rs1353956951 859 dbSNP
rs1002939475 869 dbSNP
rs925663146 871 dbSNP
rs1227664656 884 dbSNP
rs934321384 890 dbSNP
rs1034462285 896 dbSNP
rs1328471276 898 dbSNP
rs1320061948 919 dbSNP
rs1455856698 920 dbSNP
rs1397127778 924 dbSNP
rs572353534 929 dbSNP
rs988441790 938 dbSNP
rs1372415772 939 dbSNP
rs1405265941 940 dbSNP
rs914122621 950 dbSNP
rs1188832188 952 dbSNP
rs1006764086 957 dbSNP
rs1246896350 968 dbSNP
rs1016440818 969 dbSNP
rs1469586544 970 dbSNP
rs754160890 973 dbSNP
rs375255588 974 dbSNP
rs560792053 976 dbSNP
rs972309589 981 dbSNP
rs1365952840 984 dbSNP
rs918237218 986 dbSNP
rs955071919 989 dbSNP
rs1370063607 995 dbSNP
rs986506983 996 dbSNP
rs905328074 1000 dbSNP
rs938115890 1002 dbSNP
rs528217585 1003 dbSNP
rs888477312 1004 dbSNP
rs1166216961 1006 dbSNP
rs1455290074 1011 dbSNP
rs1004602522 1016 dbSNP
rs1267553051 1017 dbSNP
rs541324184 1019 dbSNP
rs901095523 1022 dbSNP
rs879181877 1023 dbSNP
rs890149909 1025 dbSNP
rs942465880 1027 dbSNP
rs1468902941 1029 dbSNP
rs28408124 1030 dbSNP
rs564935245 1034 dbSNP
rs1226208153 1035 dbSNP
rs945930338 1036 dbSNP
rs560901240 1041 dbSNP
rs978516792 1042 dbSNP
rs1419119816 1045 dbSNP
rs1032711719 1046 dbSNP
rs1410941258 1047 dbSNP
rs1370533434 1049 dbSNP
rs907187918 1050 dbSNP
rs955732676 1051 dbSNP
rs532664066 1052 dbSNP
rs1182685722 1054 dbSNP
rs1461441322 1055 dbSNP
rs1249476756 1065 dbSNP
rs1212937098 1070 dbSNP
rs1324477068 1073 dbSNP
rs868547914 1076 dbSNP
rs757608257 1077 dbSNP
rs74359861 1079 dbSNP
rs1270378924 1094 dbSNP
rs1290571567 1101 dbSNP
rs1360897835 1102 dbSNP
rs916894178 1107 dbSNP
rs1274576216 1108 dbSNP
rs1286930872 1110 dbSNP
rs1334919334 1119 dbSNP
rs529694895 1120 dbSNP
rs759857187 1123 dbSNP
rs550816447 1124 dbSNP
rs926811156 1128 dbSNP
rs569219677 1131 dbSNP
rs536413679 1137 dbSNP
rs549777673 1138 dbSNP
rs566833290 1143 dbSNP
rs1241725156 1144 dbSNP
rs750925834 1144 dbSNP
rs150997377 1145 dbSNP
rs1256914670 1149 dbSNP
rs1199990512 1151 dbSNP
rs780682789 1152 dbSNP
rs747691798 1153 dbSNP
rs201352706 1156 dbSNP
rs998548547 1160 dbSNP
rs1328844599 1165 dbSNP
rs1161935013 1166 dbSNP
rs1049625827 1167 dbSNP
rs1311363957 1169 dbSNP
rs889646393 1172 dbSNP
rs1366743533 1176 dbSNP
rs1387824087 1180 dbSNP
rs1320736707 1190 dbSNP
rs1401626312 1195 dbSNP
rs767626555 1204 dbSNP
rs999969487 1205 dbSNP
rs1344229924 1209 dbSNP
rs80176395 1212 dbSNP
rs986389057 1214 dbSNP
rs910895170 1215 dbSNP
rs964104482 1217 dbSNP
rs1232187674 1224 dbSNP
rs989933795 1230 dbSNP
rs577361353 1234 dbSNP
rs1282331289 1235 dbSNP
rs1266595743 1242 dbSNP
rs538250527 1243 dbSNP
rs945929628 1247 dbSNP
rs1041648554 1249 dbSNP
rs1487189871 1260 dbSNP
rs1243267232 1270 dbSNP
rs1343660807 1278 dbSNP
rs557257115 1279 dbSNP
rs938588409 1282 dbSNP
rs1055776053 1284 dbSNP
rs1009954573 1285 dbSNP
rs1185571820 1299 dbSNP
rs368710890 1299 dbSNP
rs1389755999 1309 dbSNP
rs1161335824 1318 dbSNP
rs1431614843 1319 dbSNP
rs1392101689 1320 dbSNP
rs115271246 1321 dbSNP
rs1006700519 1327 dbSNP
rs971078063 1328 dbSNP
rs112216038 1329 dbSNP
rs1378787227 1330 dbSNP
rs1208570698 1332 dbSNP
rs1344986609 1333 dbSNP
rs1274703638 1337 dbSNP
rs926843888 1338 dbSNP
rs1339489347 1340 dbSNP
rs1436990730 1341 dbSNP
rs1233540637 1344 dbSNP
rs1330287216 1344 dbSNP
rs1030456890 1345 dbSNP
rs1321421610 1350 dbSNP
rs1411554787 1354 dbSNP
rs1371146538 1362 dbSNP
rs959588342 1366 dbSNP
rs1314294206 1372 dbSNP
rs1307366913 1374 dbSNP
rs1429145105 1378 dbSNP
rs1417474694 1379 dbSNP
rs1174519130 1381 dbSNP
rs748981881 1381 dbSNP
rs910015600 1388 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 55308.0
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 GSM714646. RNA binding protein: AGO2. Condition:mildMNase ...

- Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' aaGGUGACGAU---GUUGGAGGgucu 5'
            ||||||| |   | :|||||    
Target 5' gcCCACUGCAACCUCUGCCUCC---- 3'
7 - 28
Article - Kishore S; Jaskiewicz L; Burger L; Hausser et al.
- Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
Experimental Support 2 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' aaGGUGACGAU---GUUGGAGGGUCu 5'
            ||||||| |   | :|||||||| 
Target 5' gcCCACUGCAACCUCUGCCUCCCAG- 3'
7 - 31
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]
Experimental Support 3 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions Prostate Tissue
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 SRX1760628. RNA binding protein: AGO2. Condition:AGO-CLIP-LAPC4_B PAR-CLIP data was present in SRX1760631. RNA binding protein: AGO2. Condition:AGO-CLIP-22RV1_B PAR-CLIP data was present in SRX1760638. RNA binding protein: AGO2. Condition:AGO-CLIP-PC3-miR148 PAR-CLIP data was present in SRX1760630. RNA binding protein: AGO2. Condition:AGO-CLIP-22RV1_A ...

- Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al., 2016, Neoplasia (New York, N.Y.).

Article - Hamilton MP; Rajapakshe KI; Bader DA; Cerne et al.
- Neoplasia (New York, N.Y.), 2016
MicroRNA (miRNA) deregulation in prostate cancer (PCa) contributes to PCa initiation and metastatic progression. To comprehensively define the cancer-associated changes in miRNA targeting and function in commonly studied models of PCa, we performed photoactivatable ribonucleoside-enhanced cross-linking immunoprecipitation of the Argonaute protein in a panel of PCa cell lines modeling different stages of PCa progression. Using this comprehensive catalogue of miRNA targets, we analyzed miRNA targeting on known drivers of PCa and examined tissue-specific and stage-specific pathway targeting by miRNAs. We found that androgen receptor is the most frequently targeted PCa oncogene and that miR-148a targets the largest number of known PCa drivers. Globally, tissue-specific and stage-specific changes in miRNA targeting are driven by homeostatic response to active oncogenic pathways. Our findings indicate that, even in advanced PCa, the miRNA pool adapts to regulate continuing alterations in the cancer genome to balance oncogenic molecular changes. These findings are important because they are the first to globally characterize miRNA changes in PCa and demonstrate how the miRNA target spectrum responds to staged tumorigenesis.
LinkOut: [PMID: 27292025]
CLIP-seq Support 1 for dataset GSM714646
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / mildMNase, repA
Location of target site ENST00000302243.7 | 3UTR | AUCUCGGCCCACUGCAACCUCUGCCUCC
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 21572407 / GSE28865
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000302243.7 | 3UTR | AUCUCGGCCCACUGCAACCUCUGCCUCCCAG
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
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
HNSC -0.2 0.44 -0.500 0.33 3 Click to see details
167 hsa-miR-3192-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT058548 CTTNBP2NL CTTNBP2 N-terminal like 2 2
MIRT139892 BTF3L4 basic transcription factor 3 like 4 2 6
MIRT207395 MAT2A methionine adenosyltransferase 2A 2 6
MIRT294640 ZNF548 zinc finger protein 548 2 2
MIRT324251 GAPVD1 GTPase activating protein and VPS9 domains 1 2 2
MIRT441475 BEST3 bestrophin 3 2 2
MIRT445233 SRGAP2 SLIT-ROBO Rho GTPase activating protein 2 2 2
MIRT446763 ZNF491 zinc finger protein 491 2 2
MIRT451003 EPS15L1 epidermal growth factor receptor pathway substrate 15 like 1 2 2
MIRT452436 QDPR quinoid dihydropteridine reductase 2 2
MIRT452582 ZFP69B ZFP69 zinc finger protein B 2 2
MIRT452950 DISC1 disrupted in schizophrenia 1 2 2
MIRT453309 ZNF394 zinc finger protein 394 2 2
MIRT453810 KBTBD12 kelch repeat and BTB domain containing 12 2 2
MIRT454101 TMEM209 transmembrane protein 209 2 2
MIRT456228 LIX1L limb and CNS expressed 1 like 2 4
MIRT456738 TMEM239 transmembrane protein 239 2 2
MIRT456806 SIGLEC14 sialic acid binding Ig like lectin 14 2 4
MIRT457499 SLC35F6 solute carrier family 35 member F6 2 2
MIRT458037 MRPL12 mitochondrial ribosomal protein L12 2 2
MIRT459041 ZNF490 zinc finger protein 490 2 2
MIRT459135 FADS6 fatty acid desaturase 6 2 2
MIRT460126 CXCL16 C-X-C motif chemokine ligand 16 2 2
MIRT460506 FAM105A family with sequence similarity 105 member A 2 6
MIRT460944 NOA1 nitric oxide associated 1 2 4
MIRT461101 OPA3 OPA3, outer mitochondrial membrane lipid metabolism regulator 2 2
MIRT462641 PHF5A PHD finger protein 5A 2 2
MIRT463584 ZBTB38 zinc finger and BTB domain containing 38 2 2
MIRT466567 TBL1XR1 transducin beta like 1 X-linked receptor 1 2 2
MIRT467090 SRRD SRR1 domain containing 2 2
MIRT471093 PIK3C2B phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta 2 2
MIRT472596 NACC1 nucleus accumbens associated 1 2 2
MIRT473084 MORN4 MORN repeat containing 4 2 2
MIRT475977 GTPBP2 GTP binding protein 2 2 2
MIRT477054 FAM210A family with sequence similarity 210 member A 2 2
MIRT478303 DDX19A DEAD-box helicase 19A 2 4
MIRT478489 CYP20A1 cytochrome P450 family 20 subfamily A member 1 2 2
MIRT478500 CYP1B1 cytochrome P450 family 1 subfamily B member 1 2 2
MIRT478858 CRISPLD2 cysteine rich secretory protein LCCL domain containing 2 2 2
MIRT479096 CNNM4 cyclin and CBS domain divalent metal cation transport mediator 4 2 2
MIRT479180 CLSPN claspin 2 2
MIRT479215 CLCC1 chloride channel CLIC like 1 2 2
MIRT481176 AVL9 AVL9 cell migration associated 2 6
MIRT483032 KHSRP KH-type splicing regulatory protein 2 4
MIRT485150 RASL10B RAS like family 10 member B 2 2
MIRT486104 SLC7A5 solute carrier family 7 member 5 2 4
MIRT486319 SIPA1 signal-induced proliferation-associated 1 2 2
MIRT489443 IFNLR1 interferon lambda receptor 1 2 2
MIRT489585 SSBP2 single stranded DNA binding protein 2 2 2
MIRT489702 SCAMP4 secretory carrier membrane protein 4 2 2
MIRT490184 TMEM63C transmembrane protein 63C 2 2
MIRT491211 MLLT1 MLLT1, super elongation complex subunit 2 4
MIRT491276 DHX40 DEAH-box helicase 40 2 2
MIRT495162 CNGA2 cyclic nucleotide gated channel alpha 2 2 4
MIRT495222 DSCR3 DSCR3 arrestin fold containing 2 2
MIRT496820 CHRNB2 cholinergic receptor nicotinic beta 2 subunit 2 2
MIRT498602 KRT8 keratin 8 2 2
MIRT500003 HIST1H2BD histone cluster 1 H2B family member d 2 4
MIRT502065 KRAS KRAS proto-oncogene, GTPase 2 2
MIRT508197 SLC35E1 solute carrier family 35 member E1 2 2
MIRT508477 FAM71F2 family with sequence similarity 71 member F2 2 2
MIRT509635 RRP7A ribosomal RNA processing 7 homolog A 2 4
MIRT511039 NRF1 nuclear respiratory factor 1 2 2
MIRT516684 ZNF860 zinc finger protein 860 2 4
MIRT518394 ZNF250 zinc finger protein 250 2 2
MIRT518907 CDC14B cell division cycle 14B 2 2
MIRT520502 TRAM2 translocation associated membrane protein 2 2 6
MIRT521459 RAD51 RAD51 recombinase 2 2
MIRT522354 NCKIPSD NCK interacting protein with SH3 domain 2 4
MIRT522594 MAPK1IP1L mitogen-activated protein kinase 1 interacting protein 1 like 2 2
MIRT523267 HIST1H2AE histone cluster 1 H2A family member e 2 2
MIRT523532 GLUL glutamate-ammonia ligase 2 4
MIRT524186 DFFA DNA fragmentation factor subunit alpha 2 2
MIRT526842 PHC1 polyhomeotic homolog 1 2 2
MIRT528729 FAM26E calcium homeostasis modulator family member 5 2 2
MIRT540695 BMP3 bone morphogenetic protein 3 2 2
MIRT544483 TRIM4 tripartite motif containing 4 2 2
MIRT551566 LETM1 leucine zipper and EF-hand containing transmembrane protein 1 2 2
MIRT563619 ZNF277 zinc finger protein 277 2 2
MIRT564467 SLC35E2 solute carrier family 35 member E2 2 2
MIRT565031 VAV2 vav guanine nucleotide exchange factor 2 2 2
MIRT570294 ARPC3 actin related protein 2/3 complex subunit 3 2 2
MIRT572932 VDAC2 voltage dependent anion channel 2 2 2
MIRT573501 IQSEC3 IQ motif and Sec7 domain 3 2 2
MIRT573675 HES6 hes family bHLH transcription factor 6 2 2
MIRT609619 TRPC4AP transient receptor potential cation channel subfamily C member 4 associated protein 2 2
MIRT611966 PKD1 polycystin 1, transient receptor potential channel interacting 2 2
MIRT613930 HIVEP3 human immunodeficiency virus type I enhancer binding protein 3 2 2
MIRT617733 ATCAY ATCAY, caytaxin 2 4
MIRT618878 MBL2 mannose binding lectin 2 2 2
MIRT627590 SHROOM3 shroom family member 3 2 2
MIRT628516 ZNF878 zinc finger protein 878 2 2
MIRT633964 GRWD1 glutamate rich WD repeat containing 1 2 2
MIRT634530 NEGR1 neuronal growth regulator 1 2 2
MIRT635455 APOLD1 apolipoprotein L domain containing 1 2 2
MIRT636412 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 2
MIRT639672 PPEF2 protein phosphatase with EF-hand domain 2 2 6
MIRT642667 RGS6 regulator of G protein signaling 6 2 2
MIRT644080 A4GALT alpha 1,4-galactosyltransferase (P blood group) 2 2
MIRT647318 RPH3AL rabphilin 3A like (without C2 domains) 2 2
MIRT647942 RNF152 ring finger protein 152 2 2
MIRT648687 AP1M1 adaptor related protein complex 1 mu 1 subunit 2 2
MIRT648817 ZNF689 zinc finger protein 689 2 2
MIRT650347 TREM1 triggering receptor expressed on myeloid cells 1 2 2
MIRT650374 MOCS3 molybdenum cofactor synthesis 3 2 4
MIRT655935 NDUFA4P1 NDUFA4, mitochondrial complex associated pseudogene 1 2 2
MIRT663778 PEX26 peroxisomal biogenesis factor 26 2 2
MIRT664297 HINT1 histidine triad nucleotide binding protein 1 2 2
MIRT665842 TIAL1 TIA1 cytotoxic granule associated RNA binding protein like 1 2 2
MIRT668929 COL9A2 collagen type IX alpha 2 chain 2 2
MIRT669673 ACAP2 ArfGAP with coiled-coil, ankyrin repeat and PH domains 2 2 2
MIRT669907 KIAA0754 KIAA0754 2 4
MIRT670248 TRIM13 tripartite motif containing 13 2 2
MIRT670368 ULBP3 UL16 binding protein 3 2 4
MIRT670642 BVES blood vessel epicardial substance 2 2
MIRT670749 HOOK3 hook microtubule tethering protein 3 2 2
MIRT671184 ZNF891 zinc finger protein 891 2 2
MIRT673946 ZNF500 zinc finger protein 500 2 2
MIRT674682 PLCE1 phospholipase C epsilon 1 2 2
MIRT677912 HIST1H2BN histone cluster 1 H2B family member n 2 2
MIRT678876 FAM118A family with sequence similarity 118 member A 2 2
MIRT679528 RAB36 RAB36, member RAS oncogene family 2 2
MIRT680589 ZNF573 zinc finger protein 573 2 2
MIRT680650 KIAA1456 KIAA1456 2 2
MIRT681149 INTS7 integrator complex subunit 7 2 2
MIRT681177 IBA57 IBA57 homolog, iron-sulfur cluster assembly 2 2
MIRT681234 DUSP19 dual specificity phosphatase 19 2 2
MIRT681626 F2RL2 coagulation factor II thrombin receptor like 2 2 2
MIRT681643 SCRG1 stimulator of chondrogenesis 1 2 2
MIRT681926 KAT7 lysine acetyltransferase 7 2 2
MIRT682050 MRPS10 mitochondrial ribosomal protein S10 2 2
MIRT682156 SMS spermine synthase 2 2
MIRT683555 HAVCR1 hepatitis A virus cellular receptor 1 2 2
MIRT684304 TRUB2 TruB pseudouridine synthase family member 2 2 2
MIRT684458 MFSD4 major facilitator superfamily domain containing 4A 2 2
MIRT685986 CCDC77 coiled-coil domain containing 77 2 2
MIRT686782 AZF1 azoospermia factor 1 2 2
MIRT687329 OSMR oncostatin M receptor 2 2
MIRT687629 LRIG2 leucine rich repeats and immunoglobulin like domains 2 2 2
MIRT688792 CCNB1 cyclin B1 2 2
MIRT689756 PRR13 proline rich 13 2 2
MIRT690823 SGSM2 small G protein signaling modulator 2 2 2
MIRT691310 ZNF681 zinc finger protein 681 2 2
MIRT692676 ZMYM1 zinc finger MYM-type containing 1 2 2
MIRT693508 MOB3A MOB kinase activator 3A 2 2
MIRT694657 C14orf119 chromosome 14 open reading frame 119 2 2
MIRT694889 ZNF417 zinc finger protein 417 2 2
MIRT695740 ZNF117 zinc finger protein 117 2 2
MIRT697101 GPKOW G-patch domain and KOW motifs 2 2
MIRT698968 SPAST spastin 2 2
MIRT700379 RAB33B RAB33B, member RAS oncogene family 2 2
MIRT703930 EPG5 ectopic P-granules autophagy protein 5 homolog 2 2
MIRT706234 SYT15 synaptotagmin 15 2 2
MIRT706494 SEPT6 septin 6 2 2
MIRT710451 BTNL3 butyrophilin like 3 2 2
MIRT711684 ATF7IP activating transcription factor 7 interacting protein 2 2
MIRT711997 F9 coagulation factor IX 2 2
MIRT712727 NCAPG2 non-SMC condensin II complex subunit G2 2 2
MIRT713111 TMBIM4 transmembrane BAX inhibitor motif containing 4 2 2
MIRT713156 YWHAZ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein zeta 2 2
MIRT713440 AJAP1 adherens junctions associated protein 1 2 2
MIRT713830 NUP98 nucleoporin 98 2 2
MIRT714979 RAB21 RAB21, member RAS oncogene family 2 2
MIRT717411 ZCCHC24 zinc finger CCHC-type containing 24 2 2
MIRT718433 ZNF85 zinc finger protein 85 2 2
MIRT720575 SDHAF2 succinate dehydrogenase complex assembly factor 2 2 2
MIRT725098 TMEM120B transmembrane protein 120B 2 2
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-3192 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-3192 Dabrafenib 44462760 NSC764134 approved resistant cell line (A375)
hsa-mir-3192 Cisplatin 5460033 NSC119875 approved sensitive cell line (BxPC3)
hsa-miR-3192-5p Temozolomide 5394 NSC362856 approved sensitive cell line (U251)
hsa-miR-3192-5p Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-3192-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-3192-5p Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-3192-5p Platinum 23939 resistant tissue
hsa-miR-3192-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3192-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)
hsa-miR-3192-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)

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