miRTarBase - #MIRT492411


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pre-miRNA Information
pre-miRNA hsa-mir-3942   
Genomic Coordinates chr15: 35372256 - 35372364
Description Homo sapiens miR-3942 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3942-3p
Sequence 65| UUUCAGAUAACAGUAUUACAU |85
Evidence Experimental
Experiments Illumina
Editing Events in miRNAs
Modification Type Position on miR Chromosome DNA Strand Genomic Position (hg38) List of PMIDs Variant details
A-to-I 5 15 - 35372296 29233923 MiREDiBase
A-to-I 10 15 - 35372291 23291724, 29233923 MiREDiBase
A-to-I 18 15 - 35372283 23291724, 29233923 MiREDiBase
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN1674243 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1043666670 6 dbSNP
rs1264147291 18 dbSNP
rs1223363654 20 dbSNP
Putative Targets

Gene Information
Gene Symbol SCARB2   
Synonyms AMRF, CD36L2, EPM4, HLGP85, LGP85, LIMP-2, LIMPII, SR-BII
Description scavenger receptor class B member 2
Transcript NM_005506   
Expression
Putative miRNA Targets on SCARB2
3'UTR of SCARB2
(miRNA target sites are highlighted)		 
>SCARB2|NM_005506|3'UTR
   1 ACATTGCCTTTGCTTGGTGAAGAAACTGTGTGAGCTGTCCTGACCTGGACGATGACGTGGGGAAACCCTCCACCTCCTTG
  81 CAGGCTTGTTGCCTGTTGAAAGAAGGAAAAAGACACGGCGCTGGCAAGTGATAGGAACATTCTGGCCAGAGGTTAAAGAG
 161 CAGGCTGACATGGCTGGCCATTAAGCTTTATAAAATCATGTGGGCTCTGAAATTGTTCTTTTATGTGTCTAGCAAGTATT
 241 TAATAAACCCTTGTATAGTAATTTTGTTGTTGTTGGGTGCTGGTAGCTCCAGAATTTTGTGACCACTATTGTGGGTAAAA
 321 TGTCTCTGCATCACTTGTTAATGCTACTGGTCTAACTTCATTCAGTATGCTTCATTCACCGAACTTTGTGCTCAAAATGC
 401 GTATATACCATTTTATGTTGTATTCCTCCATTTCACTTGCAAAACAGAAGTAAATAAGAGTTCGGGACCCAGGGTAAAAT
 481 GGTAGCTTCATCCAATATATCATTCAAATGCATCTGATTTCTAAAACATATTACATTTTATGCTGATCTTCAGTTCATAA
 561 TTCTTCCAGGAAAACTCAGTCTTCCAACTGCAATAAAATACTGGGTAGAATCAAATGGGAAAGGGGTTGGGTGGGGCAAT
 641 ACCCATGAGTTGATAGTGATAAGCTCCTAAGGATTTTTAACTTGTACTTTTGTGAACGAAGAGAATGCATAAATAATGTT
 721 GGTGAGGATAAAGTACAGATATTTCATGTAGAATTAATTGCTAGTTATGATGCTTGTGGATAGTTAACTGTTTTTTTTTT
 801 AGTCAAAATGATCATGCTACGAAAAGATGCTTCTGAGAGAATGTAATGAGTAACTGATTTTTCTTCCTGAGTCGCCCTTG
 881 CCAAATATGTTACTGTATTAATTAATCTAATATTGAGTGATTATTTGTAAAATTATGAATATGGGAAATCCATCTATCTA
 961 CAGCCTAAGTTACACATAAGTTTCAGAAAGTCTGATTAGACTAAAGAGATATTTCTTCTGGGACAGCCGCCTTCTTGGTA
1041 ATTTTGAAGTTCTTTTTACAAGTTCCTTCCTCAGTTTCAGTTCTTTCCAGTGTTTTGTAGCTCACTGTCACTCACTGAAT
1121 AGAGAAACGTGTGCCCTATACTTCCTGTGACAATCATTTTGCTGACAGAATGATGGATGTTTAAAATATTGCACAAAGTA
1201 CTTTAAAGAAAGGTCTGTTAGGACCAGAAGCAGAGACACCACTTTTCAAAGGACTTCTTGGTTTCAGCATAACCTAAGAC
1281 AGGGAATTGGGAGCCATCATATGTCACAGTGTTCAGAATTCAAGCATATTTAAGGGCATTTTCTTTGATTCTCAAAGTTC
1361 AGCATTCATTTTGAATTGAGAAGCCTATACATTTAGCTGACAAAGTGCTTATAGAATTTCTTAACAACTGAACCATTCAA
1441 AAGGATTTTTTTTGTTTAAAACTGGATTTCAATGTAAGCAAATGAAGAAAAAAATATAGATTTCATTTCCATAGCTTCTT
1521 ATCCCTGTATTGAGGTAATAAATTGTTTTACTGACAATTTTTCCTTTTTCTACACTAAAACAATATGTGATATATTTCCC
1601 CTCTTGAAGAGGCAATTCATTAAACTCTCAAATTTTCTATAGAATCAAGATAGAACCTTTAGATACTCCAACTCACCAAA
1681 ATGTAAAAAAACTAACAAAAATATTTGGTCTTCAATAATGCTAAATATCTACATTTTTAGAATTTATCAACATTTAACTA
1761 GATAATTGGGCATGTCTTAATTATGCATGTACTTATCCATACTAATAAAATTGACAATGCTAGTGCATACTTATTGGTTT
1841 AGTCCTATTATCAGGATATAATCATCTGTGAGGAGGATATTTTAAATACTGTAAATGATAACAGTTAATGATATACACAT
1921 TTAGACTGAGTTGCACACTGGCAGGGAGACCAAAAACATTACTTCCATACTTGTGTCATGATTCTTTTTTTTTTGAGAGA
2001 GTCTCACTCTGTCGCCAGGCTGGAGTACAGTGGCATGATCTCGGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGCAATT
2081 CTCCTGCCTCAGCCACCCAAGTAGCTGGGACTACAGGTGCGTGCCACCACGCCCAGCTAAATTTTGTATTTTTAGTGGAG
2161 ACGGGGTTTCACCATGTTGGCCAGGATGGTCTCAATCTCCTGACCCTGCGATCTGCCCACCTCAGCCTCCCAAAGTGCTG
2241 GGATTACAGGCGTAAGCCACCGGGCCTGGCCTGTTTTATGATTCTTAATAGTTACTTGGTTTAAATCACATTTGATACTA
2321 TCCTTCTGAAAAGTCTGAGACAGATCTACAAACTACAGTCAAAATTATAGATTAAGAGGAATGAATGCACCTATTTGGCT
2401 TTAAGTTGAAGATGAATTATTTCTCATGCTCATTTTCTTGCGGCAGTTATCTTAGAAAGACCCCCAAAGGCTTTGTGATT
2481 GTAAGCACTGTCATGATCACAGAATGCAAGCTTCTGGTACCATGATCCTCAACTTAGAGAGGAAGAAACCAAGACAGAGA
2561 GCTTAACTCACTTCTCTCAGGGAAAATTAGGAGTTGAGCACAGGACAGGAAATGGGCTTTGCCACTTTTAGCTCCAGGCT
2641 TTTCTAACCAGACTTGATTTCCTCATGTTCTAGAAAGATCACTAATGGTCAAGTGGAACAAGCACTACACGACTAACCCC
2721 TATTGGGGTTTTTAACTTAAGGGAGGCTAATTTTTAATTTAAACTGCTCGAGATATGAGTTCTGCAAAAGGTGGTCCGCA
2801 TCCTTGGCCCTCTGGACATTATCACTAAATTGCTTGTGCCTGTTAACAAGAATACTGACCAGAATGCTCTTCATGTAGCT
2881 TATACAGTTGGTTCACTTCATGCGGTTCTTGACATGTTTATTTCTACCCTTAATGCAATGAAATGTTTCATTAATAAAAA
2961 ACCACTTTATATAAAAAAAAAAAAAAA
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' uacAUUAUGACA-AUAGACUUu 5'
             |:||||| |   |||||| 
Target 5' attTGATACTATCCTTCTGAAa 3'
 2310 - 2331 130.00 -10.60
2 
miRNA  3' uacaUUAUGACAAUAGACUuu 5'
              |||:|    ||||||  
Target 5' ttcaAATGC----ATCTGAtt 3'
 503 - 519 127.00 -5.80
3 
miRNA  3' uacAUUAUGAC-----AAUAGACUUu 5'
             |||||:||     ||||:|| | 
Target 5' atcTAATATTGAGTGATTATTTGTAa 3'
 905 - 930 122.00 -6.92
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30521273 16 COSMIC
COSN26993840 28 COSMIC
COSN31552640 50 COSMIC
COSN31575214 56 COSMIC
COSN30467990 71 COSMIC
COSN26647368 104 COSMIC
COSN19628875 117 COSMIC
COSN31527784 120 COSMIC
COSN30158764 149 COSMIC
COSN20075085 169 COSMIC
COSN31558952 201 COSMIC
COSN30160149 229 COSMIC
COSN7843310 263 COSMIC
COSN31568816 463 COSMIC
COSN6843769 1173 COSMIC
COSN32055535 1384 COSMIC
COSN7843309 1461 COSMIC
COSN5063872 1834 COSMIC
COSN25020993 1870 COSMIC
COSN31959918 2632 COSMIC
COSN27562527 2784 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs751514504 2 dbSNP
rs371479336 3 dbSNP
rs762441308 6 dbSNP
rs752367318 13 dbSNP
rs1333056021 16 dbSNP
rs562930642 20 dbSNP
rs1390631626 25 dbSNP
rs764847566 26 dbSNP
rs1334684583 30 dbSNP
rs12533 31 dbSNP
rs752868099 33 dbSNP
rs759256374 37 dbSNP
rs1274674585 38 dbSNP
rs1430326862 40 dbSNP
rs777097783 46 dbSNP
rs771428225 47 dbSNP
rs1478702011 49 dbSNP
rs761205042 50 dbSNP
rs367998278 51 dbSNP
rs1242239158 56 dbSNP
rs376331813 57 dbSNP
rs1185793193 63 dbSNP
rs1256537655 66 dbSNP
rs3733256 67 dbSNP
rs1165854889 68 dbSNP
rs1416258849 70 dbSNP
rs1261959569 71 dbSNP
rs1242244881 74 dbSNP
rs12534 81 dbSNP
rs926224753 84 dbSNP
rs1345920457 86 dbSNP
rs1455799358 89 dbSNP
rs940656706 92 dbSNP
rs1355153585 108 dbSNP
rs1415803011 116 dbSNP
rs3733255 117 dbSNP
rs540507912 119 dbSNP
rs551194855 124 dbSNP
rs1235559376 142 dbSNP
rs1284335100 148 dbSNP
rs1046994355 151 dbSNP
rs1338855607 161 dbSNP
rs1208562066 169 dbSNP
rs1279540549 173 dbSNP
rs1485849250 176 dbSNP
rs1298168506 185 dbSNP
rs1803390 190 dbSNP
rs772709082 199 dbSNP
rs1387313741 204 dbSNP
rs1291862058 215 dbSNP
rs921457640 218 dbSNP
rs977230337 221 dbSNP
rs1468785987 222 dbSNP
rs1350708505 223 dbSNP
rs1167322702 225 dbSNP
rs965514643 230 dbSNP
rs922439628 232 dbSNP
rs1476089525 248 dbSNP
rs1015547335 249 dbSNP
rs1240035178 251 dbSNP
rs1435924959 253 dbSNP
rs975205529 254 dbSNP
rs139285303 255 dbSNP
rs151231727 264 dbSNP
rs1026819491 265 dbSNP
rs747709726 276 dbSNP
rs1374806228 292 dbSNP
rs1263686692 295 dbSNP
rs575002558 303 dbSNP
rs1002144702 317 dbSNP
rs1231470824 331 dbSNP
rs560359474 334 dbSNP
rs1348464970 337 dbSNP
rs1213007673 342 dbSNP
rs1024837397 345 dbSNP
rs558193613 346 dbSNP
rs538267336 348 dbSNP
rs1233685984 353 dbSNP
rs1441574965 354 dbSNP
rs1191790604 359 dbSNP
rs191570847 360 dbSNP
rs956555433 368 dbSNP
rs892257831 374 dbSNP
rs554201820 380 dbSNP
rs1003742396 381 dbSNP
rs1417735343 387 dbSNP
rs936286047 388 dbSNP
rs903541283 389 dbSNP
rs1215151190 398 dbSNP
rs1329060606 400 dbSNP
rs1043674178 401 dbSNP
rs1438311229 405 dbSNP
rs113153956 415 dbSNP
rs970918744 420 dbSNP
rs932948952 454 dbSNP
rs1277954401 455 dbSNP
rs921416460 461 dbSNP
rs17001551 463 dbSNP
rs1328722218 464 dbSNP
rs1214972410 468 dbSNP
rs1299754471 471 dbSNP
rs373733004 475 dbSNP
rs1274901240 480 dbSNP
rs944112127 487 dbSNP
rs1012805490 495 dbSNP
rs568607558 497 dbSNP
rs1212115018 503 dbSNP
rs1252450315 514 dbSNP
rs899259619 519 dbSNP
rs1016745789 521 dbSNP
rs908600548 528 dbSNP
rs760926366 531 dbSNP
rs548811222 546 dbSNP
rs1426295920 552 dbSNP
rs1459544608 561 dbSNP
rs1163765230 563 dbSNP
rs1394499781 567 dbSNP
rs952690571 570 dbSNP
rs1316083996 571 dbSNP
rs113931968 576 dbSNP
rs919939269 584 dbSNP
rs981083373 589 dbSNP
rs1328233449 590 dbSNP
rs1431448943 591 dbSNP
rs17001550 593 dbSNP
rs569398417 604 dbSNP
rs1332500282 617 dbSNP
rs1231616871 629 dbSNP
rs1025224278 636 dbSNP
rs563707957 639 dbSNP
rs1335498313 651 dbSNP
rs956531794 654 dbSNP
rs901068554 657 dbSNP
rs772445328 665 dbSNP
rs1446907703 667 dbSNP
rs1194593936 669 dbSNP
rs759792003 671 dbSNP
rs1167115665 685 dbSNP
rs942514938 691 dbSNP
rs1000632078 695 dbSNP
rs540415073 697 dbSNP
rs1050123478 698 dbSNP
rs1432138855 705 dbSNP
rs1383683820 707 dbSNP
rs1401210252 709 dbSNP
rs1299972689 713 dbSNP
rs935046517 718 dbSNP
rs1413968834 724 dbSNP
rs923616195 730 dbSNP
rs34781281 739 dbSNP
rs771416420 742 dbSNP
rs1456171750 752 dbSNP
rs1247319198 767 dbSNP
rs900116934 775 dbSNP
rs552682881 781 dbSNP
rs1200457327 782 dbSNP
rs1350048916 786 dbSNP
rs1206177832 790 dbSNP
rs1256964542 793 dbSNP
rs1041702903 798 dbSNP
rs1196767657 800 dbSNP
rs138665853 801 dbSNP
rs34160334 801 dbSNP
rs944171354 810 dbSNP
rs1362648921 814 dbSNP
rs532437140 817 dbSNP
rs1341859224 821 dbSNP
rs908732388 822 dbSNP
rs1233136755 826 dbSNP
rs1047105894 837 dbSNP
rs1434072409 842 dbSNP
rs1305715544 846 dbSNP
rs1313240978 853 dbSNP
rs560531985 860 dbSNP
rs1404156785 863 dbSNP
rs1444576282 864 dbSNP
rs532525417 866 dbSNP
rs186618093 873 dbSNP
rs886485524 874 dbSNP
rs530165079 875 dbSNP
rs1030357279 876 dbSNP
rs1311606578 881 dbSNP
rs1329734596 888 dbSNP
rs1391792437 889 dbSNP
rs1398333551 890 dbSNP
rs980832853 895 dbSNP
rs1170805864 898 dbSNP
rs1256947105 907 dbSNP
rs182055361 909 dbSNP
rs1484443120 913 dbSNP
rs997491095 915 dbSNP
rs901120798 919 dbSNP
rs969699879 924 dbSNP
rs564639197 927 dbSNP
rs551451507 933 dbSNP
rs1392776647 950 dbSNP
rs1453712074 952 dbSNP
rs1174258189 953 dbSNP
rs942588173 958 dbSNP
rs1437225328 967 dbSNP
rs368006731 970 dbSNP
rs992486014 971 dbSNP
rs1447853765 973 dbSNP
rs561023934 976 dbSNP
rs1182042893 1009 dbSNP
rs1439970635 1012 dbSNP
rs1368951151 1013 dbSNP
rs780620269 1027 dbSNP
rs55683381 1029 dbSNP
rs1051325 1030 dbSNP
rs66484485 1030 dbSNP
rs1225742611 1031 dbSNP
rs200606929 1031 dbSNP
rs386676218 1031 dbSNP
rs1318140469 1032 dbSNP
rs200704034 1032 dbSNP
rs1200204341 1033 dbSNP
rs935083024 1036 dbSNP
rs967831686 1051 dbSNP
rs1051326 1052 dbSNP
rs1269410367 1056 dbSNP
rs1426702761 1061 dbSNP
rs1169458011 1062 dbSNP
rs1283021462 1066 dbSNP
rs949041137 1067 dbSNP
rs1466329492 1069 dbSNP
rs780737598 1071 dbSNP
rs1353028411 1072 dbSNP
rs991475639 1084 dbSNP
rs1294592379 1086 dbSNP
rs190191032 1089 dbSNP
rs74719289 1101 dbSNP
rs1337378606 1104 dbSNP
rs1319119453 1107 dbSNP
rs983615774 1114 dbSNP
rs1331951242 1115 dbSNP
rs1333473227 1119 dbSNP
rs1413873819 1121 dbSNP
rs780047901 1122 dbSNP
rs1221622267 1128 dbSNP
rs1266748499 1129 dbSNP
rs577065667 1137 dbSNP
rs77331216 1138 dbSNP
rs997541703 1149 dbSNP
rs1417364659 1156 dbSNP
rs1008447038 1166 dbSNP
rs1478686646 1172 dbSNP
rs964704993 1178 dbSNP
rs1416000471 1191 dbSNP
rs1461163085 1212 dbSNP
rs1165549307 1213 dbSNP
rs186458470 1220 dbSNP
rs1047243666 1239 dbSNP
rs1327169650 1259 dbSNP
rs112925242 1261 dbSNP
rs1007228616 1275 dbSNP
rs1341457095 1276 dbSNP
rs142217361 1285 dbSNP
rs931394778 1291 dbSNP
rs1470956285 1305 dbSNP
rs1291863308 1309 dbSNP
rs1354406372 1309 dbSNP
rs1228588466 1312 dbSNP
rs758891012 1327 dbSNP
rs893683924 1328 dbSNP
rs920055598 1341 dbSNP
rs1054045387 1343 dbSNP
rs1045562557 1347 dbSNP
rs1286675838 1358 dbSNP
rs1489127703 1360 dbSNP
rs1366282692 1361 dbSNP
rs1208427267 1380 dbSNP
rs902300223 1405 dbSNP
rs1256609054 1415 dbSNP
rs1187701492 1417 dbSNP
rs1486177454 1424 dbSNP
rs948038804 1426 dbSNP
rs917925799 1427 dbSNP
rs1488035402 1429 dbSNP
rs1285035568 1444 dbSNP
rs764225354 1446 dbSNP
rs1051327 1454 dbSNP
rs1311429180 1454 dbSNP
rs1422113822 1454 dbSNP
rs916223654 1454 dbSNP
rs992065047 1457 dbSNP
rs750924435 1458 dbSNP
rs1285605208 1461 dbSNP
rs1054762441 1466 dbSNP
rs1283766846 1469 dbSNP
rs935262210 1472 dbSNP
rs1309406481 1478 dbSNP
rs1355820882 1479 dbSNP
rs1295105430 1483 dbSNP
rs1398056201 1484 dbSNP
rs1344159681 1487 dbSNP
rs923769111 1488 dbSNP
rs1355745931 1490 dbSNP
rs760703076 1497 dbSNP
rs967881098 1515 dbSNP
rs1279337970 1516 dbSNP
rs1401881908 1525 dbSNP
rs1211018376 1527 dbSNP
rs1239456284 1530 dbSNP
rs1479803301 1531 dbSNP
rs1178074591 1534 dbSNP
rs538469471 1537 dbSNP
rs1028703420 1540 dbSNP
rs752864212 1545 dbSNP
rs1388164444 1546 dbSNP
rs1163713036 1547 dbSNP
rs1442080891 1547 dbSNP
rs1475764296 1548 dbSNP
rs965710913 1551 dbSNP
rs1172316471 1556 dbSNP
rs1420451112 1560 dbSNP
rs569459997 1562 dbSNP
rs182046876 1575 dbSNP
rs1475374146 1578 dbSNP
rs1415422824 1586 dbSNP
rs1284683052 1592 dbSNP
rs909439669 1598 dbSNP
rs983650116 1601 dbSNP
rs1331426986 1602 dbSNP
rs1008416030 1615 dbSNP
rs1378566922 1616 dbSNP
rs1218062698 1630 dbSNP
rs950844950 1640 dbSNP
rs1345394874 1649 dbSNP
rs561022021 1664 dbSNP
rs1220707002 1669 dbSNP
rs753981347 1671 dbSNP
rs1270679836 1673 dbSNP
rs1305971280 1678 dbSNP
rs923389486 1679 dbSNP
rs539122440 1683 dbSNP
rs767612700 1686 dbSNP
rs1192248173 1692 dbSNP
rs1214529433 1697 dbSNP
rs566808618 1701 dbSNP
rs898660337 1707 dbSNP
rs546979594 1709 dbSNP
rs1011552632 1710 dbSNP
rs948166490 1721 dbSNP
rs1417891010 1732 dbSNP
rs958208073 1734 dbSNP
rs1032246616 1744 dbSNP
rs999336616 1748 dbSNP
rs1438108243 1766 dbSNP
rs1322770160 1768 dbSNP
rs902350857 1779 dbSNP
rs8475 1780 dbSNP
rs1056520658 1816 dbSNP
rs935230109 1817 dbSNP
rs1274809537 1818 dbSNP
rs1361016454 1819 dbSNP
rs894873504 1823 dbSNP
rs1258969240 1825 dbSNP
rs1055214190 1834 dbSNP
rs941694261 1838 dbSNP
rs1289307774 1839 dbSNP
rs771289900 1844 dbSNP
rs923821250 1854 dbSNP
rs148519544 1859 dbSNP
rs1240660792 1862 dbSNP
rs1477707183 1876 dbSNP
rs1193873150 1883 dbSNP
rs1425370412 1891 dbSNP
rs1459590043 1895 dbSNP
rs568192553 1898 dbSNP
rs567242792 1909 dbSNP
rs923442061 1912 dbSNP
rs1432327592 1926 dbSNP
rs921775654 1952 dbSNP
rs550436092 1959 dbSNP
rs1324865222 1960 dbSNP
rs965174687 1969 dbSNP
rs1279902337 1978 dbSNP
rs910608708 1982 dbSNP
rs990584148 1984 dbSNP
rs957376031 1985 dbSNP
rs1032257222 1991 dbSNP
rs199922764 1993 dbSNP
rs1018562340 1994 dbSNP
rs1488145904 1995 dbSNP
rs977968851 1995 dbSNP
rs983112316 1995 dbSNP
rs1265866116 1999 dbSNP
rs1396126879 2001 dbSNP
rs1473504599 2002 dbSNP
rs1474018219 2002 dbSNP
rs966563258 2002 dbSNP
rs1024764741 2006 dbSNP
rs1156698662 2007 dbSNP
rs1359786981 2010 dbSNP
rs1420279833 2011 dbSNP
rs112501875 2013 dbSNP
rs1025811181 2014 dbSNP
rs995732136 2018 dbSNP
rs763391866 2021 dbSNP
rs1024247879 2029 dbSNP
rs1477109960 2032 dbSNP
rs1012333017 2034 dbSNP
rs6841815 2035 dbSNP
rs200964336 2042 dbSNP
rs1469997333 2043 dbSNP
rs1199473928 2051 dbSNP
rs1256455867 2056 dbSNP
rs935280366 2059 dbSNP
rs902534806 2066 dbSNP
rs6811781 2067 dbSNP
rs747578435 2073 dbSNP
rs552690075 2076 dbSNP
rs1160394027 2077 dbSNP
rs1416880206 2080 dbSNP
rs1039318444 2081 dbSNP
rs780801208 2087 dbSNP
rs528192018 2088 dbSNP
rs1342338827 2093 dbSNP
rs1302063673 2105 dbSNP
rs1403144870 2111 dbSNP
rs1440925912 2113 dbSNP
rs1329389088 2118 dbSNP
rs911606107 2120 dbSNP
rs1448092867 2121 dbSNP
rs1312127106 2122 dbSNP
rs1310764205 2123 dbSNP
rs768177394 2130 dbSNP
rs534409011 2131 dbSNP
rs1346666685 2132 dbSNP
rs1328817937 2150 dbSNP
rs376908696 2162 dbSNP
rs568761338 2163 dbSNP
rs1251095365 2170 dbSNP
rs1432563721 2178 dbSNP
rs779924917 2179 dbSNP
rs1379213060 2182 dbSNP
rs963330196 2186 dbSNP
rs1413261403 2189 dbSNP
rs1006341440 2194 dbSNP
rs1394936843 2202 dbSNP
rs1174354251 2205 dbSNP
rs887443322 2206 dbSNP
rs1047394721 2207 dbSNP
rs140830843 2209 dbSNP
rs758294053 2210 dbSNP
rs1040576848 2211 dbSNP
rs1302410753 2214 dbSNP
rs960907283 2217 dbSNP
rs1035080396 2219 dbSNP
rs1257058075 2220 dbSNP
rs1317953568 2236 dbSNP
rs999624429 2242 dbSNP
rs910651849 2243 dbSNP
rs1263224565 2244 dbSNP
rs1488111020 2247 dbSNP
rs1191706838 2250 dbSNP
rs544913223 2251 dbSNP
rs1043771284 2252 dbSNP
rs367881380 2254 dbSNP
rs546257557 2261 dbSNP
rs900451608 2262 dbSNP
rs1172890916 2263 dbSNP
rs1024837049 2266 dbSNP
rs992426847 2270 dbSNP
rs538819584 2281 dbSNP
rs1398573831 2282 dbSNP
rs757711231 2286 dbSNP
rs1340724632 2291 dbSNP
rs1220153834 2298 dbSNP
rs944496661 2304 dbSNP
rs750350428 2312 dbSNP
rs1309952891 2314 dbSNP
rs1005977615 2315 dbSNP
rs778965124 2322 dbSNP
rs1349377998 2326 dbSNP
rs1032842579 2331 dbSNP
rs911742094 2336 dbSNP
rs1488736680 2342 dbSNP
rs1188513210 2347 dbSNP
rs1047438599 2348 dbSNP
rs1423343775 2364 dbSNP
rs993133424 2367 dbSNP
rs929085610 2368 dbSNP
rs902125115 2381 dbSNP
rs566969290 2382 dbSNP
rs73826377 2388 dbSNP
rs1300734481 2394 dbSNP
rs764409601 2397 dbSNP
rs112259744 2400 dbSNP
rs1314310724 2404 dbSNP
rs936100559 2410 dbSNP
rs1239419958 2414 dbSNP
rs1286380031 2416 dbSNP
rs1436708204 2421 dbSNP
rs1378530984 2431 dbSNP
rs1158733261 2438 dbSNP
rs1235978604 2440 dbSNP
rs924674404 2441 dbSNP
rs1410361229 2442 dbSNP
rs1041731537 2444 dbSNP
rs532732137 2449 dbSNP
rs1381252674 2459 dbSNP
rs1402835718 2461 dbSNP
rs991105396 2461 dbSNP
rs1174443739 2462 dbSNP
rs1178746582 2464 dbSNP
rs1358194481 2466 dbSNP
rs917875228 2470 dbSNP
rs536677471 2471 dbSNP
rs1256764898 2472 dbSNP
rs960836915 2473 dbSNP
rs992084316 2475 dbSNP
rs1374018657 2482 dbSNP
rs188268891 2484 dbSNP
rs959518350 2488 dbSNP
rs550501680 2493 dbSNP
rs752708066 2495 dbSNP
rs1035216459 2500 dbSNP
rs926480712 2504 dbSNP
rs999591587 2505 dbSNP
rs951790333 2516 dbSNP
rs566805350 2520 dbSNP
rs966822243 2525 dbSNP
rs1311819334 2527 dbSNP
rs1211173280 2532 dbSNP
rs1265014877 2533 dbSNP
rs1456517246 2535 dbSNP
rs530711528 2539 dbSNP
rs761192163 2542 dbSNP
rs1011290266 2544 dbSNP
rs1471467570 2546 dbSNP
rs183892029 2555 dbSNP
rs1424988373 2556 dbSNP
rs900501352 2559 dbSNP
rs1317157908 2561 dbSNP
rs1178157750 2562 dbSNP
rs1397441643 2563 dbSNP
rs965698619 2566 dbSNP
rs1331488852 2568 dbSNP
rs1378996048 2569 dbSNP
rs1019645366 2574 dbSNP
rs1039337484 2579 dbSNP
rs1007816368 2588 dbSNP
rs1219978966 2592 dbSNP
rs1265263185 2597 dbSNP
rs546817180 2599 dbSNP
rs1316335399 2603 dbSNP
rs192653995 2621 dbSNP
rs1054647036 2645 dbSNP
rs1260230105 2645 dbSNP
rs1355193975 2647 dbSNP
rs530252658 2664 dbSNP
rs1220008232 2666 dbSNP
rs1000759727 2667 dbSNP
rs1478575064 2671 dbSNP
rs1201088093 2673 dbSNP
rs1420982558 2678 dbSNP
rs1477320079 2680 dbSNP
rs1170762097 2681 dbSNP
rs528246222 2692 dbSNP
rs1008826118 2702 dbSNP
rs1382975406 2705 dbSNP
rs189905085 2710 dbSNP
rs950090992 2711 dbSNP
rs1276120776 2717 dbSNP
rs890272757 2723 dbSNP
rs1218323677 2730 dbSNP
rs917256859 2735 dbSNP
rs1047595683 2737 dbSNP
rs1162905742 2749 dbSNP
rs937962496 2765 dbSNP
rs115576858 2769 dbSNP
rs898886910 2770 dbSNP
rs1037460584 2776 dbSNP
rs528088011 2782 dbSNP
rs971797100 2783 dbSNP
rs1374237956 2786 dbSNP
rs563272651 2788 dbSNP
rs75392425 2794 dbSNP
rs1185454739 2797 dbSNP
rs184986117 2798 dbSNP
rs1426532566 2803 dbSNP
rs1007613211 2806 dbSNP
rs953666249 2811 dbSNP
rs561394550 2814 dbSNP
rs754862113 2821 dbSNP
rs1328236391 2831 dbSNP
rs1211415308 2838 dbSNP
rs1334680388 2854 dbSNP
rs1274197646 2855 dbSNP
rs1235457981 2864 dbSNP
rs1325220279 2872 dbSNP
rs939608083 2875 dbSNP
rs1295439575 2884 dbSNP
rs1382885551 2891 dbSNP
rs1364140599 2892 dbSNP
rs1324202462 2900 dbSNP
rs928113509 2903 dbSNP
rs147264139 2905 dbSNP
rs1237612460 2911 dbSNP
rs1446298034 2913 dbSNP
rs1395407373 2916 dbSNP
rs966875848 2921 dbSNP
rs1156790323 2924 dbSNP
rs1379400965 2927 dbSNP
rs1420110867 2928 dbSNP
rs1160128595 2932 dbSNP
rs560975722 2935 dbSNP
rs1387389749 2949 dbSNP
rs1000360045 2950 dbSNP
rs1462775089 2959 dbSNP
rs545603669 2962 dbSNP
rs558078002 2963 dbSNP
rs989595357 2963 dbSNP
rs3178018 2964 dbSNP
rs1454999712 2965 dbSNP
rs1307745929 2972 dbSNP
rs903354469 2976 dbSNP
rs1240176304 2977 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 GSM4903831
Method / RBP HITS-CLIP / AGO
Cell line / Condition Human neurons / 124TD_shELAVL3_a
Location of target site NM_001204255 | 3UTR | CUUCUGAAAAGUCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161238
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1462572
Method / RBP PAR-CLIP / AGO2
Cell line / Condition C8166 / C8166 NL4-3
Location of target site ENST00000264896.2 | 3UTR | AAAAUCAUGUGGGCUCU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
116 hsa-miR-3942-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT093395 TMA16 translation machinery associated 16 homolog 2 2
MIRT134018 SDE2 SDE2 telomere maintenance homolog 2 2
MIRT194942 TNRC6A trinucleotide repeat containing 6A 2 2
MIRT265807 NOTCH2 notch 2 2 2
MIRT287615 NPEPPS aminopeptidase puromycin sensitive 2 2
MIRT444196 SESN3 sestrin 3 2 2
MIRT444480 UBN2 ubinuclein 2 2 2
MIRT446589 FBXO40 F-box protein 40 2 2
MIRT450501 ALPK3 alpha kinase 3 2 2
MIRT455182 AGTRAP angiotensin II receptor associated protein 2 2
MIRT455446 EPB41L4B erythrocyte membrane protein band 4.1 like 4B 2 2
MIRT456385 KLHL12 kelch like family member 12 2 2
MIRT460303 FLCN folliculin 2 2
MIRT461247 COX10 COX10, heme A:farnesyltransferase cytochrome c oxidase assembly factor 2 6
MIRT467948 SLC16A1 solute carrier family 16 member 1 2 2
MIRT468007 SIX4 SIX homeobox 4 2 2
MIRT468211 SGK1 serum/glucocorticoid regulated kinase 1 2 2
MIRT470635 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT471785 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT473557 MATR3 matrin 3 2 2
MIRT475415 ICK intestinal cell kinase 2 2
MIRT476265 GNAL G protein subunit alpha L 2 6
MIRT477135 FAM107B family with sequence similarity 107 member B 2 6
MIRT478433 DAZAP2 DAZ associated protein 2 2 2
MIRT479050 CNOT6L CCR4-NOT transcription complex subunit 6 like 2 8
MIRT480872 BDNF-AS BDNF antisense RNA 2 2
MIRT484229 CLDN1 claudin 1 2 2
MIRT485055 SUCO SUN domain containing ossification factor 2 2
MIRT489871 MPLKIP M-phase specific PLK1 interacting protein 2 2
MIRT492411 SCARB2 scavenger receptor class B member 2 2 2
MIRT499682 KCTD2 potassium channel tetramerization domain containing 2 2 4
MIRT505969 RAB11FIP1 RAB11 family interacting protein 1 2 4
MIRT507708 CNIH cornichon family AMPA receptor auxiliary protein 1 2 4
MIRT511878 GID4 GID complex subunit 4 homolog 2 6
MIRT513411 RTP4 receptor transporter protein 4 2 2
MIRT519873 ZFP30 ZFP30 zinc finger protein 2 4
MIRT520703 TMCO1 transmembrane and coiled-coil domains 1 2 2
MIRT522890 KCNN3 potassium calcium-activated channel subfamily N member 3 2 6
MIRT523781 FAM63B MINDY lysine 48 deubiquitinase 2 2 2
MIRT523950 DYNLT1 dynein light chain Tctex-type 1 2 4
MIRT526894 ATP6V0E2 ATPase H+ transporting V0 subunit e2 2 2
MIRT529167 CCDC25 coiled-coil domain containing 25 2 2
MIRT529703 ZBTB49 zinc finger and BTB domain containing 49 2 2
MIRT530359 PCSK1 proprotein convertase subtilisin/kexin type 1 2 2
MIRT530595 C7orf33 chromosome 7 open reading frame 33 2 4
MIRT531528 CCT6A chaperonin containing TCP1 subunit 6A 2 2
MIRT531992 BARD1 BRCA1 associated RING domain 1 2 2
MIRT539547 AAK1 AP2 associated kinase 1 2 2
MIRT547757 KATNAL1 katanin catalytic subunit A1 like 1 2 2
MIRT549059 CAMSAP1 calmodulin regulated spectrin associated protein 1 2 2
MIRT549836 ECHDC1 ethylmalonyl-CoA decarboxylase 1 2 2
MIRT552698 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 2
MIRT554318 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT556358 MAF MAF bZIP transcription factor 2 2
MIRT557772 FRS2 fibroblast growth factor receptor substrate 2 2 2
MIRT558795 CHEK2 checkpoint kinase 2 2 2
MIRT561367 UBXN2B UBX domain protein 2B 2 2
MIRT561673 RAPGEF2 Rap guanine nucleotide exchange factor 2 2 2
MIRT567898 CSNK1A1 casein kinase 1 alpha 1 2 2
MIRT568456 ARPP19 cAMP regulated phosphoprotein 19 2 2
MIRT568838 NBPF12 NBPF member 12 2 2
MIRT568846 VPS53 VPS53, GARP complex subunit 2 2
MIRT568856 NBPF1 NBPF member 1 2 2
MIRT568888 NBPF15 NBPF member 15 2 2
MIRT569331 CDC5L cell division cycle 5 like 2 2
MIRT569388 NBPF11 NBPF member 11 2 2
MIRT569398 NBPF14 NBPF member 14 2 2
MIRT569644 NBPF10 NBPF member 10 2 2
MIRT571582 TROVE2 TROVE domain family member 2 2 2
MIRT573027 NBPF3 NBPF member 3 2 2
MIRT573293 UFM1 ubiquitin fold modifier 1 2 2
MIRT608814 SEPT6 septin 6 2 6
MIRT609046 BACH2 BTB domain and CNC homolog 2 2 6
MIRT609517 RAB3IP RAB3A interacting protein 2 2
MIRT611861 SRRM4 serine/arginine repetitive matrix 4 2 2
MIRT612174 EMC3 ER membrane protein complex subunit 3 2 2
MIRT612714 NR2F6 nuclear receptor subfamily 2 group F member 6 2 4
MIRT613305 ARL6IP6 ADP ribosylation factor like GTPase 6 interacting protein 6 2 4
MIRT616357 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT632424 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 2
MIRT636005 SAMD15 sterile alpha motif domain containing 15 2 2
MIRT636534 FAM126B family with sequence similarity 126 member B 2 2
MIRT637275 FGFR1OP FGFR1 oncogene partner 2 2
MIRT639131 ZNF726 zinc finger protein 726 2 2
MIRT641257 C8orf46 chromosome 8 open reading frame 46 2 2
MIRT642930 KRTAP5-9 keratin associated protein 5-9 2 2
MIRT644018 NUCB1 nucleobindin 1 2 2
MIRT645021 MAGEB4 MAGE family member B4 2 2
MIRT646790 EVC2 EvC ciliary complex subunit 2 2 2
MIRT647338 RPH3AL rabphilin 3A like (without C2 domains) 2 2
MIRT647975 PDE12 phosphodiesterase 12 2 2
MIRT650610 NEK4 NIMA related kinase 4 2 2
MIRT651052 ZNF579 zinc finger protein 579 2 2
MIRT651593 WDFY2 WD repeat and FYVE domain containing 2 2 2
MIRT652785 TCEANC2 transcription elongation factor A N-terminal and central domain containing 2 2 2
MIRT656450 MAPK6 mitogen-activated protein kinase 6 2 2
MIRT660086 BTD biotinidase 2 2
MIRT661398 OLR1 oxidized low density lipoprotein receptor 1 2 2
MIRT661759 MICA MHC class I polypeptide-related sequence A 2 2
MIRT666402 SH3D19 SH3 domain containing 19 2 2
MIRT668362 FGD4 FYVE, RhoGEF and PH domain containing 4 2 2
MIRT668895 CREG2 cellular repressor of E1A stimulated genes 2 2 2
MIRT669329 BSND barttin CLCNK type accessory beta subunit 2 2
MIRT672369 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT686261 YTHDF1 YTH N6-methyladenosine RNA binding protein 1 2 2
MIRT695571 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT701959 MINK1 misshapen like kinase 1 2 2
MIRT702322 KMT2A lysine methyltransferase 2A 2 2
MIRT705209 BRWD1 bromodomain and WD repeat domain containing 1 2 2
MIRT713949 KCTD6 potassium channel tetramerization domain containing 6 2 2
MIRT717082 EBF4 early B-cell factor 4 2 2
MIRT717896 COPS8 COP9 signalosome subunit 8 2 2
MIRT721043 TRIM67 tripartite motif containing 67 2 2
MIRT722194 TIMM8A translocase of inner mitochondrial membrane 8A 2 2
MIRT722782 ACADSB acyl-CoA dehydrogenase, short/branched chain 2 2
MIRT725412 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3942-3p Osimertinib 71496458 NSC779217 approved resistant Low Non-Small Cell Lung Cancer tissue
hsa-miR-3942-3p Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-3942-3p Neoadjuvant chemotherapy resistant tissue (breast cancer)

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