miRTarBase - #MIRT474013


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pre-miRNA Information
pre-miRNA hsa-mir-1245b   
Genomic Coordinates chr2: 188978093 - 188978161
Description Homo sapiens miR-1245b stem-loop
Comment None
RNA Secondary Structure
Associated Diseases

Mature miRNA Information
Mature miRNA hsa-miR-1245b-3p
Sequence 42| UCAGAUGAUCUAAAGGCCUAUA |63
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs748755619 4 dbSNP
rs1270331859 8 dbSNP
rs1424666827 9 dbSNP
rs777446442 11 dbSNP
rs568426204 21 dbSNP
Putative Targets

Gene Information
Gene Symbol LRRC20   
Synonyms -
Description leucine rich repeat containing 20
Transcript NM_018205   
Other Transcripts NM_018239 , NM_207119   
Expression
Putative miRNA Targets on LRRC20
3'UTR of LRRC20
(miRNA target sites are highlighted)		 
>LRRC20|NM_018205|3'UTR
   1 GCCACCCTCCTCATGCCCACCCAGCAAGGGACAGAGGCCACAGGCCTGGAACCCTGGAAGGGAGGGAGGCCCATGGGAGG
  81 CCAAGCCTGGGGGCTGGGGGCGGGTGGGCCGAGCAGCACGTGGTGGGTGGGGTGCAGCTGGTCTGGATAGATAGCTTACA
 161 GCAGTAGTGGGCTCTGGAATGCCCAAGGGAAGAGGCAAGGTGGGGCCTGCAGCCTGGACTCGGCACTCACAGCTGCTGTG
 241 CAAACTCAGGCAGATCTCCTGCCCTCTCTGAGCCTTGTCACTTGAAAAAAACAGGACCCTTTCCCTCCTTTGGGCTCCCT
 321 GGAGGTTTTTAAGCAGTACGTGCCTCCAAGTTACCTCCAGATCAGCAGGCACAGGTGGGCATTGCCAGGTATTTTCTGAG
 401 CCCCTGCGGGTTTGAGGCCTTGTTTTTAGTGCTGAGAGCCAGTTGCTGCCCTGAGAAGAGAAGACAACCTCCATCTATTT
 481 ATTGCTTCCTGAGAACTGACCTGGATGCGGCCCTCTGCAGGGCCCAGTCTTCAGTCCTGTGGTCCCTGGACTGGTGGGAA
 561 CCTGAACTAGGAGTCCTGGGAGAGCTGTGGTGGGAATATGGGCTGGCACTGCTGCAGGGCAAGAACATTCATGTAGGAGC
 641 CCGAGGACCAGCAGGCTGGGAATGGGGAGCAAGTCACGTCAGCTCTGTCATTCCCCACAGTTAACAAATTGGCGGGGTGG
 721 GAAGTCCTGAGTGCTCCGTCCCTCTAGCATCACTCCTGAGCTGCGGGAGAGGTGGCCCAGAGAACAGCAGAGTCAGTTAC
 801 ACCTGCAGCTCTTGTCTAAAGTGATTAGATGGCCACCCTCACCACTGTCCAGTCCAGCAGCAGCCTGGCTGCCTTGTCAT
 881 GGCCTCCTGGGGGCAGAAGGCGATGTGGACCACGGGATTTGTAGCCAGCCAGCTCCCAGGCCAACGCCCAAAGCCCTGAT
 961 GACCTGGTTCTTCTGAGGCCCTCAACCTGGCATCTTAGGGTATGGTCAGGCAACAGGGTGACCAGCTGTCCTGGTTTCCC
1041 AGGACATGGAACTTTCAATGCTAAAACTGGGACAGTACCCAGCAAGTGGGGATGGTTGGTCCCCTACCAGGAGAGGGCCT
1121 GGGGCTCTTGCTTCCCGAGAACGCCTGTGGCTTGAAGAACCTTGACTGCTTGGTCCTCAGGTATCTACCTCCCACCTTCT
1201 CCTCATCTGTGGAGCAAGCCAACTCAGTGCCCCAGACCCCACCTGATCTGCATCTTTGTTTGCATCTCCAGAGACACCTG
1281 AGGCCCCAGAGCTTGAGGCAAAGCCAGGCCGTCCAAATCCTGTGTGCCGTGGACGAGTGGCCACTTTACTACTCCTAAGG
1361 CTAAGATGTTGAGAGCTCAGACCACTGCTCAGAGCAGTAATCCCTGCTCAGAATGCTCCCAGTTCCCTCGTCCCTGCCCA
1441 GGTCTCTTGTCTCTTGGGAAGGAACTGATAGGTCGGGCCATTGTTGGGCCATCACTGAGCGCTCAGTATCTCAAGAGACT
1521 CTGTTCATTCTGCTCGTATCCCAAGGCCTGGTTGGTCAAACTCTGGGCAAAGGGTTTTCAGGATGAGGAGGTCAAGACAG
1601 GATCTCCAGAGCTACCGAGTTCATCTGTGGGTGTTGGGGGCAAGTGGGGGCTGAAGTCCTGTGCAGGCTGCGCTGGCCCC
1681 ACCTGCCTTGTGCCCTGGAGTGGGGTTTCTCCTTGTTGAAGAAGAGGCATCCTTCTCTGATGTGCACAAACACAATGTAT
1761 GACCAGAGCCTTGCAACTCAAAGTGTGGTCTGTGGACCAGCAGCGGCAGTGACACCTGGGAGCTTGTTAGGAATGCAGAG
1841 TCTAGGCCTCACCCTATACCTCCCGACTCAGACCCTGCATTTTAGCAAGACCCCCAGCTGATTCCTATAAGCACTTTAGA
1921 GTTTGAGAAGCAAGGACCTAGGCTGGGGATGTCCTCCGAGCAGAGGGTGAAGTTTCTCTCAGTTCTCTCCCTGCCACTTC
2001 CAGGGATCTGAGCCTGTGCTCAGCCTCCTCCCTAACCCACCCTGGGAGACACTTGGCCTGTTAGATTGTTCCAGAGTCTG
2081 CATGGCACTCCTGAAGAAGGGAGTGTGACCTGCAGTCACCAGGAGATGAGGGTTAGGTGTGCCCAGCCCTCCAGACCCGG
2161 CCTTTCTGGTTAACCCCTGCATGCCAAGCTGCCTGCTGCCCCAGGTCCTCACCTCAGGCCTTTGAAGGGGCAGCTTCTGG
2241 AAGTTGTTTTCTCCTCTGCTTGGAGAGTTTGCCCTTGTCTGTCTTGGAAAGTGTGGGCAGCCACAGATGCCCCCAAATCA
2321 GAGCTCACAGTGAGTGAGCCCCTAAGCTTCAGTCTGCAATAAAGAATGCATTGGTTTCATCTGCAAAAAAAAAAA
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' auaUCCGGAAAUCUAGUAGACu 5'
             | || || :  ||||||| 
Target 5' agaATGCATTGGTTTCATCTGc 3'
 2363 - 2384 151.00 -10.60
2 
miRNA  3' auauccGGAAAUCUAGUAGACu 5'
                ||||    ||||||| 
Target 5' ctcccaCCTTCTCCTCATCTGt 3'
 1189 - 1210 148.00 -12.80
3 
miRNA  3' auauccggaaaUCUAGUAGACu 5'
                     || ||||||| 
Target 5' cagagctaccgAGTTCATCTGt 3'
 1607 - 1628 147.00 -13.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30153335 53 COSMIC
COSN6605288 93 COSMIC
COSN30496161 102 COSMIC
COSN6605287 111 COSMIC
COSN24415058 120 COSMIC
COSN23987622 718 COSMIC
COSN5821081 973 COSMIC
COSN6981320 1378 COSMIC
COSN16095110 1586 COSMIC
COSN32057856 2016 COSMIC
COSN32057855 2028 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1354876173 3 dbSNP
rs923743761 6 dbSNP
rs1404842978 7 dbSNP
rs1296882860 9 dbSNP
rs1410762892 10 dbSNP
rs1429686221 17 dbSNP
rs762932071 19 dbSNP
rs1352745459 21 dbSNP
rs1168665259 24 dbSNP
rs977955575 25 dbSNP
rs1450835707 28 dbSNP
rs1366326584 29 dbSNP
rs10740336 31 dbSNP
rs755820500 37 dbSNP
rs1415686273 38 dbSNP
rs999122588 40 dbSNP
rs753471122 41 dbSNP
rs1482686528 44 dbSNP
rs907483992 45 dbSNP
rs1230343806 52 dbSNP
rs1261803082 56 dbSNP
rs1461204600 63 dbSNP
rs1019013859 67 dbSNP
rs1045408764 69 dbSNP
rs577366372 70 dbSNP
rs1186113626 73 dbSNP
rs558927091 85 dbSNP
rs3750765 93 dbSNP
rs142087546 94 dbSNP
rs995053071 100 dbSNP
rs1385785595 101 dbSNP
rs899416592 101 dbSNP
rs941167827 102 dbSNP
rs1363167263 109 dbSNP
rs1037060037 110 dbSNP
rs10999250 111 dbSNP
rs1322912996 116 dbSNP
rs906725448 118 dbSNP
rs1046130645 119 dbSNP
rs947827943 120 dbSNP
rs554973085 123 dbSNP
rs916221743 127 dbSNP
rs113287533 136 dbSNP
rs1480753284 143 dbSNP
rs936555264 147 dbSNP
rs1417651893 152 dbSNP
rs923871305 155 dbSNP
rs1173092968 187 dbSNP
rs978440558 200 dbSNP
rs1159125194 203 dbSNP
rs1346604321 205 dbSNP
rs965222306 221 dbSNP
rs568371449 222 dbSNP
rs1244895812 224 dbSNP
rs550852333 226 dbSNP
rs1285732659 230 dbSNP
rs761885727 231 dbSNP
rs1264945840 238 dbSNP
rs1213947580 247 dbSNP
rs1223294477 251 dbSNP
rs1285000505 263 dbSNP
rs1318981555 268 dbSNP
rs907452729 268 dbSNP
rs1279731841 270 dbSNP
rs1490451225 271 dbSNP
rs1201580620 273 dbSNP
rs953449369 277 dbSNP
rs1231120888 281 dbSNP
rs1221453695 289 dbSNP
rs532347816 290 dbSNP
rs879157414 292 dbSNP
rs1409501162 299 dbSNP
rs1422404916 300 dbSNP
rs1162532410 313 dbSNP
rs11542086 314 dbSNP
rs1274740906 315 dbSNP
rs994836442 315 dbSNP
rs1325862862 317 dbSNP
rs1400756369 318 dbSNP
rs182910046 319 dbSNP
rs894144147 326 dbSNP
rs765418257 331 dbSNP
rs1296591639 334 dbSNP
rs1399591041 339 dbSNP
rs546422767 340 dbSNP
rs759551390 343 dbSNP
rs1314616327 344 dbSNP
rs886882127 349 dbSNP
rs1224452310 352 dbSNP
rs1270576760 354 dbSNP
rs1437213358 356 dbSNP
rs1046876382 371 dbSNP
rs776846890 374 dbSNP
rs574536639 375 dbSNP
rs1442227029 376 dbSNP
rs933859728 380 dbSNP
rs922487633 382 dbSNP
rs528148574 385 dbSNP
rs560667173 387 dbSNP
rs1005570812 394 dbSNP
rs1165388536 404 dbSNP
rs150831960 407 dbSNP
rs548370668 409 dbSNP
rs910567940 423 dbSNP
rs1047015674 438 dbSNP
rs530534372 445 dbSNP
rs1383842887 459 dbSNP
rs563184203 460 dbSNP
rs1338496241 462 dbSNP
rs142023048 469 dbSNP
rs936326126 471 dbSNP
rs1459872652 477 dbSNP
rs1202517107 506 dbSNP
rs577501736 508 dbSNP
rs559175836 509 dbSNP
rs1042281915 515 dbSNP
rs943964562 517 dbSNP
rs537664764 520 dbSNP
rs866189582 521 dbSNP
rs985292273 522 dbSNP
rs1278557700 526 dbSNP
rs1175829021 544 dbSNP
rs1406877004 565 dbSNP
rs1219716430 576 dbSNP
rs1398072345 578 dbSNP
rs1316471158 583 dbSNP
rs1320138542 584 dbSNP
rs932512513 590 dbSNP
rs1431205136 591 dbSNP
rs1013180693 593 dbSNP
rs1321354040 597 dbSNP
rs1222803814 598 dbSNP
rs959242041 601 dbSNP
rs1346503305 603 dbSNP
rs1203070222 610 dbSNP
rs1218069739 611 dbSNP
rs1447154209 612 dbSNP
rs562547591 630 dbSNP
rs1265736810 632 dbSNP
rs1479763938 642 dbSNP
rs370138065 643 dbSNP
rs78379698 648 dbSNP
rs1005668710 650 dbSNP
rs1467656966 666 dbSNP
rs1156822848 667 dbSNP
rs886849560 668 dbSNP
rs1286172528 677 dbSNP
rs1046804779 678 dbSNP
rs997933174 683 dbSNP
rs1299858251 684 dbSNP
rs963392698 685 dbSNP
rs1404332822 692 dbSNP
rs1283836039 693 dbSNP
rs748857460 700 dbSNP
rs374037243 711 dbSNP
rs1333433524 712 dbSNP
rs552428137 713 dbSNP
rs117242234 714 dbSNP
rs1016423720 718 dbSNP
rs915168905 722 dbSNP
rs1025105195 737 dbSNP
rs191676563 738 dbSNP
rs924656959 744 dbSNP
rs1199072198 763 dbSNP
rs895345496 764 dbSNP
rs187077636 765 dbSNP
rs1000588159 769 dbSNP
rs1470659030 770 dbSNP
rs971532218 774 dbSNP
rs1472019021 796 dbSNP
rs1363547527 806 dbSNP
rs917411821 820 dbSNP
rs1303466231 824 dbSNP
rs546357428 831 dbSNP
rs902145452 836 dbSNP
rs1199851565 861 dbSNP
rs1389558131 861 dbSNP
rs577241074 864 dbSNP
rs1241940520 868 dbSNP
rs943929477 871 dbSNP
rs1358195376 879 dbSNP
rs1266351907 880 dbSNP
rs528281622 889 dbSNP
rs1194552559 894 dbSNP
rs1322391472 896 dbSNP
rs1315125934 899 dbSNP
rs1249993871 900 dbSNP
rs566978106 901 dbSNP
rs1025322404 902 dbSNP
rs1383623673 903 dbSNP
rs1049708166 909 dbSNP
rs779299484 911 dbSNP
rs548667527 913 dbSNP
rs74139015 914 dbSNP
rs558562042 919 dbSNP
rs768144067 921 dbSNP
rs1297522075 922 dbSNP
rs1397049562 927 dbSNP
rs1448352857 932 dbSNP
rs1007176643 943 dbSNP
rs893716613 945 dbSNP
rs114546837 946 dbSNP
rs1313932694 955 dbSNP
rs935949341 959 dbSNP
rs776782501 961 dbSNP
rs1251257042 962 dbSNP
rs1179701850 965 dbSNP
rs1458553154 967 dbSNP
rs1200639804 973 dbSNP
rs1241306724 974 dbSNP
rs1441927234 987 dbSNP
rs1182637626 1002 dbSNP
rs1258075173 1003 dbSNP
rs983861921 1008 dbSNP
rs924625848 1009 dbSNP
rs1041768130 1017 dbSNP
rs950095408 1019 dbSNP
rs917360282 1021 dbSNP
rs1173697513 1028 dbSNP
rs1178505380 1030 dbSNP
rs970795757 1034 dbSNP
rs1404678455 1041 dbSNP
rs1488850718 1044 dbSNP
rs1267257879 1045 dbSNP
rs748776229 1046 dbSNP
rs1219672154 1049 dbSNP
rs1025175998 1052 dbSNP
rs1286968920 1058 dbSNP
rs991663265 1068 dbSNP
rs959133652 1071 dbSNP
rs1319247401 1073 dbSNP
rs910093527 1074 dbSNP
rs3183518 1075 dbSNP
rs1355561819 1079 dbSNP
rs182030020 1088 dbSNP
rs532814038 1091 dbSNP
rs1210832816 1098 dbSNP
rs1000585655 1107 dbSNP
rs902263281 1110 dbSNP
rs1484990534 1111 dbSNP
rs1185732771 1112 dbSNP
rs34974603 1113 dbSNP
rs755875549 1123 dbSNP
rs1025253759 1125 dbSNP
rs1478784241 1128 dbSNP
rs190789984 1134 dbSNP
rs1367725555 1136 dbSNP
rs375731025 1137 dbSNP
rs1008300769 1142 dbSNP
rs1006691723 1143 dbSNP
rs905471538 1154 dbSNP
rs1341488849 1155 dbSNP
rs1158862284 1161 dbSNP
rs540787466 1173 dbSNP
rs750209228 1179 dbSNP
rs893634325 1183 dbSNP
rs1158605858 1195 dbSNP
rs1032236715 1201 dbSNP
rs1270064753 1205 dbSNP
rs1189583154 1217 dbSNP
rs1488193494 1220 dbSNP
rs1264237453 1225 dbSNP
rs1286554328 1230 dbSNP
rs1049655821 1238 dbSNP
rs1489140241 1242 dbSNP
rs573475061 1250 dbSNP
rs1268104851 1258 dbSNP
rs555248973 1260 dbSNP
rs902455119 1264 dbSNP
rs1192450528 1270 dbSNP
rs1041737100 1276 dbSNP
rs543097892 1283 dbSNP
rs1238039902 1285 dbSNP
rs1361642652 1291 dbSNP
rs942090081 1297 dbSNP
rs1301631460 1298 dbSNP
rs1349828139 1299 dbSNP
rs1437775730 1302 dbSNP
rs907951641 1310 dbSNP
rs572964153 1311 dbSNP
rs757251504 1328 dbSNP
rs575682420 1329 dbSNP
rs917932604 1334 dbSNP
rs751459551 1335 dbSNP
rs991001698 1337 dbSNP
rs930212873 1343 dbSNP
rs1298436401 1344 dbSNP
rs763946093 1347 dbSNP
rs959621919 1354 dbSNP
rs185055482 1355 dbSNP
rs1162113752 1357 dbSNP
rs1413486121 1367 dbSNP
rs538674633 1375 dbSNP
rs1406528039 1382 dbSNP
rs980005354 1389 dbSNP
rs577475970 1390 dbSNP
rs1353207360 1393 dbSNP
rs1446138911 1397 dbSNP
rs1021110203 1401 dbSNP
rs1008001374 1408 dbSNP
rs1332080280 1413 dbSNP
rs1379947167 1418 dbSNP
rs1450696925 1422 dbSNP
rs955001578 1426 dbSNP
rs1174555289 1429 dbSNP
rs1480156599 1430 dbSNP
rs1356785676 1434 dbSNP
rs1017985225 1441 dbSNP
rs1196151604 1450 dbSNP
rs1306804893 1463 dbSNP
rs985633132 1464 dbSNP
rs957867959 1469 dbSNP
rs552852770 1471 dbSNP
rs1028007099 1474 dbSNP
rs534647094 1475 dbSNP
rs1262708977 1478 dbSNP
rs999398611 1484 dbSNP
rs1473337702 1488 dbSNP
rs1204404676 1491 dbSNP
rs902422540 1500 dbSNP
rs116420592 1501 dbSNP
rs1014214277 1511 dbSNP
rs1207852015 1515 dbSNP
rs1322254745 1517 dbSNP
rs1038330144 1518 dbSNP
rs548943203 1519 dbSNP
rs1402514934 1522 dbSNP
rs1458562964 1523 dbSNP
rs1333744167 1525 dbSNP
rs537130007 1527 dbSNP
rs1278223703 1530 dbSNP
rs1449988222 1534 dbSNP
rs756970476 1535 dbSNP
rs79296443 1536 dbSNP
rs1219129028 1542 dbSNP
rs140102697 1543 dbSNP
rs888564566 1544 dbSNP
rs1397032464 1548 dbSNP
rs949506739 1560 dbSNP
rs1278895723 1591 dbSNP
rs766566435 1593 dbSNP
rs10762360 1604 dbSNP
rs1469699287 1606 dbSNP
rs1401635964 1616 dbSNP
rs565530188 1619 dbSNP
rs1477804453 1627 dbSNP
rs938051913 1630 dbSNP
rs1172962370 1634 dbSNP
rs925529156 1637 dbSNP
rs1468315238 1641 dbSNP
rs550909907 1643 dbSNP
rs773552673 1644 dbSNP
rs1476880824 1652 dbSNP
rs145985600 1659 dbSNP
rs1188438289 1663 dbSNP
rs986926650 1667 dbSNP
rs368267718 1671 dbSNP
rs1274873042 1672 dbSNP
rs1346745724 1673 dbSNP
rs528834860 1679 dbSNP
rs918806780 1680 dbSNP
rs1257961993 1687 dbSNP
rs1181700892 1689 dbSNP
rs561451267 1690 dbSNP
rs34824394 1696 dbSNP
rs1027954721 1699 dbSNP
rs1460851345 1701 dbSNP
rs1265984592 1702 dbSNP
rs866139942 1705 dbSNP
rs527464698 1723 dbSNP
rs962406023 1752 dbSNP
rs1017253560 1755 dbSNP
rs910892611 1758 dbSNP
rs1157031292 1769 dbSNP
rs1360068883 1773 dbSNP
rs1420086240 1783 dbSNP
rs1004149438 1784 dbSNP
rs1200052509 1788 dbSNP
rs1363662918 1797 dbSNP
rs1386122257 1801 dbSNP
rs777593230 1804 dbSNP
rs1315513777 1805 dbSNP
rs1332317224 1806 dbSNP
rs767811427 1807 dbSNP
rs1244976051 1809 dbSNP
rs958024485 1810 dbSNP
rs1311095805 1816 dbSNP
rs1288568271 1823 dbSNP
rs1487812937 1825 dbSNP
rs575664754 1830 dbSNP
rs925057509 1840 dbSNP
rs142572144 1856 dbSNP
rs1179667688 1859 dbSNP
rs977885058 1860 dbSNP
rs774878748 1864 dbSNP
rs545340592 1865 dbSNP
rs1055171202 1874 dbSNP
rs1163761683 1875 dbSNP
rs1392724482 1887 dbSNP
rs1013932061 1892 dbSNP
rs937999533 1894 dbSNP
rs903887492 1899 dbSNP
rs867934265 1900 dbSNP
rs566599025 1907 dbSNP
rs945662124 1917 dbSNP
rs1320274996 1926 dbSNP
rs914023527 1930 dbSNP
rs1366912130 1931 dbSNP
rs777765583 1945 dbSNP
rs986990737 1947 dbSNP
rs1443775034 1956 dbSNP
rs934188016 1957 dbSNP
rs1237617860 1962 dbSNP
rs1458415632 1967 dbSNP
rs994257096 1973 dbSNP
rs897348883 1974 dbSNP
rs1041253757 1979 dbSNP
rs1165140266 1980 dbSNP
rs1370157812 1981 dbSNP
rs1180364683 1982 dbSNP
rs1014229415 1988 dbSNP
rs1169384712 1990 dbSNP
rs1400381519 2002 dbSNP
rs921008775 2003 dbSNP
rs944275340 2004 dbSNP
rs3211061 2016 dbSNP
rs1043867 2019 dbSNP
rs1043875 2028 dbSNP
rs924983950 2031 dbSNP
rs983068540 2032 dbSNP
rs951330791 2036 dbSNP
rs1465576979 2037 dbSNP
rs1284260045 2038 dbSNP
rs1024679775 2040 dbSNP
rs1318683144 2045 dbSNP
rs1200546354 2051 dbSNP
rs1354796399 2056 dbSNP
rs1254492679 2061 dbSNP
rs1483027806 2074 dbSNP
rs1257968595 2076 dbSNP
rs1312103285 2082 dbSNP
rs1445161001 2083 dbSNP
rs1335268617 2089 dbSNP
rs1014033695 2095 dbSNP
rs769569956 2102 dbSNP
rs1324337744 2104 dbSNP
rs1043884 2106 dbSNP
rs992026996 2112 dbSNP
rs1002262726 2119 dbSNP
rs1303833147 2121 dbSNP
rs56365320 2128 dbSNP
rs1423780439 2132 dbSNP
rs1033638068 2139 dbSNP
rs1341608311 2142 dbSNP
rs561136786 2146 dbSNP
rs1160412701 2151 dbSNP
rs180838923 2158 dbSNP
rs1363132140 2159 dbSNP
rs892717004 2163 dbSNP
rs1211075652 2173 dbSNP
rs1257598083 2174 dbSNP
rs1487191758 2179 dbSNP
rs1215536495 2202 dbSNP
rs747924149 2203 dbSNP
rs1199040339 2204 dbSNP
rs539585916 2213 dbSNP
rs565669493 2226 dbSNP
rs934135747 2229 dbSNP
rs1423817414 2233 dbSNP
rs1266349581 2237 dbSNP
rs1177776986 2239 dbSNP
rs994227328 2246 dbSNP
rs897275182 2249 dbSNP
rs1245273601 2258 dbSNP
rs921458144 2260 dbSNP
rs1041592232 2262 dbSNP
rs764611047 2267 dbSNP
rs975128121 2271 dbSNP
rs941095162 2274 dbSNP
rs1219823765 2283 dbSNP
rs1488839923 2305 dbSNP
rs890000919 2307 dbSNP
rs1288540639 2310 dbSNP
rs1239182913 2327 dbSNP
rs547976062 2330 dbSNP
rs547449694 2334 dbSNP
rs1275955755 2336 dbSNP
rs982464440 2339 dbSNP
rs951154417 2340 dbSNP
rs115694411 2342 dbSNP
rs761376508 2343 dbSNP
rs1245683820 2346 dbSNP
rs1329353970 2350 dbSNP
rs188395886 2373 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions TZM-bl
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in GSM1462574. RNA binding protein: AGO2. Condition:TZM-bl ami BaL ...

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

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' auauccGGAAAUCUAGUAGACu 5'
                ||||    ||||||| 
Target 5' cucccaCCUUCUCCUCAUCUG- 3'
 		16 - 36
2 
miRNA  3' auauccggaaaucuaGUAGAcu 5'
                         :||||  
Target 5' -------uccucaggUAUCUac 3'
 		1 - 15
Article - Whisnant AW; Bogerd HP; Flores O; Ho P; et al.
- mBio, 2013
UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.
LinkOut: [PMID: 23592263]
CLIP-seq Support 1 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000355790.4 | 3UTR | UCCUCAGGUAUCUACCUCCCACCUUCUCCUCAUCUG
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
62 hsa-miR-1245b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT087132 CRKL CRK like proto-oncogene, adaptor protein 2 2
MIRT093398 TMA16 translation machinery associated 16 homolog 2 2
MIRT096092 SFXN1 sideroflexin 1 2 2
MIRT097106 TNPO1 transportin 1 2 4
MIRT241837 SLC38A2 solute carrier family 38 member 2 2 2
MIRT271432 ETNK1 ethanolamine kinase 1 2 2
MIRT329517 E2F3 E2F transcription factor 3 2 4
MIRT444201 SESN3 sestrin 3 2 2
MIRT445920 SHOC2 SHOC2, leucine rich repeat scaffold protein 2 2
MIRT450210 PAIP1 poly(A) binding protein interacting protein 1 2 2
MIRT455192 AGTRAP angiotensin II receptor associated protein 2 2
MIRT455458 EPB41L4B erythrocyte membrane protein band 4.1 like 4B 2 2
MIRT459016 UQCRH ubiquinol-cytochrome c reductase hinge protein 2 2
MIRT461492 KIAA1009 centrosomal protein 162 1 1
MIRT466306 TIMM22 translocase of inner mitochondrial membrane 22 2 2
MIRT471143 PHF19 PHD finger protein 19 2 2
MIRT473481 MCFD2 multiple coagulation factor deficiency 2 2 2
MIRT473564 MATR3 matrin 3 2 2
MIRT474013 LRRC20 leucine rich repeat containing 20 2 2
MIRT475982 GTPBP2 GTP binding protein 2 2 2
MIRT478926 CPNE3 copine 3 2 2
MIRT479896 CCDC117 coiled-coil domain containing 117 2 2
MIRT480115 CALR calreticulin 2 2
MIRT483127 ONECUT3 one cut homeobox 3 2 2
MIRT484236 IER2 immediate early response 2 2 2
MIRT492237 SLC48A1 solute carrier family 48 member 1 2 2
MIRT496934 CAMK4 calcium/calmodulin dependent protein kinase IV 2 2
MIRT500438 ZMAT3 zinc finger matrin-type 3 2 2
MIRT506263 PDPK1 3-phosphoinositide dependent protein kinase 1 2 2
MIRT525649 NHSL2 NHS like 2 2 2
MIRT526691 BAK1 BCL2 antagonist/killer 1 2 2
MIRT529667 SLC28A1 solute carrier family 28 member 1 2 2
MIRT531152 CYGB cytoglobin 2 2
MIRT537002 GTPBP10 GTP binding protein 10 2 2
MIRT537325 FOXN3 forkhead box N3 2 2
MIRT537586 ESYT2 extended synaptotagmin 2 2 2
MIRT538786 C6orf89 chromosome 6 open reading frame 89 2 2
MIRT540286 RGR retinal G protein coupled receptor 2 4
MIRT552700 YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta 2 2
MIRT555670 PGAM4 phosphoglycerate mutase family member 4 2 2
MIRT556823 KDELR2 KDEL endoplasmic reticulum protein retention receptor 2 2 2
MIRT568686 TOMM40 translocase of outer mitochondrial membrane 40 2 2
MIRT568851 VPS53 VPS53, GARP complex subunit 2 2
MIRT571973 KIF21A kinesin family member 21A 2 2
MIRT573973 DDX21 DExD-box helicase 21 2 2
MIRT574260 DOCK7 dedicator of cytokinesis 7 2 2
MIRT612180 EMC3 ER membrane protein complex subunit 3 2 2
MIRT619387 KLHL12 kelch like family member 12 2 2
MIRT625708 SHROOM1 shroom family member 1 2 2
MIRT646803 EVC2 EvC ciliary complex subunit 2 2 2
MIRT656992 KCNN3 potassium calcium-activated channel subfamily N member 3 2 2
MIRT676250 PARP2 poly(ADP-ribose) polymerase 2 2 2
MIRT682591 CPA4 carboxypeptidase A4 2 2
MIRT687779 KHSRP KH-type splicing regulatory protein 2 2
MIRT690292 ZNF154 zinc finger protein 154 2 2
MIRT692718 MEAF6 MYST/Esa1 associated factor 6 2 2
MIRT700284 RAN RAN, member RAS oncogene family 2 2
MIRT708293 ZNF24 zinc finger protein 24 2 2
MIRT709767 GPR183 G protein-coupled receptor 183 2 2
MIRT720689 LY6K lymphocyte antigen 6 family member K 2 2
MIRT722784 ACADSB acyl-CoA dehydrogenase, short/branched chain 2 2
MIRT725414 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-1245b-3p Trametinib 11707110 NSC758246 approved resistant High Melanoma cell line (WM266) (1uM)
hsa-miR-1245b-3p Vemurafenib 42611257 NSC761431 approved resistant High Melanoma cell line (WM266) (1uM)
hsa-miR-1245b-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-1245b-3p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-1245b-3p Palbociclib 5330286 NSC758247 approved sensitive tissue (breast cancer)
hsa-miR-1245b-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM47)
hsa-miR-1245b-3p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM17)
hsa-miR-1245b-3p Vemurafenib 42611257 NSC761431 approved sensitive cell line (LM43)
hsa-miR-1245b-3p Vemurafenib 42611257 NSC761431 approved resistant cell line (LM11)
hsa-miR-1245b-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)

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