miRTarBase - #MIRT471143


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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 PHF19   
Synonyms MTF2L1, PCL3, TDRD19B
Description PHD finger protein 19
Transcript NM_015651   
Other Transcripts NM_001009936   
Expression
Putative miRNA Targets on PHF19
3'UTR of PHF19
(miRNA target sites are highlighted)		 
>PHF19|NM_015651|3'UTR
   1 CTAGCCCCCGGGGGTGCCAGGGGTCCTGAAAACCAAAGGAGGAGCAGCAGAAGCCATAGGCTCCCCAGCTTTCTCCAGGC
  81 TGGGGTGGGAGAAGGAAGCAGGACAGAGCTGCAAGTGCCTGGCAGAATGCCCTGCCTGCCTGCCTGCCAGGCCAAGGCCT
 161 GCGTCTCTCTGCTGTACCAGCTCTGTTCCAGGGCCTCCTCAGGCTCGTTACCCCTGTGCCTGTGTCTCTACACACTCCAC
 241 ACCCCCTCAAACTCTGTTTATCTGTTCTCTGACCTTGTGTCCCCTGCGCTGGGACCCTTCCTCCTGAGGCCCAGGTCTTT
 321 GTCCCCAGTTGTGTGCCTTGACCTCTCTCGCCCCTTTCTGGGTGTGTTCGCACATCCTGTGTGTGCACAGCTGTCCCTCC
 401 ACTGGATCCCCTTCACACGTGACCCGTGGGGCAGCCAGTCCTCCCAGGGACTACATAACAGGCACCTTTGAGAGAGCATG
 481 GGAGAAGGTGGATAAGAGGATGCTGCTCAGTGCTTTTCTCTTCCACTTTCCTGCCACTCCCCACTACCCTCGGAGAGAGG
 561 TGGTGGGATGGGAGAGAGCCCCTGTGAAAGCCTGTGAGGATCTGAAGAGTAAAGGGCTGGGTCTGCCTCAGAAGGCACCA
 641 GCACCAGGGCCCAGGTATTAAGGCTGAGAGTGAAGGCTGCCAATGTCAGCTTTGGAGGTCCCAGAAGTCTTCTGTTCTCT
 721 GGCCTCACCCCCTCAGTCGCCATAGAGCTGGGCCTGGCCTTGCTGGAATGGAGGCATCCTTCCAAACCTGGGGGACGGGG
 801 GTGGGGGGTGGTAGTGGTGGGAGGGAAACCATGTCTTGCTAAACCTGTTTCTGGTGCCTCCCATCCCCAGACCCACCAGA
 881 CACCACACAGCAGACAATACACACCCACTCGCACAAGCTTCCATCCACATGTGTTGTACTTTCAGCTCTAGGCATGCAGA
 961 CAACCCCACACGGCCACACCACCACATGCCCAAGTGTACACACACAGAGCCACACCGTCCCTCTGGGCCTGCTGGCTCCT
1041 CCCTTGGCTTTCCCTTGGCCCACTTCCAGGGCCCAGGTGCTGCAACTAAATGTGAAAGCTCAGTGGCCGCTCCTTCTTTC
1121 AGCCCATCAACCAGCATTGGTCCCATAGGGAAGCACAGGGGACTCACCCTCTTTCATATCCCTTGCCCTGCCCTGAAATG
1201 GACAATCACTTTTTGGGATAGGTTGAAATTTTTAAAGAGCCTGCATCATTTGGTTCCCTCAAAGGGAAGCCCTTGCCAGT
1281 GGGGGTTTGAAAGAGAATTTTTGGAACCAACATTCAAATTCTGCCTCATCTGGAGGGAAACCAAAATTGGGAGGGGGAAG
1361 AGGACCCCTGATGTTTTGCTGCTTCCAGAGATATTAGAAACTGACTCACTTGATTGGAAAATGGACAAAAGTGCCTTGAC
1441 GTGGAGGGTGGGCACCAGATGGGGACCAGCCTTGCCAACTGCTGCTGTGGCCTCCAGCTTGGCTGGTTTTGCAGGCCGCC
1521 AGCAGGAAGGCGAAGGTGGTAGTACAGCAAGAGGCACTGGCGGGGCAGCAGGCCTGCAGGAGCTGTTTTTCCATTGCTAG
1601 GCCTGACCCCTCTCTACCTGTGAGCGTTCAGGGGGTCCCTGAGATAGTTTAGATGCCCCCCCATCTTAGACCTCAGCTCC
1681 CACAGTGCCTTTTAAGGGGGACCTCACCTCCTGTGCACAGCCCACCCACTTTCCTCTGCTTCCCTGGCACAGCCCAGGCA
1761 TAGACGAGCTGGCGTTGGACCCAGTTCTTCCCCCTTTTCAGCCCCACAGCTGCTGCCACAGGGGCCAACTAGGGCCAGGT
1841 GGAAGGGGAGCTGAGAAGCCAACCCCTAGCCCAGGGGTGCTGTGGGAACTGGGATCCAATTTGTAGCTTCCTGCCTGGCT
1921 TCAGAGAGCCCAGCAACCTTCTAGGCCTGCTTTCCAGACTTCTGAGATAGCCTGGGATGAGCAATCCTGTTATAGTACAT
2001 CTGGACCTTCCCTACCTGGGCTCTGGGGAGGCTGTGGGCCTGGAGAGGGAAAAGGAGGGAGGGGGTGTCTGCACCACCTG
2081 GGAAGATAGCACAAGGCCTAATGAGGTCACCCTGACTCCCCACCCCAGCATTTCATTCATACCAGATAATAGCTGCATTA
2161 CTGCCAACTGACCTTATAACCCTCTGCACCTTCAAAAAGATTCATGGTTTTTAATTGCTGCTTTTAATAACATTTGTTAA
2241 AGTTATAATTAATGTGTCTGATTTATGATTTAAAACCTCCCTTTGAACAATCAAAAAAAAAAAAAAAAAAAAAA
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' attcaaaTTCTGCCTCATCTGg 3'
 1312 - 1333 143.00 -10.80
2 
miRNA  3' auaUC-CGGAAAUCUAGUAGACu 5'
             || |||  |: |||||:|| 
Target 5' taaAGAGCC--TGCATCATTTGg 3'
 1233 - 1253 139.00 -14.80
3 
miRNA  3' auauccgGAAAUCUAGUAGACu 5'
                 || | | |:||||| 
Target 5' cctcaaaCTCT-GTTTATCTGt 3'
 245 - 265 130.00 -6.70
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN14368835 24 COSMIC
COSN31556789 45 COSMIC
COSN22220076 567 COSMIC
COSN22053786 971 COSMIC
COSN31489155 1116 COSMIC
COSN31555140 1148 COSMIC
COSN31529538 1295 COSMIC
COSN6378986 1350 COSMIC
COSN32062711 1464 COSMIC
COSN30172938 1674 COSMIC
COSN28822877 1700 COSMIC
COSN20878269 1703 COSMIC
COSN31533858 1895 COSMIC
COSN31529250 1933 COSMIC
COSN31515931 2202 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs758365979 4 dbSNP
rs750693927 5 dbSNP
rs1367274771 6 dbSNP
rs1395620273 8 dbSNP
rs765532008 9 dbSNP
rs554859029 10 dbSNP
rs767009093 10 dbSNP
rs527405490 11 dbSNP
rs754248863 15 dbSNP
rs1263324870 17 dbSNP
rs764567719 18 dbSNP
rs1327429846 23 dbSNP
rs761257275 27 dbSNP
rs775822063 29 dbSNP
rs761376089 33 dbSNP
rs765936854 33 dbSNP
rs1215379610 39 dbSNP
rs1385726868 40 dbSNP
rs1354120116 42 dbSNP
rs762430355 46 dbSNP
rs1327708784 47 dbSNP
rs772893191 48 dbSNP
rs769435251 50 dbSNP
rs766476744 56 dbSNP
rs1257353111 58 dbSNP
rs1332944518 61 dbSNP
rs1335175139 63 dbSNP
rs1329426730 69 dbSNP
rs1446061299 75 dbSNP
rs988507643 80 dbSNP
rs957226647 84 dbSNP
rs1215396394 87 dbSNP
rs535435205 94 dbSNP
rs1032802255 114 dbSNP
rs920199211 117 dbSNP
rs1187160920 121 dbSNP
rs1333876023 124 dbSNP
rs1263881002 131 dbSNP
rs992029658 132 dbSNP
rs1193013174 134 dbSNP
rs1419222942 139 dbSNP
rs1463327933 142 dbSNP
rs35429932 149 dbSNP
rs59911984 149 dbSNP
rs71506262 149 dbSNP
rs753440945 149 dbSNP
rs1001685425 153 dbSNP
rs970229891 162 dbSNP
rs1024411576 163 dbSNP
rs1014354359 166 dbSNP
rs370700058 177 dbSNP
rs967477203 196 dbSNP
rs1320914353 198 dbSNP
rs1216718306 201 dbSNP
rs1016229125 206 dbSNP
rs148268556 207 dbSNP
rs957916273 219 dbSNP
rs534781019 222 dbSNP
rs1186455893 227 dbSNP
rs1457778625 231 dbSNP
rs763098887 232 dbSNP
rs1049868850 234 dbSNP
rs1346657877 242 dbSNP
rs182759910 244 dbSNP
rs932707529 245 dbSNP
rs777457534 254 dbSNP
rs1375968066 256 dbSNP
rs900358792 259 dbSNP
rs1040249625 260 dbSNP
rs944492862 280 dbSNP
rs913156191 287 dbSNP
rs867163259 288 dbSNP
rs989131840 293 dbSNP
rs1201920810 296 dbSNP
rs898718441 301 dbSNP
rs1239473273 303 dbSNP
rs1307271326 322 dbSNP
rs1281071426 324 dbSNP
rs570641377 331 dbSNP
rs1486714809 341 dbSNP
rs1239536267 343 dbSNP
rs1056043968 345 dbSNP
rs935715098 347 dbSNP
rs925597970 349 dbSNP
rs1179390345 350 dbSNP
rs147210193 350 dbSNP
rs946083555 351 dbSNP
rs969800630 352 dbSNP
rs1023981210 355 dbSNP
rs913338580 363 dbSNP
rs1446420308 369 dbSNP
rs990111170 370 dbSNP
rs1299703436 376 dbSNP
rs1335300064 384 dbSNP
rs1416478542 393 dbSNP
rs957365262 394 dbSNP
rs1446276278 395 dbSNP
rs1304451334 402 dbSNP
rs1358233291 403 dbSNP
rs531047740 405 dbSNP
rs1278531607 406 dbSNP
rs1308642609 407 dbSNP
rs1207040048 408 dbSNP
rs1157612523 412 dbSNP
rs1231484345 418 dbSNP
rs1457623076 419 dbSNP
rs1177549248 422 dbSNP
rs1455181082 425 dbSNP
rs570211963 426 dbSNP
rs961487989 431 dbSNP
rs1424333519 437 dbSNP
rs1439832321 439 dbSNP
rs921959774 441 dbSNP
rs1381617787 450 dbSNP
rs1464924064 451 dbSNP
rs1326816415 454 dbSNP
rs1015885122 455 dbSNP
rs1006207228 463 dbSNP
rs975339463 465 dbSNP
rs1438766145 466 dbSNP
rs1274390104 475 dbSNP
rs548863178 480 dbSNP
rs964335719 482 dbSNP
rs1019415103 484 dbSNP
rs1008034515 487 dbSNP
rs888481645 500 dbSNP
rs1317616507 521 dbSNP
rs1045336341 525 dbSNP
rs949754363 529 dbSNP
rs1028721882 535 dbSNP
rs765439497 537 dbSNP
rs1273416306 538 dbSNP
rs755782634 549 dbSNP
rs901269724 550 dbSNP
rs1041115746 551 dbSNP
rs529627794 552 dbSNP
rs1421470214 556 dbSNP
rs1475460531 556 dbSNP
rs1477372415 563 dbSNP
rs1165432512 564 dbSNP
rs1396935231 565 dbSNP
rs1403768427 571 dbSNP
rs891616207 576 dbSNP
rs1237948493 584 dbSNP
rs1211982233 590 dbSNP
rs1268922180 591 dbSNP
rs1487154017 602 dbSNP
rs1340514622 616 dbSNP
rs995252221 620 dbSNP
rs898165648 629 dbSNP
rs1333173403 633 dbSNP
rs1207633995 634 dbSNP
rs1055890145 638 dbSNP
rs375272838 639 dbSNP
rs1217399987 642 dbSNP
rs1260896642 656 dbSNP
rs1053071893 662 dbSNP
rs1477482938 668 dbSNP
rs111664246 670 dbSNP
rs373466404 676 dbSNP
rs935898946 683 dbSNP
rs1471690035 686 dbSNP
rs1162828077 688 dbSNP
rs946199700 690 dbSNP
rs370137286 714 dbSNP
rs55636506 717 dbSNP
rs1304341529 724 dbSNP
rs1360419715 726 dbSNP
rs1415881228 733 dbSNP
rs913284794 738 dbSNP
rs925870796 739 dbSNP
rs936095120 750 dbSNP
rs921943023 752 dbSNP
rs762235870 756 dbSNP
rs1351000244 758 dbSNP
rs1224946717 759 dbSNP
rs979752956 762 dbSNP
rs1283201888 763 dbSNP
rs975162386 773 dbSNP
rs1226628396 774 dbSNP
rs559315528 779 dbSNP
rs942609287 783 dbSNP
rs1285231953 785 dbSNP
rs1233633416 789 dbSNP
rs113098701 790 dbSNP
rs532221934 796 dbSNP
rs1297267481 797 dbSNP
rs1419890810 802 dbSNP
rs1435435667 802 dbSNP
rs565018778 803 dbSNP
rs973773417 808 dbSNP
rs1330028490 809 dbSNP
rs1337924321 809 dbSNP
rs1448482893 809 dbSNP
rs962804391 815 dbSNP
rs555616620 821 dbSNP
rs1162131016 823 dbSNP
rs1033989473 832 dbSNP
rs1234455483 839 dbSNP
rs1404178376 844 dbSNP
rs1414465481 851 dbSNP
rs1342835045 856 dbSNP
rs776907027 860 dbSNP
rs1273383287 861 dbSNP
rs543603161 881 dbSNP
rs1183515070 886 dbSNP
rs917001467 889 dbSNP
rs1476757901 895 dbSNP
rs1262165298 897 dbSNP
rs1376410003 901 dbSNP
rs992537362 902 dbSNP
rs961598502 911 dbSNP
rs576190256 921 dbSNP
rs907412772 929 dbSNP
rs1024985466 931 dbSNP
rs1328853897 931 dbSNP
rs1440964977 933 dbSNP
rs908688170 939 dbSNP
rs1328867776 943 dbSNP
rs566498828 952 dbSNP
rs1219468255 953 dbSNP
rs1232388027 954 dbSNP
rs554539351 962 dbSNP
rs1321135176 963 dbSNP
rs1251818921 965 dbSNP
rs984411923 972 dbSNP
rs1319723091 974 dbSNP
rs953094678 977 dbSNP
rs1028544725 984 dbSNP
rs542924201 985 dbSNP
rs965332601 991 dbSNP
rs73541858 996 dbSNP
rs1009641865 997 dbSNP
rs1375344043 1002 dbSNP
rs551561945 1002 dbSNP
rs114043822 1007 dbSNP
rs1399068202 1010 dbSNP
rs1000003379 1015 dbSNP
rs146959890 1016 dbSNP
rs564701463 1017 dbSNP
rs558632978 1030 dbSNP
rs1463980165 1034 dbSNP
rs1216548840 1043 dbSNP
rs1277283472 1053 dbSNP
rs1422772138 1057 dbSNP
rs1247179777 1060 dbSNP
rs1335271476 1060 dbSNP
rs1263916630 1062 dbSNP
rs1488191847 1076 dbSNP
rs948426187 1077 dbSNP
rs377458716 1080 dbSNP
rs1193596587 1085 dbSNP
rs916908581 1088 dbSNP
rs918404334 1102 dbSNP
rs1056840827 1108 dbSNP
rs865997513 1109 dbSNP
rs1264138466 1110 dbSNP
rs1366424230 1113 dbSNP
rs1456943119 1116 dbSNP
rs1288997957 1119 dbSNP
rs537200239 1120 dbSNP
rs1189678158 1122 dbSNP
rs1398027455 1124 dbSNP
rs1488234440 1134 dbSNP
rs1355792325 1144 dbSNP
rs1229880198 1145 dbSNP
rs908264025 1149 dbSNP
rs984709735 1161 dbSNP
rs962465948 1172 dbSNP
rs1456852479 1176 dbSNP
rs1351633522 1179 dbSNP
rs952877936 1181 dbSNP
rs1257907764 1183 dbSNP
rs1258841241 1185 dbSNP
rs979758606 1209 dbSNP
rs1180521958 1210 dbSNP
rs1253620243 1223 dbSNP
rs971461548 1233 dbSNP
rs1159426553 1235 dbSNP
rs1381558351 1250 dbSNP
rs914842 1251 dbSNP
rs548565266 1252 dbSNP
rs1298825121 1253 dbSNP
rs892067742 1270 dbSNP
rs186308283 1275 dbSNP
rs1273076028 1277 dbSNP
rs1374681119 1279 dbSNP
rs1239585744 1282 dbSNP
rs1281633921 1285 dbSNP
rs1314519269 1288 dbSNP
rs1208674713 1293 dbSNP
rs566271570 1296 dbSNP
rs1255733968 1297 dbSNP
rs550011068 1301 dbSNP
rs975660048 1308 dbSNP
rs181927946 1310 dbSNP
rs1367754509 1315 dbSNP
rs1437273475 1341 dbSNP
rs190521985 1349 dbSNP
rs1327358771 1358 dbSNP
rs1425754994 1362 dbSNP
rs1416047757 1366 dbSNP
rs1443886955 1368 dbSNP
rs965399845 1369 dbSNP
rs1358293762 1372 dbSNP
rs1462316750 1378 dbSNP
rs1399460928 1393 dbSNP
rs1033155659 1394 dbSNP
rs1019607354 1399 dbSNP
rs564927935 1412 dbSNP
rs149269527 1424 dbSNP
rs186153155 1425 dbSNP
rs1463383141 1431 dbSNP
rs1375714338 1433 dbSNP
rs1301207587 1434 dbSNP
rs1009546507 1440 dbSNP
rs957018008 1441 dbSNP
rs944850126 1445 dbSNP
rs1197646277 1449 dbSNP
rs1032392437 1459 dbSNP
rs890435974 1474 dbSNP
rs1426091281 1475 dbSNP
rs1000437976 1478 dbSNP
rs904351657 1479 dbSNP
rs771720594 1481 dbSNP
rs1478022537 1492 dbSNP
rs1172620222 1513 dbSNP
rs1397877933 1514 dbSNP
rs531371107 1517 dbSNP
rs918520228 1523 dbSNP
rs1044321869 1531 dbSNP
rs181237760 1532 dbSNP
rs927182661 1533 dbSNP
rs980255630 1535 dbSNP
rs1220825004 1536 dbSNP
rs971194079 1538 dbSNP
rs1317720627 1541 dbSNP
rs916891172 1544 dbSNP
rs1290166175 1551 dbSNP
rs1209795368 1554 dbSNP
rs895512325 1560 dbSNP
rs202217214 1561 dbSNP
rs770527772 1562 dbSNP
rs956237504 1562 dbSNP
rs1488549378 1572 dbSNP
rs1033270389 1577 dbSNP
rs533070511 1581 dbSNP
rs1048105407 1582 dbSNP
rs542488639 1583 dbSNP
rs1416317996 1588 dbSNP
rs572304031 1607 dbSNP
rs41302653 1625 dbSNP
rs138415806 1626 dbSNP
rs776127784 1631 dbSNP
rs1402351707 1634 dbSNP
rs150082542 1638 dbSNP
rs1376311066 1639 dbSNP
rs1340226781 1657 dbSNP
rs993460436 1662 dbSNP
rs397825635 1663 dbSNP
rs570909410 1663 dbSNP
rs5900463 1663 dbSNP
rs1226281552 1671 dbSNP
rs897043365 1689 dbSNP
rs1038243124 1698 dbSNP
rs1218628627 1701 dbSNP
rs1261018808 1702 dbSNP
rs1487839153 1706 dbSNP
rs1188049596 1707 dbSNP
rs1239410761 1709 dbSNP
rs941325585 1713 dbSNP
rs77484121 1714 dbSNP
rs1380920847 1717 dbSNP
rs537565815 1718 dbSNP
rs576494636 1723 dbSNP
rs555121968 1734 dbSNP
rs1360519312 1735 dbSNP
rs1415370819 1738 dbSNP
rs1336610927 1759 dbSNP
rs116609171 1765 dbSNP
rs1313943345 1766 dbSNP
rs1376977029 1771 dbSNP
rs1241777551 1773 dbSNP
rs548113059 1774 dbSNP
rs1200990627 1777 dbSNP
rs1280422899 1779 dbSNP
rs1440485522 1783 dbSNP
rs968553796 1792 dbSNP
rs1239076256 1800 dbSNP
rs1441616198 1804 dbSNP
rs955685497 1806 dbSNP
rs1380200997 1818 dbSNP
rs1022737277 1819 dbSNP
rs1012682051 1833 dbSNP
rs1483749808 1836 dbSNP
rs369976338 1837 dbSNP
rs140639231 1842 dbSNP
rs1004290353 1846 dbSNP
rs1352388037 1848 dbSNP
rs1286078389 1850 dbSNP
rs1018158980 1858 dbSNP
rs1009084060 1870 dbSNP
rs1240499960 1873 dbSNP
rs954750909 1875 dbSNP
rs1334689900 1876 dbSNP
rs1233796617 1877 dbSNP
rs1026362719 1879 dbSNP
rs571278760 1880 dbSNP
rs1311852385 1886 dbSNP
rs1459296152 1893 dbSNP
rs1048652472 1894 dbSNP
rs1396452598 1901 dbSNP
rs1237574998 1937 dbSNP
rs189681550 1948 dbSNP
rs1201631124 1954 dbSNP
rs769883390 1955 dbSNP
rs899559282 1959 dbSNP
rs1171896832 1963 dbSNP
rs1466829874 1964 dbSNP
rs1039908261 1967 dbSNP
rs899169025 1970 dbSNP
rs1386900738 1971 dbSNP
rs531417238 1974 dbSNP
rs1360079482 1976 dbSNP
rs1187908164 1981 dbSNP
rs1159253150 1982 dbSNP
rs1222648628 1986 dbSNP
rs1837 1993 dbSNP
rs1319747510 2011 dbSNP
rs1216968903 2015 dbSNP
rs1005868450 2016 dbSNP
rs1488846672 2022 dbSNP
rs1211757815 2025 dbSNP
rs549153736 2031 dbSNP
rs1367249040 2035 dbSNP
rs1451492399 2036 dbSNP
rs905799742 2042 dbSNP
rs1265707336 2048 dbSNP
rs912820086 2052 dbSNP
rs1475776387 2059 dbSNP
rs1168073578 2067 dbSNP
rs1372211252 2072 dbSNP
rs1457940910 2078 dbSNP
rs1164545641 2089 dbSNP
rs1260007234 2094 dbSNP
rs1387974491 2096 dbSNP
rs988407240 2100 dbSNP
rs935362439 2101 dbSNP
rs1404215080 2127 dbSNP
rs1298747626 2135 dbSNP
rs1397984977 2143 dbSNP
rs1295088103 2146 dbSNP
rs1322608937 2148 dbSNP
rs1247293641 2161 dbSNP
rs576025850 2176 dbSNP
rs1191123126 2177 dbSNP
rs776916280 2187 dbSNP
rs559966191 2190 dbSNP
rs1044584553 2227 dbSNP
rs925293253 2236 dbSNP
rs1217913785 2247 dbSNP
rs1266043726 2254 dbSNP
rs1487507468 2254 dbSNP
rs377734737 2254 dbSNP
rs1186335558 2260 dbSNP
rs949872655 2267 dbSNP
rs542813455 2271 dbSNP
rs1189226908 2277 dbSNP
rs969465156 2278 dbSNP
rs1052854593 2280 dbSNP
rs1023648836 2281 dbSNP
rs991291379 2282 dbSNP
rs959828118 2294 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' auucaaaUUCUGCCUCAUCUG- 3'
 		8 - 28
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 ENST00000373896.3 | 3UTR | AACCAACAUUCAAAUUCUGCCUCAUCUG
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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