miRTarBase - #MIRT470293


—
pre-miRNA Information
pre-miRNA hsa-mir-3678   
Genomic Coordinates chr17: 75406069 - 75406162
Description Homo sapiens miR-3678 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3678-3p
Sequence 69| CUGCAGAGUUUGUACGGACCGG |90
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs988363493 1 dbSNP
rs753118178 5 dbSNP
rs1424776090 14 dbSNP
rs1475188526 15 dbSNP
rs1163369708 17 dbSNP
rs1174219930 19 dbSNP
rs915488824 20 dbSNP
rs1273558782 21 dbSNP
rs755095016 22 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol PPTC7   
Synonyms TA-PP2C, TAPP2C
Description PTC7 protein phosphatase homolog
Transcript NM_139283   
Expression
Putative miRNA Targets on PPTC7
3'UTR of PPTC7
(miRNA target sites are highlighted)		 
>PPTC7|NM_139283|3'UTR
   1 CTGAGGTGTCAAGTCCTGCCTTTCCTTTCATCATCCCAAATTTCCCCTGCCATGTGTGCTGATCCTGCTGGCAGGACCAC
  81 ATTTCTTTGCCACTGATCTCAATGGCCAGTGATGTAAGTCTTTTGCCTGTCTTCTTGAGACTCGTTGAGATCTTTGTTGA
 161 GAACCACTACTATCATTCACTAGCTCATATCTGCCGGCAGCAATTGAAGAGATCCAATATTTGAAGATTGGCCTTCATTT
 241 CTCGATGTTCTTTCCATGATGGGGATGGAGGTGTTCAGTGCCACCGTGGCTGTTACTTTTCAAAGTAGTTGAAGTATTGA
 321 AAATGAGTAATGTTGGTAAAGTGAATTCAAAATCCTAGTATGCTAAAGGGATGGTACAAGTCTAACACAAATTGTACGTA
 401 ATGATACATCTACTAGAAACATACATTATTCATCAAAAGAAATGTTACATGTGTACTCCACAGGCATAGTCTTTGTTATG
 481 ATGATTGGTGTGGCTTTATGTCTTTGTTATAAACTCCTATTTTTCAGGGGCTTATGATTCTGCTCTAAAACATTGCTCTG
 561 GGTTATACAGTTTTGATCCCAAAAGCTTTTTTGTTACAAATCGGGAGAAAAATCCATTTTAGTTCTATGGATGGAAATAT
 641 TTCATGCTTTTAAAAAGATGTTTGTGTTCCTGTGGTTAAAGTTTTGGCAGTTTATTGATTAGTCCAAATCACAGGCTAAG
 721 GCCTGATCTCCAGGAGGGGTAGGGGAGACACTTTACCAGTATTTTTTTATGGAAATAATACTCAAGGTTGTAAAACCCCT
 801 CAAAGCCTAGAAATTTAATTGTTATGGCTGAAATTCCTCCTAGTTGTCTGATAGAATGCCCCTGAATGGGAACTCTAGGT
 881 CCCAAGGCCTGAAGGGTTGAGAACAGACAGCTGTAACTTTGAATTTTGTTGGCTTTCAGTGGTCATGCTACCTACCCATA
 961 CTCGTACTCTCAGACCTTTTATTAGTAGCCTTGCTTTCTATAGAGCATGCACCAAATCCAGTGAGTCCATGTGGAGAGAG
1041 CACTGTGTGCGCAGCGGCAGCAGCACAGACGTCCATGAGGAAAACTCCCAGTGATGATCTGACATTTACAATTACCCCAC
1121 ATGGAAATTTAGGGGTTTCTGAATCAAGCTTAATGTTTACAGTTTCCAAATAGCCATTTTGCAGTGTATAGTTTCCTTAC
1201 AAAACTACCCCGCATTCAGTTTTCACATTATCTGCAAGCTGAAACTTATTTTTAAGTTTTGTGTACAAGTTGACTGCTGT
1281 AAAGATATATATTTTTGGGTCAGTTTTTTTCCTTCATTAACTTGGTGGTAGAAAAAAATATATACTTAGAAATCCTTAAA
1361 TTAAAGCCATGTTTTATATATAAGTCAGGTAACATTGGTGTATAGATGAGAATGCAATTAAACCTGATGAGAATCTACTT
1441 GAGAATATAGAAAGTCTTTCTCTAAAGGAGATACTGACTCCCTGGTTTATTGCATTAAAATTTATGTTTGAGGTTACCTC
1521 AACTTGTTTTAAAAGATTTTGTTTTGTGAATTTGTACTGTATATTTGAGTAACTGTCAGGCTTTTATTTAAAATTGTTTA
1601 ACATGTACCATGTACATGTCATTACTATATTTCAATGCATCATGCTTGTAACAGGCATTTCATTTATAATAAGAATGAGT
1681 TATTCATTTGTAAGCCGTTCAGTAATTTATCTACTATTCCTAAATTGGCATAATGTTAGATAATCTATTTTGAATCACCT
1761 TTAATTACATGTCAGAATGCCTTAACTACCCTAACTTGACAAAACAGAATTCTTTGGTAGACGCGGTGGGGGCGGGGTGG
1841 GGGGTCTGGACGGAGTCTCTATTTAAGGAGAAATCATCATGCTATGATAAAACACAGAAGCATGAGTGGCAAGTGGCGGG
1921 GTATTTATTTTGCACAAACTATTTGCAGTCTCTGTGTATTTAAAAAGTAAAGAAAGTTGCATCCAGAAGGGTTTTGTTAG
2001 AATGAATACATTTATATTAGGACTGACAACTTCAGCTCTTTTGTTTAGGTTTTCAATTATTTTTGGTAAGAGTATGTAGC
2081 CTTATGATCTGGATATATTTTGCATTCATTTTCCAACGCCTACATTTAATTCCTGGTAAGAGCAGTGCTCGTCAAGTTTC
2161 TGGTTTTTCTCTGCTCTCATTTAACCCGTCAAACACAATCTTTGTAAAGCTAGATTGGTGGTGTTTTATACAACTTATTT
2241 ACTCAGCTTACCTTTTTGAGAAACGATTGTTAGAAATTGACGATGTGTTTGTTCCAGTGATACTGAAAGTAGTGGGGGCA
2321 AGAATTGAGTTTCACAGTGGAATTGGCTTTGGATCTGGCCTATAGATTAGTGACATAAAATATTTTCTCTATTTTCCCCT
2401 GTTCTTTTTGTGTTATGCACTTAATTTTATGACTGCCGGGGGGGTCAGCTGGAGTGCTGCTTAACAAGTATCTCTCCTAC
2481 TCTCAGTGGTCAGAGGCTGTGTTGGACCCATAGTAGAATTTTCCAGGTCACAGACCCAAGCTTCCATGGGTTGTTACTGT
2561 GCTGTACCACTTGGTGGGTCTGATTCTGAACCTGATGTGTGTGTT
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' ggCCAGGCAUGUUUGAGACGUc 5'
            | ||:| |:| |:|:|||| 
Target 5' atGATCTGGATATATTTTGCAt 3'
 2084 - 2105 136.00 -12.50
2 
miRNA  3' ggccaGGCA-----UGUUUGAGACGUc 5'
               ||||     |||| ||:||:| 
Target 5' ttaacCCGTCAAACACAATCTTTGTAa 3'
 2181 - 2207 129.00 -13.70
3 
miRNA  3' ggccAGGCAUGUU--UGAGACGUc 5'
              |||  |:|:  |:|:|||| 
Target 5' agttTCCAAATAGCCATTTTGCAg 3'
 1161 - 1184 124.00 -12.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN28709844 29 COSMIC
COSN24478148 34 COSMIC
COSN26564924 37 COSMIC
COSN26554758 45 COSMIC
COSN30189364 166 COSMIC
COSN31600580 195 COSMIC
COSN31601623 241 COSMIC
COSN21673281 373 COSMIC
COSN26105167 431 COSMIC
COSN8694512 891 COSMIC
COSN1557152 1047 COSMIC
COSN28782319 1067 COSMIC
COSN31570917 1139 COSMIC
COSN31611192 1270 COSMIC
COSN5864820 1341 COSMIC
COSN31519713 1361 COSMIC
COSN31606622 1418 COSMIC
COSN31487115 1520 COSMIC
COSN26642123 1728 COSMIC
COSN17499399 1922 COSMIC
COSN31570423 2061 COSMIC
COSN26577256 2080 COSMIC
COSN31604138 2103 COSMIC
COSN26633557 2148 COSMIC
COSN31596338 2266 COSMIC
COSN25257974 2313 COSMIC
COSN22213447 2342 COSMIC
COSN23037864 2622 COSMIC
COSN23440870 2899 COSMIC
COSN27460003 2899 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs777642440 5 dbSNP
rs1292423711 6 dbSNP
rs1328179702 8 dbSNP
rs769420249 10 dbSNP
rs1230936918 16 dbSNP
rs1214132912 18 dbSNP
rs1282517108 24 dbSNP
rs766723625 24 dbSNP
rs369743422 25 dbSNP
rs145160849 30 dbSNP
rs376820337 30 dbSNP
rs1265858803 32 dbSNP
rs745639654 36 dbSNP
rs367757579 39 dbSNP
rs1335828179 43 dbSNP
rs1205261160 44 dbSNP
rs200391143 52 dbSNP
rs1449268937 53 dbSNP
rs1197408675 56 dbSNP
rs559727163 58 dbSNP
rs931262536 61 dbSNP
rs919846065 81 dbSNP
rs952646723 82 dbSNP
rs1434464316 92 dbSNP
rs73191841 98 dbSNP
rs554118578 102 dbSNP
rs1470829921 110 dbSNP
rs992885562 113 dbSNP
rs1346001150 116 dbSNP
rs960079374 116 dbSNP
rs924774066 118 dbSNP
rs977612496 123 dbSNP
rs1316014927 135 dbSNP
rs1262081244 137 dbSNP
rs969409003 137 dbSNP
rs961227701 143 dbSNP
rs1258434471 144 dbSNP
rs757765214 156 dbSNP
rs1019402443 167 dbSNP
rs1485206784 169 dbSNP
rs1291695262 181 dbSNP
rs147990237 184 dbSNP
rs1019260185 186 dbSNP
rs565421870 187 dbSNP
rs1049424266 193 dbSNP
rs1182830063 194 dbSNP
rs547130926 195 dbSNP
rs532172877 196 dbSNP
rs1456462402 200 dbSNP
rs1163006683 211 dbSNP
rs1366183184 213 dbSNP
rs894071291 217 dbSNP
rs1054076699 226 dbSNP
rs1341796287 228 dbSNP
rs1391706080 231 dbSNP
rs898431537 235 dbSNP
rs11065659 243 dbSNP
rs1293494850 244 dbSNP
rs1045006356 248 dbSNP
rs185435338 250 dbSNP
rs915919305 263 dbSNP
rs1225408234 270 dbSNP
rs1057021667 273 dbSNP
rs549723110 276 dbSNP
rs924132195 277 dbSNP
rs1196677688 281 dbSNP
rs924709759 285 dbSNP
rs1046989743 286 dbSNP
rs1384818782 307 dbSNP
rs534052987 309 dbSNP
rs1385913386 312 dbSNP
rs1157366302 313 dbSNP
rs1166667990 317 dbSNP
rs1353800737 321 dbSNP
rs1462310908 332 dbSNP
rs531603161 341 dbSNP
rs949506765 342 dbSNP
rs1299666753 343 dbSNP
rs1418721066 350 dbSNP
rs916626700 357 dbSNP
rs1451434001 358 dbSNP
rs568078755 361 dbSNP
rs1474382884 363 dbSNP
rs1225470787 364 dbSNP
rs193180783 374 dbSNP
rs1294064330 377 dbSNP
rs952679209 381 dbSNP
rs919919002 397 dbSNP
rs548195069 398 dbSNP
rs530157379 400 dbSNP
rs1447385246 403 dbSNP
rs1019332083 406 dbSNP
rs961258136 407 dbSNP
rs1462724591 410 dbSNP
rs1260928244 412 dbSNP
rs1184790871 415 dbSNP
rs1019472367 419 dbSNP
rs1008454825 420 dbSNP
rs1429036250 424 dbSNP
rs1172331921 427 dbSNP
rs1469054862 431 dbSNP
rs951139406 434 dbSNP
rs753063362 436 dbSNP
rs1432340111 447 dbSNP
rs1287765115 449 dbSNP
rs1028458163 453 dbSNP
rs1232161762 461 dbSNP
rs1332123205 463 dbSNP
rs143454016 479 dbSNP
rs1263997478 481 dbSNP
rs1011319076 483 dbSNP
rs1431873598 485 dbSNP
rs759072717 486 dbSNP
rs559883113 487 dbSNP
rs1316815525 488 dbSNP
rs1188230147 489 dbSNP
rs1052754698 508 dbSNP
rs1266613771 518 dbSNP
rs189913431 519 dbSNP
rs1431045409 520 dbSNP
rs1398569094 525 dbSNP
rs1157777866 527 dbSNP
rs1045266718 528 dbSNP
rs1389104397 536 dbSNP
rs1291161433 544 dbSNP
rs537970078 554 dbSNP
rs767884061 557 dbSNP
rs1164232099 568 dbSNP
rs1344106308 568 dbSNP
rs1012121679 570 dbSNP
rs755186196 577 dbSNP
rs1222247454 589 dbSNP
rs1459947827 593 dbSNP
rs577274264 602 dbSNP
rs1217957218 603 dbSNP
rs751745450 608 dbSNP
rs903288838 613 dbSNP
rs1168760059 615 dbSNP
rs1270734949 616 dbSNP
rs766843327 623 dbSNP
rs1176294405 625 dbSNP
rs1408194663 627 dbSNP
rs1401944365 628 dbSNP
rs1041820079 640 dbSNP
rs1364318407 646 dbSNP
rs559075621 648 dbSNP
rs79925739 655 dbSNP
rs914751389 664 dbSNP
rs1440398125 669 dbSNP
rs1046575492 670 dbSNP
rs576654033 678 dbSNP
rs1190914690 688 dbSNP
rs942966451 689 dbSNP
rs912805604 694 dbSNP
rs1358688590 698 dbSNP
rs1223168788 707 dbSNP
rs949542972 712 dbSNP
rs762837814 725 dbSNP
rs916676871 726 dbSNP
rs986489630 728 dbSNP
rs1435884416 740 dbSNP
rs1055650756 743 dbSNP
rs554877045 750 dbSNP
rs1203477602 755 dbSNP
rs1233171729 759 dbSNP
rs951099632 760 dbSNP
rs1212477424 762 dbSNP
rs773175554 770 dbSNP
rs1158167275 778 dbSNP
rs1444673214 779 dbSNP
rs1025702756 783 dbSNP
rs765031967 790 dbSNP
rs1466765844 809 dbSNP
rs1416505135 810 dbSNP
rs35041559 810 dbSNP
rs1408636668 814 dbSNP
rs973857072 825 dbSNP
rs1214839458 845 dbSNP
rs1339135092 857 dbSNP
rs962736229 861 dbSNP
rs1235912435 862 dbSNP
rs1372282256 863 dbSNP
rs1334917026 877 dbSNP
rs1023464006 878 dbSNP
rs1246734617 891 dbSNP
rs919950610 893 dbSNP
rs1337366666 908 dbSNP
rs972695023 914 dbSNP
rs1012025075 929 dbSNP
rs61942605 932 dbSNP
rs1439237704 937 dbSNP
rs1438774657 942 dbSNP
rs1242090956 944 dbSNP
rs1184898268 945 dbSNP
rs1034880415 952 dbSNP
rs999374201 959 dbSNP
rs903193201 963 dbSNP
rs1329782532 964 dbSNP
rs1409663729 967 dbSNP
rs146675300 969 dbSNP
rs1165869255 971 dbSNP
rs1455445103 978 dbSNP
rs1453561825 980 dbSNP
rs893205647 981 dbSNP
rs1395556169 989 dbSNP
rs1192986783 990 dbSNP
rs986659548 991 dbSNP
rs3825391 996 dbSNP
rs1429902316 999 dbSNP
rs1028156821 1000 dbSNP
rs912712635 1003 dbSNP
rs987065769 1012 dbSNP
rs930185366 1013 dbSNP
rs746653905 1025 dbSNP
rs538688052 1035 dbSNP
rs1270455501 1041 dbSNP
rs1213420375 1044 dbSNP
rs1259015164 1045 dbSNP
rs989924685 1046 dbSNP
rs1193122730 1050 dbSNP
rs1243138567 1050 dbSNP
rs1479012061 1053 dbSNP
rs1303270485 1055 dbSNP
rs775051981 1056 dbSNP
rs1375601683 1058 dbSNP
rs1031352129 1069 dbSNP
rs550845280 1070 dbSNP
rs1382925612 1071 dbSNP
rs1280148478 1072 dbSNP
rs1400141689 1075 dbSNP
rs902769394 1079 dbSNP
rs1025616115 1081 dbSNP
rs1441569395 1083 dbSNP
rs1342288264 1101 dbSNP
rs1402934846 1106 dbSNP
rs1013831565 1111 dbSNP
rs1345794874 1118 dbSNP
rs1336424792 1130 dbSNP
rs771584784 1146 dbSNP
rs1349341957 1163 dbSNP
rs34418612 1164 dbSNP
rs1287449411 1169 dbSNP
rs1375882250 1176 dbSNP
rs374481724 1182 dbSNP
rs1489551680 1186 dbSNP
rs1055281763 1194 dbSNP
rs142576986 1202 dbSNP
rs931427423 1211 dbSNP
rs898556750 1212 dbSNP
rs1480946083 1214 dbSNP
rs1036995543 1234 dbSNP
rs1410088264 1242 dbSNP
rs960545142 1249 dbSNP
rs1362218333 1255 dbSNP
rs1177214139 1260 dbSNP
rs1159205669 1278 dbSNP
rs1362429197 1279 dbSNP
rs147740171 1285 dbSNP
rs1469213467 1286 dbSNP
rs1230772044 1288 dbSNP
rs1189675018 1296 dbSNP
rs749809120 1298 dbSNP
rs1486199240 1299 dbSNP
rs879555910 1300 dbSNP
rs1034783548 1305 dbSNP
rs1356521195 1306 dbSNP
rs1220944353 1311 dbSNP
rs531437838 1319 dbSNP
rs902428612 1321 dbSNP
rs1211936775 1325 dbSNP
rs1319183805 1327 dbSNP
rs1285611704 1334 dbSNP
rs1248754685 1339 dbSNP
rs1437439527 1341 dbSNP
rs1182671527 1345 dbSNP
rs932565407 1370 dbSNP
rs1442803866 1371 dbSNP
rs1162864519 1378 dbSNP
rs1385710644 1379 dbSNP
rs547703952 1381 dbSNP
rs1459307467 1383 dbSNP
rs1296232067 1389 dbSNP
rs1395393502 1395 dbSNP
rs921123717 1399 dbSNP
rs768136199 1402 dbSNP
rs989951102 1407 dbSNP
rs1379972047 1416 dbSNP
rs957130289 1417 dbSNP
rs1371338136 1423 dbSNP
rs1039830414 1427 dbSNP
rs1322835661 1432 dbSNP
rs1295319493 1438 dbSNP
rs184123837 1454 dbSNP
rs191663717 1461 dbSNP
rs1199528783 1480 dbSNP
rs1240192099 1493 dbSNP
rs1051224293 1504 dbSNP
rs1460038631 1504 dbSNP
rs1445555418 1525 dbSNP
rs1425466596 1532 dbSNP
rs561780131 1535 dbSNP
rs1168111299 1539 dbSNP
rs527585708 1549 dbSNP
rs1462260959 1554 dbSNP
rs930280970 1555 dbSNP
rs1403364026 1561 dbSNP
rs1451366941 1566 dbSNP
rs1336790185 1573 dbSNP
rs1380577982 1579 dbSNP
rs866064352 1583 dbSNP
rs1346856678 1604 dbSNP
rs1159777118 1613 dbSNP
rs1398338585 1616 dbSNP
rs1399595903 1618 dbSNP
rs781679057 1619 dbSNP
rs971506992 1627 dbSNP
rs1219553749 1635 dbSNP
rs1260308161 1638 dbSNP
rs1321652753 1650 dbSNP
rs1023972158 1652 dbSNP
rs1475295769 1653 dbSNP
rs1256636141 1661 dbSNP
rs1256370212 1663 dbSNP
rs1014278026 1666 dbSNP
rs918826956 1669 dbSNP
rs57076956 1673 dbSNP
rs1487066813 1677 dbSNP
rs1195573345 1679 dbSNP
rs1426827774 1683 dbSNP
rs1468936635 1690 dbSNP
rs941004548 1697 dbSNP
rs1360410543 1702 dbSNP
rs916223238 1704 dbSNP
rs547826284 1706 dbSNP
rs1287632409 1713 dbSNP
rs990540916 1714 dbSNP
rs960407344 1760 dbSNP
rs755316894 1769 dbSNP
rs995593629 1771 dbSNP
rs1408174540 1777 dbSNP
rs1223170109 1784 dbSNP
rs927842353 1798 dbSNP
rs1314038634 1806 dbSNP
rs898592780 1812 dbSNP
rs532610865 1822 dbSNP
rs748770819 1824 dbSNP
rs966683135 1825 dbSNP
rs1233994310 1827 dbSNP
rs940116278 1831 dbSNP
rs182490866 1833 dbSNP
rs1051087816 1834 dbSNP
rs932572335 1836 dbSNP
rs1291704040 1837 dbSNP
rs1300545381 1838 dbSNP
rs1420812662 1838 dbSNP
rs957371803 1839 dbSNP
rs1404662569 1841 dbSNP
rs1394022381 1844 dbSNP
rs1018256150 1845 dbSNP
rs1222196569 1845 dbSNP
rs1006980623 1846 dbSNP
rs1354450936 1851 dbSNP
rs751800426 1851 dbSNP
rs541799856 1852 dbSNP
rs1386372078 1857 dbSNP
rs935788593 1859 dbSNP
rs543980130 1861 dbSNP
rs1327245871 1866 dbSNP
rs1461537122 1867 dbSNP
rs924433038 1872 dbSNP
rs977209776 1875 dbSNP
rs1162409300 1879 dbSNP
rs1430630122 1880 dbSNP
rs1176168433 1881 dbSNP
rs971153433 1884 dbSNP
rs775290542 1915 dbSNP
rs576603154 1917 dbSNP
rs1186433850 1918 dbSNP
rs372707858 1922 dbSNP
rs1039043457 1940 dbSNP
rs941591383 1947 dbSNP
rs1383858506 1950 dbSNP
rs1405210558 1952 dbSNP
rs916251379 1953 dbSNP
rs916930980 1954 dbSNP
rs561246029 1958 dbSNP
rs939138846 1971 dbSNP
rs1377762526 1975 dbSNP
rs927704871 1977 dbSNP
rs991142744 1988 dbSNP
rs1358621479 1989 dbSNP
rs1228720333 1999 dbSNP
rs959909089 2000 dbSNP
rs1309022253 2011 dbSNP
rs1033858119 2012 dbSNP
rs977976883 2014 dbSNP
rs1203408242 2018 dbSNP
rs1238352072 2020 dbSNP
rs1458720199 2022 dbSNP
rs536132300 2023 dbSNP
rs780042596 2029 dbSNP
rs542868548 2038 dbSNP
rs572416590 2041 dbSNP
rs1472745349 2044 dbSNP
rs1213773916 2055 dbSNP
rs1164242062 2056 dbSNP
rs553321611 2066 dbSNP
rs1408514996 2074 dbSNP
rs112707998 2090 dbSNP
rs368789747 2091 dbSNP
rs1401293404 2093 dbSNP
rs1305562749 2094 dbSNP
rs577649578 2095 dbSNP
rs1339844577 2102 dbSNP
rs1004732321 2113 dbSNP
rs139420012 2116 dbSNP
rs186836759 2117 dbSNP
rs1213709937 2119 dbSNP
rs1258381414 2132 dbSNP
rs1319542730 2133 dbSNP
rs1051549854 2136 dbSNP
rs375622018 2138 dbSNP
rs1018325048 2151 dbSNP
rs985448990 2153 dbSNP
rs1188867672 2154 dbSNP
rs1239655732 2156 dbSNP
rs899760366 2171 dbSNP
rs1193373857 2176 dbSNP
rs1424662737 2180 dbSNP
rs1170106992 2188 dbSNP
rs1448078789 2195 dbSNP
rs1174494433 2203 dbSNP
rs1401616149 2221 dbSNP
rs955468068 2227 dbSNP
rs182228732 2235 dbSNP
rs1343365540 2238 dbSNP
rs1194862395 2241 dbSNP
rs935902707 2246 dbSNP
rs1278584546 2251 dbSNP
rs191141368 2264 dbSNP
rs1041560394 2267 dbSNP
rs1017066990 2268 dbSNP
rs949853802 2271 dbSNP
rs1481041547 2277 dbSNP
rs758526652 2281 dbSNP
rs991570274 2282 dbSNP
rs958432246 2283 dbSNP
rs750429128 2310 dbSNP
rs1264383381 2311 dbSNP
rs1197557351 2312 dbSNP
rs189146763 2313 dbSNP
rs1042546150 2314 dbSNP
rs150392961 2314 dbSNP
rs796203895 2314 dbSNP
rs1235011921 2318 dbSNP
rs945113633 2320 dbSNP
rs1369598023 2329 dbSNP
rs566795684 2334 dbSNP
rs183788086 2335 dbSNP
rs1392632227 2336 dbSNP
rs1373559910 2343 dbSNP
rs1331312389 2348 dbSNP
rs1234840216 2357 dbSNP
rs989323739 2365 dbSNP
rs1297277549 2374 dbSNP
rs1015725876 2380 dbSNP
rs1377695476 2390 dbSNP
rs1174812675 2396 dbSNP
rs1287299835 2399 dbSNP
rs1489480235 2400 dbSNP
rs1267014989 2401 dbSNP
rs192020837 2401 dbSNP
rs765749072 2401 dbSNP
rs370529571 2407 dbSNP
rs762881610 2414 dbSNP
rs1184025573 2416 dbSNP
rs1159184260 2431 dbSNP
rs1419766146 2437 dbSNP
rs769632671 2438 dbSNP
rs955643686 2438 dbSNP
rs985481964 2440 dbSNP
rs1310720301 2442 dbSNP
rs539542512 2445 dbSNP
rs955376195 2445 dbSNP
rs1265195528 2458 dbSNP
rs1357449718 2461 dbSNP
rs745774018 2463 dbSNP
rs1236510086 2464 dbSNP
rs765224377 2467 dbSNP
rs866462394 2469 dbSNP
rs961483317 2470 dbSNP
rs1017554528 2475 dbSNP
rs1442662233 2480 dbSNP
rs1481946698 2489 dbSNP
rs899876028 2496 dbSNP
rs1368851458 2499 dbSNP
rs781176763 2512 dbSNP
rs1054443272 2514 dbSNP
rs867738977 2517 dbSNP
rs903074494 2523 dbSNP
rs1211351415 2531 dbSNP
rs1041960680 2540 dbSNP
rs371898440 2547 dbSNP
rs1254208369 2556 dbSNP
rs1240503491 2557 dbSNP
rs1043568440 2559 dbSNP
rs1003724367 2574 dbSNP
rs906201921 2580 dbSNP
rs1305817213 2596 dbSNP
rs1247432906 2606 dbSNP
rs1256461895 2613 dbSNP
rs1042018021 2617 dbSNP
rs1199390008 2629 dbSNP
rs1260111271 2633 dbSNP
rs1407686714 2636 dbSNP
rs917062176 2639 dbSNP
rs1055587946 2640 dbSNP
rs1403298226 2640 dbSNP
rs1425407939 2640 dbSNP
rs149391682 2640 dbSNP
rs748527741 2640 dbSNP
rs945157994 2640 dbSNP
rs943162724 2641 dbSNP
rs1357748978 2642 dbSNP
rs1302840222 2646 dbSNP
rs576526014 2647 dbSNP
rs1398204066 2652 dbSNP
rs987398110 2659 dbSNP
rs1340249911 2660 dbSNP
rs920289265 2663 dbSNP
rs1280272323 2676 dbSNP
rs922595750 2679 dbSNP
rs973013404 2685 dbSNP
rs761679555 2687 dbSNP
rs1454347026 2692 dbSNP
rs1484182395 2693 dbSNP
rs961789853 2695 dbSNP
rs1363364029 2712 dbSNP
rs1477999452 2713 dbSNP
rs1195419999 2718 dbSNP
rs909950868 2724 dbSNP
rs941633010 2726 dbSNP
rs959546963 2734 dbSNP
rs1378755956 2740 dbSNP
rs1033777706 2745 dbSNP
rs1296835361 2750 dbSNP
rs1360300845 2761 dbSNP
rs1400918723 2774 dbSNP
rs1188342712 2778 dbSNP
rs1365742042 2783 dbSNP
rs1003755515 2787 dbSNP
rs1302033030 2789 dbSNP
rs1441655877 2794 dbSNP
rs1285151425 2795 dbSNP
rs753692472 2801 dbSNP
rs971003195 2803 dbSNP
rs908758201 2805 dbSNP
rs1021072609 2808 dbSNP
rs1487934392 2809 dbSNP
rs1191369448 2823 dbSNP
rs779587980 2825 dbSNP
rs1268867964 2826 dbSNP
rs1009220697 2828 dbSNP
rs763873180 2828 dbSNP
rs893568798 2834 dbSNP
rs1053551825 2841 dbSNP
rs1161708215 2845 dbSNP
rs1348400205 2850 dbSNP
rs1259693871 2857 dbSNP
rs866643419 2859 dbSNP
rs888959065 2867 dbSNP
rs1444574885 2869 dbSNP
rs56257616 2877 dbSNP
rs1228964874 2878 dbSNP
rs1293548777 2882 dbSNP
rs532436743 2894 dbSNP
rs760361351 2895 dbSNP
rs1233029000 2896 dbSNP
rs933269173 2897 dbSNP
rs946543850 2899 dbSNP
rs1177454182 2900 dbSNP
rs1456116117 2900 dbSNP
rs113830542 2901 dbSNP
rs1238154787 2901 dbSNP
rs112020659 2902 dbSNP
rs1179421631 2905 dbSNP
rs1384886633 2909 dbSNP
rs1405081263 2911 dbSNP
rs975548663 2912 dbSNP
rs775185661 2913 dbSNP
rs1165759126 2914 dbSNP
rs1377685682 2914 dbSNP
rs555592281 2914 dbSNP
rs55638079 2914 dbSNP
rs964113508 2914 dbSNP
rs1463109701 2920 dbSNP
rs1282298453 2923 dbSNP
rs1418786872 2932 dbSNP
rs186717024 2940 dbSNP
rs1228668485 2942 dbSNP
rs1037463958 2944 dbSNP
rs139663602 2944 dbSNP
rs1366573251 2946 dbSNP
rs940055080 2949 dbSNP
rs1258179784 2956 dbSNP
rs1458679236 2966 dbSNP
rs1207264981 2968 dbSNP
rs867382248 2973 dbSNP
rs903104065 2981 dbSNP
rs1020233974 2984 dbSNP
rs1014583548 2987 dbSNP
rs1469454573 2988 dbSNP
rs1273390270 2992 dbSNP
rs1208939268 3004 dbSNP
rs1354669267 3006 dbSNP
rs1272230895 3018 dbSNP
rs1401137422 3019 dbSNP
rs1411663656 3019 dbSNP
rs1358490597 3024 dbSNP
rs1448547398 3028 dbSNP
rs1294870633 3031 dbSNP
rs117916505 3034 dbSNP
rs1217661355 3042 dbSNP
rs1278375206 3045 dbSNP
rs1319399472 3053 dbSNP
rs768949353 3059 dbSNP
rs1296073150 3061 dbSNP
rs1277196301 3065 dbSNP
rs982236038 3070 dbSNP
rs1056020506 3078 dbSNP
rs561108404 3093 dbSNP
rs1211388697 3104 dbSNP
rs971413916 3117 dbSNP
rs542829799 3121 dbSNP
rs1395368831 3128 dbSNP
rs151241518 3129 dbSNP
rs142274815 3131 dbSNP
rs1170870243 3137 dbSNP
rs1424424771 3141 dbSNP
rs1415004213 3145 dbSNP
rs898893421 3149 dbSNP
rs1037330226 3150 dbSNP
rs1399097241 3158 dbSNP
rs1298508198 3168 dbSNP
rs1327820284 3170 dbSNP
rs16940885 3176 dbSNP
rs907527575 3192 dbSNP
rs1273761743 3203 dbSNP
rs983096980 3204 dbSNP
rs1351552343 3206 dbSNP
rs75223145 3208 dbSNP
rs1283003286 3211 dbSNP
rs1169386759 3226 dbSNP
rs934219570 3240 dbSNP
rs1007317596 3264 dbSNP
rs1389452947 3272 dbSNP
rs888864323 3280 dbSNP
rs1246224250 3286 dbSNP
rs1051627695 3288 dbSNP
rs1175448944 3290 dbSNP
rs922826193 3295 dbSNP
rs773670591 3296 dbSNP
rs975958427 3297 dbSNP
rs747146990 3300 dbSNP
rs576987816 3307 dbSNP
rs964144174 3308 dbSNP
rs1384735624 3313 dbSNP
rs1033055826 3318 dbSNP
rs553975110 3320 dbSNP
rs7489021 3321 dbSNP
rs967410235 3324 dbSNP
rs1331180654 3326 dbSNP
rs1442456749 3333 dbSNP
rs941910372 3343 dbSNP
rs1449448735 3349 dbSNP
rs909890960 3357 dbSNP
rs1274715912 3359 dbSNP
rs1353229953 3359 dbSNP
rs1208301319 3365 dbSNP
rs1048381425 3374 dbSNP
rs1452328869 3375 dbSNP
rs938133581 3376 dbSNP
rs556126603 3393 dbSNP
rs10075 3400 dbSNP
rs552608555 3401 dbSNP
rs142225646 3402 dbSNP
rs368634117 3402 dbSNP
rs895693275 3408 dbSNP
rs1365336596 3412 dbSNP
rs914026510 3416 dbSNP
rs1162349668 3420 dbSNP
rs1371803952 3428 dbSNP
rs781717303 3438 dbSNP
rs1375466750 3443 dbSNP
rs1462606212 3443 dbSNP
rs988418822 3443 dbSNP
rs1034203528 3449 dbSNP
rs148681778 3452 dbSNP
rs1308265829 3467 dbSNP
rs538373610 3469 dbSNP
rs574765926 3483 dbSNP
rs898924531 3491 dbSNP
rs1410290050 3502 dbSNP
rs747329212 3506 dbSNP
rs940444309 3512 dbSNP
rs1369791301 3519 dbSNP
rs886131576 3530 dbSNP
rs1457326128 3536 dbSNP
rs1196307529 3538 dbSNP
rs1252568414 3539 dbSNP
rs140055874 3547 dbSNP
rs934274287 3548 dbSNP
rs1368722839 3554 dbSNP
rs1476000642 3568 dbSNP
rs1168035109 3573 dbSNP
rs922823316 3573 dbSNP
rs867080676 3574 dbSNP
rs1299313177 3579 dbSNP
rs1399246936 3580 dbSNP
rs1190082496 3584 dbSNP
rs988072659 3590 dbSNP
rs115856058 3593 dbSNP
rs1317441640 3611 dbSNP
rs566758661 3621 dbSNP
rs1234237029 3629 dbSNP
rs551427364 3632 dbSNP
rs1482932804 3640 dbSNP
rs780353862 3641 dbSNP
rs978864651 3655 dbSNP
rs967852732 3658 dbSNP
rs1213490227 3662 dbSNP
rs1349151721 3663 dbSNP
rs1278561554 3667 dbSNP
rs887690239 3682 dbSNP
rs539023996 3685 dbSNP
rs913244685 3691 dbSNP
rs993212337 3693 dbSNP
rs185551447 3699 dbSNP
rs1352982124 3700 dbSNP
rs750527903 3711 dbSNP
rs1428658422 3715 dbSNP
rs1171880195 3731 dbSNP
rs550160459 3735 dbSNP
rs1465014628 3742 dbSNP
rs1302716794 3744 dbSNP
rs963222892 3753 dbSNP
rs1016035467 3760 dbSNP
rs1417002355 3760 dbSNP
rs1296643376 3763 dbSNP
rs1340094915 3768 dbSNP
rs1382885927 3777 dbSNP
rs1297856673 3778 dbSNP
rs1310466645 3778 dbSNP
rs1046487038 3780 dbSNP
rs1280876599 3792 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' ggccAGGCAUGUU----UGAGACGUc 5'
              ||| |||||    || | ||| 
Target 5' ----UCCUUACAAAACUACCCCGCAu 3'
 		1 - 22
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 ENST00000354300.3 | 3UTR | UCCUUACAAAACUACCCCGCAUUCAGUUUUCACAUUAUCUG
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
HNSC 0.224 0.25 0.336 0.16 11 Click to see details
LUSC 0.263 0.37 0.000 0.5 4 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
LIHC -0.088 0.41 -0.083 0.42 9 Click to see details
86 hsa-miR-3678-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT074327 TNRC6A trinucleotide repeat containing 6A 2 10
MIRT107705 CLTA clathrin light chain A 2 2
MIRT114113 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT155293 IFNAR2 interferon alpha and beta receptor subunit 2 2 4
MIRT159171 NRBP1 nuclear receptor binding protein 1 2 2
MIRT185795 ZNF678 zinc finger protein 678 2 2
MIRT282672 SYNM synemin 2 2
MIRT294386 ZNF264 zinc finger protein 264 2 2
MIRT295818 CHMP4B charged multivesicular body protein 4B 2 2
MIRT332777 CAPRIN1 cell cycle associated protein 1 2 4
MIRT334112 PPP6R3 protein phosphatase 6 regulatory subunit 3 2 2
MIRT340971 IPO5 importin 5 2 2
MIRT354679 CDV3 CDV3 homolog 2 2
MIRT366662 PLP2 proteolipid protein 2 2 2
MIRT404272 PLEKHA8 pleckstrin homology domain containing A8 2 2
MIRT447536 RNF165 ring finger protein 165 2 2
MIRT449139 UQCRB ubiquinol-cytochrome c reductase binding protein 2 2
MIRT451301 LGALS3BP galectin 3 binding protein 2 2
MIRT451488 FOPNL FGFR1OP N-terminal like 2 2
MIRT455198 GNL1 G protein nucleolar 1 (putative) 2 2
MIRT459215 MRPS21 mitochondrial ribosomal protein S21 2 2
MIRT461764 MPDU1 mannose-P-dolichol utilization defect 1 2 2
MIRT463273 ZFX zinc finger protein, X-linked 2 2
MIRT464862 UBB ubiquitin B 2 8
MIRT464950 TWIST1 twist family bHLH transcription factor 1 2 2
MIRT467378 SON SON DNA binding protein 2 4
MIRT469282 RHOA ras homolog family member A 2 2
MIRT470293 PPTC7 PTC7 protein phosphatase homolog 2 2
MIRT470639 POM121C POM121 transmembrane nucleoporin C 2 2
MIRT477163 FABP3 fatty acid binding protein 3 2 2
MIRT477686 EFHD2 EF-hand domain family member D2 2 2
MIRT479725 CCNF cyclin F 2 2
MIRT481726 APH1A aph-1 homolog A, gamma-secretase subunit 2 2
MIRT485673 CCDC64 BICD family like cargo adaptor 1 2 2
MIRT498280 PADI2 peptidyl arginine deiminase 2 2 2
MIRT499921 GPX8 glutathione peroxidase 8 (putative) 2 2
MIRT503616 SLC25A36 solute carrier family 25 member 36 2 4
MIRT506927 IGDCC4 immunoglobulin superfamily DCC subclass member 4 2 6
MIRT507348 FAM129A family with sequence similarity 129 member A 2 6
MIRT508265 DYNLL2 dynein light chain LC8-type 2 2 4
MIRT508284 YES1 YES proto-oncogene 1, Src family tyrosine kinase 2 4
MIRT509353 COPS8 COP9 signalosome subunit 8 2 2
MIRT510892 RAB1A RAB1A, member RAS oncogene family 2 4
MIRT511882 GAS1 growth arrest specific 1 2 6
MIRT511990 E2F1 E2F transcription factor 1 2 4
MIRT512239 ARPP19 cAMP regulated phosphoprotein 19 2 4
MIRT512392 BUB1 BUB1 mitotic checkpoint serine/threonine kinase 2 4
MIRT514086 EPS15L1 epidermal growth factor receptor pathway substrate 15 like 1 2 6
MIRT514358 UBBP4 ubiquitin B pseudogene 4 2 6
MIRT523149 HNRNPU heterogeneous nuclear ribonucleoprotein U 2 2
MIRT525511 FSIP2 fibrous sheath interacting protein 2 2 2
MIRT526333 SH3TC2 SH3 domain and tetratricopeptide repeats 2 2 2
MIRT529962 ZNF71 zinc finger protein 71 2 2
MIRT530337 GABRB3 gamma-aminobutyric acid type A receptor beta3 subunit 2 2
MIRT530884 PHOX2A paired like homeobox 2a 2 2
MIRT533097 YOD1 YOD1 deubiquitinase 2 2
MIRT533250 VCAM1 vascular cell adhesion molecule 1 2 2
MIRT534786 RAB8B RAB8B, member RAS oncogene family 2 2
MIRT537917 DSTYK dual serine/threonine and tyrosine protein kinase 2 2
MIRT547799 JARID2 jumonji and AT-rich interaction domain containing 2 2 2
MIRT548714 CRK CRK proto-oncogene, adaptor protein 2 2
MIRT555509 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT555984 NFYB nuclear transcription factor Y subunit beta 2 2
MIRT557942 FAM222B family with sequence similarity 222 member B 2 2
MIRT560830 ZNF786 zinc finger protein 786 2 2
MIRT562720 ZNF714 zinc finger protein 714 2 2
MIRT565337 TMEM104 transmembrane protein 104 2 2
MIRT614453 REL REL proto-oncogene, NF-kB subunit 2 2
MIRT639474 SLC6A4 solute carrier family 6 member 4 2 2
MIRT644056 IQCE IQ motif containing E 2 2
MIRT651652 VWA1 von Willebrand factor A domain containing 1 2 2
MIRT651866 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT653490 SLC43A2 solute carrier family 43 member 2 2 2
MIRT657039 KCNJ6 potassium voltage-gated channel subfamily J member 6 2 2
MIRT657985 GAN gigaxonin 2 2
MIRT672117 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT683583 GSTCD glutathione S-transferase C-terminal domain containing 2 2
MIRT688689 CPS1 carbamoyl-phosphate synthase 1 2 2
MIRT695375 NSA2 NSA2, ribosome biogenesis homolog 2 2
MIRT696351 EIF2S3 eukaryotic translation initiation factor 2 subunit gamma 2 2
MIRT700614 PRKAA2 protein kinase AMP-activated catalytic subunit alpha 2 2 2
MIRT703512 FKBP15 FK506 binding protein 15 2 2
MIRT705051 C5orf15 chromosome 5 open reading frame 15 2 2
MIRT705180 BTG1 BTG anti-proliferation factor 1 2 2
MIRT709409 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT721053 DCC DCC netrin 1 receptor 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-3678-3p Platinum 23939 resistant tissue
hsa-miR-3678-3p Cisplatin 5460033 NSC119875 approved sensitive cell line (A549)
hsa-miR-3678-3p Gemcitabine 60750 NSC613327 approved resistant cell line (PANC-1) (1500 ng/ml)
hsa-miR-3678-3p Paclitaxel/Docetaxel/Vinorelbine/Doxorubicin/Etoposide resistant cell line (Bads-200)

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