miRTarBase - #MIRT103356


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pre-miRNA Information
pre-miRNA hsa-mir-548w   
Genomic Coordinates chr16: 26025237 - 26025310
Description Homo sapiens miR-548w stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-548w
Sequence 10| AAAAGUAACUGCGGUUUUUGCCU |32
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 4 16 + 26025249 29233923 MiREDiBase
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs918935898 1 dbSNP
rs573018690 4 dbSNP
rs1355338018 5 dbSNP
rs1232952112 7 dbSNP
rs768527810 12 dbSNP
rs1331351492 13 dbSNP
rs925963272 14 dbSNP
rs1299975801 16 dbSNP
rs1247960808 17 dbSNP
rs1217191628 23 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol CBX3   
Synonyms HECH, HP1-GAMMA, HP1Hs-gamma
Description chromobox 3
Transcript NM_007276   
Other Transcripts NM_016587   
Expression
Putative miRNA Targets on CBX3
3'UTR of CBX3
(miRNA target sites are highlighted)		 
>CBX3|NM_007276|3'UTR
   1 TTGTTCACATTGTTCTTTTATATATATTTATATATATATATAAAAATTGGGTCTTAGATTTTGATTTACTAGTGTGACAA
  81 AATAACTACATCCTAATGAAAATCAAGTTTGATATGTTTGTTTTGAAAGTAGCGTTGGAAGAGTTGTTGGGGGTTTTTTG
 161 CATCCATAGCACTGGTTACTTTGAACAAATAAATAAAAGCTTTCTGTAGTTGCTTCCTTTATCAGAAAAGAACATTTGAT
 241 ACCATGGTATATCATTTCCTCTTCATTAAAGAACAGCTTTTCTAAATGTTGGGGGAAATGTCCATAGTCATTACTCAGTC
 321 AAAACTTGTGTTCTCATGAGCCTAAGGACCATTCTAGATTTATTACGTGTTTTTTGTGTGTGTGTGTGTGTGTGTGTGTG
 401 TGTGTATCCATAAAATGCATATGTAAATTTTTTTTTGTTTTTAAGCATTCACCCAAACAAAAAAATCACAGGTAAACCCA
 481 TGTTTCTGAGATGCCATTATTCCAAGCAAAATAAGAGATAATCCCTTCAAGTTAAATTGAAAATTTTCCTGAAACCATAC
 561 ATTTCAAGTGAAATAAGTAATTCTAGATAGGACAATTTAAATTGGATAATTTTAAAGTGTCTATAATTGCAGTGGTTTAT
 641 TTGCAAAATTCCTAAAAGGAAAAATTTTATCACTGCCATCACAGCAGGTTTCCTCATCCAGATGAGGAAACTAGACAAAT
 721 GCTAGTGTGTTTTAACTAGCTAAACAAAACTAAGTTAAATGAACATTTAAAAGTTTCCCTAGCGGGCCATTCCTTAGCAA
 801 AATGTTGGAATCCCTGTTGCTACATTGACTAAAAGGTCATGATGAATGGAATATGTAAGACTTGGCTCATAGAAACCTAA
 881 TCAGATGGTTAGAGGTGTTGGCAGTTTAGGACCTGCTGTCATAAATGTGTGAACAACCTTTTGTAACCTAACCTATTGAC
 961 CTGCATGTTTTTTCTTTACCCCAATTCATTACATGGAGGCTCAATCTTGAGTTTGCTTTACTGGTTCAGCAAAAGCCAGG
1041 AAGAACAACTTTGTAGTAATCAAAATGTTATCCAACTGTATATTGTTTACTTTATTGTAAATACTGGTGAACAGTGGTTA
1121 ATAAATAGTTTTATATTCCTTTATGCAATTATTAGACTTTTTTCTTTATTTGATATGCCTTTACAGTAGAAATAGAAATG
1201 CCCACACTCATTGGATTATCTTTGTTTATAAGTTAGATGATACCAGTAAGGCATTACAGTACATATCCTAGATCTTTTGA
1281 GCTTACGAGTTTTAAACTTGAATATGTATTTCCACAGGAATGTTTCCACAGTTGGGAAATAAAAGTTTCATGTGATGCCT
1361 AGGGTCAATTGTCTCATTAAAATGAGGTTTTAAATTCTG
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' ucCGU---UUUUGGCGUCAAUGAAAa 5'
            |||   | |:|  ::|||||||| 
Target 5' ttGCATCCATAGCACTGGTTACTTTg 3'
 158 - 183 157.00 -9.10
2 
miRNA  3' uccguuuUUGGCGU----C-AAUGAAAa 5'
                 |||:|:|    | ||||||| 
Target 5' gttatccAACTGTATATTGTTTACTTTa 3'
 1067 - 1094 150.00 -6.40
3 
miRNA  3' ucCGUUUUUGGCGUC-AAUGAAAa 5'
            ||  || |:  || ||:|||| 
Target 5' agGCTCAATCTTGAGTTTGCTTTa 3'
 997 - 1020 137.00 -8.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31547870 15 COSMIC
COSN8313160 16 COSMIC
COSN30111102 24 COSMIC
COSN31547062 29 COSMIC
COSN30172291 126 COSMIC
COSN17999689 375 COSMIC
COSN20103972 375 COSMIC
COSN15663217 377 COSMIC
COSN32065599 377 COSMIC
COSN7976031 379 COSMIC
COSN32057439 381 COSMIC
COSN20515797 385 COSMIC
COSN20506707 387 COSMIC
COSN20103973 403 COSMIC
COSN32062223 406 COSMIC
COSN20091545 784 COSMIC
COSN31584414 969 COSMIC
COSN31579765 974 COSMIC
COSN31596203 1000 COSMIC
COSN25027399 1081 COSMIC
COSN15663144 1108 COSMIC
COSN26560789 1139 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs753824971 3 dbSNP
rs754927630 8 dbSNP
rs778244272 10 dbSNP
rs747695069 11 dbSNP
rs1219228169 12 dbSNP
rs756775029 13 dbSNP
rs771563880 13 dbSNP
rs1212252044 14 dbSNP
rs767121792 14 dbSNP
rs750059523 15 dbSNP
rs9768418 16 dbSNP
rs1376009077 17 dbSNP
rs746229930 17 dbSNP
rs770320418 19 dbSNP
rs1382478280 20 dbSNP
rs1233306171 21 dbSNP
rs1463948520 21 dbSNP
rs776117134 24 dbSNP
rs569606982 27 dbSNP
rs1169854946 28 dbSNP
rs749825060 29 dbSNP
rs756466015 29 dbSNP
rs780514476 29 dbSNP
rs769212843 31 dbSNP
rs761570988 32 dbSNP
rs191976883 33 dbSNP
rs1174365849 35 dbSNP
rs558509108 40 dbSNP
rs762011516 41 dbSNP
rs1250656691 42 dbSNP
rs755610639 42 dbSNP
rs1201832732 43 dbSNP
rs1491030362 43 dbSNP
rs145395285 44 dbSNP
rs1292121731 48 dbSNP
rs773527822 50 dbSNP
rs1204817390 53 dbSNP
rs1460687807 54 dbSNP
rs1374736395 65 dbSNP
rs1209186739 69 dbSNP
rs1249498829 70 dbSNP
rs541141900 73 dbSNP
rs554318585 76 dbSNP
rs1424237050 84 dbSNP
rs574290972 87 dbSNP
rs767813762 88 dbSNP
rs1484650128 89 dbSNP
rs184267440 93 dbSNP
rs1425198851 94 dbSNP
rs1419385281 105 dbSNP
rs1434432440 106 dbSNP
rs1179172603 108 dbSNP
rs1490715797 111 dbSNP
rs1221340109 112 dbSNP
rs1268935110 112 dbSNP
rs564728658 116 dbSNP
rs1262082771 120 dbSNP
rs961143819 127 dbSNP
rs1317835612 128 dbSNP
rs972930365 134 dbSNP
rs575256913 135 dbSNP
rs376832373 140 dbSNP
rs1404371534 147 dbSNP
rs563219634 153 dbSNP
rs1290799063 154 dbSNP
rs1321726459 154 dbSNP
rs1363003766 155 dbSNP
rs1347325491 161 dbSNP
rs1156902023 162 dbSNP
rs1428828400 172 dbSNP
rs1481362982 174 dbSNP
rs1429846466 175 dbSNP
rs1198100961 177 dbSNP
rs764324873 178 dbSNP
rs1489599028 181 dbSNP
rs1263424657 182 dbSNP
rs1288538830 185 dbSNP
rs1368355040 187 dbSNP
rs917423522 191 dbSNP
rs971975204 192 dbSNP
rs532023444 197 dbSNP
rs1326325334 203 dbSNP
rs535298845 203 dbSNP
rs1223003012 204 dbSNP
rs1329408629 212 dbSNP
rs1298080506 214 dbSNP
rs1382955661 218 dbSNP
rs754233464 221 dbSNP
rs1228934963 223 dbSNP
rs1286016521 224 dbSNP
rs1175546572 227 dbSNP
rs1476788693 229 dbSNP
rs189467571 231 dbSNP
rs1374263224 235 dbSNP
rs1193515569 242 dbSNP
rs1427581202 245 dbSNP
rs1259183298 246 dbSNP
rs1207226964 247 dbSNP
rs1314932992 248 dbSNP
rs1264373818 255 dbSNP
rs1214585253 256 dbSNP
rs1343006086 259 dbSNP
rs1253123713 261 dbSNP
rs1246968603 262 dbSNP
rs1326101508 277 dbSNP
rs1295591023 278 dbSNP
rs1490691875 283 dbSNP
rs1383241059 289 dbSNP
rs1336076933 291 dbSNP
rs1412666295 291 dbSNP
rs1398484213 293 dbSNP
rs1168025855 295 dbSNP
rs1460987343 296 dbSNP
rs1196731044 297 dbSNP
rs1387955005 302 dbSNP
rs1185039848 305 dbSNP
rs1446896570 307 dbSNP
rs1267379887 311 dbSNP
rs1441213180 312 dbSNP
rs1253232091 313 dbSNP
rs1480360279 317 dbSNP
rs1338759551 318 dbSNP
rs1160576355 326 dbSNP
rs1248439562 327 dbSNP
rs1359949927 334 dbSNP
rs1410563726 335 dbSNP
rs182369741 336 dbSNP
rs1158624022 338 dbSNP
rs9768454 339 dbSNP
rs1390378526 345 dbSNP
rs1368163740 351 dbSNP
rs1406838458 353 dbSNP
rs1301299166 359 dbSNP
rs1424873952 361 dbSNP
rs1384162727 363 dbSNP
rs1163070918 364 dbSNP
rs1344980496 367 dbSNP
rs878949545 368 dbSNP
rs1183146485 370 dbSNP
rs1224753695 370 dbSNP
rs1491418688 370 dbSNP
rs751042522 370 dbSNP
rs766069620 370 dbSNP
rs1226413152 371 dbSNP
rs777106956 371 dbSNP
rs778832605 371 dbSNP
rs1280138419 372 dbSNP
rs1159693298 373 dbSNP
rs1238207099 373 dbSNP
rs1321106770 373 dbSNP
rs1339185486 373 dbSNP
rs1410347358 373 dbSNP
rs1472564477 373 dbSNP
rs1480772881 373 dbSNP
rs150158222 373 dbSNP
rs150882395 373 dbSNP
rs56362406 373 dbSNP
rs749651686 373 dbSNP
rs760099662 373 dbSNP
rs1246408082 374 dbSNP
rs770176528 374 dbSNP
rs780563058 374 dbSNP
rs78265643 374 dbSNP
rs1204214660 375 dbSNP
rs1215774949 375 dbSNP
rs1275867758 375 dbSNP
rs1296347063 375 dbSNP
rs1362232253 375 dbSNP
rs199895382 375 dbSNP
rs200992022 375 dbSNP
rs202216295 375 dbSNP
rs70943279 375 dbSNP
rs878948520 375 dbSNP
rs879214653 375 dbSNP
rs9769357 375 dbSNP
rs1339319598 376 dbSNP
rs1363464792 376 dbSNP
rs767646263 376 dbSNP
rs769230185 376 dbSNP
rs775742547 376 dbSNP
rs12532361 377 dbSNP
rs756326250 378 dbSNP
rs761490406 378 dbSNP
rs1174077091 379 dbSNP
rs200128779 379 dbSNP
rs1168181855 381 dbSNP
rs775186858 381 dbSNP
rs1281244434 382 dbSNP
rs879723637 383 dbSNP
rs1223052298 384 dbSNP
rs201652043 385 dbSNP
rs1361242873 386 dbSNP
rs201093455 387 dbSNP
rs1273556993 388 dbSNP
rs1290329171 389 dbSNP
rs1483112740 390 dbSNP
rs1183121201 396 dbSNP
rs1317643926 397 dbSNP
rs1235147459 398 dbSNP
rs1396930761 399 dbSNP
rs1468910139 403 dbSNP
rs1177055812 405 dbSNP
rs1301540970 405 dbSNP
rs1342897404 407 dbSNP
rs1414982325 408 dbSNP
rs1426721283 411 dbSNP
rs1428040798 412 dbSNP
rs1387260534 413 dbSNP
rs1163986386 414 dbSNP
rs1161928875 416 dbSNP
rs1411611996 417 dbSNP
rs1178876309 418 dbSNP
rs547874016 420 dbSNP
rs1480698112 422 dbSNP
rs567613645 423 dbSNP
rs1364994212 427 dbSNP
rs1202350289 428 dbSNP
rs1250400018 428 dbSNP
rs1490748690 428 dbSNP
rs1430532838 429 dbSNP
rs1246000677 430 dbSNP
rs935964334 431 dbSNP
rs1265570698 432 dbSNP
rs1330786856 432 dbSNP
rs111871239 438 dbSNP
rs1054439798 442 dbSNP
rs1324851755 443 dbSNP
rs1351235964 443 dbSNP
rs1408034295 451 dbSNP
rs1367698907 454 dbSNP
rs543917453 455 dbSNP
rs1441205675 459 dbSNP
rs1457278873 459 dbSNP
rs1347874056 460 dbSNP
rs1161268986 462 dbSNP
rs549563127 463 dbSNP
rs1284507590 464 dbSNP
rs1384748575 466 dbSNP
rs1276520715 467 dbSNP
rs760292664 470 dbSNP
rs1243265948 472 dbSNP
rs1208863818 475 dbSNP
rs563510621 476 dbSNP
rs1342220289 477 dbSNP
rs1264027379 479 dbSNP
rs1218326348 489 dbSNP
rs569648461 490 dbSNP
rs1275714557 495 dbSNP
rs184550155 496 dbSNP
rs1226713449 497 dbSNP
rs1204457736 500 dbSNP
rs913250934 507 dbSNP
rs1302290994 509 dbSNP
rs1386401144 510 dbSNP
rs1365692237 513 dbSNP
rs1290440828 514 dbSNP
rs558543587 520 dbSNP
rs767915869 525 dbSNP
rs1446855683 536 dbSNP
rs1156845483 537 dbSNP
rs1470710171 540 dbSNP
rs1181946327 552 dbSNP
rs10156063 555 dbSNP
rs1188662758 559 dbSNP
rs1263357333 559 dbSNP
rs1475776136 560 dbSNP
rs543900752 576 dbSNP
rs1207350048 581 dbSNP
rs1325811284 582 dbSNP
rs1394429403 588 dbSNP
rs1409246579 590 dbSNP
rs946143970 591 dbSNP
rs1334777551 594 dbSNP
rs1329563767 595 dbSNP
rs1407984122 596 dbSNP
rs1435621117 597 dbSNP
rs1364193130 598 dbSNP
rs1318508550 599 dbSNP
rs1450239220 603 dbSNP
rs565672843 607 dbSNP
rs1365554135 608 dbSNP
rs1171519331 610 dbSNP
rs1464047934 614 dbSNP
rs1374494568 617 dbSNP
rs1168832886 618 dbSNP
rs1229158984 620 dbSNP
rs1267839740 622 dbSNP
rs1450523670 622 dbSNP
rs1040898134 627 dbSNP
rs3735554 630 dbSNP
rs1257390657 631 dbSNP
rs1338205489 631 dbSNP
rs1214454412 636 dbSNP
rs1342950596 640 dbSNP
rs1264350395 644 dbSNP
rs1462919751 651 dbSNP
rs1202236495 653 dbSNP
rs1242759766 655 dbSNP
rs1447733836 658 dbSNP
rs1195623144 660 dbSNP
rs1341260610 666 dbSNP
rs900962846 667 dbSNP
rs1247848424 668 dbSNP
rs534280361 670 dbSNP
rs753810913 674 dbSNP
rs1333364910 677 dbSNP
rs948205494 678 dbSNP
rs997980631 679 dbSNP
rs1049601389 683 dbSNP
rs1308309377 687 dbSNP
rs1428728923 688 dbSNP
rs189258793 689 dbSNP
rs1167101133 690 dbSNP
rs1177036941 694 dbSNP
rs1187460755 698 dbSNP
rs1431427921 698 dbSNP
rs1254044326 701 dbSNP
rs1468030764 702 dbSNP
rs1205900909 703 dbSNP
rs1482870644 705 dbSNP
rs1272669264 710 dbSNP
rs889683873 711 dbSNP
rs1283566992 712 dbSNP
rs1005455099 713 dbSNP
rs1288460560 719 dbSNP
rs1408615465 720 dbSNP
rs1368324707 721 dbSNP
rs1175359146 723 dbSNP
rs1016594589 726 dbSNP
rs574579244 727 dbSNP
rs961376049 730 dbSNP
rs1472110452 732 dbSNP
rs1414784842 739 dbSNP
rs1182995678 746 dbSNP
rs1315821652 747 dbSNP
rs1249963324 751 dbSNP
rs1325320176 760 dbSNP
rs1452015198 761 dbSNP
rs1288905115 764 dbSNP
rs1436635936 765 dbSNP
rs1284470063 769 dbSNP
rs1207801458 771 dbSNP
rs1326364928 774 dbSNP
rs1331136833 780 dbSNP
rs1227303893 782 dbSNP
rs543273759 784 dbSNP
rs374505442 785 dbSNP
rs765035386 789 dbSNP
rs1403890742 790 dbSNP
rs1391487721 791 dbSNP
rs1160537183 793 dbSNP
rs1456816051 794 dbSNP
rs1409821752 797 dbSNP
rs993893400 799 dbSNP
rs1478496628 804 dbSNP
rs1246276019 805 dbSNP
rs1207082962 810 dbSNP
rs1196495357 811 dbSNP
rs1259969284 813 dbSNP
rs1024483282 814 dbSNP
rs576678371 817 dbSNP
rs1446483121 822 dbSNP
rs971562271 825 dbSNP
rs1343861881 829 dbSNP
rs1200308331 830 dbSNP
rs1271142941 831 dbSNP
rs1367789700 832 dbSNP
rs1321862730 840 dbSNP
rs11554894 842 dbSNP
rs1175643301 844 dbSNP
rs1178328798 845 dbSNP
rs1424794269 848 dbSNP
rs1364119864 854 dbSNP
rs1451139568 856 dbSNP
rs1187648416 861 dbSNP
rs980285796 862 dbSNP
rs1455191451 864 dbSNP
rs1210225843 866 dbSNP
rs549197600 867 dbSNP
rs1156425757 870 dbSNP
rs1441323832 871 dbSNP
rs927467860 872 dbSNP
rs1230131810 873 dbSNP
rs1383866628 878 dbSNP
rs1342374521 880 dbSNP
rs1228039459 881 dbSNP
rs1424742112 881 dbSNP
rs1360505166 889 dbSNP
rs1305094515 891 dbSNP
rs1304364870 895 dbSNP
rs1343114647 896 dbSNP
rs1332503129 898 dbSNP
rs957594392 906 dbSNP
rs1390979011 908 dbSNP
rs1167734843 914 dbSNP
rs1447376864 922 dbSNP
rs1283245763 923 dbSNP
rs1182370788 926 dbSNP
rs1482667092 928 dbSNP
rs1336700220 931 dbSNP
rs990434915 932 dbSNP
rs1273391431 934 dbSNP
rs754532052 934 dbSNP
rs1204963789 939 dbSNP
rs913229770 939 dbSNP
rs752431269 943 dbSNP
rs559982933 945 dbSNP
rs1229367954 946 dbSNP
rs1291553821 948 dbSNP
rs1379024736 948 dbSNP
rs1411667954 949 dbSNP
rs1371419393 951 dbSNP
rs1307643724 953 dbSNP
rs1350140187 956 dbSNP
rs780776847 960 dbSNP
rs1040423264 961 dbSNP
rs375726042 962 dbSNP
rs1293979463 964 dbSNP
rs1250700433 968 dbSNP
rs747720619 970 dbSNP
rs7186 975 dbSNP
rs565392435 976 dbSNP
rs572413925 985 dbSNP
rs1179480147 986 dbSNP
rs1271761406 988 dbSNP
rs1230375221 991 dbSNP
rs541058585 993 dbSNP
rs1288006925 995 dbSNP
rs1389868812 996 dbSNP
rs1369949795 997 dbSNP
rs1444806793 1002 dbSNP
rs1392270685 1003 dbSNP
rs1049538305 1004 dbSNP
rs561094204 1005 dbSNP
rs1457346480 1009 dbSNP
rs1165110923 1012 dbSNP
rs1410549429 1025 dbSNP
rs1363125483 1028 dbSNP
rs1423501076 1029 dbSNP
rs1267533268 1038 dbSNP
rs1293440563 1046 dbSNP
rs1192157322 1047 dbSNP
rs78619479 1049 dbSNP
rs1397911964 1053 dbSNP
rs1251753378 1055 dbSNP
rs1393648039 1057 dbSNP
rs1305231439 1058 dbSNP
rs1329984724 1060 dbSNP
rs530117129 1061 dbSNP
rs1236885941 1062 dbSNP
rs766771132 1072 dbSNP
rs1302227440 1073 dbSNP
rs1386068509 1077 dbSNP
rs1246934206 1079 dbSNP
rs1435749814 1083 dbSNP
rs546499173 1086 dbSNP
rs1357344089 1091 dbSNP
rs1467082870 1092 dbSNP
rs1377906824 1094 dbSNP
rs1174910788 1095 dbSNP
rs1454140295 1096 dbSNP
rs1393636603 1097 dbSNP
rs1190857188 1101 dbSNP
rs144437057 1105 dbSNP
rs377589440 1105 dbSNP
rs868458558 1113 dbSNP
rs1251814157 1115 dbSNP
rs1481538218 1116 dbSNP
rs766588991 1120 dbSNP
rs1256848340 1121 dbSNP
rs1232772248 1122 dbSNP
rs754181630 1130 dbSNP
rs13247806 1132 dbSNP
rs889651306 1134 dbSNP
rs28407029 1139 dbSNP
rs1401910545 1142 dbSNP
rs1318622552 1144 dbSNP
rs142267744 1144 dbSNP
rs1223505445 1146 dbSNP
rs1254763799 1146 dbSNP
rs563164402 1147 dbSNP
rs1443471624 1148 dbSNP
rs1170449140 1149 dbSNP
rs373262978 1150 dbSNP
rs1371951062 1153 dbSNP
rs1170890403 1154 dbSNP
rs1374304784 1156 dbSNP
rs181300726 1158 dbSNP
rs1463935250 1160 dbSNP
rs1425681809 1161 dbSNP
rs1256975949 1165 dbSNP
rs994251777 1165 dbSNP
rs1484818331 1168 dbSNP
rs1296990660 1173 dbSNP
rs1399985382 1174 dbSNP
rs1276969942 1175 dbSNP
rs893896515 1177 dbSNP
rs369134863 1178 dbSNP
rs1341195856 1179 dbSNP
rs1268386074 1180 dbSNP
rs945407009 1185 dbSNP
rs1246871424 1189 dbSNP
rs1024036095 1191 dbSNP
rs1042589781 1194 dbSNP
rs1001313421 1203 dbSNP
rs1372082940 1214 dbSNP
rs1308256075 1215 dbSNP
rs1034507887 1216 dbSNP
rs1296319120 1219 dbSNP
rs1166461938 1221 dbSNP
rs1459923961 1221 dbSNP
rs1309361027 1223 dbSNP
rs1369482299 1229 dbSNP
rs1187332841 1236 dbSNP
rs111891412 1241 dbSNP
rs115829318 1242 dbSNP
rs547853175 1244 dbSNP
rs967373176 1245 dbSNP
rs749155788 1254 dbSNP
rs1012580571 1256 dbSNP
rs1356981155 1256 dbSNP
rs552155077 1258 dbSNP
rs923328061 1263 dbSNP
rs1230994931 1266 dbSNP
rs1186762461 1273 dbSNP
rs1288639116 1278 dbSNP
rs1026570331 1279 dbSNP
rs568198570 1287 dbSNP
rs1388832647 1289 dbSNP
rs1392157752 1296 dbSNP
rs1164834269 1299 dbSNP
rs1459982731 1304 dbSNP
rs537161081 1305 dbSNP
rs911018000 1306 dbSNP
rs1469847870 1307 dbSNP
rs941206348 1309 dbSNP
rs1423618600 1321 dbSNP
rs1038261658 1322 dbSNP
rs897083688 1323 dbSNP
rs1268243359 1327 dbSNP
rs1178948221 1332 dbSNP
rs1222637013 1344 dbSNP
rs1404382280 1346 dbSNP
rs982467965 1349 dbSNP
rs1348112145 1359 dbSNP
rs774467142 1362 dbSNP
rs929933938 1367 dbSNP
rs906901315 1369 dbSNP
rs1289704545 1370 dbSNP
rs1364137289 1372 dbSNP
rs1001282371 1375 dbSNP
rs1400133050 1376 dbSNP
rs1406142426 1382 dbSNP
rs1034102549 1385 dbSNP
rs1478261936 1387 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
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 GSM545217. RNA binding protein: AGO2. Condition:miR-7 transfection ...

- Hafner M; Landthaler M; Burger L; Khorshid et al., 2010, Cell.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uccGUUUUUGGCGUCAAUGAAAa 5'
             | | |:|  ::|||||||| 
Target 5' cauCCAUAGCACUGGUUACUUUg 3'
 		1 - 23
Article - Hafner M; Landthaler M; Burger L; Khorshid et al.
- Cell, 2010
RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
LinkOut: [PMID: 20371350]
Experimental Support 2 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HCT116
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 ERX177623. RNA binding protein: AGO2. Condition:p53_D_AGO_CLIP_4_1 ...

- Krell J; Stebbing J; Carissimi C; Dabrowska et al., 2016, Genome research.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uccGUUUUUGGCGUCAAUGAAAa 5'
             | | |:|  ::|||||||| 
Target 5' cauCCAUAGCACUGGUUACUUUg 3'
 		1 - 23
Article - Krell J; Stebbing J; Carissimi C; Dabrowska et al.
- Genome research, 2016
DNA damage activates TP53-regulated surveillance mechanisms that are crucial in suppressing tumorigenesis. TP53 orchestrates these responses directly by transcriptionally modulating genes, including microRNAs (miRNAs), and by regulating miRNA biogenesis through interacting with the DROSHA complex. However, whether the association between miRNAs and AGO2 is regulated following DNA damage is not yet known. Here, we show that, following DNA damage, TP53 interacts with AGO2 to induce or reduce AGO2's association of a subset of miRNAs, including multiple let-7 family members. Furthermore, we show that specific mutations in TP53 decrease rather than increase the association of let-7 family miRNAs, reducing their activity without preventing TP53 from interacting with AGO2. This is consistent with the oncogenic properties of these mutants. Using AGO2 RIP-seq and PAR-CLIP-seq, we show that the DNA damage-induced increase in binding of let-7 family members to the RISC complex is functional. We unambiguously determine the global miRNA-mRNA interaction networks involved in the DNA damage response, validating them through the identification of miRNA-target chimeras formed by endogenous ligation reactions. We find that the target complementary region of the let-7 seed tends to have highly fixed positions and more variable ones. Additionally, we observe that miRNAs, whose cellular abundance or differential association with AGO2 is regulated by TP53, are involved in an intricate network of regulatory feedback and feedforward circuits. TP53-mediated regulation of AGO2-miRNA interaction represents a new mechanism of miRNA regulation in carcinogenesis.
LinkOut: [PMID: 26701625]
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 GSM545217
Method / RBP PAR-CLIP / AGO2
Cell line / Condition HEK293 / miR-7 transfection
Location of target site ENST00000337620.4 | 3UTR | CAUCCAUAGCACUGGUUACUUUGAACAAAUAAAUA
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 20371350 / GSE21578
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
184 hsa-miR-548w Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT057125 DDIT4 DNA damage inducible transcript 4 2 4
MIRT063369 ETNK1 ethanolamine kinase 1 2 2
MIRT072492 RAB8B RAB8B, member RAS oncogene family 2 2
MIRT082186 ACTN4 actinin alpha 4 2 6
MIRT083033 PTBP1 polypyrimidine tract binding protein 1 2 2
MIRT085188 SLC5A3 solute carrier family 5 member 3 2 4
MIRT088905 FOXN2 forkhead box N2 2 4
MIRT089494 MTHFD2 methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase 2 6
MIRT092039 ABHD5 abhydrolase domain containing 5 2 2
MIRT094685 FEM1C fem-1 homolog C 2 2
MIRT095393 UBE2D2 ubiquitin conjugating enzyme E2 D2 2 2
MIRT096501 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT101296 FAM135A family with sequence similarity 135 member A 2 2
MIRT103356 CBX3 chromobox 3 2 2
MIRT103872 FOXK1 forkhead box K1 2 2
MIRT104334 CLDN12 claudin 12 2 2
MIRT104501 PEG10 paternally expressed 10 2 6
MIRT111795 MPZL1 myelin protein zero like 1 2 2
MIRT177238 BMI1 BMI1 proto-oncogene, polycomb ring finger 2 2
MIRT177273 COMMD3-BMI1 COMMD3-BMI1 readthrough 2 2
MIRT177626 UBE2D1 ubiquitin conjugating enzyme E2 D1 2 6
MIRT178042 SAMD8 sterile alpha motif domain containing 8 2 2
MIRT179102 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 6
MIRT179587 CAPZA1 capping actin protein of muscle Z-line alpha subunit 1 2 6
MIRT195299 LEPROT leptin receptor overlapping transcript 2 2
MIRT203143 BACH1 BTB domain and CNC homolog 1 2 2
MIRT208430 ZBTB38 zinc finger and BTB domain containing 38 2 2
MIRT214578 SMAD5 SMAD family member 5 2 4
MIRT216103 IL6ST interleukin 6 signal transducer 2 2
MIRT216355 CCNB1 cyclin B1 2 4
MIRT220050 MDFIC MyoD family inhibitor domain containing 2 2
MIRT226729 ANP32B acidic nuclear phosphoprotein 32 family member B 2 4
MIRT227698 TBC1D13 TBC1 domain family member 13 2 2
MIRT230071 SH3BGRL SH3 domain binding glutamate rich protein like 2 2
MIRT248637 HMGN2 high mobility group nucleosomal binding domain 2 2 4
MIRT254790 XRCC6 X-ray repair cross complementing 6 2 6
MIRT264376 YAP1 Yes associated protein 1 2 2
MIRT266972 LRRC55 leucine rich repeat containing 55 2 4
MIRT273949 SPRYD4 SPRY domain containing 4 2 2
MIRT281802 MAP2K1 mitogen-activated protein kinase kinase 1 2 2
MIRT293252 DR1 down-regulator of transcription 1 2 2
MIRT297097 RGPD4 RANBP2-like and GRIP domain containing 4 2 2
MIRT308170 PDE12 phosphodiesterase 12 2 2
MIRT309013 USP53 ubiquitin specific peptidase 53 2 2
MIRT311470 PRRC1 proline rich coiled-coil 1 2 2
MIRT312586 G3BP1 G3BP stress granule assembly factor 1 2 4
MIRT328130 ZNF711 zinc finger protein 711 2 2
MIRT329313 FAM53C family with sequence similarity 53 member C 2 2
MIRT334642 NEK7 NIMA related kinase 7 2 2
MIRT340673 THRAP3 thyroid hormone receptor associated protein 3 2 2
MIRT378858 ITGB8 integrin subunit beta 8 2 2
MIRT395789 SPCS3 signal peptidase complex subunit 3 2 2
MIRT405639 WBP4 WW domain binding protein 4 2 4
MIRT408287 GRPEL2 GrpE like 2, mitochondrial 2 2
MIRT442097 ZNRF2 zinc and ring finger 2 2 8
MIRT442840 GTF2H5 general transcription factor IIH subunit 5 2 2
MIRT443116 VLDLR very low density lipoprotein receptor 2 2
MIRT443147 ZDHHC21 zinc finger DHHC-type containing 21 2 2
MIRT443298 PRPS1L1 phosphoribosyl pyrophosphate synthetase 1-like 1 2 2
MIRT445080 ZNF207 zinc finger protein 207 2 2
MIRT445384 PTCHD1 patched domain containing 1 2 4
MIRT447070 MCC mutated in colorectal cancers 2 2
MIRT447300 ZNF562 zinc finger protein 562 2 2
MIRT447512 MRPS5 mitochondrial ribosomal protein S5 2 2
MIRT449511 TM6SF1 transmembrane 6 superfamily member 1 2 2
MIRT449902 C11orf34 placenta expressed transcript 1 1 2
MIRT450551 SHFM1 SEM1, 26S proteasome complex subunit 2 2
MIRT450719 PVRL3 nectin cell adhesion molecule 3 2 2
MIRT454923 ANKEF1 ankyrin repeat and EF-hand domain containing 1 2 12
MIRT455892 KIF2C kinesin family member 2C 2 2
MIRT463732 YWHAE tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon 2 8
MIRT471182 PHB2 prohibitin 2 2 2
MIRT472764 MTMR6 myotubularin related protein 6 2 8
MIRT474457 KLHL11 kelch like family member 11 2 8
MIRT475985 GTPBP2 GTP binding protein 2 2 2
MIRT482277 AGO2 argonaute 2, RISC catalytic component 2 4
MIRT485858 ALG9 ALG9, alpha-1,2-mannosyltransferase 2 2
MIRT486192 ERH ERH, mRNA splicing and mitosis factor 2 4
MIRT488609 FAM3C family with sequence similarity 3 member C 2 6
MIRT489984 DDB1 damage specific DNA binding protein 1 2 2
MIRT493476 IPMK inositol polyphosphate multikinase 2 2
MIRT494280 CEP120 centrosomal protein 120 2 2
MIRT497992 ZBTB20 zinc finger and BTB domain containing 20 2 2
MIRT498473 PTBP2 polypyrimidine tract binding protein 2 2 10
MIRT498559 TMEM30B transmembrane protein 30B 2 2
MIRT499867 SVOP SV2 related protein 2 10
MIRT500220 INHBA inhibin beta A subunit 2 10
MIRT500694 TRIM37 tripartite motif containing 37 2 2
MIRT500988 SPPL2A signal peptide peptidase like 2A 2 4
MIRT501023 SMG1 SMG1, nonsense mediated mRNA decay associated PI3K related kinase 2 6
MIRT502736 CLIP1 CAP-Gly domain containing linker protein 1 2 8
MIRT502798 CELSR3 cadherin EGF LAG seven-pass G-type receptor 3 2 6
MIRT502887 CDK4 cyclin dependent kinase 4 2 8
MIRT503483 ZNF154 zinc finger protein 154 2 6
MIRT503717 GRM5 glutamate metabotropic receptor 5 2 2
MIRT505137 YOD1 YOD1 deubiquitinase 2 2
MIRT505802 RSBN1 round spermatid basic protein 1 2 8
MIRT505841 POLR1B RNA polymerase I subunit B 2 4
MIRT509284 NPM3 nucleophosmin/nucleoplasmin 3 2 6
MIRT516829 CYP20A1 cytochrome P450 family 20 subfamily A member 1 2 2
MIRT520519 TRA2B transformer 2 beta homolog 2 2
MIRT520723 TM9SF3 transmembrane 9 superfamily member 3 2 6
MIRT525403 SHISA9 shisa family member 9 2 4
MIRT525867 ARL13B ADP ribosylation factor like GTPase 13B 2 2
MIRT526013 RBM4B RNA binding motif protein 4B 2 2
MIRT526084 TMEM41B transmembrane protein 41B 2 2
MIRT527931 FRY FRY microtubule binding protein 2 2
MIRT528818 RAB32 RAB32, member RAS oncogene family 2 2
MIRT531062 SLC9A4 solute carrier family 9 member A4 2 4
MIRT535495 PANX1 pannexin 1 2 2
MIRT536682 IKZF5 IKAROS family zinc finger 5 2 2
MIRT536835 HMBOX1 homeobox containing 1 2 2
MIRT537202 GDE1 glycerophosphodiester phosphodiesterase 1 2 4
MIRT537834 EFNA5 ephrin A5 2 2
MIRT538345 CSE1L chromosome segregation 1 like 2 4
MIRT541242 GPC4 glypican 4 2 2
MIRT543235 PEX7 peroxisomal biogenesis factor 7 2 2
MIRT543450 PARP15 poly(ADP-ribose) polymerase family member 15 2 2
MIRT543711 XKR9 XK related 9 2 2
MIRT543907 ESYT1 extended synaptotagmin 1 2 2
MIRT543999 KLRC3 killer cell lectin like receptor C3 2 2
MIRT544070 METTL8 methyltransferase like 8 2 2
MIRT544187 ANGPTL3 angiopoietin like 3 2 2
MIRT544808 ACSM2B acyl-CoA synthetase medium chain family member 2B 2 2
MIRT545046 PRELID1 PRELI domain containing 1 2 2
MIRT545214 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT545289 SPC25 SPC25, NDC80 kinetochore complex component 2 2
MIRT545550 GIMAP4 GTPase, IMAP family member 4 2 2
MIRT546497 SIK1 salt inducible kinase 1 2 2
MIRT546914 PTP4A1 protein tyrosine phosphatase type IVA, member 1 2 2
MIRT547675 KPNA1 karyopherin subunit alpha 1 2 4
MIRT547770 KATNAL1 katanin catalytic subunit A1 like 1 2 2
MIRT548687 CRNKL1 crooked neck pre-mRNA splicing factor 1 2 2
MIRT548901 CHEK2 checkpoint kinase 2 2 4
MIRT549957 RPL7L1 ribosomal protein L7 like 1 2 4
MIRT550489 TMEM241 transmembrane protein 241 2 2
MIRT551049 MKLN1 muskelin 1 2 2
MIRT552811 XIAP X-linked inhibitor of apoptosis 2 4
MIRT553145 UBE2H ubiquitin conjugating enzyme E2 H 2 2
MIRT553830 SYNCRIP synaptotagmin binding cytoplasmic RNA interacting protein 2 2
MIRT554258 SIX4 SIX homeobox 4 2 2
MIRT555781 PCMTD1 protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 1 2 2
MIRT556318 MAP2K4 mitogen-activated protein kinase kinase 4 2 2
MIRT556499 LIPA lipase A, lysosomal acid type 2 2
MIRT556693 KLHL28 kelch like family member 28 2 2
MIRT556752 KLF7 Kruppel like factor 7 2 2
MIRT556990 HPRT1 hypoxanthine phosphoribosyltransferase 1 2 2
MIRT557146 HOXA13 homeobox A13 2 2
MIRT557487 GPR27 G protein-coupled receptor 27 2 4
MIRT558102 ENPP5 ectonucleotide pyrophosphatase/phosphodiesterase 5 (putative) 2 2
MIRT559344 ATP5G3 ATP synthase, H+ transporting, mitochondrial Fo complex subunit C3 (subunit 9) 2 2
MIRT560335 ZWINT ZW10 interacting kinetochore protein 2 2
MIRT561299 ZBTB43 zinc finger and BTB domain containing 43 2 2
MIRT561883 MSANTD4 Myb/SANT DNA binding domain containing 4 with coiled-coils 2 2
MIRT561927 MFSD9 major facilitator superfamily domain containing 9 2 2
MIRT562935 TNIP2 TNFAIP3 interacting protein 2 2 2
MIRT563291 BBS10 Bardet-Biedl syndrome 10 2 2
MIRT563405 KIF3A kinesin family member 3A 2 2
MIRT563562 KIAA1586 KIAA1586 2 2
MIRT565876 NHS NHS actin remodeling regulator 2 2
MIRT566081 RCC2 regulator of chromosome condensation 2 2 2
MIRT566396 PLAGL2 PLAG1 like zinc finger 2 2 2
MIRT567259 HSP90AA1 heat shock protein 90 alpha family class A member 1 2 2
MIRT571468 CCDC80 coiled-coil domain containing 80 2 2
MIRT572939 VDAC2 voltage dependent anion channel 2 2 2
MIRT573628 ZNF724P zinc finger protein 724 2 2
MIRT573717 KHSRP KH-type splicing regulatory protein 2 2
MIRT609088 SMIM15 small integral membrane protein 15 2 6
MIRT617936 EBNA1BP2 EBNA1 binding protein 2 2 2
MIRT618379 PRKG2 protein kinase, cGMP-dependent, type II 2 2
MIRT619627 PLEKHG7 pleckstrin homology and RhoGEF domain containing G7 2 2
MIRT623455 KDM5A lysine demethylase 5A 2 2
MIRT629145 CTCFL CCCTC-binding factor like 2 2
MIRT638521 LYRM2 LYR motif containing 2 2 2
MIRT649483 CLDN16 claudin 16 2 2
MIRT683148 MTHFD1 methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1 2 2
MIRT691660 SLC43A3 solute carrier family 43 member 3 2 2
MIRT693201 MKI67 marker of proliferation Ki-67 2 2
MIRT695334 AQP3 aquaporin 3 (Gill blood group) 2 2
MIRT701023 PCGF5 polycomb group ring finger 5 2 2
MIRT708753 RYBP RING1 and YY1 binding protein 2 2
MIRT717558 ZBTB37 zinc finger and BTB domain containing 37 2 2
MIRT719286 SETD7 SET domain containing lysine methyltransferase 7 2 2
MIRT725172 SDAD1 SDA1 domain containing 1 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-mir-548w Paclitaxel 36314 NSC125973 approved sensitive cell line (W1)
hsa-mir-548w Cisplatin 5460033 NSC119875 approved sensitive cell line (W1)
hsa-miR-548w Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-548w Osimertinib 71496458 NSC779217 approved sensitive cell line (HCC827)
hsa-miR-548w Gefitinib 123631 NSC715055 approved sensitive cell line (HCC827)
hsa-miR-548w Doxorubicin 31703 NSC123127 approved resistant cell line (BAS)
hsa-miR-548w Cisplatin 5460033 NSC119875 approved resistant cell line (MGC-803)
hsa-miR-548w Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-548w Gemcitabine 60750 NSC613327 approved sensitive cell line (PANC-1) (100 ng/ml)
hsa-miR-548w Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide/Methotrexate/Gemcitabine resistant cell line (Bats-72)
hsa-miR-548w Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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