miRTarBase - #MIRT477353


—
pre-miRNA Information
pre-miRNA hsa-mir-642b   
Genomic Coordinates chr19: 45674932 - 45675008
Description Homo sapiens miR-642b stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-642b-3p
Sequence 47| AGACACAUUUGGAGAGGGACCC |68
Evidence Experimental
Experiments Illumina
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN24410683 6 COSMIC
COSN8407659 14 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs778534861 2 dbSNP
rs111664333 4 dbSNP
rs998995912 5 dbSNP
rs1206620651 6 dbSNP
rs1317907103 7 dbSNP
rs374751972 13 dbSNP
rs78902025 15 dbSNP
rs775648115 20 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol EOGT   
Synonyms AER61, AOS4, C3orf64, EOGT1
Description EGF domain specific O-linked N-acetylglucosamine transferase
Transcript NM_173654   
Expression
Putative miRNA Targets on EOGT
3'UTR of EOGT
(miRNA target sites are highlighted)		 
>EOGT|NM_173654|3'UTR
   1 ATATGCTGAGTCTGTTTGCAAAAAGAGAGTGTTTAAACACTCCAACACCCAGACTTAGAATTAAATCAGTAAAGCAATCT
  81 GTTATTTCCTATCCCCGAATTACCTTTTCTATGCCAAAACATACCTTCAGGATATTGTTATGTGTTGTATAGATGTTAAG
 161 TGTTTCATGTGGTTTTTGTGTCATTGCTATTTATCAATAGCAATAATTTTGCACTGAAAACTTTTTATAGTTCAAAAATT
 241 AAGCATGGACTCCCCAGTATACTTTAACTTTCTTTCTTTCTTTTTTTTTTTTTGGAGACAGAGTCTCACTGTCACCCAGG
 321 CTGGAGTGCAGTGGCATGATCTCAGTTTATGCAACTTCTGCCTCCCCAGGTTCAAGCGATTCTTTTGCCTCAGCCACCTG
 401 ACTAGCTGGGATTGCAGCCTGCACCACCACACCTGGCTAAATTTTTGTTGTTGTCGTTGAGATACAGTTTCACTCTGTCA
 481 CCCAGGCTGGAGTGCAGTGGCATGATCTCAGCTCACTGCAACCTCTGCCTTCTGGATTCAAGTGATTCTTGTGCCTTAGC
 561 CTCCCAAGTAGCTGGGATTACAGGCGTGCACCACCACGCCCAGTTGATTTTTGTATTTTTGATAGAGACGGAGTTTCACC
 641 ATGTTGGCCAGGCTGGTCTCGAACTCTGGGTTCAAGAAATCCTCCCACCTTGCCTCCCAAAGTGCTGGGATTACAGGTGT
 721 GAGCCACCACGCATGGCCCTGAACTTTCTCTTTTTAGGAATACCAAAGTTTTCAACTTTTTCAGCTTTAGAATTTGTAAA
 801 TATTTTTGTAGAATATCATATGACTGTAATTCCAGAGTGTTCCAACTTGTTTATGATATATTTGGGTAAATTTACAACTG
 881 TTCTTTTATTTGCCATAATCTGGTTATAACACTGTTTGTGGTAGGAAAGGAAAACATGCAAAACATACACACACACACAC
 961 ACACACACACACACACGCAGAGTTGTGATTCTCAGTACCAAGCTATAGGACCATGTTATAGATCAGCGTTTAGTCACCTC
1041 CAGGTTATATGCATCGAGAACCTGAATAAATCATGCCACTATATTAATTTATATTACATGTTTCATATTTAAATCATGTT
1121 TTCCTAAAATGTAGCAACTACATGTGATAAAAGCAAATTAGAACATTCTGTAGGACTGTCTTGCATACCTTCTGTCTGGT
1201 TTCCACTGATTCCTTCTTAGCCATGGAGAGCATTTGTGATTAATTAATTTATATATGAAATAATGGTTTCCATTTTATGC
1281 GAGTATTTGTAACTGCATATACCAGTGCGTGTGCGTCTACCTCTGTCAGCATGAAAGTATTCCAGTCTTTAATTTCAAAA
1361 ACTTCAAATTAGCCTCATGAAGAGAATTTTTCCCTGTGAAAAGTAAGACCAAGAAAAAACAAACTAAAGACATGTGACTT
1441 ATTCAATGAAAGTGAAAAAGAAGCTCTAAAACAGTGTCATTGATTAAAAAGAATATCTGGAATGTAGCCCCACTCTTTGA
1521 GTGGGATTCATTTCTTACTGCTTATGAACTTTCAATTTAGTAGTCAGAAACCATGGATTTATTTTACTGCACAATGTGAA
1601 GTTTACATTTTATTAACACTTGAGTAGTCTGATTTAGAGACTAGTTACTTCTATTTTTTAAAATAATGGAGTAACAAATT
1681 ACAGAATAGCTAAATAATTTTTTAAAAATATTTTACAGTTGTAAAAAATATCCATCAGAAAAATGACACACAAAACAAAA
1761 TATCTGGACCTTTACAGAAGACGTTTGCTGACCCCCACTTTAAAGGATTGGAACAGTCTTCTAGAATTGAGGAATATTTA
1841 TTAAAATACCTGTAAAGAAAATAGTGAATCACTGTAGCAATGGCTTTGATTCAGACCTTAAAATCACATAAGAAGAATTA
1921 CAACATGTTATGGATTTTTAAGTGGCAGGTATTGTAACTGTTTTTTGTGTGCAAAATACTGAGTAACCACTGGGAAAATA
2001 TTTCAGATGAAAGGGATGACAAAAGCATGTTGCGCTTTGCATCAGCAAGGCATTGACTTCTGAAAAAATGATCTGAAAAA
2081 AGTTTCACCGTTTGTCTTCTTACCTCATTTTAAGAAGCATGTGAAAATGGGATACTATAGACTACTGAGAATTTCAGAAA
2161 TTGAGAACAATTTCATAATAAAACGGCTATATTTGAAGAGAGAATACATTTTATATAAACAGGAAAATACATTTGACACT
2241 TTATGGAATTTTATGAGACTTTTTGTGGGAACAGAAGGTCTTCAAATTGTAAAATGTAAAGATTGCTCTTTTTATTAAGT
2321 CTTTAACAGGGATGTATTTCATTGTATGTTTTGGGTATGGCTTTGGAATAAATCATTTTATATTTTATTTGAATATCAGA
2401 ACCATT
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' cccagggagagguuUACACAGa 5'
                        ||||||: 
Target 5' ttcaggatattgttATGTGTTg 3'
 126 - 147 124.00 -5.60
2 
miRNA  3' cccagggagagguuuACACAGa 5'
                         |||||| 
Target 5' gtttcatgtggttttTGTGTCa 3'
 162 - 183 120.00 -7.60
3 
miRNA  3' cccAGGGAGAGGU-UUACACaga 5'
             |::: || || ||||||   
Target 5' ttaTTTTACTGCACAATGTGaag 3'
 1579 - 1601 119.00 -8.02
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30502654 30 COSMIC
COSN30468919 42 COSMIC
COSN30534763 61 COSMIC
COSN31497092 89 COSMIC
COSN30128363 96 COSMIC
COSN30463838 126 COSMIC
COSN7705681 166 COSMIC
COSN29128416 524 COSMIC
COSN31962089 597 COSMIC
COSN14079554 685 COSMIC
COSN26571572 729 COSMIC
COSN26568396 733 COSMIC
COSN32102787 760 COSMIC
COSN31547008 767 COSMIC
COSN30542454 833 COSMIC
COSN18723766 940 COSMIC
COSN19662996 946 COSMIC
COSN20098620 946 COSMIC
COSN19617604 1044 COSMIC
COSN17760279 1238 COSMIC
COSN14461870 1586 COSMIC
COSN29924265 1723 COSMIC
COSN20098619 2075 COSMIC
COSN26648973 2088 COSMIC
COSN31591252 2117 COSMIC
COSN31547847 2257 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1411898241 1 dbSNP
rs1485079358 3 dbSNP
rs765992224 4 dbSNP
rs755741668 6 dbSNP
rs369045920 9 dbSNP
rs1387466321 10 dbSNP
rs1164396744 11 dbSNP
rs1455329743 14 dbSNP
rs1470050511 20 dbSNP
rs767050837 25 dbSNP
rs761730779 26 dbSNP
rs1171121648 30 dbSNP
rs1483187938 42 dbSNP
rs774330939 43 dbSNP
rs35136668 44 dbSNP
rs149690852 45 dbSNP
rs1029933849 46 dbSNP
rs377246248 47 dbSNP
rs771137480 51 dbSNP
rs554473068 73 dbSNP
rs1038832178 74 dbSNP
rs1236777874 77 dbSNP
rs140796749 81 dbSNP
rs1018857855 87 dbSNP
rs1285415298 91 dbSNP
rs1286928695 95 dbSNP
rs941443883 96 dbSNP
rs151295231 97 dbSNP
rs554651022 111 dbSNP
rs1247659564 112 dbSNP
rs1052075373 120 dbSNP
rs1381566147 120 dbSNP
rs999157681 132 dbSNP
rs1466931278 134 dbSNP
rs1047623746 135 dbSNP
rs868364380 139 dbSNP
rs928581919 141 dbSNP
rs1400077432 149 dbSNP
rs1165138527 156 dbSNP
rs371704826 163 dbSNP
rs1351390869 172 dbSNP
rs538278500 179 dbSNP
rs142416013 182 dbSNP
rs72922929 183 dbSNP
rs1037925938 187 dbSNP
rs539204327 189 dbSNP
rs752911637 192 dbSNP
rs190622224 197 dbSNP
rs1371722526 203 dbSNP
rs1183660811 213 dbSNP
rs915594156 218 dbSNP
rs989836178 226 dbSNP
rs1223724773 227 dbSNP
rs140989178 227 dbSNP
rs147328450 235 dbSNP
rs999016720 237 dbSNP
rs1272127045 239 dbSNP
rs1457952485 256 dbSNP
rs751303845 257 dbSNP
rs1230684997 258 dbSNP
rs951369292 265 dbSNP
rs1459329500 266 dbSNP
rs1239143704 267 dbSNP
rs955538642 268 dbSNP
rs1306261782 269 dbSNP
rs1030290807 270 dbSNP
rs997119578 271 dbSNP
rs1291474670 272 dbSNP
rs1228335299 276 dbSNP
rs1358291908 278 dbSNP
rs201956287 280 dbSNP
rs1448504205 281 dbSNP
rs899806754 283 dbSNP
rs1163973768 284 dbSNP
rs1377414905 284 dbSNP
rs1393965818 284 dbSNP
rs1330909501 287 dbSNP
rs867947864 290 dbSNP
rs79006503 292 dbSNP
rs1440003578 293 dbSNP
rs1197198876 294 dbSNP
rs1285272134 294 dbSNP
rs1293096234 294 dbSNP
rs1318093032 294 dbSNP
rs1357973431 294 dbSNP
rs374683716 294 dbSNP
rs59164738 294 dbSNP
rs1351485601 297 dbSNP
rs1270528357 300 dbSNP
rs1436691201 301 dbSNP
rs568385837 302 dbSNP
rs1167002398 304 dbSNP
rs547875933 313 dbSNP
rs1259466279 318 dbSNP
rs1018476576 323 dbSNP
rs375194768 327 dbSNP
rs887225234 336 dbSNP
rs958169537 338 dbSNP
rs768526938 341 dbSNP
rs929086366 345 dbSNP
rs928496657 358 dbSNP
rs1030713573 365 dbSNP
rs562404667 368 dbSNP
rs1239243806 373 dbSNP
rs948684246 377 dbSNP
rs906245270 378 dbSNP
rs545931846 383 dbSNP
rs560653714 383 dbSNP
rs989805136 385 dbSNP
rs766255949 386 dbSNP
rs1037599916 389 dbSNP
rs1190825828 393 dbSNP
rs941856624 395 dbSNP
rs796163493 399 dbSNP
rs1047182629 401 dbSNP
rs977146623 402 dbSNP
rs1396982108 405 dbSNP
rs532725072 408 dbSNP
rs930042521 409 dbSNP
rs1386373309 410 dbSNP
rs1029848235 421 dbSNP
rs1316720621 424 dbSNP
rs977146671 431 dbSNP
rs1441192763 437 dbSNP
rs976050086 444 dbSNP
rs1241953099 447 dbSNP
rs1345112349 455 dbSNP
rs4855349 455 dbSNP
rs1017340255 456 dbSNP
rs1203120849 457 dbSNP
rs958200827 458 dbSNP
rs1031124628 461 dbSNP
rs1194491463 466 dbSNP
rs1005596017 471 dbSNP
rs1452633167 472 dbSNP
rs1293986466 477 dbSNP
rs576002132 482 dbSNP
rs185769724 484 dbSNP
rs1301352861 488 dbSNP
rs575022701 490 dbSNP
rs555289309 495 dbSNP
rs1421818416 497 dbSNP
rs1157129794 498 dbSNP
rs145325450 499 dbSNP
rs907008708 502 dbSNP
rs1045593976 504 dbSNP
rs1368397514 507 dbSNP
rs1439461083 509 dbSNP
rs1307129825 512 dbSNP
rs948633781 514 dbSNP
rs894428615 521 dbSNP
rs764803091 537 dbSNP
rs1200829581 547 dbSNP
rs1236808891 553 dbSNP
rs1260134092 555 dbSNP
rs1335232934 558 dbSNP
rs894782082 560 dbSNP
rs1480393229 568 dbSNP
rs1467334100 581 dbSNP
rs1016602419 585 dbSNP
rs745571432 586 dbSNP
rs575601694 589 dbSNP
rs1421014031 594 dbSNP
rs558590579 597 dbSNP
rs1363764922 598 dbSNP
rs1475728428 601 dbSNP
rs1167583307 607 dbSNP
rs1391786061 610 dbSNP
rs1460603442 615 dbSNP
rs1259737048 622 dbSNP
rs1213407380 623 dbSNP
rs139861060 626 dbSNP
rs1313783147 627 dbSNP
rs924292137 629 dbSNP
rs1222903778 630 dbSNP
rs1356033750 637 dbSNP
rs745517733 639 dbSNP
rs1006104681 652 dbSNP
rs181945406 660 dbSNP
rs1281473761 661 dbSNP
rs1332876403 663 dbSNP
rs1047588644 666 dbSNP
rs1401852012 674 dbSNP
rs1481639286 676 dbSNP
rs930075175 682 dbSNP
rs977115437 685 dbSNP
rs1475840196 686 dbSNP
rs35861234 687 dbSNP
rs1041114353 688 dbSNP
rs1416162356 689 dbSNP
rs942701285 692 dbSNP
rs571307479 693 dbSNP
rs1170708797 701 dbSNP
rs1451856493 702 dbSNP
rs911182719 703 dbSNP
rs368678355 705 dbSNP
rs922748087 707 dbSNP
rs1375914652 708 dbSNP
rs1416553485 709 dbSNP
rs1311053967 714 dbSNP
rs975641533 723 dbSNP
rs375639557 730 dbSNP
rs553544239 731 dbSNP
rs761340074 733 dbSNP
rs1025157441 737 dbSNP
rs990550786 743 dbSNP
rs959301282 744 dbSNP
rs534043440 748 dbSNP
rs568220048 750 dbSNP
rs780883429 756 dbSNP
rs1187523166 760 dbSNP
rs375412396 771 dbSNP
rs886344889 774 dbSNP
rs1426371141 775 dbSNP
rs1169060758 783 dbSNP
rs1395143573 784 dbSNP
rs776439731 788 dbSNP
rs1202737110 804 dbSNP
rs563453956 809 dbSNP
rs1374825814 810 dbSNP
rs768378278 820 dbSNP
rs144459868 828 dbSNP
rs373697994 828 dbSNP
rs1327151681 832 dbSNP
rs568893420 839 dbSNP
rs1380759428 846 dbSNP
rs1380800787 856 dbSNP
rs1381540646 860 dbSNP
rs1297214731 880 dbSNP
rs1348686904 894 dbSNP
rs906649878 895 dbSNP
rs1024553536 903 dbSNP
rs1216866702 904 dbSNP
rs1469573227 911 dbSNP
rs1404560950 917 dbSNP
rs372276999 918 dbSNP
rs1173510642 920 dbSNP
rs1187535035 920 dbSNP
rs59031155 936 dbSNP
rs374900267 937 dbSNP
rs371546303 938 dbSNP
rs1167692106 939 dbSNP
rs369344510 941 dbSNP
rs1243303997 942 dbSNP
rs368481876 943 dbSNP
rs1369361851 946 dbSNP
rs6783080 946 dbSNP
rs1160948529 950 dbSNP
rs1401224030 950 dbSNP
rs565943376 950 dbSNP
rs1343202408 951 dbSNP
rs1320108219 956 dbSNP
rs1452879652 956 dbSNP
rs1459776212 957 dbSNP
rs1053700915 964 dbSNP
rs1196378828 966 dbSNP
rs1338653017 975 dbSNP
rs1367443226 976 dbSNP
rs1208548998 977 dbSNP
rs1224810747 977 dbSNP
rs1273370391 977 dbSNP
rs1287033214 977 dbSNP
rs1315471980 977 dbSNP
rs1469559860 977 dbSNP
rs190750686 977 dbSNP
rs58263145 977 dbSNP
rs71618257 977 dbSNP
rs776106534 977 dbSNP
rs878937818 977 dbSNP
rs1250842365 980 dbSNP
rs1231058084 991 dbSNP
rs1225245823 994 dbSNP
rs1482707525 995 dbSNP
rs1323762254 996 dbSNP
rs1188317544 999 dbSNP
rs936947432 1000 dbSNP
rs1474139801 1003 dbSNP
rs778360505 1005 dbSNP
rs924213628 1006 dbSNP
rs1452156500 1009 dbSNP
rs1042589931 1013 dbSNP
rs746268610 1018 dbSNP
rs1331011034 1023 dbSNP
rs1333787606 1024 dbSNP
rs949591930 1027 dbSNP
rs560329314 1028 dbSNP
rs1314087303 1031 dbSNP
rs547212010 1035 dbSNP
rs1396335712 1036 dbSNP
rs1283219111 1038 dbSNP
rs774744072 1049 dbSNP
rs991017552 1052 dbSNP
rs185987279 1055 dbSNP
rs1385503768 1060 dbSNP
rs561380622 1062 dbSNP
rs902837637 1077 dbSNP
rs1162590896 1079 dbSNP
rs1442361734 1081 dbSNP
rs908908548 1083 dbSNP
rs1340911852 1093 dbSNP
rs1041392603 1097 dbSNP
rs1259575416 1098 dbSNP
rs1484552689 1100 dbSNP
rs984438673 1100 dbSNP
rs1237077601 1101 dbSNP
rs1382002429 1113 dbSNP
rs4855539 1140 dbSNP
rs922415047 1142 dbSNP
rs1388389361 1149 dbSNP
rs748601798 1153 dbSNP
rs777777547 1154 dbSNP
rs1490874396 1158 dbSNP
rs575519522 1162 dbSNP
rs942849344 1164 dbSNP
rs564912039 1165 dbSNP
rs1326587200 1178 dbSNP
rs1432439384 1178 dbSNP
rs910065806 1184 dbSNP
rs1340801530 1190 dbSNP
rs966308070 1192 dbSNP
rs1245599670 1194 dbSNP
rs984350025 1196 dbSNP
rs1281657638 1198 dbSNP
rs1007413519 1211 dbSNP
rs951634576 1232 dbSNP
rs1345683347 1234 dbSNP
rs374768608 1242 dbSNP
rs1240127025 1249 dbSNP
rs1335722626 1251 dbSNP
rs756190620 1255 dbSNP
rs918580339 1256 dbSNP
rs1199595552 1262 dbSNP
rs1327382444 1263 dbSNP
rs1448579387 1270 dbSNP
rs1195595248 1277 dbSNP
rs115176538 1280 dbSNP
rs971219671 1281 dbSNP
rs1448916929 1284 dbSNP
rs180677089 1285 dbSNP
rs1397388741 1288 dbSNP
rs1464990970 1297 dbSNP
rs1172303732 1300 dbSNP
rs1023684028 1303 dbSNP
rs1402845642 1308 dbSNP
rs1318090747 1309 dbSNP
rs80297124 1311 dbSNP
rs1329217060 1314 dbSNP
rs958507341 1315 dbSNP
rs1280137021 1320 dbSNP
rs1352535920 1330 dbSNP
rs553055967 1337 dbSNP
rs1266423409 1339 dbSNP
rs1464642319 1347 dbSNP
rs902488423 1351 dbSNP
rs1042621286 1353 dbSNP
rs1431575712 1357 dbSNP
rs189155666 1360 dbSNP
rs918114386 1361 dbSNP
rs1471331690 1372 dbSNP
rs1157440831 1373 dbSNP
rs1387370412 1375 dbSNP
rs149371008 1376 dbSNP
rs1327570107 1377 dbSNP
rs755150424 1384 dbSNP
rs1385774202 1395 dbSNP
rs1329430805 1403 dbSNP
rs937783213 1403 dbSNP
rs1226308071 1408 dbSNP
rs908982460 1425 dbSNP
rs1328683659 1426 dbSNP
rs1361823383 1427 dbSNP
rs373829760 1429 dbSNP
rs984513164 1429 dbSNP
rs918920832 1432 dbSNP
rs1480718330 1434 dbSNP
rs1440063344 1435 dbSNP
rs1180396262 1439 dbSNP
rs1411672735 1440 dbSNP
rs1475777979 1441 dbSNP
rs1166609404 1442 dbSNP
rs1456925127 1446 dbSNP
rs1298286230 1452 dbSNP
rs1398466650 1468 dbSNP
rs965975225 1494 dbSNP
rs1355816769 1497 dbSNP
rs1269768719 1507 dbSNP
rs1221775177 1510 dbSNP
rs554541169 1513 dbSNP
rs1315043640 1519 dbSNP
rs1017878228 1520 dbSNP
rs755173485 1524 dbSNP
rs56276550 1526 dbSNP
rs1007410133 1534 dbSNP
rs1251979496 1538 dbSNP
rs957173188 1543 dbSNP
rs766710222 1552 dbSNP
rs1203626557 1553 dbSNP
rs751406319 1555 dbSNP
rs1486191011 1562 dbSNP
rs1190541797 1565 dbSNP
rs1253597428 1571 dbSNP
rs1422886728 1572 dbSNP
rs551406233 1596 dbSNP
rs1000866465 1607 dbSNP
rs902563115 1609 dbSNP
rs1020947203 1623 dbSNP
rs1286563738 1627 dbSNP
rs1436308169 1628 dbSNP
rs1300867074 1629 dbSNP
rs1377174476 1629 dbSNP
rs1395654733 1631 dbSNP
rs533944551 1632 dbSNP
rs1296643549 1635 dbSNP
rs1014284346 1637 dbSNP
rs1226338934 1640 dbSNP
rs1206116318 1651 dbSNP
rs1349277240 1653 dbSNP
rs896717966 1658 dbSNP
rs1254645484 1660 dbSNP
rs1483163810 1668 dbSNP
rs1186743147 1682 dbSNP
rs1249557036 1683 dbSNP
rs1350471132 1687 dbSNP
rs1278116958 1689 dbSNP
rs1055762921 1697 dbSNP
rs1395536385 1698 dbSNP
rs938208475 1698 dbSNP
rs1358356895 1701 dbSNP
rs887914088 1703 dbSNP
rs1402507768 1704 dbSNP
rs1048877869 1709 dbSNP
rs918953407 1710 dbSNP
rs929030718 1710 dbSNP
rs1318616312 1733 dbSNP
rs377502645 1734 dbSNP
rs1372292956 1744 dbSNP
rs1221426373 1745 dbSNP
rs975754560 1748 dbSNP
rs1311947149 1749 dbSNP
rs1216981066 1755 dbSNP
rs1269578960 1760 dbSNP
rs1382594085 1761 dbSNP
rs1207482468 1762 dbSNP
rs562161732 1770 dbSNP
rs1174091268 1772 dbSNP
rs766185201 1773 dbSNP
rs944346980 1774 dbSNP
rs1198830944 1775 dbSNP
rs1419402024 1779 dbSNP
rs910481663 1782 dbSNP
rs568276130 1783 dbSNP
rs1479471556 1789 dbSNP
rs1414379832 1792 dbSNP
rs1455858919 1793 dbSNP
rs375747349 1795 dbSNP
rs1243898651 1797 dbSNP
rs544158315 1821 dbSNP
rs1446633771 1832 dbSNP
rs1395311848 1834 dbSNP
rs1438756640 1846 dbSNP
rs1292238486 1848 dbSNP
rs986418219 1850 dbSNP
rs796511897 1871 dbSNP
rs1032804786 1873 dbSNP
rs979520374 1880 dbSNP
rs966753993 1890 dbSNP
rs1273470256 1894 dbSNP
rs1452810807 1895 dbSNP
rs56388443 1904 dbSNP
rs1218771090 1910 dbSNP
rs1021397936 1911 dbSNP
rs1480922100 1915 dbSNP
rs754097448 1918 dbSNP
rs538122260 1923 dbSNP
rs1363501513 1925 dbSNP
rs1270263556 1931 dbSNP
rs1409474255 1934 dbSNP
rs1429657830 1937 dbSNP
rs569209217 1939 dbSNP
rs1338465897 1947 dbSNP
rs896451128 1948 dbSNP
rs1405294508 1967 dbSNP
rs1414864420 1967 dbSNP
rs1174250036 1968 dbSNP
rs1467093444 1975 dbSNP
rs1349749132 1978 dbSNP
rs1443542454 1986 dbSNP
rs1421823686 1989 dbSNP
rs1033945500 1991 dbSNP
rs1348980956 1992 dbSNP
rs1409653097 1993 dbSNP
rs117715435 1997 dbSNP
rs1168555540 2010 dbSNP
rs1475210498 2021 dbSNP
rs113721595 2027 dbSNP
rs1185834801 2033 dbSNP
rs1049243377 2034 dbSNP
rs929062033 2038 dbSNP
rs897590927 2039 dbSNP
rs185044152 2041 dbSNP
rs1188424775 2044 dbSNP
rs1238196286 2046 dbSNP
rs546683920 2048 dbSNP
rs1180393890 2058 dbSNP
rs910169983 2070 dbSNP
rs1430528447 2071 dbSNP
rs760980430 2075 dbSNP
rs765386517 2075 dbSNP
rs386396966 2082 dbSNP
rs397706963 2082 dbSNP
rs57738895 2082 dbSNP
rs1273109038 2086 dbSNP
rs935913166 2089 dbSNP
rs1337080515 2090 dbSNP
rs1362004964 2094 dbSNP
rs1316660113 2102 dbSNP
rs1230043165 2107 dbSNP
rs867002211 2112 dbSNP
rs765031722 2117 dbSNP
rs375834875 2119 dbSNP
rs967162217 2129 dbSNP
rs1021053321 2130 dbSNP
rs1185650628 2131 dbSNP
rs992620193 2134 dbSNP
rs1444364223 2147 dbSNP
rs753790058 2168 dbSNP
rs1388788041 2169 dbSNP
rs1333449985 2170 dbSNP
rs761434479 2172 dbSNP
rs776244277 2173 dbSNP
rs372606238 2178 dbSNP
rs369452310 2184 dbSNP
rs1333074769 2185 dbSNP
rs1388375811 2193 dbSNP
rs952254603 2198 dbSNP
rs1294780872 2202 dbSNP
rs1445457991 2204 dbSNP
rs1234923032 2206 dbSNP
rs550918461 2213 dbSNP
rs1342583653 2228 dbSNP
rs993677892 2231 dbSNP
rs897953826 2235 dbSNP
rs1182065722 2243 dbSNP
rs1210606794 2246 dbSNP
rs376163851 2253 dbSNP
rs1464554650 2257 dbSNP
rs1200162231 2262 dbSNP
rs1009060604 2265 dbSNP
rs763882124 2265 dbSNP
rs181222895 2269 dbSNP
rs1203238635 2278 dbSNP
rs1412170888 2282 dbSNP
rs544957565 2283 dbSNP
rs774633965 2284 dbSNP
rs935945252 2286 dbSNP
rs1318208167 2290 dbSNP
rs1293285512 2296 dbSNP
rs189183725 2305 dbSNP
rs1329303242 2306 dbSNP
rs1232174479 2314 dbSNP
rs1358271736 2317 dbSNP
rs945893164 2317 dbSNP
rs992298137 2321 dbSNP
rs1409738069 2329 dbSNP
rs1266518483 2330 dbSNP
rs961060747 2332 dbSNP
rs1210537850 2334 dbSNP
rs1312664273 2338 dbSNP
rs56239520 2340 dbSNP
rs1450403035 2341 dbSNP
rs926666146 2345 dbSNP
rs867184167 2349 dbSNP
rs1373993973 2350 dbSNP
rs1473797968 2350 dbSNP
rs1410796545 2367 dbSNP
rs546010428 2380 dbSNP
rs570610266 2380 dbSNP
rs1278937773 2382 dbSNP
rs1439894042 2393 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 285203.0
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 GSM714645. RNA binding protein: AGO2. Condition:completeT1 ...

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

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 GSM1462573. RNA binding protein: AGO2. Condition:TZM-bl BaL 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.

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 SRX1760632. RNA binding protein: AGO2. Condition:AGO-CLIP-22RV1_C ...

- 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 GSM714645
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / completeT1, repB
Location of target site ENST00000383701.3 | 3UTR | UCAUUGCUAUUUAUCAAUAGCAAUAAUUUUGCACUG
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 GSM1462573
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl BaL
Location of target site ENST00000383701.3 | 3UTR | UCAUUGCUAUUUAUCAAUAGCAAUAAUUUUGCACUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23592263 / GSE59944
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000383701.3 | 3UTR | UCAUUGCUAUUUAUCAAUAGCAAUAAUUUUGCACUG
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
77 hsa-miR-642b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT082888 ZNF543 zinc finger protein 543 2 2
MIRT108294 BHLHB9 basic helix-loop-helix family member b9 2 2
MIRT348737 ZNF350 zinc finger protein 350 2 2
MIRT381384 EXOG exo/endonuclease G 2 2
MIRT452245 TRAM1 translocation associated membrane protein 1 2 2
MIRT459262 ADRBK1 G protein-coupled receptor kinase 2 2 2
MIRT468117 SH3PXD2A SH3 and PX domains 2A 2 2
MIRT468402 SETD3 SET domain containing 3 2 2
MIRT469079 RNF168 ring finger protein 168 2 2
MIRT471690 OXR1 oxidation resistance 1 2 2
MIRT477353 EOGT EGF domain specific O-linked N-acetylglucosamine transferase 2 4
MIRT479600 CDC25B cell division cycle 25B 2 2
MIRT482377 AFF4 AF4/FMR2 family member 4 2 4
MIRT484029 LARP4B La ribonucleoprotein domain family member 4B 2 2
MIRT490988 USP22 ubiquitin specific peptidase 22 2 2
MIRT493250 MEF2D myocyte enhancer factor 2D 2 2
MIRT493850 FOXN3 forkhead box N3 2 4
MIRT496086 C17orf85 nuclear cap binding subunit 3 2 2
MIRT500630 TXNIP thioredoxin interacting protein 2 2
MIRT501048 SMEK1 protein phosphatase 4 regulatory subunit 3A 2 2
MIRT525186 ZNF257 zinc finger protein 257 2 4
MIRT534875 QSER1 glutamine and serine rich 1 2 2
MIRT539336 AGPAT5 1-acylglycerol-3-phosphate O-acyltransferase 5 2 2
MIRT553814 SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein 2 2
MIRT555959 NRAS NRAS proto-oncogene, GTPase 2 2
MIRT556289 MAP3K5 mitogen-activated protein kinase kinase kinase 5 2 2
MIRT561212 ZSWIM1 zinc finger SWIM-type containing 1 2 2
MIRT567328 HMGB1 high mobility group box 1 2 2
MIRT572385 LRRC6 leucine rich repeat containing 6 2 2
MIRT575529 Map4 microtubule-associated protein 4 2 2
MIRT575684 Map1b microtubule-associated protein 1B 2 2
MIRT576828 Tgfbr3 transforming growth factor, beta receptor III 2 2
MIRT576953 Pigs phosphatidylinositol glycan anchor biosynthesis, class S 2 3
MIRT608316 SYK spleen associated tyrosine kinase 2 4
MIRT609794 PINX1 PIN2/TERF1 interacting telomerase inhibitor 1 2 2
MIRT609991 PIGS phosphatidylinositol glycan anchor biosynthesis class S 2 3
MIRT611381 PNMAL1 paraneoplastic Ma antigen family member 8A 2 4
MIRT613566 YY2 YY2 transcription factor 2 2
MIRT614612 MVK mevalonate kinase 2 2
MIRT615497 MPP2 membrane palmitoylated protein 2 2 2
MIRT616941 OTUD7A OTU deubiquitinase 7A 2 2
MIRT617576 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT618214 SPTLC3 serine palmitoyltransferase long chain base subunit 3 2 4
MIRT619885 ABHD17B abhydrolase domain containing 17B 2 2
MIRT620401 MYO1H myosin IH 2 2
MIRT620517 SNRPD1 small nuclear ribonucleoprotein D1 polypeptide 2 2
MIRT622166 SMYD1 SET and MYND domain containing 1 2 2
MIRT623195 MTX3 metaxin 3 2 2
MIRT623440 KIAA0408 KIAA0408 2 4
MIRT624837 ACAP2 ArfGAP with coiled-coil, ankyrin repeat and PH domains 2 2 2
MIRT625706 SHROOM1 shroom family member 1 2 2
MIRT628159 HIP1 huntingtin interacting protein 1 2 2
MIRT629496 SGIP1 SH3 domain GRB2 like endophilin interacting protein 1 2 2
MIRT630240 SOGA3 SOGA family member 3 2 4
MIRT630521 BAZ2A bromodomain adjacent to zinc finger domain 2A 2 4
MIRT635676 COX18 COX18, cytochrome c oxidase assembly factor 2 4
MIRT637820 CACNA1B calcium voltage-gated channel subunit alpha1 B 2 2
MIRT637943 SIGLEC9 sialic acid binding Ig like lectin 9 2 2
MIRT640490 EXOC5 exocyst complex component 5 2 2
MIRT642722 ATXN3 ataxin 3 2 2
MIRT649153 LRTM1 leucine rich repeats and transmembrane domains 1 2 2
MIRT649610 ITPKC inositol-trisphosphate 3-kinase C 2 2
MIRT661016 ABCA12 ATP binding cassette subfamily A member 12 2 2
MIRT661055 RPL18A ribosomal protein L18a 2 2
MIRT684041 FOLR1 folate receptor 1 2 2
MIRT691014 CRTC3 CREB regulated transcription coactivator 3 2 2
MIRT698908 SPPL2A signal peptide peptidase like 2A 2 2
MIRT700981 PDE4D phosphodiesterase 4D 2 2
MIRT701722 MTMR12 myotubularin related protein 12 2 2
MIRT702724 INSIG1 insulin induced gene 1 2 2
MIRT705057 C5orf15 chromosome 5 open reading frame 15 2 2
MIRT705216 BRWD1 bromodomain and WD repeat domain containing 1 2 2
MIRT706088 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT709458 KRTAP19-1 keratin associated protein 19-1 2 2
MIRT711396 RANBP2 RAN binding protein 2 2 2
MIRT720573 SDHAF2 succinate dehydrogenase complex assembly factor 2 2 2
MIRT725366 MTF2 metal response element binding transcription factor 2 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-642b-3p Platinum-based doublet chemotherapy sensitive High Lung Adenocarcinoma tissue
hsa-miR-642b-3p Platinum 23939 sensitive High Ovarian Cancer tissue
hsa-miR-642b-3p Imatinib 5291 NSC743414 approved sensitive High Gastrointestinal Stromal Tumor cell line (882R-NC, 882R-OE, 882R-KD)
hsa-miR-642b-3p Sunitinib 5329102 NSC750690 approved resistant Low Renal Cell Cancer cell line (ACHN, RCC23)
hsa-miR-642b-3p Paclitaxel 36314 NSC125973 approved sensitive High Ovarian Cancer cell line (HEYA8)
hsa-miR-642b-3p Fluorouracil 3385 NSC19893 approved resistant High Colorectal Cancer cell line (HT-29)
hsa-miR-642b-3p Platinum 23939 sensitive High High-Grade Serous Ovarian Cancer tissue
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A2780)
hsa-miR-642b-3p Platinum-based doublet chemotherapy sensitive tissue (lung adenocarcinoma)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-642b-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM16)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-642b-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (OVSAHO)

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