miRTarBase - #MIRT451704


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pre-miRNA Information
pre-miRNA hsa-mir-4739   
Genomic Coordinates chr17: 79707176 - 79707249
Description Homo sapiens miR-4739 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4739
Sequence 10| AAGGGAGGAGGAGCGGAGGGGCCCU |34
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1416844919 3 dbSNP
rs1313792237 5 dbSNP
rs1350222948 10 dbSNP
rs1440530436 13 dbSNP
rs73410309 14 dbSNP
rs1223789593 15 dbSNP
rs1279007964 18 dbSNP
rs1345189697 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol C1RL   
Synonyms C1RL1, C1RLP, C1r-LP, CLSPa
Description complement C1r subcomponent like
Transcript NM_016546   
Expression
Putative miRNA Targets on C1RL
3'UTR of C1RL
(miRNA target sites are highlighted)		 
>C1RL|NM_016546|3'UTR
   1 CCCTGGGGGCTTGAACAGGGACTGACCAGCACAGTGGAGGCCCCAGGCAACAGAGGGCCTGGAGTGAGGACTGAACACTG
  81 GGGTAGGGGTTGGGGGTGGGGGGTTGGGGGAGGCAGGGAAATCCTATTCACATCACTGTTGCACCAAGCCACTGCAAGAG
 161 AAACCCCCACCCGGCAAGCCCGCCCCATCCCAGACAGGAAGCAGAGTCCCACAGACCGCTCCTCCTCACCCTCTACCTCC
 241 CTGTGCTCATGCACTAGGCCCCGGGAAGCCTGTACATCTCAACAACTTTCGCCTTGAATGTCCTTAGAACCGCCTTCCCC
 321 TACTTCATCTGTTGACACAGCTTTTATACTCACCTGTGGAAGAGTCAGCTACTCACCCGCTATTAGAGTATGGAGGAAGG
 401 GGTTTTCATTGCATTGCATTTCTGAAACATTCCTAAGACCCTTTAGTTGACCTTCAAATATTCAAGCTATTCTGCAGCTC
 481 CAAGATGCAATTATAGAAACAGCTCCTTTTTTATTTTATGTCCTCTATATGCCAGGTGCTTCACCTGTTATTTCACTTAA
 561 TCCTCATACCATATTTGCAAAGGATGTGTTATTATCTATGTGTGACAAATGAGGAAACTGAGGCTCAGGGGATAAAGGGA
 641 CTTGCCCAAGTCCCACAGCTGGTGTGTGACTGCAGAGACTGTGCTCTTCCCAGTGTGCTGCAATACTTCTCAACCCTCCT
 721 CTAACCTGCTGTGTCACCCGCTTTCCCTCCCAGCCCCCACATCCTTACCATTTTCCCTCCCTGGGAATTCCTGCTTCTGC
 801 GAAAATGGTATCCTCTAGCTCACACTTTCCTAATGGCCCCATCTCCTGCAGAAGCCAGGTGAGCCCAGCACTGGACTGAA
 881 GTTCTTGCAGACACCCCACCTGTGCCCCTATCATCAGGGGAACTGCTCCACCTGAGAGGACCAACTCTTTAATTTTTAGT
 961 AAAACCTGGAGGTGATGGGCCGGGCGCAGTGGCTCACGCCTGTAATCCCAACACCTTAGGAGTCCGAGGTGGGTGGATCA
1041 CGAGGTCAGGAGATCCAGCCCATCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCGGGCGT
1121 GGTGACACGTGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGGGAGGCGGAGGTTGCAG
1201 TGAGCTAAGATCACGCCACTGCACTCCAGCCTGCGGACAGACCAAGACTTCATCCCCCCCAAAAAAAAAAGATTGGAGGT
1281 GATTTACAGTGAAAGACACAAATAAAATACAACTGTTCAATGGAAATAGAAAATAAACACCATAAAAGAGAGAAGAGAGG
1361 TAATTTGTTAGCATCAAGAGTCAAGTTGCTATATGGTCAAAGGTTAAATTTATCTCTAAAAAATGGCAGGATTCAAAGTT
1441 GTACATACATGTGATTACTTCTGTTTTTTACACCCACATACAGTACAAAAGATTATTAAAAATATTCCCAAAAGGCAGGT
1521 GCAATGATGCACACTTATACCCCCAGCCACTCAGGAGGCTGATGCAAGAGGATCGCTTGAGCCCAGGAGTTGAAGTCCAG
1601 CCTAAGCAACATAGTGAAACCCCATCGCCAAAAATATAATAATAATTCTCTCAAAATACTAAACAGAGGTGGTTTTATTG
1681 ATAAGATTTTGGCTGTTTGGTTTTCCACTATTCTCTATTGGCTAAAATTTGTTTAATGAGCATGAAATGTTTTTATTTTA
1761 TTTTGCTTATTTTTATGATTGCAAAAAATGATATGAGTTTCTCCCTGCCAAGGCAAAAAAATATATATATACCTATATTT
1841 A
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' ucccGGGGAG-GCGAGGAGGAGGGAa 5'
              |:|||| | |||: ||||||| 
Target 5' gctcCTCCTCACCCTCTACCTCCCTg 3'
 218 - 243 173.00 -29.10
2 
miRNA  3' ucccGGGGAGGCGAGGAGGAGGGAa 5'
              ||:: || :|:: ||||||| 
Target 5' acatCCTTACCATTTTCCCTCCCTg 3'
 759 - 783 161.00 -22.00
3 
miRNA  3' uccCGGGGAGGCGAGGAGGAGGGaa 5'
             |:| | |||||:: ||||||  
Target 5' tgtGTCAC-CCGCTTTCCCTCCCag 3'
 730 - 753 149.00 -24.00
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30456622 2 COSMIC
COSN31612974 6 COSMIC
COSN26968569 8 COSMIC
COSN30513739 20 COSMIC
COSN31487384 24 COSMIC
COSN30534077 34 COSMIC
COSN31512246 37 COSMIC
COSN30460830 56 COSMIC
COSN30539119 105 COSMIC
COSN28252559 200 COSMIC
COSN19255234 598 COSMIC
COSN22320568 686 COSMIC
COSN20989621 812 COSMIC
COSN20986303 821 COSMIC
COSN1583575 948 COSMIC
COSN15744527 1055 COSMIC
COSN18714798 1260 COSMIC
COSN14484159 1280 COSMIC
COSN1583569 1347 COSMIC
COSN7379602 1350 COSMIC
COSN22812018 1354 COSMIC
COSN20109138 1820 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs372188483 6 dbSNP
rs1171906765 9 dbSNP
rs1441589664 17 dbSNP
rs760369254 19 dbSNP
rs752427018 20 dbSNP
rs367870362 22 dbSNP
rs759423175 25 dbSNP
rs774306428 31 dbSNP
rs1427608148 35 dbSNP
rs1483180167 36 dbSNP
rs1278782960 38 dbSNP
rs1208154210 41 dbSNP
rs746149953 42 dbSNP
rs1309606708 44 dbSNP
rs1237808231 46 dbSNP
rs763143316 48 dbSNP
rs1314550401 51 dbSNP
rs1030120386 55 dbSNP
rs1489567296 61 dbSNP
rs1194320294 62 dbSNP
rs772661618 64 dbSNP
rs377513968 81 dbSNP
rs1332152342 84 dbSNP
rs1292149328 85 dbSNP
rs1244791046 90 dbSNP
rs1342259936 91 dbSNP
rs1316113547 92 dbSNP
rs1442715467 94 dbSNP
rs1162618850 97 dbSNP
rs909219343 97 dbSNP
rs757652658 98 dbSNP
rs1459076161 101 dbSNP
rs1296067354 102 dbSNP
rs1389065228 103 dbSNP
rs1322255667 105 dbSNP
rs1459046103 106 dbSNP
rs1256092571 111 dbSNP
rs1381141910 111 dbSNP
rs1245932088 126 dbSNP
rs61917912 131 dbSNP
rs1017216041 134 dbSNP
rs1005741086 139 dbSNP
rs1225749837 156 dbSNP
rs1055243813 164 dbSNP
rs1162744570 171 dbSNP
rs868745613 172 dbSNP
rs768856368 173 dbSNP
rs1459891809 179 dbSNP
rs906358196 181 dbSNP
rs1464808650 182 dbSNP
rs1044536855 196 dbSNP
rs913266817 212 dbSNP
rs1172147055 217 dbSNP
rs3782926 218 dbSNP
rs1054477395 228 dbSNP
rs766090315 232 dbSNP
rs1380876012 233 dbSNP
rs3782927 234 dbSNP
rs202048938 237 dbSNP
rs985938796 242 dbSNP
rs955575986 245 dbSNP
rs1053259380 250 dbSNP
rs1261282349 254 dbSNP
rs934358860 260 dbSNP
rs925589757 262 dbSNP
rs1210958815 263 dbSNP
rs1256507566 265 dbSNP
rs771284405 267 dbSNP
rs765311771 271 dbSNP
rs1184496638 276 dbSNP
rs536650692 283 dbSNP
rs189182992 287 dbSNP
rs868065576 290 dbSNP
rs1268387853 291 dbSNP
rs1477916846 293 dbSNP
rs1195374805 296 dbSNP
rs780800989 311 dbSNP
rs3782928 312 dbSNP
rs954504574 330 dbSNP
rs1176229109 336 dbSNP
rs961618115 346 dbSNP
rs1452269616 349 dbSNP
rs1365781355 352 dbSNP
rs1288613221 359 dbSNP
rs1341543742 362 dbSNP
rs1402298858 372 dbSNP
rs1299566730 378 dbSNP
rs1029759777 379 dbSNP
rs773772293 382 dbSNP
rs746658737 383 dbSNP
rs751467250 386 dbSNP
rs973216241 386 dbSNP
rs1313845457 387 dbSNP
rs959265431 388 dbSNP
rs1033469587 389 dbSNP
rs1406076165 389 dbSNP
rs551067081 390 dbSNP
rs961424823 391 dbSNP
rs1017346839 402 dbSNP
rs1166179834 409 dbSNP
rs1003703618 411 dbSNP
rs1005793515 411 dbSNP
rs12820834 431 dbSNP
rs748424819 437 dbSNP
rs1426699637 438 dbSNP
rs1014396774 441 dbSNP
rs1158549380 448 dbSNP
rs1361780912 451 dbSNP
rs571135185 461 dbSNP
rs1054074621 466 dbSNP
rs1199090204 469 dbSNP
rs936049512 487 dbSNP
rs752143125 489 dbSNP
rs1437458563 498 dbSNP
rs1295318078 503 dbSNP
rs1371250294 505 dbSNP
rs999005169 510 dbSNP
rs1049860497 512 dbSNP
rs904221018 519 dbSNP
rs1289331481 520 dbSNP
rs1450647050 521 dbSNP
rs1221877982 523 dbSNP
rs922659225 525 dbSNP
rs1342797841 526 dbSNP
rs972893938 535 dbSNP
rs1042751141 544 dbSNP
rs1177538735 547 dbSNP
rs942976103 578 dbSNP
rs1276684773 585 dbSNP
rs774054216 588 dbSNP
rs1161981137 590 dbSNP
rs910488901 595 dbSNP
rs1406369594 596 dbSNP
rs1370600527 598 dbSNP
rs1325743475 600 dbSNP
rs184549255 602 dbSNP
rs933169050 605 dbSNP
rs959109864 606 dbSNP
rs1274528409 610 dbSNP
rs919066941 613 dbSNP
rs1033747888 621 dbSNP
rs1332991179 621 dbSNP
rs1312582767 627 dbSNP
rs1228714620 628 dbSNP
rs1326938679 628 dbSNP
rs1291573219 629 dbSNP
rs1305461926 630 dbSNP
rs1197391835 648 dbSNP
rs972881805 661 dbSNP
rs961753329 670 dbSNP
rs981888305 690 dbSNP
rs970481014 695 dbSNP
rs781403325 706 dbSNP
rs1237456262 711 dbSNP
rs909936100 716 dbSNP
rs1009409421 720 dbSNP
rs1171004907 738 dbSNP
rs984090518 739 dbSNP
rs768641083 740 dbSNP
rs1023188789 758 dbSNP
rs1433288127 761 dbSNP
rs1465304677 768 dbSNP
rs115701796 770 dbSNP
rs1192093172 775 dbSNP
rs1402577209 775 dbSNP
rs1478815767 778 dbSNP
rs960272390 779 dbSNP
rs1448464350 788 dbSNP
rs1285742278 793 dbSNP
rs1230755913 800 dbSNP
rs1180911338 801 dbSNP
rs141596210 806 dbSNP
rs1032246258 807 dbSNP
rs998997638 812 dbSNP
rs148375896 815 dbSNP
rs747509303 818 dbSNP
rs1189970886 821 dbSNP
rs1279082290 825 dbSNP
rs769230319 834 dbSNP
rs192233393 835 dbSNP
rs1347483704 838 dbSNP
rs188398731 841 dbSNP
rs1426095744 842 dbSNP
rs888770966 845 dbSNP
rs901269090 847 dbSNP
rs1172123937 848 dbSNP
rs1037044319 849 dbSNP
rs146421951 856 dbSNP
rs910039981 858 dbSNP
rs35794641 859 dbSNP
rs1399212658 863 dbSNP
rs919131938 868 dbSNP
rs1342054581 872 dbSNP
rs1230368264 874 dbSNP
rs758156022 876 dbSNP
rs528410196 881 dbSNP
rs1036614292 886 dbSNP
rs1346278384 891 dbSNP
rs1202730515 893 dbSNP
rs1282830154 894 dbSNP
rs941835877 897 dbSNP
rs1488149072 898 dbSNP
rs1265592795 902 dbSNP
rs1479586376 906 dbSNP
rs1198164250 907 dbSNP
rs1378308540 908 dbSNP
rs73266769 912 dbSNP
rs142333868 913 dbSNP
rs970063097 923 dbSNP
rs778746424 925 dbSNP
rs1418856107 931 dbSNP
rs1405420312 936 dbSNP
rs1157933378 938 dbSNP
rs1298601864 946 dbSNP
rs970345224 947 dbSNP
rs1384748459 953 dbSNP
rs1472657503 958 dbSNP
rs1413575070 975 dbSNP
rs182953046 981 dbSNP
rs1234829531 982 dbSNP
rs777699288 985 dbSNP
rs1353692970 986 dbSNP
rs1241254089 990 dbSNP
rs138259667 996 dbSNP
rs978010257 997 dbSNP
rs752233005 998 dbSNP
rs1021412898 999 dbSNP
rs1179824063 1005 dbSNP
rs1236232452 1010 dbSNP
rs1007297821 1011 dbSNP
rs1439015847 1014 dbSNP
rs1445043660 1015 dbSNP
rs1158983750 1023 dbSNP
rs375991230 1025 dbSNP
rs528899715 1026 dbSNP
rs1228046868 1028 dbSNP
rs773682445 1033 dbSNP
rs1391085333 1041 dbSNP
rs997158702 1042 dbSNP
rs1007364068 1045 dbSNP
rs1376726885 1053 dbSNP
rs889050165 1055 dbSNP
rs897740269 1059 dbSNP
rs1320265618 1061 dbSNP
rs1036259735 1066 dbSNP
rs941872791 1068 dbSNP
rs1266251326 1081 dbSNP
rs1358760628 1108 dbSNP
rs773294267 1114 dbSNP
rs563110787 1115 dbSNP
rs766806383 1116 dbSNP
rs1271615575 1119 dbSNP
rs748386048 1125 dbSNP
rs781641167 1127 dbSNP
rs948795523 1128 dbSNP
rs769163118 1129 dbSNP
rs915960086 1132 dbSNP
rs1468758182 1138 dbSNP
rs1185295406 1140 dbSNP
rs1368622992 1147 dbSNP
rs747476661 1150 dbSNP
rs993238443 1151 dbSNP
rs1241076398 1152 dbSNP
rs1216039919 1156 dbSNP
rs1398947223 1157 dbSNP
rs1465734100 1166 dbSNP
rs1333915572 1167 dbSNP
rs1423566411 1173 dbSNP
rs1330826303 1180 dbSNP
rs1256102380 1182 dbSNP
rs938672049 1187 dbSNP
rs1260900149 1189 dbSNP
rs780648220 1190 dbSNP
rs756696590 1193 dbSNP
rs977687717 1196 dbSNP
rs1286057415 1199 dbSNP
rs1037118110 1205 dbSNP
rs1348163307 1206 dbSNP
rs1266814578 1213 dbSNP
rs969315334 1214 dbSNP
rs753442413 1215 dbSNP
rs777156557 1227 dbSNP
rs1401699189 1229 dbSNP
rs1200679127 1232 dbSNP
rs1341240480 1234 dbSNP
rs543572575 1235 dbSNP
rs1398997201 1242 dbSNP
rs1393194449 1243 dbSNP
rs1437504521 1253 dbSNP
rs1049053945 1254 dbSNP
rs1270247956 1256 dbSNP
rs59375850 1259 dbSNP
rs1321179025 1260 dbSNP
rs11055572 1261 dbSNP
rs938172239 1261 dbSNP
rs1046672798 1262 dbSNP
rs1314120519 1263 dbSNP
rs1230564281 1265 dbSNP
rs1363584584 1266 dbSNP
rs1297323277 1267 dbSNP
rs1398587059 1271 dbSNP
rs1454104591 1271 dbSNP
rs1436267751 1273 dbSNP
rs1390453084 1274 dbSNP
rs949070845 1278 dbSNP
rs1291403263 1280 dbSNP
rs1457005111 1283 dbSNP
rs1349993225 1288 dbSNP
rs1030048077 1289 dbSNP
rs1209362826 1304 dbSNP
rs1166225264 1311 dbSNP
rs1486511416 1314 dbSNP
rs1214263861 1316 dbSNP
rs913550942 1338 dbSNP
rs1261947970 1340 dbSNP
rs987916365 1342 dbSNP
rs147063408 1357 dbSNP
rs1389409625 1360 dbSNP
rs1422474295 1374 dbSNP
rs925032254 1377 dbSNP
rs1397509945 1379 dbSNP
rs986372098 1381 dbSNP
rs533046059 1384 dbSNP
rs1361331503 1392 dbSNP
rs1451084378 1396 dbSNP
rs1250192267 1397 dbSNP
rs1030240632 1409 dbSNP
rs1015286627 1411 dbSNP
rs1301889443 1412 dbSNP
rs1350032895 1424 dbSNP
rs1237611681 1446 dbSNP
rs1006121491 1453 dbSNP
rs1353914205 1461 dbSNP
rs1217474634 1466 dbSNP
rs1266135454 1467 dbSNP
rs1487872323 1486 dbSNP
rs1223771314 1498 dbSNP
rs887644370 1499 dbSNP
rs1255376511 1502 dbSNP
rs1044882517 1509 dbSNP
rs947849486 1518 dbSNP
rs1158373379 1526 dbSNP
rs1015537449 1532 dbSNP
rs1001290109 1539 dbSNP
rs187529814 1541 dbSNP
rs1367755490 1545 dbSNP
rs148944703 1556 dbSNP
rs1048437512 1571 dbSNP
rs748309043 1574 dbSNP
rs769731676 1575 dbSNP
rs1373044515 1576 dbSNP
rs1444503570 1583 dbSNP
rs938709749 1587 dbSNP
rs924616527 1588 dbSNP
rs1294780591 1589 dbSNP
rs1132216 1592 dbSNP
rs949601221 1594 dbSNP
rs145586660 1607 dbSNP
rs1221572231 1612 dbSNP
rs1274536323 1623 dbSNP
rs1052118406 1624 dbSNP
rs1178540843 1626 dbSNP
rs7709 1627 dbSNP
rs1431446481 1637 dbSNP
rs1194705753 1638 dbSNP
rs201664125 1639 dbSNP
rs1175034331 1644 dbSNP
rs77760883 1645 dbSNP
rs985891941 1647 dbSNP
rs923027731 1648 dbSNP
rs953374094 1654 dbSNP
rs1336340184 1664 dbSNP
rs1444038893 1668 dbSNP
rs1282215398 1669 dbSNP
rs182889973 1699 dbSNP
rs1251774690 1700 dbSNP
rs962040445 1708 dbSNP
rs1206540957 1715 dbSNP
rs976001606 1717 dbSNP
rs1197532478 1730 dbSNP
rs1014592016 1736 dbSNP
rs1440071087 1738 dbSNP
rs1208412230 1747 dbSNP
rs149718437 1758 dbSNP
rs778522616 1759 dbSNP
rs1473358836 1765 dbSNP
rs1190290134 1770 dbSNP
rs1232910014 1771 dbSNP
rs1014772134 1775 dbSNP
rs1312480409 1777 dbSNP
rs951964061 1785 dbSNP
rs1004625618 1787 dbSNP
rs1411619031 1789 dbSNP
rs1302939514 1793 dbSNP
rs745844920 1795 dbSNP
rs1407510234 1803 dbSNP
rs1415208980 1819 dbSNP
rs1012046513 1820 dbSNP
rs11343911 1821 dbSNP
rs1342027467 1822 dbSNP
rs796184367 1822 dbSNP
rs952711959 1822 dbSNP
rs1308076290 1823 dbSNP
rs1278587406 1824 dbSNP
rs1411613771 1830 dbSNP
rs3168379 1831 dbSNP
rs1261232256 1832 dbSNP
rs1302112593 1832 dbSNP
rs200046503 1832 dbSNP
rs1057468426 1833 dbSNP
rs1002956422 1835 dbSNP
rs1378474080 1837 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

- Whisnant AW; Bogerd HP; Flores O; Ho P; et al., 2013, mBio.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' ucccGGGGAG-GCGAGGAGGAGGGAa 5'
              |:|||| | |||: ||||||| 
Target 5' ---cCUCCUCACCCUCUACCUCCCUg 3'
 		1 - 23
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 GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000544702.1 | 3UTR | CCUCCUCACCCUCUACCUCCCUG
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
206 hsa-miR-4739 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057839 SLC30A7 solute carrier family 30 member 7 2 2
MIRT059680 CRTC2 CREB regulated transcription coactivator 2 2 2
MIRT083284 ZCCHC3 zinc finger CCHC-type containing 3 2 6
MIRT117523 MIDN midnolin 2 2
MIRT125598 SCD stearoyl-CoA desaturase 2 2
MIRT158424 TNRC6B trinucleotide repeat containing 6B 2 4
MIRT180896 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 2
MIRT183522 BTG2 BTG anti-proliferation factor 2 2 4
MIRT197842 DCAF7 DDB1 and CUL4 associated factor 7 2 2
MIRT227610 ZBTB34 zinc finger and BTB domain containing 34 2 2
MIRT260049 JUN Jun proto-oncogene, AP-1 transcription factor subunit 2 2
MIRT266231 PEX11B peroxisomal biogenesis factor 11 beta 2 2
MIRT267389 TMEM138 transmembrane protein 138 2 2
MIRT284431 CAPN15 calpain 15 2 2
MIRT293023 ZNF566 zinc finger protein 566 2 2
MIRT318024 CENPQ centromere protein Q 2 2
MIRT339336 SESN2 sestrin 2 2 2
MIRT445769 CCND3 cyclin D3 2 2
MIRT451026 MYH14 myosin heavy chain 14 2 8
MIRT451436 TJP3 tight junction protein 3 2 4
MIRT451704 C1RL complement C1r subcomponent like 2 2
MIRT451968 TMPRSS5 transmembrane protease, serine 5 2 2
MIRT452008 FKBP5 FK506 binding protein 5 2 2
MIRT452471 SORCS2 sortilin related VPS10 domain containing receptor 2 2 2
MIRT452720 DTHD1 death domain containing 1 2 2
MIRT453490 PITPNM3 PITPNM family member 3 2 2
MIRT454314 ZNF134 zinc finger protein 134 2 2
MIRT454401 NRG4 neuregulin 4 2 2
MIRT454498 SLC29A1 solute carrier family 29 member 1 (Augustine blood group) 2 2
MIRT454839 POLR2J3 RNA polymerase II subunit J3 2 2
MIRT455147 TBC1D25 TBC1 domain family member 25 2 2
MIRT455887 KIF2C kinesin family member 2C 2 2
MIRT456138 SAMD10 sterile alpha motif domain containing 10 2 2
MIRT456165 TTF2 transcription termination factor 2 2 2
MIRT457167 MXRA7 matrix remodeling associated 7 2 2
MIRT457444 NOL10 nucleolar protein 10 2 2
MIRT457571 ZNF34 zinc finger protein 34 2 2
MIRT457632 UPK3BL uroplakin 3B like 1 2 2
MIRT458748 CES2 carboxylesterase 2 2 2
MIRT459493 CCL11 C-C motif chemokine ligand 11 2 2
MIRT459936 HHIP hedgehog interacting protein 2 4
MIRT460104 GNG3 G protein subunit gamma 3 2 2
MIRT460154 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT460195 PCYT1A phosphate cytidylyltransferase 1, choline, alpha 2 2
MIRT460324 SH3RF1 SH3 domain containing ring finger 1 2 2
MIRT460665 IGFBP4 insulin like growth factor binding protein 4 2 2
MIRT460703 RNF157 ring finger protein 157 2 2
MIRT460898 UBE2S ubiquitin conjugating enzyme E2 S 2 2
MIRT461581 SCO1 SCO1, cytochrome c oxidase assembly protein 2 4
MIRT461825 SNAP23 synaptosome associated protein 23 2 2
MIRT462041 FAAH fatty acid amide hydrolase 2 2
MIRT462119 AKR7A2 aldo-keto reductase family 7 member A2 2 2
MIRT462467 GCDH glutaryl-CoA dehydrogenase 2 2
MIRT462811 NTN1 netrin 1 2 2
MIRT463339 ZFHX3 zinc finger homeobox 3 2 2
MIRT463452 ZC3HAV1L zinc finger CCCH-type containing, antiviral 1 like 2 2
MIRT463928 WNT3 Wnt family member 3 2 2
MIRT464274 VCL vinculin 2 2
MIRT465378 TPM3 tropomyosin 3 2 6
MIRT465558 TOB2 transducer of ERBB2, 2 2 2
MIRT466363 THBS1 thrombospondin 1 2 2
MIRT467363 SP2 Sp2 transcription factor 2 2
MIRT467781 SLC2A4 solute carrier family 2 member 4 2 2
MIRT467826 SLC29A2 solute carrier family 29 member 2 2 2
MIRT468112 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT468733 SDC4 syndecan 4 2 2
MIRT469178 RNF111 ring finger protein 111 2 2
MIRT469577 RARA retinoic acid receptor alpha 2 2
MIRT470790 PNPLA6 patatin like phospholipase domain containing 6 2 2
MIRT471177 PHB2 prohibitin 2 2 2
MIRT471325 PGAM4 phosphoglycerate mutase family member 4 2 2
MIRT471398 PDPR pyruvate dehydrogenase phosphatase regulatory subunit 2 2
MIRT471548 PAX5 paired box 5 2 2
MIRT471848 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT472229 NGFR nerve growth factor receptor 2 2
MIRT472548 NACC1 nucleus accumbens associated 1 2 2
MIRT473115 MLXIP MLX interacting protein 2 2
MIRT473212 MINK1 misshapen like kinase 1 2 2
MIRT473590 MAT2A methionine adenosyltransferase 2A 2 2
MIRT474184 LETMD1 LETM1 domain containing 1 2 2
MIRT474671 KLF13 Kruppel like factor 13 2 2
MIRT474854 KHSRP KH-type splicing regulatory protein 2 2
MIRT475152 IP6K1 inositol hexakisphosphate kinase 1 2 2
MIRT475390 ICOSLG inducible T-cell costimulator ligand 2 2
MIRT475587 HMGXB4 HMG-box containing 4 2 2
MIRT475773 HDLBP high density lipoprotein binding protein 2 2
MIRT477060 FAM210A family with sequence similarity 210 member A 2 2
MIRT477397 ENTPD7 ectonucleoside triphosphate diphosphohydrolase 7 2 2
MIRT478335 DDN dendrin 2 2
MIRT478609 CTDSP2 CTD small phosphatase 2 2 3
MIRT479135 CNBP CCHC-type zinc finger nucleic acid binding protein 2 4
MIRT480106 CALR calreticulin 2 2
MIRT480416 C19orf47 chromosome 19 open reading frame 47 2 2
MIRT480461 C11orf84 chromosome 11 open reading frame 84 2 4
MIRT481268 ATXN7L3 ataxin 7 like 3 2 2
MIRT481413 ASXL1 additional sex combs like 1, transcriptional regulator 2 2
MIRT481743 APH1A aph-1 homolog A, gamma-secretase subunit 2 2
MIRT482159 AK2 adenylate kinase 2 2 2
MIRT482317 AGO2 argonaute 2, RISC catalytic component 2 2
MIRT482398 AEN apoptosis enhancing nuclease 2 2
MIRT483346 CHRDL1 chordin like 1 2 8
MIRT483596 SLC26A9 solute carrier family 26 member 9 2 2
MIRT483634 NAV2 neuron navigator 2 2 2
MIRT483750 ALDH9A1 aldehyde dehydrogenase 9 family member A1 2 2
MIRT484085 SUGT1 SGT1 homolog, MIS12 kinetochore complex assembly cochaperone 2 4
MIRT484225 SUMO1 small ubiquitin-like modifier 1 2 6
MIRT484296 AIP aryl hydrocarbon receptor interacting protein 2 4
MIRT484374 GATA6 GATA binding protein 6 2 12
MIRT484395 ZNF710 zinc finger protein 710 2 4
MIRT484446 RAB7A RAB7A, member RAS oncogene family 2 4
MIRT484590 HACE1 HECT domain and ankyrin repeat containing E3 ubiquitin protein ligase 1 2 2
MIRT484626 SIX3 SIX homeobox 3 2 6
MIRT484737 ABCC6 ATP binding cassette subfamily C member 6 2 4
MIRT484861 ZNF70 zinc finger protein 70 2 4
MIRT486701 GLYR1 glyoxylate reductase 1 homolog 2 2
MIRT486803 PARP11 poly(ADP-ribose) polymerase family member 11 2 2
MIRT487059 C10orf55 chromosome 10 open reading frame 55 2 2
MIRT487077 CLASP1 cytoplasmic linker associated protein 1 2 4
MIRT487148 NCOR2 nuclear receptor corepressor 2 2 2
MIRT487625 C20orf96 chromosome 20 open reading frame 96 2 2
MIRT487710 CDK14 cyclin dependent kinase 14 2 2
MIRT487853 CLSTN1 calsyntenin 1 2 4
MIRT487970 IQSEC2 IQ motif and Sec7 domain 2 2 2
MIRT488138 GPR107 G protein-coupled receptor 107 2 2
MIRT488208 MAT1A methionine adenosyltransferase 1A 2 2
MIRT488363 PAX2 paired box 2 2 2
MIRT488593 ST7L suppression of tumorigenicity 7 like 2 2
MIRT488985 REXO2 RNA exonuclease 2 2 2
MIRT489068 STARD3 StAR related lipid transfer domain containing 3 2 2
MIRT489177 ANKRD45 ankyrin repeat domain 45 2 4
MIRT489327 GNB1L G protein subunit beta 1 like 2 2
MIRT489423 TUBB2A tubulin beta 2A class IIa 2 2
MIRT489808 KRT80 keratin 80 2 4
MIRT489868 ATP2A3 ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 3 2 2
MIRT489922 RTKN rhotekin 2 2
MIRT490159 TMEM63C transmembrane protein 63C 2 2
MIRT490312 HOXB13 homeobox B13 2 2
MIRT490771 SRCIN1 SRC kinase signaling inhibitor 1 2 2
MIRT490904 BARHL1 BarH like homeobox 1 2 6
MIRT491072 ACVR1B activin A receptor type 1B 2 4
MIRT491242 KCNA5 potassium voltage-gated channel subfamily A member 5 2 2
MIRT491456 HOXB5 homeobox B5 2 2
MIRT492893 NFIX nuclear factor I X 2 2
MIRT492923 NFAT5 nuclear factor of activated T-cells 5 2 2
MIRT494021 DUSP9 dual specificity phosphatase 9 2 2
MIRT494046 DUSP7 dual specificity phosphatase 7 2 4
MIRT494190 CNOT6L CCR4-NOT transcription complex subunit 6 like 2 2
MIRT494721 ARHGAP31 Rho GTPase activating protein 31 2 2
MIRT494819 AKAP11 A-kinase anchoring protein 11 2 2
MIRT494909 UCP2 uncoupling protein 2 2 2
MIRT495262 CCDC108 cilia and flagella associated protein 65 2 2
MIRT495511 RGS6 regulator of G protein signaling 6 2 2
MIRT496604 TAGLN transgelin 2 2
MIRT498276 POFUT1 protein O-fucosyltransferase 1 2 2
MIRT499031 MAG myelin associated glycoprotein 2 2
MIRT499816 LONRF3 LON peptidase N-terminal domain and ring finger 3 2 2
MIRT500457 ZFP36L1 ZFP36 ring finger protein like 1 2 2
MIRT502340 GIGYF1 GRB10 interacting GYF protein 1 2 4
MIRT503646 POLR2F RNA polymerase II subunit F 2 4
MIRT508000 BCL2L13 BCL2 like 13 2 4
MIRT510802 SEPT2 septin 2 2 6
MIRT511040 NRF1 nuclear respiratory factor 1 2 2
MIRT512930 UBL4A ubiquitin like 4A 2 2
MIRT532005 ACTR2 ARP2 actin related protein 2 homolog 2 2
MIRT539926 DUSP28 dual specificity phosphatase 28 2 2
MIRT553376 TRIM44 tripartite motif containing 44 2 2
MIRT568790 VPS37D VPS37D, ESCRT-I subunit 2 2
MIRT568827 TRIM67 tripartite motif containing 67 2 2
MIRT568876 LY6H lymphocyte antigen 6 family member H 2 2
MIRT568912 ATP6V1B1 ATPase H+ transporting V1 subunit B1 2 2
MIRT569993 TMEM184A transmembrane protein 184A 2 2
MIRT570225 SLC27A1 solute carrier family 27 member 1 2 2
MIRT570490 THRA thyroid hormone receptor, alpha 2 2
MIRT570541 RPH3A rabphilin 3A 2 2
MIRT570587 OTUD7B OTU deubiquitinase 7B 2 2
MIRT573681 HES6 hes family bHLH transcription factor 6 2 2
MIRT576457 Itga11 integrin alpha 11 2 3
MIRT608254 ITGA11 integrin subunit alpha 11 2 3
MIRT609751 FAM198A family with sequence similarity 198 member A 2 2
MIRT610860 ARSA arylsulfatase A 2 2
MIRT627528 SRP19 signal recognition particle 19 2 4
MIRT627895 OLFML2A olfactomedin like 2A 2 2
MIRT629785 PTDSS2 phosphatidylserine synthase 2 2 2
MIRT647051 C1QTNF6 C1q and TNF related 6 2 2
MIRT649532 GTF3C3 general transcription factor IIIC subunit 3 2 2
MIRT661455 MORC4 MORC family CW-type zinc finger 4 2 2
MIRT667859 IPCEF1 interaction protein for cytohesin exchange factors 1 2 2
MIRT668824 CYLD CYLD lysine 63 deubiquitinase 2 2
MIRT669492 ARL4C ADP ribosylation factor like GTPase 4C 2 2
MIRT670166 SLC29A4 solute carrier family 29 member 4 2 2
MIRT670929 DESI1 desumoylating isopeptidase 1 2 2
MIRT674655 NKRF NFKB repressing factor 2 2
MIRT681452 CIITA class II major histocompatibility complex transactivator 2 2
MIRT681766 CDKAL1 CDK5 regulatory subunit associated protein 1 like 1 2 2
MIRT682033 AGXT2 alanine--glyoxylate aminotransferase 2 2 4
MIRT684821 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT686009 NEK4 NIMA related kinase 4 2 2
MIRT691758 IKBKG inhibitor of nuclear factor kappa B kinase subunit gamma 2 2
MIRT701938 MLLT1 MLLT1, super elongation complex subunit 2 2
MIRT702794 IFNAR2 interferon alpha and beta receptor subunit 2 2 2
MIRT705706 ANKFY1 ankyrin repeat and FYVE domain containing 1 2 2
MIRT713377 STK35 serine/threonine kinase 35 2 2
MIRT714792 ATP6V1A ATPase H+ transporting V1 subunit A 2 2
MIRT715003 TSPAN11 tetraspanin 11 2 2
MIRT722688 RRM2 ribonucleotide reductase regulatory subunit M2 2 2
MIRT755868 ITGA10 integrin subunit alpha 10 3 1
miRNA-Drug Associations
miRNA Small Melocule FDA CID Detection Method Condition PMID Year Expression Pattern of miRNA
miR-4 Dexamethasone approved 5743 Microarray primary rat thymocytes 20847043 2010 up-regulated
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4739 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-4739 Fluorouracil 3385 NSC19893 approved resistant High Pancreatic Cancer cell line (PANC-1)
hsa-miR-4739 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-4739 Gemcitabine 60750 NSC613327 approved resistant High Pancreatic Cancer cell line (SW1990)
hsa-miR-4739 Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-4739 Cisplatin 5460033 NSC119875 approved resistant High Pancreatic Cancer cell line (BxPC-3)
hsa-miR-4739 Dabrafenib 44462760 NSC764134 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-miR-4739 Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (A375, IGR37, 501Mel)
hsa-mir-4739 Cisplatin 5460033 NSC119875 approved resistant cell line (BxPC3)
hsa-mir-4739 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)
hsa-miR-4739 Osimertinib 71496458 NSC779217 approved resistant cell line (PC9)
hsa-miR-4739 Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-4739 Osimertinib 71496458 NSC779217 approved sensitive cell line (H1975)
hsa-miR-4739 Leuprorelin/Goserelin + Bicalutamide resistant tissue (prostate cancer)
hsa-miR-4739 Ceritinib 57379345 NSC776422 approved sensitive cell line (H3122)

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