miRTarBase - #MIRT483509


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pre-miRNA Information
pre-miRNA hsa-mir-5189   
Genomic Coordinates chr16: 88468918 - 88469031
Description Homo sapiens miR-5189 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-5189-5p
Sequence 26| UCUGGGCACAGGCGGAUGGACAGG |49
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1253186568 1 dbSNP
rs1157467955 6 dbSNP
rs1375543253 7 dbSNP
rs188172752 9 dbSNP
rs1214792828 10 dbSNP
rs990027849 13 dbSNP
rs913161946 14 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol C10orf76   
Synonyms -
Description chromosome 10 open reading frame 76
Transcript NM_024541   
Expression
Putative miRNA Targets on C10orf76
3'UTR of C10orf76
(miRNA target sites are highlighted)		 
>C10orf76|NM_024541|3'UTR
   1 GGCCACGCCTACCTGAGCAGCCTCTGACTGCCCTTACCCATGAGGATCATGGGCTGGAGGGGGAGCGAGGGGAGAGGGGG
  81 CTGCCCCCGAGGTTGGAGAGAAACACAGATACCAAGTTCTCTTGGTGAAGACCGCACTTCAATGGAGCTTGGGCAGCAGG
 161 GGCAGGAGGGTCAAGCCAGGGATAATCTTATTTGGGGAGGAATGGGTGGGCACAGTGGGGAGAGGCCTCCAGGAATGTGG
 241 GGACTTCCAGAGTGGGCTCCCTAAACAGCCCCTCACATTTCCAATCTTGAGGTTACAAGCTGTAGCTACTGACTAATTTT
 321 CGGGAGCTGGTGAGGCAAGCCTCAGGGTAATGCCAGCACCCTGAAAGTCAGTGGCTCTGCTCGGCTTCTGAAAACAGATC
 401 AACTCTCAGATATAGCTGGAGCTACATCCTGCTTCCTTTGGGCCTGGGGCTGTGCTTGGCTTGAAATCTGTGTCCCCTGC
 481 CTGCACTGGCACTTTGTCCAGTCATCGGGACCTTTGGCTCAGATTTAGGGTAAGATAGGAATAGGGTACCTTTTTCCTTT
 561 TTTTTCTGAGACGGAGTCTCACTCTGTCGCCCAGGCTGGAATGCAGTGGCGTGATCTCGGCTTTACTGCAGCCTCCGCTT
 641 CCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGAGCGTGTGCCACGCCCGGCTAATTTT
 721 TTGTATTTTTAGTAGAGATGGGGTTTCACCATGTTACCCAGGATGGTCTCAATATCCTGAGTTCATGATCCACCCACCTT
 801 GGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACACCCAGCCAGTTTTCCTATTTTCTGAATTCAGAATTGACT
 881 TCTCTGGGAAAACTGGAGATGAGAATCTGCCCAGTGCTCTGCTGTCCAGTCACCGCCTTTTGAATTTTAGTTTTGGCACC
 961 AGGAGTACCGTTAGCTTTCCCCTTCTTCTGGCCCATTTGACTCATCAGCACAATAGGGTCACCACCTTAACTTTTAATTT
1041 CTAATCTGCTTTACTGTCTTTAGGGTGTGTATGAAATAAACATTGACAGGCTTTCTGGAGCCCTCAAGGTGCCTACTTTG
1121 CTGGTTCCCTTTCCAGCAGCTCCCCCACCTCCCTTAGCCCCCCCTCCTCTGGCAGCCTCTCCTGCCTCTGCTGAGCTCCC
1201 CTCCACGTGTTCCACCCCCTTACCCTGCTGTTGTTTACATCCAACCTGCCTGAGAATTTCCTCTGGGGAGGAATCTATTC
1281 CTGTCATGGTCTAGTGCCTGGGAGGGAGAGAACTTTCTGGGGGTAGGGTGCCCTCCATCTGAAACAGGCCAGGTGAGCAT
1361 CATGCATAAGGCCTCCATTCTGTCCGCTCAGATTCTGGGTGGGGCCACAGGCAAATCTCCTGACTTATGGGGAGTTGGCT
1441 TGTGGTTCCTCCCTTGGATAGCCTCCATGGAACCACTATAGGCTTTCCCAACAGCTGCCTCTGAAATAGCTGCTGCTTCG
1521 AGATCCTCCCTTTTTAAAGCACTTTCTAAAGCCCTCAGGATGGCGGGAGCAAACAGCACTGGTATATTCTAGGAGTAAGT
1601 GCAGGAATTCAGCAGTGAGAGCATGTCTGGGACCACCTGGACTGCCATCCATTTAACCTCAAATCTCTTTGGGATACTCG
1681 CCCTCCCTGGGAACCAGAGTTCTGGCTCTAACATTGAGCAGCTATGCACTAGTTCCAGAGAAGCCACTAACAGGCTGCCA
1761 TGTGTAGATGTAGGTTCTTAAGAGATCACAGGCTGGGTCATCTGATCACTGGATGGATAGCTCAGCCTGGGGCATTTAGT
1841 GTTTTCCCTGGTGATAAATCCCCAAGGCAGCTGGATTTGGAGCTGGTGGCAAGTTGAAATTATTAAAAATTGATTTGTGT
1921 GGGACTGTC
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' ggACAGGUAGGCGGACACGGGUCu 5'
            ||   ||  |  | ||||||| 
Target 5' acTGGAGATGAGAATCTGCCCAGt 3'
 892 - 915 146.00 -15.70
2 
miRNA  3' ggACAGGUAGGCGGAC-----------ACGGGUCu 5'
            |||||  |:|||||           ||:|||| 
Target 5' tgTGTCC-CCTGCCTGCACTGGCACTTTGTCCAGt 3'
 469 - 502 141.00 -25.80
3 
miRNA  3' ggaCAGGUAGGCGGACA-CGGGUCu 5'
             |||  ||  :|||| |||||| 
Target 5' ggaGTC--TCACTCTGTCGCCCAGg 3'
 573 - 595 133.00 -21.50
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30520096 6 COSMIC
COSN28877454 7 COSMIC
COSN31517436 48 COSMIC
COSN18734809 54 COSMIC
COSN30120725 84 COSMIC
COSN31550912 89 COSMIC
COSN30507034 98 COSMIC
COSN31524722 119 COSMIC
COSN30181271 124 COSMIC
COSN13249332 134 COSMIC
COSN31494270 142 COSMIC
COSN28184095 185 COSMIC
COSN20077178 257 COSMIC
COSN28053687 557 COSMIC
COSN31960536 573 COSMIC
COSN6053367 784 COSMIC
COSN8525415 900 COSMIC
COSN28652346 1164 COSMIC
COSN26573343 1182 COSMIC
COSN31563781 1207 COSMIC
COSN29410851 1244 COSMIC
COSN25934732 1894 COSMIC
rs11596387 1163 GWAS
rs1044258 1571 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs776347760 1 dbSNP
rs775583819 4 dbSNP
rs1451157963 5 dbSNP
rs772693822 6 dbSNP
rs1422669853 10 dbSNP
rs1182836508 11 dbSNP
rs1459948065 13 dbSNP
rs1257783701 17 dbSNP
rs1210972338 19 dbSNP
rs1009058615 22 dbSNP
rs748678341 24 dbSNP
rs1359698076 28 dbSNP
rs779080153 30 dbSNP
rs1421492179 36 dbSNP
rs180752885 37 dbSNP
rs1315415849 38 dbSNP
rs1314832421 39 dbSNP
rs1451037272 40 dbSNP
rs368830505 47 dbSNP
rs1304050773 48 dbSNP
rs1466167458 50 dbSNP
rs1361186415 59 dbSNP
rs889879298 60 dbSNP
rs1049784909 66 dbSNP
rs546341902 67 dbSNP
rs1447132351 70 dbSNP
rs527805031 73 dbSNP
rs1217299400 76 dbSNP
rs535686101 81 dbSNP
rs572403139 84 dbSNP
rs1182841199 86 dbSNP
rs1387519660 87 dbSNP
rs562138098 88 dbSNP
rs535473245 89 dbSNP
rs1402531151 102 dbSNP
rs1272037129 107 dbSNP
rs926567830 108 dbSNP
rs117121775 115 dbSNP
rs1337275069 122 dbSNP
rs1347082599 133 dbSNP
rs1450164074 134 dbSNP
rs1275323776 140 dbSNP
rs940289170 142 dbSNP
rs913740128 149 dbSNP
rs1315781572 155 dbSNP
rs988885494 160 dbSNP
rs1245499439 163 dbSNP
rs556420517 174 dbSNP
rs1183301318 176 dbSNP
rs992341901 180 dbSNP
rs2028926 181 dbSNP
rs776813407 184 dbSNP
rs927053731 192 dbSNP
rs1407402105 193 dbSNP
rs1416471192 195 dbSNP
rs1403327958 196 dbSNP
rs770893631 202 dbSNP
rs968823290 213 dbSNP
rs1172545685 215 dbSNP
rs1177135339 223 dbSNP
rs570730125 233 dbSNP
rs1468040031 235 dbSNP
rs1468693285 239 dbSNP
rs1336017737 240 dbSNP
rs1426664789 250 dbSNP
rs1443979007 253 dbSNP
rs1277391457 254 dbSNP
rs1021298612 274 dbSNP
rs189111194 281 dbSNP
rs539520399 284 dbSNP
rs1265547807 286 dbSNP
rs979203994 296 dbSNP
rs1203458632 299 dbSNP
rs565597051 302 dbSNP
rs1439886017 309 dbSNP
rs1019459475 310 dbSNP
rs1008042551 311 dbSNP
rs547408113 315 dbSNP
rs1179430257 329 dbSNP
rs146126604 330 dbSNP
rs1201596150 347 dbSNP
rs1028400408 352 dbSNP
rs1279034917 358 dbSNP
rs561990434 360 dbSNP
rs898536373 370 dbSNP
rs1175582049 379 dbSNP
rs550083857 382 dbSNP
rs1326527482 383 dbSNP
rs1353494849 387 dbSNP
rs1270107016 390 dbSNP
rs1037054663 392 dbSNP
rs1229011600 394 dbSNP
rs1284594281 395 dbSNP
rs1344206040 397 dbSNP
rs1223481836 398 dbSNP
rs184595314 400 dbSNP
rs1026922186 403 dbSNP
rs1004594254 410 dbSNP
rs1450428492 413 dbSNP
rs1272563538 418 dbSNP
rs1490557579 439 dbSNP
rs1341512214 450 dbSNP
rs896769813 451 dbSNP
rs1266917904 464 dbSNP
rs777930619 468 dbSNP
rs1333903954 472 dbSNP
rs1185140415 475 dbSNP
rs1451107131 476 dbSNP
rs1391379938 483 dbSNP
rs1373572551 486 dbSNP
rs1476273393 491 dbSNP
rs192703785 495 dbSNP
rs1389193953 498 dbSNP
rs937620153 503 dbSNP
rs1406587106 506 dbSNP
rs1156491125 507 dbSNP
rs545980820 520 dbSNP
rs1473573324 521 dbSNP
rs938199095 523 dbSNP
rs1319631607 536 dbSNP
rs1237901605 537 dbSNP
rs926770347 539 dbSNP
rs748775720 542 dbSNP
rs11817154 549 dbSNP
rs1249758964 550 dbSNP
rs1209252350 566 dbSNP
rs947159647 570 dbSNP
rs1289849981 572 dbSNP
rs779235576 573 dbSNP
rs1205725689 577 dbSNP
rs914281109 588 dbSNP
rs755571874 589 dbSNP
rs1230297981 590 dbSNP
rs1357245790 591 dbSNP
rs1247230181 601 dbSNP
rs988507451 610 dbSNP
rs1382998719 611 dbSNP
rs988410067 618 dbSNP
rs115859246 619 dbSNP
rs1387801494 620 dbSNP
rs1380981381 623 dbSNP
rs1320452523 625 dbSNP
rs1321867034 628 dbSNP
rs912500775 630 dbSNP
rs1384070551 631 dbSNP
rs1454916910 632 dbSNP
rs1430610631 634 dbSNP
rs376839511 636 dbSNP
rs986673847 637 dbSNP
rs1348592092 639 dbSNP
rs1203367089 642 dbSNP
rs1406752635 643 dbSNP
rs1413987224 647 dbSNP
rs964649333 653 dbSNP
rs1240894724 654 dbSNP
rs749723391 660 dbSNP
rs1181939211 664 dbSNP
rs1442596661 664 dbSNP
rs780801352 665 dbSNP
rs987664388 668 dbSNP
rs995725331 674 dbSNP
rs1026474645 675 dbSNP
rs542238898 676 dbSNP
rs1392224923 682 dbSNP
rs574728173 686 dbSNP
rs1004241026 697 dbSNP
rs1240438942 698 dbSNP
rs1324108059 702 dbSNP
rs1205353425 703 dbSNP
rs896486606 706 dbSNP
rs1482786541 707 dbSNP
rs1452436701 708 dbSNP
rs556107330 710 dbSNP
rs1016391407 711 dbSNP
rs1001965702 712 dbSNP
rs1180761628 713 dbSNP
rs1056767473 716 dbSNP
rs1481683153 719 dbSNP
rs1174865517 722 dbSNP
rs1358999735 729 dbSNP
rs904834072 731 dbSNP
rs1244030533 738 dbSNP
rs11191129 742 dbSNP
rs949271953 758 dbSNP
rs577072961 759 dbSNP
rs905403513 762 dbSNP
rs1298795477 775 dbSNP
rs763783820 782 dbSNP
rs558732208 785 dbSNP
rs946844372 795 dbSNP
rs1346102120 798 dbSNP
rs374532540 802 dbSNP
rs1225312293 804 dbSNP
rs1299073619 808 dbSNP
rs1311460744 817 dbSNP
rs1360423255 824 dbSNP
rs1252718356 827 dbSNP
rs755822797 828 dbSNP
rs556471830 829 dbSNP
rs1365634387 838 dbSNP
rs1269026959 840 dbSNP
rs534119742 841 dbSNP
rs1197962244 845 dbSNP
rs187169746 847 dbSNP
rs1429484478 851 dbSNP
rs1172914810 856 dbSNP
rs547153706 858 dbSNP
rs943475428 874 dbSNP
rs1303949226 882 dbSNP
rs1367579507 888 dbSNP
rs759567453 891 dbSNP
rs1427850296 907 dbSNP
rs953984609 909 dbSNP
rs1417248112 921 dbSNP
rs910540284 931 dbSNP
rs1193010528 933 dbSNP
rs1339768357 934 dbSNP
rs1227279721 935 dbSNP
rs1478426502 938 dbSNP
rs1268232410 954 dbSNP
rs987467009 955 dbSNP
rs535466202 958 dbSNP
rs954981341 962 dbSNP
rs921151685 969 dbSNP
rs1220628893 970 dbSNP
rs1486451432 978 dbSNP
rs919462747 981 dbSNP
rs1484153732 984 dbSNP
rs1275818376 988 dbSNP
rs1204185369 989 dbSNP
rs973963572 992 dbSNP
rs962844101 1007 dbSNP
rs370992254 1013 dbSNP
rs138491317 1017 dbSNP
rs568078503 1032 dbSNP
rs1345666204 1035 dbSNP
rs963849833 1038 dbSNP
rs1016457405 1046 dbSNP
rs1431443539 1056 dbSNP
rs1001933097 1061 dbSNP
rs867021663 1063 dbSNP
rs1282075038 1065 dbSNP
rs1434086932 1074 dbSNP
rs1035020648 1080 dbSNP
rs969157541 1082 dbSNP
rs1002181656 1091 dbSNP
rs1402732328 1091 dbSNP
rs1226139356 1094 dbSNP
rs1316949338 1100 dbSNP
rs566552131 1106 dbSNP
rs1266764810 1108 dbSNP
rs549751586 1120 dbSNP
rs1013299411 1125 dbSNP
rs905455642 1139 dbSNP
rs184192674 1143 dbSNP
rs1245229020 1144 dbSNP
rs564364402 1146 dbSNP
rs1437851804 1147 dbSNP
rs577101045 1148 dbSNP
rs552395718 1155 dbSNP
rs892622666 1159 dbSNP
rs1039540956 1162 dbSNP
rs11596387 1163 dbSNP
rs200140541 1164 dbSNP
rs1197293035 1165 dbSNP
rs1373499595 1165 dbSNP
rs890853733 1167 dbSNP
rs1473698229 1170 dbSNP
rs1252763540 1173 dbSNP
rs1177011631 1180 dbSNP
rs1329025459 1180 dbSNP
rs1204746677 1181 dbSNP
rs1265432357 1185 dbSNP
rs933282341 1198 dbSNP
rs1479885187 1201 dbSNP
rs1233665561 1205 dbSNP
rs541977205 1206 dbSNP
rs534284299 1207 dbSNP
rs1472199093 1214 dbSNP
rs1211511156 1215 dbSNP
rs530108865 1217 dbSNP
rs562544380 1218 dbSNP
rs972699133 1219 dbSNP
rs1333170152 1223 dbSNP
rs1354697140 1244 dbSNP
rs1443770740 1246 dbSNP
rs1323378203 1261 dbSNP
rs963682647 1265 dbSNP
rs544156342 1273 dbSNP
rs974394396 1275 dbSNP
rs1221107920 1277 dbSNP
rs980972884 1286 dbSNP
rs41300229 1298 dbSNP
rs1273986804 1317 dbSNP
rs1024692940 1325 dbSNP
rs1439723920 1337 dbSNP
rs908378949 1337 dbSNP
rs1307321360 1355 dbSNP
rs982573436 1359 dbSNP
rs960798086 1364 dbSNP
rs555393748 1366 dbSNP
rs980794495 1371 dbSNP
rs773434382 1382 dbSNP
rs1419829963 1383 dbSNP
rs558819000 1385 dbSNP
rs1166308344 1386 dbSNP
rs969773534 1387 dbSNP
rs751604273 1389 dbSNP
rs1369468319 1401 dbSNP
rs558419970 1403 dbSNP
rs1305496440 1406 dbSNP
rs1329800654 1408 dbSNP
rs903814049 1418 dbSNP
rs764099023 1420 dbSNP
rs1039508480 1422 dbSNP
rs1226523366 1425 dbSNP
rs1022583042 1428 dbSNP
rs763162865 1439 dbSNP
rs540849400 1445 dbSNP
rs1224724609 1449 dbSNP
rs1405180270 1451 dbSNP
rs1174409009 1452 dbSNP
rs1269403967 1457 dbSNP
rs890965515 1460 dbSNP
rs772338251 1461 dbSNP
rs1242538748 1462 dbSNP
rs1051767905 1467 dbSNP
rs573340738 1468 dbSNP
rs192097057 1471 dbSNP
rs1166403984 1474 dbSNP
rs1389102965 1478 dbSNP
rs1158736822 1484 dbSNP
rs890905827 1488 dbSNP
rs116613223 1489 dbSNP
rs748364694 1491 dbSNP
rs932358534 1499 dbSNP
rs774735131 1500 dbSNP
rs1038005397 1501 dbSNP
rs1319526934 1506 dbSNP
rs1258717398 1507 dbSNP
rs1036391995 1519 dbSNP
rs1461284740 1522 dbSNP
rs942270618 1532 dbSNP
rs909505603 1535 dbSNP
rs1241780386 1539 dbSNP
rs981023929 1546 dbSNP
rs1263800578 1560 dbSNP
rs376115037 1564 dbSNP
rs1209226503 1565 dbSNP
rs1330652669 1570 dbSNP
rs1044258 1571 dbSNP
rs1466094332 1572 dbSNP
rs956506542 1577 dbSNP
rs982624277 1579 dbSNP
rs939153025 1580 dbSNP
rs187624237 1581 dbSNP
rs1366252527 1586 dbSNP
rs979160167 1588 dbSNP
rs1159720561 1595 dbSNP
rs967689804 1598 dbSNP
rs537839119 1599 dbSNP
rs1246387838 1618 dbSNP
rs969447737 1629 dbSNP
rs74581714 1634 dbSNP
rs1407263286 1636 dbSNP
rs890933773 1651 dbSNP
rs546349421 1671 dbSNP
rs989475983 1679 dbSNP
rs957191869 1680 dbSNP
rs549704524 1685 dbSNP
rs1044260 1688 dbSNP
rs1331075650 1689 dbSNP
rs1206622223 1693 dbSNP
rs1267302513 1695 dbSNP
rs1172548922 1696 dbSNP
rs1009045426 1702 dbSNP
rs1422732708 1718 dbSNP
rs1181828124 1722 dbSNP
rs1414865730 1723 dbSNP
rs954873980 1724 dbSNP
rs1029402130 1735 dbSNP
rs996560891 1739 dbSNP
rs1376835338 1740 dbSNP
rs756807969 1742 dbSNP
rs1430503767 1754 dbSNP
rs552175160 1760 dbSNP
rs1370373525 1761 dbSNP
rs527548332 1762 dbSNP
rs899540853 1764 dbSNP
rs887787673 1772 dbSNP
rs1348671682 1774 dbSNP
rs1226546036 1790 dbSNP
rs1287630902 1792 dbSNP
rs1038462226 1798 dbSNP
rs1045314440 1807 dbSNP
rs1253895765 1816 dbSNP
rs1482695155 1817 dbSNP
rs948304391 1831 dbSNP
rs1164631348 1835 dbSNP
rs533291444 1839 dbSNP
rs1481779343 1846 dbSNP
rs1182176779 1848 dbSNP
rs41291492 1859 dbSNP
rs1191129610 1860 dbSNP
rs758169024 1861 dbSNP
rs1046994340 1863 dbSNP
rs1174341968 1864 dbSNP
rs550 1867 dbSNP
rs1462720812 1884 dbSNP
rs1170692430 1888 dbSNP
rs760936414 1889 dbSNP
rs1261840979 1890 dbSNP
rs1307345774 1903 dbSNP
rs927772618 1911 dbSNP
rs539496912 1919 dbSNP
rs1203972873 1926 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 GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl 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' ggacagguaggcggACACGGGUCu 5'
                        | ||||||| 
Target 5' --------------UCUGCCCAGu 3'
 		1 - 10
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 GSM1462573
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl BaL
Location of target site ENST00000370033.4 | 3UTR | UCUGCCCAGUGCUCUGCU
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
177 hsa-miR-5189-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT142280 DCTN5 dynactin subunit 5 2 4
MIRT455613 SRSF3 serine and arginine rich splicing factor 3 2 2
MIRT458687 MRI1 methylthioribose-1-phosphate isomerase 1 2 2
MIRT470847 PLXND1 plexin D1 2 2
MIRT471838 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT475228 IKZF3 IKAROS family zinc finger 3 2 4
MIRT480294 C7orf73 short transmembrane mitochondrial protein 1 2 4
MIRT483509 C10orf76 chromosome 10 open reading frame 76 2 2
MIRT484952 ZBTB34 zinc finger and BTB domain containing 34 2 6
MIRT489295 B4GALNT4 beta-1,4-N-acetyl-galactosaminyltransferase 4 2 4
MIRT490801 PSMD3 proteasome 26S subunit, non-ATPase 3 2 2
MIRT493375 KIAA1614 KIAA1614 2 2
MIRT496408 PARVB parvin beta 2 2
MIRT497267 GRK6 G protein-coupled receptor kinase 6 2 2
MIRT497679 SYNGR1 synaptogyrin 1 2 2
MIRT498222 TLN2 talin 2 2 2
MIRT498313 BCL11B B-cell CLL/lymphoma 11B 2 2
MIRT504049 TOMM5 translocase of outer mitochondrial membrane 5 2 2
MIRT516313 F8A2 coagulation factor VIII associated 2 2 2
MIRT516339 F8A3 coagulation factor VIII associated 3 2 2
MIRT517813 UGDH UDP-glucose 6-dehydrogenase 2 6
MIRT518743 C1orf35 chromosome 1 open reading frame 35 2 2
MIRT519295 MLH1 mutL homolog 1 2 2
MIRT520387 UBB ubiquitin B 2 4
MIRT525228 DPY19L3 dpy-19 like C-mannosyltransferase 3 2 2
MIRT533147 WNT10A Wnt family member 10A 2 2
MIRT533544 TPR translocated promoter region, nuclear basket protein 2 2
MIRT533684 TMEM86A transmembrane protein 86A 2 2
MIRT534544 RUNX1 runt related transcription factor 1 2 2
MIRT539592 SSH2 slingshot protein phosphatase 2 2 2
MIRT539676 ZBTB44 zinc finger and BTB domain containing 44 2 2
MIRT539710 EIF3H eukaryotic translation initiation factor 3 subunit H 2 2
MIRT539730 DNAH10OS dynein axonemal heavy chain 10 opposite strand 2 2
MIRT539755 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT539787 EMC1 ER membrane protein complex subunit 1 2 4
MIRT539812 GAPVD1 GTPase activating protein and VPS9 domains 1 2 2
MIRT539995 SLC24A4 solute carrier family 24 member 4 2 2
MIRT540073 SSH3 slingshot protein phosphatase 3 2 2
MIRT540092 NPY4R neuropeptide Y receptor Y4 2 2
MIRT540428 FAM83F family with sequence similarity 83 member F 2 2
MIRT540512 CXCL10 C-X-C motif chemokine ligand 10 2 2
MIRT540531 ZNF417 zinc finger protein 417 2 2
MIRT540622 F2RL2 coagulation factor II thrombin receptor like 2 2 2
MIRT540909 PON1 paraoxonase 1 2 2
MIRT540990 ZNF460 zinc finger protein 460 2 4
MIRT541513 TOR1AIP1 torsin 1A interacting protein 1 2 2
MIRT541633 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT541665 ATP8B3 ATPase phospholipid transporting 8B3 2 2
MIRT541738 ZC3HAV1 zinc finger CCCH-type containing, antiviral 1 2 2
MIRT541813 SMU1 DNA replication regulator and spliceosomal factor 2 2
MIRT541904 VWA7 von Willebrand factor A domain containing 7 2 2
MIRT542004 XRCC2 X-ray repair cross complementing 2 2 2
MIRT542020 PEX2 peroxisomal biogenesis factor 2 2 2
MIRT542187 FUT1 fucosyltransferase 1 (H blood group) 2 6
MIRT542204 C14orf142 GON7, KEOPS complex subunit homolog 2 2
MIRT542337 LIMD1 LIM domains containing 1 2 2
MIRT542426 ZNF331 zinc finger protein 331 2 2
MIRT542459 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT542494 WDR13 WD repeat domain 13 2 2
MIRT542552 MRPS10 mitochondrial ribosomal protein S10 2 2
MIRT542699 RPS15A ribosomal protein S15a 2 2
MIRT542819 PDE12 phosphodiesterase 12 2 2
MIRT552108 PPP1R1A protein phosphatase 1 regulatory inhibitor subunit 1A 2 2
MIRT555606 PIK3R1 phosphoinositide-3-kinase regulatory subunit 1 2 2
MIRT564916 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 2
MIRT568609 ACVR2A activin A receptor type 2A 2 2
MIRT608702 GMPR guanosine monophosphate reductase 2 2
MIRT610061 MYBPC1 myosin binding protein C, slow type 2 2
MIRT610794 KLK2 kallikrein related peptidase 2 2 2
MIRT617179 GOSR2 golgi SNAP receptor complex member 2 2 2
MIRT620581 WBSCR27 methyltransferase like 27 2 4
MIRT623348 MAGI3 membrane associated guanylate kinase, WW and PDZ domain containing 3 2 2
MIRT623873 FUS FUS RNA binding protein 2 2
MIRT625418 IMP4 IMP4, U3 small nucleolar ribonucleoprotein 2 2
MIRT630227 SORD sorbitol dehydrogenase 2 2
MIRT631870 BBS5 Bardet-Biedl syndrome 5 2 2
MIRT631905 VEGFC vascular endothelial growth factor C 2 2
MIRT632005 POPDC2 popeye domain containing 2 2 2
MIRT632876 GOSR1 golgi SNAP receptor complex member 1 2 2
MIRT633313 LINC00346 long intergenic non-protein coding RNA 346 2 2
MIRT633989 SLC35E2 solute carrier family 35 member E2 2 2
MIRT635248 ELOVL6 ELOVL fatty acid elongase 6 2 2
MIRT635258 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT635280 GK5 glycerol kinase 5 (putative) 2 2
MIRT635862 SLC11A2 solute carrier family 11 member 2 2 2
MIRT636624 CHAF1B chromatin assembly factor 1 subunit B 2 4
MIRT637085 SELPLG selectin P ligand 2 2
MIRT639025 AAK1 AP2 associated kinase 1 2 2
MIRT640876 ENTPD1 ectonucleoside triphosphate diphosphohydrolase 1 2 2
MIRT641928 SLC25A16 solute carrier family 25 member 16 2 2
MIRT642173 HEBP2 heme binding protein 2 2 2
MIRT642251 PAK4 p21 (RAC1) activated kinase 4 2 2
MIRT642854 RNF135 ring finger protein 135 2 2
MIRT643240 PRSS21 protease, serine 21 2 2
MIRT643375 TRIM16L tripartite motif containing 16 like 2 2
MIRT646931 MCCC2 methylcrotonoyl-CoA carboxylase 2 2 2
MIRT647803 FRMD8 FERM domain containing 8 2 2
MIRT650517 UFM1 ubiquitin fold modifier 1 2 2
MIRT651618 WASF3 WAS protein family member 3 2 2
MIRT655588 OTUD7B OTU deubiquitinase 7B 2 2
MIRT657652 GPR75 G protein-coupled receptor 75 2 2
MIRT657835 GJD3 gap junction protein delta 3 2 2
MIRT658357 FAM65B RHO family interacting cell polarization regulator 2 2 2
MIRT661173 S1PR2 sphingosine-1-phosphate receptor 2 2 2
MIRT661332 TBC1D15 TBC1 domain family member 15 2 2
MIRT662003 ZNF445 zinc finger protein 445 2 2
MIRT662194 MEI1 meiotic double-stranded break formation protein 1 2 2
MIRT663473 POFUT2 protein O-fucosyltransferase 2 2 2
MIRT663958 ZNF554 zinc finger protein 554 2 2
MIRT665907 TBCCD1 TBCC domain containing 1 2 2
MIRT666029 STRN3 striatin 3 2 2
MIRT666496 SBNO1 strawberry notch homolog 1 2 2
MIRT667290 MYPN myopalladin 2 4
MIRT668020 HAUS3 HAUS augmin like complex subunit 3 2 2
MIRT670087 ABCF3 ATP binding cassette subfamily F member 3 2 4
MIRT670598 LLGL1 LLGL1, scribble cell polarity complex component 2 4
MIRT670689 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 2
MIRT670848 SFT2D2 SFT2 domain containing 2 2 2
MIRT670981 MED17 mediator complex subunit 17 2 2
MIRT672621 IGF2R insulin like growth factor 2 receptor 2 2
MIRT673223 KLHDC8A kelch domain containing 8A 2 2
MIRT674265 ZNF284 zinc finger protein 284 2 2
MIRT675631 HACE1 HECT domain and ankyrin repeat containing E3 ubiquitin protein ligase 1 2 2
MIRT675806 MED28 mediator complex subunit 28 2 2
MIRT676337 PCCB propionyl-CoA carboxylase beta subunit 2 2
MIRT681724 KCNE4 potassium voltage-gated channel subfamily E regulatory subunit 4 2 2
MIRT682844 DNAJC28 DnaJ heat shock protein family (Hsp40) member C28 2 2
MIRT682913 FAM73A mitoguardin 1 2 2
MIRT682932 ZNF292 zinc finger protein 292 2 2
MIRT682950 RPL12 ribosomal protein L12 2 2
MIRT683030 SUSD5 sushi domain containing 5 2 2
MIRT684387 MCTS1 MCTS1, re-initiation and release factor 2 2
MIRT684687 OR7D2 olfactory receptor family 7 subfamily D member 2 2 2
MIRT687202 PLXNA3 plexin A3 2 2
MIRT689145 IRAK1BP1 interleukin 1 receptor associated kinase 1 binding protein 1 2 2
MIRT689632 NAA30 N(alpha)-acetyltransferase 30, NatC catalytic subunit 2 2
MIRT690598 C17orf105 chromosome 17 open reading frame 105 2 2
MIRT690802 FAHD1 fumarylacetoacetate hydrolase domain containing 1 2 2
MIRT690943 GLG1 golgi glycoprotein 1 2 2
MIRT691850 OSCAR osteoclast associated, immunoglobulin-like receptor 2 2
MIRT693615 CENPL centromere protein L 2 2
MIRT693757 ZNF383 zinc finger protein 383 2 2
MIRT694014 PPIL4 peptidylprolyl isomerase like 4 2 2
MIRT694594 AAR2 AAR2 splicing factor homolog 2 2
MIRT694983 PLAC8 placenta specific 8 2 2
MIRT695016 MRPS21 mitochondrial ribosomal protein S21 2 2
MIRT696414 DOCK7 dedicator of cytokinesis 7 2 2
MIRT697803 UBXN2A UBX domain protein 2A 2 2
MIRT697941 TVP23C trans-golgi network vesicle protein 23 homolog C 2 2
MIRT698775 STK4 serine/threonine kinase 4 2 2
MIRT699532 SIX4 SIX homeobox 4 2 2
MIRT701073 PARD6B par-6 family cell polarity regulator beta 2 2
MIRT702610 ITPRIPL2 inositol 1,4,5-trisphosphate receptor interacting protein like 2 2 2
MIRT702688 IRGQ immunity related GTPase Q 2 2
MIRT702931 HMX3 H6 family homeobox 3 2 2
MIRT703721 FAM127A retrotransposon Gag like 8C 2 2
MIRT704296 DDX19B DEAD-box helicase 19B 2 2
MIRT704332 DCTN6 dynactin subunit 6 2 2
MIRT706758 KIAA0907 KIAA0907 2 2
MIRT708483 OLR1 oxidized low density lipoprotein receptor 1 2 2
MIRT710773 PHF7 PHD finger protein 7 2 2
MIRT712484 FSTL3 follistatin like 3 2 2
MIRT712784 ZNF154 zinc finger protein 154 2 2
MIRT714507 SHE Src homology 2 domain containing E 2 2
MIRT714771 TERF1 telomeric repeat binding factor 1 2 2
MIRT715263 RNF125 ring finger protein 125 2 2
MIRT716447 TMPRSS11BNL TMPRSS11B N-terminal like, pseudogene 2 2
MIRT718198 PSMF1 proteasome inhibitor subunit 1 2 2
MIRT720001 SNRPD3 small nuclear ribonucleoprotein D3 polypeptide 2 2
MIRT720394 ZNF549 zinc finger protein 549 2 2
MIRT720597 TTC39C tetratricopeptide repeat domain 39C 2 2
MIRT721231 CRCP CGRP receptor component 2 2
MIRT721261 SH3D19 SH3 domain containing 19 2 2
MIRT721802 GRM1 glutamate metabotropic receptor 1 2 2
MIRT722573 C1orf95 stum, mechanosensory transduction mediator homolog 2 2
MIRT722842 C17orf102 chromosome 17 open reading frame 102 2 2
MIRT722909 COA4 cytochrome c oxidase assembly factor 4 homolog 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-5189-5p Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-5189-5p Dabrafenib 44462760 NSC764134 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-5189-5p Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-5189-5p Ceritinib 57379345 NSC776422 approved sensitive High Non-Small Cell Lung Cancer cell line (H3122, H2228)
hsa-miR-5189-5p Osimertinib 71496458 NSC779217 approved resistant Low Non-Small Cell Lung Cancer tissue
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved resistant High Ovarian Cancer cell line (A2780)
hsa-miR-5189-5p Vemurafenib 42611257 NSC761431 approved resistant cell line (451Lu)
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved sensitive cell line
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-5189-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-5189-5p Doxorubicin 31703 NSC123127 approved resistant cell line (HS578T)
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved resistant cell line (CP20)
hsa-miR-5189-5p Osimertinib 71496458 NSC779217 approved resistant cell line (H1975)
hsa-miR-5189-5p Paclitaxel 36314 NSC125973 approved resistant cell line (A2780)
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-5189-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (MGC-803)
hsa-miR-5189-5p Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (1500 ng/ml)

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