miRTarBase - #MIRT477575


—
pre-miRNA Information
pre-miRNA hsa-mir-6839   
Genomic Coordinates chr7: 64679064 - 64679176
Description Homo sapiens miR-6839 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-6839-3p
Sequence 92| UUGGGUUUUCUCUUCAAUCCAG |113
Evidence Experimental
Experiments Meta-analysis
DRVs in miRNA
Mutant ID Mutant Position Mutant Source
COSN15661209 19 COSMIC
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1426245091 3 dbSNP
rs533324498 6 dbSNP
rs1169594864 16 dbSNP
Putative Targets

miRNA Expression profile
miRNAs in Extracellular Vesicles
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol EIF1AD   
Synonyms haponin
Description eukaryotic translation initiation factor 1A domain containing
Transcript NM_032325   
Expression
Putative miRNA Targets on EIF1AD
3'UTR of EIF1AD
(miRNA target sites are highlighted)		 
>EIF1AD|NM_032325|3'UTR
   1 GACTCCAGGACCCAATTCTCCACTTGCTCAGGGACTGGCCCCTGGCTCTTCTGGGCTTGGACATTCCCAGGGTGCTCTGC
  81 ACATCTTCACCCCTGCATGAGGACAAAGCAGGGCTCCTCTCTGAACTGATCTTTTGATTCAGAGAATTAAACCCCTGGTG
 161 GGTTGGTGACTTGTTCTGGTGTCTGAGTGGCTCTCTCGGGGGAGGGAGATTGTGATGAAGTGAAAAACTGCTCCCTATTT
 241 ATTAGAGACCTTGTGGGTGGGTGGGCTGAATGGGGAGGAAATGGGAAATGGCTGGAGTCTTTCCCAGGTGGTTTGTTCTT
 321 TCTTATTGGGCACTTAGAAAGTGCCAGGCCGTGCTCTGGGCCTTCTTGCATGTGTTTAACAGCTGGGAGCACTCCTGCTT
 401 CCTTGCCTGCTTGCAGTTCATACCAATTTAAGCATTCAGGATGACAGCCCTAGGACCTAACACCCACCTGCCTCTAAGAG
 481 ACGCTCAGGAGCCCATGGTGCCTCGTGCTGTTCTCCCCGCCTTTCTAGTCACCCTGTGTACGGGAGTGCTCACCTCCAGC
 561 TACTGTGTCCATCCCCACATACGACCTCATCTCTCCCACTCTGCACCATCTATCACTTCCAGAAGGTGGCTGGCAAATCT
 641 CTCTATCCTTAACTTTGTTTTGAATGGTCCATCCATCTCCTGACTTTATTTGAAACCTGATTATTCCCTGAGGACATTGA
 721 TTGTCTTATAACCTTTTAAATAGAGGCTGCTTTTCCACCCTCACCCTTCATTCTTCTAACCAGCCCTGACATTCTCATGA
 801 GTAACCTTCTGCCTTCACTTCCCTCTTGTGTAGCATCAATTCCGTAGTCCACCCTACACCCCTCTGTCTCCCTCCATTCT
 881 GTTCCGCTAGTAAAACCCTAACCCTGGGTAAACCCAATCATTCACCTCTGTGCCCAAACCCAAGTCACCATCATTAGGTG
 961 AGAAAACAGCCAGCCTGGCCACCAGTTGTACCTTACGTTTATCATTACAAACCTCAGATGGACACTAAGCACTGCCCAGC
1041 AGATCTACTCTGGGATGTCTGTTTCAAAACTTCTGTCTTATCTATCAATTCCCCCTTGTGGTAGTTACCACAACACATGC
1121 CTCATTAAGAAACAGCAACCATCAGAGGGAATGCCTGCCTCCCTGTTACCAGCTCTGCAGATGTGCACATATCTTCCTGT
1201 CGTAAGCCAATGGGACTTAAACCTTACCTCTTGTGTTTTGGAGACTATCTTTTTTTTTTTTTTTTTTTTTTTGAGAGAGT
1281 GTCTCCCTGTGTTGCTCAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGTAACCTTCACCTACTGGGTTCAAGTAAC
1361 TCTCCTGCCTCAGCCTCCCGAGTAGCTTGGACTACAGGCGTGCACCACCACACCTGGCTAACTTTTTGTATTTTTAGTAG
1441 AGACGGGGTTTTGCCATGTTGCCCGGGCTGGTCTCGAACTCCTGACCTTAAATGAGCCTCCTGCCTCAGCCTCCCAAACT
1521 GCTGGGATTACAGGCGTGTGCCACCATGCCTGGCTAATTTTTATATTTTCAGTAGAGACGAGGTTTTGCCATGTTGGCCA
1601 GGCTGGTCTCGAACTCCTGACCTCAAGTGGTCCACCCACCTTGGCCTCCTAGAGTGCTGGGATTACAGGTGTGAGCCACT
1681 GTGCCCGGCCTCTTTTGCTTTCTTAAAGACTTTGGTCGGGTATTTGTGTTGTTGAGTATTGTGTCTGGGTGTGGGTATTT
1761 GATTCTTTTTTTGTTTTGTGTTTTTGGCTGTCCTGTCTATTGGATGTGATATGTTATGGATGTGATGTGTTAGTGTCGAG
1841 CGTGCTGTAGAATCTCCCATTTCTGAAACAGGCGTGAAAACCTGTACTGATTCCCACGTCCTCCAGCTACCACTTCATTT
1921 GTCTGTTTCTCATTTACTTTCTCTTATAGCGTGGCTTTAAACATATATACATTTGTATATATGTATATATGAATATAATG
2001 TATAAAATGTATGTAGATGTATATACAAAAAATAAACGAGATGGGTTAAAGATA
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' gaccuaacuuCUCUUUUGGGUu 5'
                    |:| ||||||| 
Target 5' ccctaaccctGGGTAAACCCAa 3'
 896 - 917 148.00 -14.50
2 
miRNA  3' gacCUAACUUCUCU---UUUGGGuu 5'
             ||||  |||||   ||||||  
Target 5' tttGATT-CAGAGAATTAAACCCct 3'
 133 - 156 142.00 -11.20
3 
miRNA  3' gaccuaacuucucuUUUGGGUu 5'
                        ||||||| 
Target 5' tcacctctgtgcccAAACCCAa 3'
 922 - 943 140.00 -9.80
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30115898 18 COSMIC
COSN20084561 48 COSMIC
COSN30455599 92 COSMIC
COSN30451805 104 COSMIC
COSN30108048 146 COSMIC
COSN30505852 147 COSMIC
COSN31509618 195 COSMIC
COSN30182871 208 COSMIC
COSN20108399 1249 COSMIC
COSN1540965 1324 COSMIC
COSN7017183 1332 COSMIC
COSN23122134 1704 COSMIC
COSN23726337 1850 COSMIC
rs117625825 345 GWAS
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs946707399 6 dbSNP
rs746672827 9 dbSNP
rs144821407 15 dbSNP
rs771813466 18 dbSNP
rs1231757341 22 dbSNP
rs1241691430 23 dbSNP
rs117109892 29 dbSNP
rs765448409 32 dbSNP
rs1194593999 34 dbSNP
rs373921367 40 dbSNP
rs1048647516 63 dbSNP
rs937684527 69 dbSNP
rs1430728205 72 dbSNP
rs1470020900 80 dbSNP
rs148638917 82 dbSNP
rs1399808953 88 dbSNP
rs1263819393 101 dbSNP
rs1218705751 118 dbSNP
rs981954919 126 dbSNP
rs1325765288 153 dbSNP
rs538129722 157 dbSNP
rs569580326 158 dbSNP
rs949310103 160 dbSNP
rs1324288180 161 dbSNP
rs1223150438 173 dbSNP
rs1261484961 181 dbSNP
rs913707002 183 dbSNP
rs1353373681 187 dbSNP
rs571018182 192 dbSNP
rs1206054688 193 dbSNP
rs546833104 197 dbSNP
rs975849496 198 dbSNP
rs1202170322 199 dbSNP
rs958132416 202 dbSNP
rs540584 204 dbSNP
rs567203273 208 dbSNP
rs181777145 230 dbSNP
rs1375543992 232 dbSNP
rs1455201172 250 dbSNP
rs1028337746 253 dbSNP
rs983243903 256 dbSNP
rs527244564 257 dbSNP
rs1304818666 261 dbSNP
rs901444558 265 dbSNP
rs1300652917 270 dbSNP
rs1015877713 281 dbSNP
rs1299515459 282 dbSNP
rs1004371540 286 dbSNP
rs888646211 288 dbSNP
rs1279368004 298 dbSNP
rs1048140893 303 dbSNP
rs1351872627 304 dbSNP
rs1035277034 309 dbSNP
rs370488809 314 dbSNP
rs937760300 315 dbSNP
rs1293120447 319 dbSNP
rs1003708820 320 dbSNP
rs143921533 322 dbSNP
rs531499293 328 dbSNP
rs1420540207 336 dbSNP
rs115177326 337 dbSNP
rs769138226 342 dbSNP
rs117625825 345 dbSNP
rs1052328513 350 dbSNP
rs936507486 351 dbSNP
rs932657249 353 dbSNP
rs1195825226 354 dbSNP
rs763428936 356 dbSNP
rs925114125 358 dbSNP
rs978836569 359 dbSNP
rs954284986 361 dbSNP
rs921244140 362 dbSNP
rs1248615192 368 dbSNP
rs907741322 372 dbSNP
rs375050534 382 dbSNP
rs951804055 383 dbSNP
rs775728010 384 dbSNP
rs866626063 387 dbSNP
rs1254550908 400 dbSNP
rs1196075946 409 dbSNP
rs1237183913 410 dbSNP
rs990464987 414 dbSNP
rs965400093 420 dbSNP
rs1385577289 423 dbSNP
rs1209659569 429 dbSNP
rs1318754527 439 dbSNP
rs1374872749 447 dbSNP
rs1462546991 448 dbSNP
rs1297885063 450 dbSNP
rs1035270747 452 dbSNP
rs986178500 462 dbSNP
rs1015846577 470 dbSNP
rs1280137901 476 dbSNP
rs1004912072 482 dbSNP
rs952871530 483 dbSNP
rs1308819188 494 dbSNP
rs1227480877 500 dbSNP
rs878924639 505 dbSNP
rs1205129522 515 dbSNP
rs1243532706 517 dbSNP
rs72930945 518 dbSNP
rs610497 519 dbSNP
rs1169860417 521 dbSNP
rs1011511082 523 dbSNP
rs1297206631 532 dbSNP
rs1270839517 534 dbSNP
rs117036432 541 dbSNP
rs1046153261 542 dbSNP
rs377479635 543 dbSNP
rs866795572 544 dbSNP
rs377649077 552 dbSNP
rs936595572 554 dbSNP
rs1277051805 557 dbSNP
rs1337679054 571 dbSNP
rs925113833 578 dbSNP
rs1263358057 579 dbSNP
rs1207717838 582 dbSNP
rs901205266 582 dbSNP
rs577743413 583 dbSNP
rs1486173664 589 dbSNP
rs188324805 591 dbSNP
rs1261147045 595 dbSNP
rs1172236549 596 dbSNP
rs1463551509 601 dbSNP
rs1200503416 602 dbSNP
rs1424689958 604 dbSNP
rs944596808 605 dbSNP
rs1161761827 612 dbSNP
rs907800460 615 dbSNP
rs1453679375 616 dbSNP
rs1296825544 624 dbSNP
rs931858745 626 dbSNP
rs771612780 636 dbSNP
rs1283568844 637 dbSNP
rs976868444 641 dbSNP
rs1366438238 643 dbSNP
rs930478329 648 dbSNP
rs1308890945 650 dbSNP
rs920347166 656 dbSNP
rs149463234 664 dbSNP
rs908547152 670 dbSNP
rs1283793116 673 dbSNP
rs937644715 674 dbSNP
rs1223291592 675 dbSNP
rs983020159 684 dbSNP
rs1477179544 688 dbSNP
rs1425391577 696 dbSNP
rs1289525288 698 dbSNP
rs778883708 713 dbSNP
rs569407997 715 dbSNP
rs927645102 716 dbSNP
rs1387592293 724 dbSNP
rs1426058107 725 dbSNP
rs1303252674 726 dbSNP
rs1433870745 729 dbSNP
rs556027745 732 dbSNP
rs981788404 733 dbSNP
rs1239122840 738 dbSNP
rs1307056505 740 dbSNP
rs1027130957 746 dbSNP
rs1002763637 760 dbSNP
rs552416641 764 dbSNP
rs1289247897 765 dbSNP
rs969556902 767 dbSNP
rs1449878543 770 dbSNP
rs1196848309 790 dbSNP
rs1317304896 795 dbSNP
rs1024670124 798 dbSNP
rs1457628811 801 dbSNP
rs1266616378 806 dbSNP
rs1013326031 813 dbSNP
rs1387412564 816 dbSNP
rs1445775041 823 dbSNP
rs892099813 827 dbSNP
rs535644647 829 dbSNP
rs1052546084 835 dbSNP
rs1412521619 838 dbSNP
rs1000767201 839 dbSNP
rs903752931 843 dbSNP
rs114146217 844 dbSNP
rs931796158 847 dbSNP
rs1384636310 848 dbSNP
rs1453303297 852 dbSNP
rs901716296 854 dbSNP
rs1283512341 860 dbSNP
rs751481879 866 dbSNP
rs1447933710 870 dbSNP
rs547246843 871 dbSNP
rs1041112213 874 dbSNP
rs754923148 879 dbSNP
rs1332877288 884 dbSNP
rs527357109 885 dbSNP
rs1196936865 886 dbSNP
rs527767594 887 dbSNP
rs1245371120 895 dbSNP
rs983205527 897 dbSNP
rs1395121043 899 dbSNP
rs996915341 904 dbSNP
rs931351724 912 dbSNP
rs920157685 917 dbSNP
rs1471552437 919 dbSNP
rs1163817860 926 dbSNP
rs376146940 928 dbSNP
rs981078212 948 dbSNP
rs969523585 949 dbSNP
rs1019549012 952 dbSNP
rs1168021592 981 dbSNP
rs571408803 986 dbSNP
rs1414820847 988 dbSNP
rs12796976 990 dbSNP
rs1004170999 993 dbSNP
rs991843588 995 dbSNP
rs1432745839 996 dbSNP
rs72930942 996 dbSNP
rs1048140584 997 dbSNP
rs531342881 1004 dbSNP
rs12796959 1007 dbSNP
rs1324773253 1017 dbSNP
rs183944683 1018 dbSNP
rs12795055 1019 dbSNP
rs1449264422 1022 dbSNP
rs12795607 1025 dbSNP
rs1194437801 1028 dbSNP
rs1263286521 1039 dbSNP
rs1477201434 1042 dbSNP
rs12795592 1045 dbSNP
rs903553208 1050 dbSNP
rs542924153 1053 dbSNP
rs1054870301 1060 dbSNP
rs529208736 1061 dbSNP
rs114257741 1064 dbSNP
rs1268120144 1070 dbSNP
rs180883008 1071 dbSNP
rs901642605 1077 dbSNP
rs540085137 1080 dbSNP
rs1212197133 1081 dbSNP
rs1354904795 1082 dbSNP
rs750658547 1084 dbSNP
rs927718690 1084 dbSNP
rs1040244923 1088 dbSNP
rs775076346 1089 dbSNP
rs945045751 1093 dbSNP
rs1273451358 1096 dbSNP
rs914151061 1096 dbSNP
rs1353213893 1098 dbSNP
rs990178878 1099 dbSNP
rs1311068191 1101 dbSNP
rs1444090421 1103 dbSNP
rs1487696807 1104 dbSNP
rs767672716 1105 dbSNP
rs1270352902 1110 dbSNP
rs1451853294 1113 dbSNP
rs1323680559 1118 dbSNP
rs12791731 1132 dbSNP
rs1197635652 1133 dbSNP
rs189716003 1135 dbSNP
rs1028880682 1138 dbSNP
rs564248409 1148 dbSNP
rs1420151048 1152 dbSNP
rs931296397 1155 dbSNP
rs1019663597 1157 dbSNP
rs1381924596 1168 dbSNP
rs1391460608 1169 dbSNP
rs1386438687 1173 dbSNP
rs1321812456 1180 dbSNP
rs1157135569 1187 dbSNP
rs1241284557 1193 dbSNP
rs919975569 1201 dbSNP
rs1469793346 1202 dbSNP
rs981389141 1208 dbSNP
rs1248754034 1210 dbSNP
rs1266702669 1211 dbSNP
rs1356364477 1213 dbSNP
rs544232047 1231 dbSNP
rs1004159622 1233 dbSNP
rs1378387564 1233 dbSNP
rs1439395524 1240 dbSNP
rs1179048244 1241 dbSNP
rs1237302943 1242 dbSNP
rs887144132 1247 dbSNP
rs1449882100 1248 dbSNP
rs1165334077 1249 dbSNP
rs201718473 1249 dbSNP
rs1369184187 1250 dbSNP
rs1457464670 1250 dbSNP
rs1161716249 1251 dbSNP
rs918064025 1253 dbSNP
rs1217971135 1264 dbSNP
rs1398875530 1264 dbSNP
rs1447731954 1265 dbSNP
rs1489501528 1266 dbSNP
rs1284280375 1267 dbSNP
rs1223537579 1268 dbSNP
rs1349533013 1269 dbSNP
rs78956256 1269 dbSNP
rs1275014095 1270 dbSNP
rs1234786201 1271 dbSNP
rs1243406060 1273 dbSNP
rs1263113676 1273 dbSNP
rs1311774582 1273 dbSNP
rs1314064432 1273 dbSNP
rs1314279518 1273 dbSNP
rs1319600100 1273 dbSNP
rs1321839862 1273 dbSNP
rs1331135173 1273 dbSNP
rs1375053669 1273 dbSNP
rs1491017349 1273 dbSNP
rs566592920 1273 dbSNP
rs71837467 1273 dbSNP
rs779184189 1273 dbSNP
rs1374825125 1274 dbSNP
rs1466340932 1275 dbSNP
rs1170166365 1277 dbSNP
rs1398629851 1277 dbSNP
rs1471144305 1280 dbSNP
rs1303984017 1287 dbSNP
rs1379111674 1288 dbSNP
rs1394759552 1291 dbSNP
rs992269405 1294 dbSNP
rs1026214627 1295 dbSNP
rs1218930079 1301 dbSNP
rs956899900 1309 dbSNP
rs184834964 1311 dbSNP
rs1328843922 1316 dbSNP
rs1282629647 1320 dbSNP
rs1400510936 1324 dbSNP
rs1362265900 1328 dbSNP
rs867496329 1336 dbSNP
rs1198593611 1342 dbSNP
rs1265442655 1346 dbSNP
rs752094659 1353 dbSNP
rs1478180471 1354 dbSNP
rs995193677 1367 dbSNP
rs1421728993 1371 dbSNP
rs371323098 1379 dbSNP
rs1399849913 1380 dbSNP
rs1177289111 1392 dbSNP
rs1358883292 1393 dbSNP
rs1464999189 1394 dbSNP
rs1403201101 1398 dbSNP
rs555747553 1399 dbSNP
rs1400043865 1400 dbSNP
rs1174528455 1403 dbSNP
rs536128540 1409 dbSNP
rs1220552726 1412 dbSNP
rs1301724962 1412 dbSNP
rs1477113423 1412 dbSNP
rs979245391 1413 dbSNP
rs1311334815 1417 dbSNP
rs1231051494 1419 dbSNP
rs1288069764 1424 dbSNP
rs1488687569 1439 dbSNP
rs968078615 1440 dbSNP
rs1216016529 1441 dbSNP
rs573605258 1444 dbSNP
rs553599891 1445 dbSNP
rs1028665921 1453 dbSNP
rs764634418 1454 dbSNP
rs1479106145 1456 dbSNP
rs1431800623 1457 dbSNP
rs1161018820 1460 dbSNP
rs377133349 1461 dbSNP
rs192938086 1462 dbSNP
rs540048948 1464 dbSNP
rs187281951 1465 dbSNP
rs1438187891 1471 dbSNP
rs886306772 1475 dbSNP
rs184734060 1476 dbSNP
rs945059262 1481 dbSNP
rs995605373 1482 dbSNP
rs1282056613 1485 dbSNP
rs770108510 1487 dbSNP
rs1342321327 1500 dbSNP
rs1354364754 1502 dbSNP
rs1053469234 1504 dbSNP
rs936894084 1505 dbSNP
rs1045066512 1513 dbSNP
rs1222676895 1517 dbSNP
rs948081514 1523 dbSNP
rs9735063 1532 dbSNP
rs1056676646 1535 dbSNP
rs935496705 1536 dbSNP
rs374504457 1542 dbSNP
rs924135938 1548 dbSNP
rs1439623621 1549 dbSNP
rs772918926 1550 dbSNP
rs1405237891 1552 dbSNP
rs568820110 1553 dbSNP
rs1336450058 1556 dbSNP
rs1165088615 1559 dbSNP
rs967836163 1561 dbSNP
rs138756103 1565 dbSNP
rs1433808087 1569 dbSNP
rs1405569150 1579 dbSNP
rs1377289535 1580 dbSNP
rs529185962 1582 dbSNP
rs1171503049 1586 dbSNP
rs974386840 1589 dbSNP
rs1306990889 1601 dbSNP
rs1381484629 1603 dbSNP
rs560058384 1608 dbSNP
rs1228943426 1610 dbSNP
rs192655078 1611 dbSNP
rs1018863719 1623 dbSNP
rs796302358 1627 dbSNP
rs532963134 1635 dbSNP
rs564213109 1638 dbSNP
rs868373559 1639 dbSNP
rs1189240513 1640 dbSNP
rs773857272 1646 dbSNP
rs1459728060 1650 dbSNP
rs1473384946 1651 dbSNP
rs1262072812 1652 dbSNP
rs769503050 1654 dbSNP
rs995540115 1661 dbSNP
rs566542910 1665 dbSNP
rs577056834 1666 dbSNP
rs1172361631 1670 dbSNP
rs1400853593 1671 dbSNP
rs1033604880 1674 dbSNP
rs995975293 1678 dbSNP
rs1326832312 1682 dbSNP
rs1213894224 1686 dbSNP
rs200722314 1687 dbSNP
rs3016868 1687 dbSNP
rs906403850 1694 dbSNP
rs1045156625 1695 dbSNP
rs1376989122 1696 dbSNP
rs575680356 1703 dbSNP
rs1220754075 1704 dbSNP
rs1009701991 1705 dbSNP
rs1285762147 1705 dbSNP
rs1197115461 1708 dbSNP
rs1450123867 1714 dbSNP
rs1382324905 1717 dbSNP
rs1012196894 1718 dbSNP
rs1449177223 1720 dbSNP
rs1398188774 1735 dbSNP
rs749207401 1736 dbSNP
rs936356791 1737 dbSNP
rs1406431932 1738 dbSNP
rs921507708 1739 dbSNP
rs1056603375 1741 dbSNP
rs562088939 1743 dbSNP
rs187739624 1744 dbSNP
rs1043918496 1749 dbSNP
rs946898468 1751 dbSNP
rs921665964 1754 dbSNP
rs1242156104 1762 dbSNP
rs974524186 1765 dbSNP
rs965697070 1768 dbSNP
rs1299082502 1773 dbSNP
rs1458747109 1773 dbSNP
rs982985920 1776 dbSNP
rs1230642339 1778 dbSNP
rs1225435518 1779 dbSNP
rs573566762 1780 dbSNP
rs983331670 1786 dbSNP
rs950684155 1792 dbSNP
rs1028010167 1795 dbSNP
rs1277088899 1799 dbSNP
rs1484433827 1802 dbSNP
rs779874505 1811 dbSNP
rs970330948 1812 dbSNP
rs1487758937 1813 dbSNP
rs1310392815 1822 dbSNP
rs974448106 1823 dbSNP
rs1379207257 1824 dbSNP
rs1478230677 1826 dbSNP
rs1171967173 1827 dbSNP
rs1393169856 1829 dbSNP
rs1243502281 1833 dbSNP
rs1358457863 1837 dbSNP
rs2030 1838 dbSNP
rs1359917145 1839 dbSNP
rs1012290124 1841 dbSNP
rs896456900 1842 dbSNP
rs1332083774 1846 dbSNP
rs1436183278 1847 dbSNP
rs182668996 1856 dbSNP
rs1000161750 1859 dbSNP
rs1009404393 1872 dbSNP
rs892174730 1873 dbSNP
rs1053572663 1874 dbSNP
rs1297714490 1880 dbSNP
rs1203076204 1884 dbSNP
rs879840963 1897 dbSNP
rs1352138685 1898 dbSNP
rs1452015362 1900 dbSNP
rs1197930814 1901 dbSNP
rs1044398088 1909 dbSNP
rs1250836211 1912 dbSNP
rs946896545 1914 dbSNP
rs900708890 1915 dbSNP
rs1159169654 1919 dbSNP
rs1038761394 1920 dbSNP
rs868312518 1921 dbSNP
rs1165271312 1923 dbSNP
rs1391757513 1927 dbSNP
rs899529081 1931 dbSNP
rs1324304233 1936 dbSNP
rs1379498312 1937 dbSNP
rs2847698 1940 dbSNP
rs1334699912 1943 dbSNP
rs1158911686 1947 dbSNP
rs911529755 1950 dbSNP
rs944267715 1951 dbSNP
rs1356650443 1962 dbSNP
rs983121594 1963 dbSNP
rs928994040 1964 dbSNP
rs1047636145 1965 dbSNP
rs1176137958 1966 dbSNP
rs370912081 1970 dbSNP
rs1248452584 1979 dbSNP
rs1189749531 1987 dbSNP
rs919997464 1992 dbSNP
rs1472597310 2001 dbSNP
rs1163032624 2002 dbSNP
rs192666326 2007 dbSNP
rs973769580 2009 dbSNP
rs1220140131 2011 dbSNP
rs1394995118 2012 dbSNP
rs937306349 2015 dbSNP
rs756976626 2017 dbSNP
rs537925429 2019 dbSNP
rs772952724 2036 dbSNP
rs981458278 2038 dbSNP
rs1291025229 2043 dbSNP
rs970593940 2045 dbSNP
rs1024899498 2053 dbSNP
rs1315377085 2055 dbSNP
rs1479622434 2055 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' gaccuaacuucucuUUUGGGUu 5'
                        ||||||| 
Target 5' -------------uAAACCCAa 3'
 		1 - 9
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 ENST00000526451.1 | 3UTR | UAAACCCAAUCAUUCACCUCUG
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-6839-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059162 TXNIP thioredoxin interacting protein 2 2
MIRT064872 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT065802 HOXC8 homeobox C8 2 4
MIRT106005 SDCBP syndecan binding protein 2 2
MIRT275773 TFDP1 transcription factor Dp-1 2 2
MIRT314032 PAPD7 poly(A) RNA polymerase D7, non-canonical 2 2
MIRT360277 HIST1H2BE histone cluster 1 H2B family member e 2 8
MIRT360301 HIST1H2BH histone cluster 1 H2B family member h 2 2
MIRT450086 OR2A4 olfactory receptor family 2 subfamily A member 4 2 2
MIRT468815 RSRC2 arginine and serine rich coiled-coil 2 2 6
MIRT475093 IRF2BP2 interferon regulatory factor 2 binding protein 2 2 4
MIRT477575 EIF1AD eukaryotic translation initiation factor 1A domain containing 2 2
MIRT483926 LCORL ligand dependent nuclear receptor corepressor like 2 6
MIRT504381 HIST1H1C histone cluster 1 H1 family member c 2 4
MIRT506970 HNRNPUL1 heterogeneous nuclear ribonucleoprotein U like 1 2 6
MIRT507028 HIST1H3B histone cluster 1 H3 family member b 2 6
MIRT511561 HIST3H2BB histone cluster 3 H2B family member b 2 4
MIRT511650 HIST1H3D histone cluster 1 H3 family member d 2 6
MIRT511696 HIST1H2BL histone cluster 1 H2B family member l 2 4
MIRT511737 HIST1H2BB histone cluster 1 H2B family member b 2 6
MIRT511746 HIST1H2BA histone cluster 1 H2B family member a 2 8
MIRT515260 CSNK1E casein kinase 1 epsilon 2 2
MIRT516220 RAB3B RAB3B, member RAS oncogene family 2 4
MIRT523281 HIST1H1E histone cluster 1 H1 family member e 2 2
MIRT524121 DMXL1 Dmx like 1 2 2
MIRT530744 GPR82 G protein-coupled receptor 82 2 2
MIRT532214 CCDC117 coiled-coil domain containing 117 2 2
MIRT546182 TPRG1L tumor protein p63 regulated 1 like 2 2
MIRT558638 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT559562 ARF1 ADP ribosylation factor 1 2 4
MIRT560680 HIST1H1T histone cluster 1 H1 family member t 2 2
MIRT570746 AAK1 AP2 associated kinase 1 2 2
MIRT609518 RAB3IP RAB3A interacting protein 2 2
MIRT612583 SYNGAP1 synaptic Ras GTPase activating protein 1 2 4
MIRT615733 RIOK3 RIO kinase 3 2 2
MIRT616068 SIX1 SIX homeobox 1 2 2
MIRT617903 SGCD sarcoglycan delta 2 2
MIRT620851 SERPING1 serpin family G member 1 2 2
MIRT625107 SLC1A5 solute carrier family 1 member 5 2 2
MIRT625120 NUP93 nucleoporin 93 2 2
MIRT625893 LINC00632 long intergenic non-protein coding RNA 632 2 2
MIRT626569 MED7 mediator complex subunit 7 2 2
MIRT626694 ZFP14 ZFP14 zinc finger protein 2 4
MIRT626808 PRR11 proline rich 11 2 2
MIRT628131 HM13 histocompatibility minor 13 2 2
MIRT636596 DCAF5 DDB1 and CUL4 associated factor 5 2 2
MIRT649866 SLFN12L schlafen family member 12 like 2 2
MIRT652133 TRPM7 transient receptor potential cation channel subfamily M member 7 2 2
MIRT652663 TIMELESS timeless circadian clock 2 2
MIRT658335 FAM83D family with sequence similarity 83 member D 2 2
MIRT660615 ANKS4B ankyrin repeat and sterile alpha motif domain containing 4B 2 2
MIRT666304 SLC22A3 solute carrier family 22 member 3 2 2
MIRT668528 ERGIC2 ERGIC and golgi 2 2 2
MIRT692510 PARD3 par-3 family cell polarity regulator 2 2
MIRT694784 DHFRL1 dihydrofolate reductase 2 2 2
MIRT700510 PTPN14 protein tyrosine phosphatase, non-receptor type 14 2 2
MIRT701438 NFYA nuclear transcription factor Y subunit alpha 2 2
MIRT710155 MTRF1L mitochondrial translational release factor 1 like 2 2
MIRT711436 DLC1 DLC1 Rho GTPase activating protein 2 2
MIRT716979 GPR155 G protein-coupled receptor 155 2 2
MIRT720155 POU2F2 POU class 2 homeobox 2 2 2
MIRT722512 DSTYK dual serine/threonine and tyrosine protein kinase 2 2

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