pre-miRNA Information
pre-miRNA hsa-mir-3689d-1   
Genomic Coordinates chr9: 134849609 - 134849682
Description Homo sapiens miR-3689d-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-3689d-2   
Genomic Coordinates chr9: 134850277 - 134850356
Description Homo sapiens miR-3689d-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-3689d
Sequence 2| GGGAGGUGUGAUCUCACACUCG |23
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs551722268 8 dbSNP
rs143142996 8 dbSNP
rs1236297052 12 dbSNP
rs573148947 14 dbSNP
rs1210004979 14 dbSNP
rs1217460444 14 dbSNP
rs762590109 18 dbSNP
rs574332265 18 dbSNP
rs1164353021 21 dbSNP
rs963741171 21 dbSNP
rs1177416877 22 dbSNP
rs765777344 22 dbSNP
Putative Targets

Gene Information
Gene Symbol KCNK6   
Synonyms K2p6.1, KCNK8, TOSS, TWIK-2, TWIK2
Description potassium two pore domain channel subfamily K member 6
Transcript NM_004823   
Expression
Putative miRNA Targets on KCNK6
3'UTR of KCNK6
(miRNA target sites are highlighted)
>KCNK6|NM_004823|3'UTR
   1 CTGGGGCAGCCTCTGCCAGGCTTGGGTGTGCCTGGCCTGGGACTGAGGGGTCCAGGCGACCAGAGCTGGCTGTACAGGAA
  81 TGTCCACGAGCACAGCAGGTGATCTTGAGGCCTTGCCGTCCACCGTCTCTCCTTTGTTTCCCAGCATCTGGCTGGGATGT
 161 GAAGGGCAGCACTCCCTGTCCCCATGTCCCGGGCTCCACTGGGCACCAACATAACCTTGTTCTCTGTCCTTTCTCTCATC
 241 CTCTTTACACTGTGTCTCTCTGGCTCTCTGGCATTCTCGCTGCCTCTGTCTTTCCCTCTTGCTGTCTCTGTTTCTCATTC
 321 TCTTTCATGTTCCGTCTGTGTCTCTCAATTAACCACTCGTCAACTGCTGATTCTACTGGGCTGTGGGCTCAGACCTCATT
 401 TCAGGCACCAGATTGGTCGCTACACCCTGGACAAGTGACTGCCCGTCTCTGAGCCTTGATTTCCTCAGCTGCCAAATGGG
 481 AAGAATAGAAGAATTTGCCCCTAAACCCCTCCTGTGTGCTGGCCCTGTGCTAGACAGTGCTGGAGACATAGTTGGGGGTG
 561 GAGAACTGCCCTTATGGAGCTTGCAGTCCAGTGAGGTGGACAGACCTGTCCCCAGACAGTGATGGCCCAAAATGGTCAGG
 641 ACTTTAATGGAGGAGGTGAGGTGTTGAAAGCACAGGCAGAGTGGTCAGGGCTGAAGTCGGAGAAGCATAGGGACTAGGCC
 721 CAATCCAGCCTGGAAAGTCAGGGAGGACTTCCTAGAGGAAGGGACATCGAACTAAGACCTGAACTATGAGAAATAGGCAG
 801 GAAGAAGTTGTACCTGACTCATTTTTCTCAGGTGTCTCCAGGGAGCAGGACCCATGGAGGGACCCCTGGTGTAGGCCTGG
 881 GCGATAGACTCTTCCTCAGCAGCCTGGCAGGCAGGAAACAGACATAGGACCCCAGCCCAGATCTGAATGGCATGGGAGGT
 961 GCTGCCCTTAACCATGACACCATTGTAAGAGCTGTCCACATTTGTATGTTGTGCCCTGGAATCAGCCTGGTTGAGCTCAA
1041 ATCCCAACTTAGCCACGTCTGGCCTGTGTCCTTGGGCAGTCACACTACCTCTCTGATTTTGTTTCCTTATCTGTAAAATG
1121 GTGATCATCATAATACAACTTCAAAAGGATTTCAGGCTGAGTGTGGTGGCTCACGCCTATACACCCAGCACTTTGGAAGG
1201 CTGAGGAAGGAGGATCGCTTGAGGCCAGGAGTTTGAGACTAGCCTAGGCAACACAGTGAGGCCTTATCTCAACAACAACC
1281 ACAAAATCTAAAAATTAGCTGGGTGTGGTGGTGCATGCCTGTGATCCTGGCTACTTCAGAGGCTGAGGTGGAAGGATCAC
1361 TTGAGGCCAGGAGTTTGAGGCTGCAGTGAGTTATGATGGCACTGCTGCACTCCAGCCTGCGGGACAGAGTGAGACCCTGT
1441 CTGAAAGAAAGAGAGAAAGAAAGAAAGAAAGAGAGAGAAAGAAAGAAAGAAAGAAAGGGAAAGATGGAAGGAAGGAAGGA
1521 AAAAGAAAGAGAAAGAGAGAGAGAGAGAAAGAAAAAGAAAGAAAAGTAAGAAAGAAAAAAGAAAAAGAAAGAAAAGTAAG
1601 AAAGAAAAAAAAAAAAAAA
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' gcucACACUCUAGUGUGGAGgg 5'
              ||||:| ||| |||||  
Target 5' gggcTGTGGGCTCAGACCTCat 3'
378 - 399 126.00 -21.50
2
miRNA  3' gcUCACAC--UCUAGUGUGGAggg 5'
            ||||||  :| ||||:|||   
Target 5' tgAGTGTGGTGGCTCACGCCTata 3'
1158 - 1181 122.00 -24.52
3
miRNA  3' gcuCAC----ACUC--UAGU---GUGGAGGg 5'
             |||    ||:|  :|||   :|||||: 
Target 5' cctGTGTCCTTGGGCAGTCACACTACCTCTc 3'
1063 - 1093 119.00 -17.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30505710 2 COSMIC
COSN30454176 11 COSMIC
COSN30183895 22 COSMIC
COSN30526798 26 COSMIC
COSN30452026 37 COSMIC
COSN30484860 41 COSMIC
COSN30129544 58 COSMIC
COSN30515058 59 COSMIC
COSN31558896 128 COSMIC
COSN8260241 157 COSMIC
COSN6143976 172 COSMIC
COSN6143977 264 COSMIC
COSN24981581 844 COSMIC
COSN9356884 854 COSMIC
COSN20683162 982 COSMIC
COSN1215258 1226 COSMIC
COSN22248962 1826 COSMIC
COSN25577119 2158 COSMIC
COSN2516524 2192 COSMIC
COSN19321345 2935 COSMIC
COSN25478902 3109 COSMIC
COSN1215259 3179 COSMIC
COSN18883174 3240 COSMIC
COSN28240183 3796 COSMIC
COSN7126350 3998 COSMIC
COSN15326878 4188 COSMIC
COSN9356885 4239 COSMIC
COSN19513059 4335 COSMIC
COSN17220369 4483 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs867848648 2 dbSNP
rs746207668 4 dbSNP
rs770249632 7 dbSNP
rs981909890 8 dbSNP
rs1255292559 11 dbSNP
rs1485066530 17 dbSNP
rs1186473597 23 dbSNP
rs776123206 25 dbSNP
rs749443797 26 dbSNP
rs1291041291 29 dbSNP
rs769008976 32 dbSNP
rs773964608 34 dbSNP
rs371025331 35 dbSNP
rs1460656369 41 dbSNP
rs774513893 44 dbSNP
rs1396428477 48 dbSNP
rs1187207476 58 dbSNP
rs907898067 58 dbSNP
rs1329314430 61 dbSNP
rs1055349360 65 dbSNP
rs940672455 79 dbSNP
rs1350197881 81 dbSNP
rs1037990665 82 dbSNP
rs573672675 85 dbSNP
rs779446626 88 dbSNP
rs1240566430 93 dbSNP
rs1175924317 106 dbSNP
rs761967593 116 dbSNP
rs1042941932 118 dbSNP
rs902708690 119 dbSNP
rs1013984474 125 dbSNP
rs767646161 155 dbSNP
rs1404194346 157 dbSNP
rs1009379138 160 dbSNP
rs1019979336 166 dbSNP
rs1355864675 167 dbSNP
rs561771204 177 dbSNP
rs900468075 180 dbSNP
rs1377323729 182 dbSNP
rs1368249555 186 dbSNP
rs996136592 190 dbSNP
rs143217284 191 dbSNP
rs760768471 192 dbSNP
rs1306611712 194 dbSNP
rs1316037212 200 dbSNP
rs1210125572 212 dbSNP
rs952623675 213 dbSNP
rs1421140284 216 dbSNP
rs975257853 221 dbSNP
rs765130387 223 dbSNP
rs1257255788 228 dbSNP
rs559702897 230 dbSNP
rs1005455142 232 dbSNP
rs1157760927 239 dbSNP
rs1418975463 240 dbSNP
rs1426545436 244 dbSNP
rs1015826426 249 dbSNP
rs1482533211 250 dbSNP
rs1193275051 255 dbSNP
rs3745952 257 dbSNP
rs955171045 261 dbSNP
rs982241444 270 dbSNP
rs1217548890 272 dbSNP
rs1489409210 277 dbSNP
rs927740655 280 dbSNP
rs1238466910 284 dbSNP
rs958985214 285 dbSNP
rs1239357992 300 dbSNP
rs990480709 305 dbSNP
rs1441901040 306 dbSNP
rs1303390330 309 dbSNP
rs1283878829 317 dbSNP
rs1217258009 318 dbSNP
rs914943766 322 dbSNP
rs1298596125 323 dbSNP
rs1401409192 326 dbSNP
rs1407449512 329 dbSNP
rs568626349 334 dbSNP
rs148325841 335 dbSNP
rs758430268 337 dbSNP
rs973771478 339 dbSNP
rs1465643558 343 dbSNP
rs920863789 347 dbSNP
rs924080776 349 dbSNP
rs944901917 350 dbSNP
rs1040821969 357 dbSNP
rs1194891853 359 dbSNP
rs551952784 360 dbSNP
rs1448713813 366 dbSNP
rs1347429712 369 dbSNP
rs900593768 374 dbSNP
rs937560420 381 dbSNP
rs1372086602 392 dbSNP
rs996251279 397 dbSNP
rs1483657245 400 dbSNP
rs1055955276 415 dbSNP
rs896017297 419 dbSNP
rs1322758020 423 dbSNP
rs1278559423 426 dbSNP
rs544883811 445 dbSNP
rs887804762 446 dbSNP
rs1396256821 455 dbSNP
rs1403649638 463 dbSNP
rs1300595285 473 dbSNP
rs999874816 474 dbSNP
rs1468665343 476 dbSNP
rs1005404277 491 dbSNP
rs569437034 492 dbSNP
rs1171800639 498 dbSNP
rs1222418273 503 dbSNP
rs961467281 515 dbSNP
rs1192658437 517 dbSNP
rs567667475 519 dbSNP
rs899765896 530 dbSNP
rs1258291111 534 dbSNP
rs534547316 538 dbSNP
rs1029569756 539 dbSNP
rs1035302984 549 dbSNP
rs555780216 550 dbSNP
rs1337128462 553 dbSNP
rs1250565890 559 dbSNP
rs1245008922 560 dbSNP
rs574119712 562 dbSNP
rs1341930925 570 dbSNP
rs141467076 571 dbSNP
rs1004046105 573 dbSNP
rs556571589 584 dbSNP
rs1332704213 586 dbSNP
rs1467644484 590 dbSNP
rs1394709897 591 dbSNP
rs1167718772 592 dbSNP
rs1458566915 593 dbSNP
rs578147728 594 dbSNP
rs990596793 622 dbSNP
rs113864589 624 dbSNP
rs967723973 626 dbSNP
rs190078648 643 dbSNP
rs777676415 670 dbSNP
rs1249513972 671 dbSNP
rs1210258952 675 dbSNP
rs3786881 676 dbSNP
rs944993114 681 dbSNP
rs1480143527 687 dbSNP
rs3786882 691 dbSNP
rs1353711471 697 dbSNP
rs922132874 699 dbSNP
rs1444928765 703 dbSNP
rs931750 709 dbSNP
rs1467131329 713 dbSNP
rs1041837387 715 dbSNP
rs745561611 718 dbSNP
rs1168209279 721 dbSNP
rs1393141745 726 dbSNP
rs1301455893 727 dbSNP
rs753352711 732 dbSNP
rs1049154270 742 dbSNP
rs1294896317 744 dbSNP
rs1468510645 763 dbSNP
rs887752662 764 dbSNP
rs1365116086 770 dbSNP
rs940711567 773 dbSNP
rs935727499 776 dbSNP
rs1278298618 778 dbSNP
rs1054191725 781 dbSNP
rs899523683 782 dbSNP
rs1287488539 783 dbSNP
rs1037314900 795 dbSNP
rs897065445 797 dbSNP
rs1003903149 798 dbSNP
rs769305449 808 dbSNP
rs182646139 809 dbSNP
rs1034837477 817 dbSNP
rs1322676812 836 dbSNP
rs1051045748 850 dbSNP
rs1301707254 853 dbSNP
rs185812599 856 dbSNP
rs1245197555 864 dbSNP
rs1011979114 866 dbSNP
rs1384162211 867 dbSNP
rs1194403454 868 dbSNP
rs559171224 869 dbSNP
rs747116705 871 dbSNP
rs1173026783 874 dbSNP
rs1478977362 879 dbSNP
rs1426885501 880 dbSNP
rs931749 883 dbSNP
rs749609089 884 dbSNP
rs1264945770 889 dbSNP
rs1213020655 900 dbSNP
rs977782617 903 dbSNP
rs1184671681 909 dbSNP
rs1418771553 915 dbSNP
rs1031119424 921 dbSNP
rs74534838 923 dbSNP
rs962169701 924 dbSNP
rs551178144 938 dbSNP
rs1281735233 940 dbSNP
rs922081455 943 dbSNP
rs1363271460 944 dbSNP
rs1027732284 953 dbSNP
rs1272220591 966 dbSNP
rs932166834 976 dbSNP
rs1488180235 985 dbSNP
rs958738994 990 dbSNP
rs1334956815 991 dbSNP
rs1470893520 996 dbSNP
rs775010803 999 dbSNP
rs1175417250 1003 dbSNP
rs991410654 1016 dbSNP
rs1423633999 1032 dbSNP
rs567098588 1036 dbSNP
rs917509008 1055 dbSNP
rs73041302 1056 dbSNP
rs909301815 1057 dbSNP
rs190720606 1058 dbSNP
rs1463028105 1065 dbSNP
rs567985425 1066 dbSNP
rs1036356086 1073 dbSNP
rs553557332 1082 dbSNP
rs1270114339 1087 dbSNP
rs772309089 1088 dbSNP
rs1275571946 1098 dbSNP
rs907224596 1102 dbSNP
rs567587883 1108 dbSNP
rs939264075 1110 dbSNP
rs1454695222 1118 dbSNP
rs773375769 1119 dbSNP
rs1336078847 1128 dbSNP
rs1447440380 1135 dbSNP
rs1356010493 1136 dbSNP
rs1168095095 1143 dbSNP
rs538026291 1154 dbSNP
rs1408976856 1163 dbSNP
rs1288184312 1170 dbSNP
rs78492169 1172 dbSNP
rs1056412978 1175 dbSNP
rs1292417245 1176 dbSNP
rs1217661402 1184 dbSNP
rs894952492 1187 dbSNP
rs1288472698 1192 dbSNP
rs75832035 1194 dbSNP
rs75640291 1198 dbSNP
rs1183461226 1206 dbSNP
rs1012094622 1207 dbSNP
rs151217694 1208 dbSNP
rs371577981 1208 dbSNP
rs751559237 1208 dbSNP
rs1241438514 1209 dbSNP
rs1202915243 1212 dbSNP
rs1473095212 1212 dbSNP
rs1183334398 1213 dbSNP
rs1307116077 1217 dbSNP
rs1383189640 1217 dbSNP
rs1443824243 1218 dbSNP
rs538495585 1225 dbSNP
rs903595396 1234 dbSNP
rs1158853638 1243 dbSNP
rs1362131301 1255 dbSNP
rs1314486807 1259 dbSNP
rs1240733196 1261 dbSNP
rs111872624 1262 dbSNP
rs1030649350 1264 dbSNP
rs1317027275 1280 dbSNP
rs1441281115 1296 dbSNP
rs1360192122 1299 dbSNP
rs768399935 1300 dbSNP
rs1350100433 1317 dbSNP
rs1304505111 1322 dbSNP
rs1422380607 1331 dbSNP
rs372196619 1336 dbSNP
rs898357825 1358 dbSNP
rs1313318943 1359 dbSNP
rs966121122 1361 dbSNP
rs995349801 1371 dbSNP
rs997695955 1374 dbSNP
rs1029210302 1399 dbSNP
rs953510028 1403 dbSNP
rs1410868251 1412 dbSNP
rs182919103 1414 dbSNP
rs1480550078 1417 dbSNP
rs61160177 1421 dbSNP
rs59243608 1422 dbSNP
rs1291092442 1426 dbSNP
rs766505845 1426 dbSNP
rs1241022133 1430 dbSNP
rs1024238309 1432 dbSNP
rs1304865977 1436 dbSNP
rs1223147007 1438 dbSNP
rs1367977113 1441 dbSNP
rs1364620035 1443 dbSNP
rs1402679505 1443 dbSNP
rs971354279 1443 dbSNP
rs972579736 1443 dbSNP
rs573026343 1446 dbSNP
rs938695349 1447 dbSNP
rs1003799893 1450 dbSNP
rs1056361117 1450 dbSNP
rs1347460842 1450 dbSNP
rs748036521 1450 dbSNP
rs1419026153 1453 dbSNP
rs1202091570 1454 dbSNP
rs138015079 1454 dbSNP
rs916498700 1454 dbSNP
rs957809641 1454 dbSNP
rs200661327 1458 dbSNP
rs1486848773 1462 dbSNP
rs1214929815 1464 dbSNP
rs1312737783 1464 dbSNP
rs1264740138 1466 dbSNP
rs199908336 1468 dbSNP
rs1278520177 1470 dbSNP
rs1383565090 1470 dbSNP
rs150783021 1470 dbSNP
rs376502715 1470 dbSNP
rs758427071 1472 dbSNP
rs555114608 1474 dbSNP
rs1201534953 1476 dbSNP
rs1419349362 1476 dbSNP
rs199751665 1476 dbSNP
rs60835333 1476 dbSNP
rs796089499 1476 dbSNP
rs1460696407 1477 dbSNP
rs1179094872 1478 dbSNP
rs1381707611 1479 dbSNP
rs569432814 1480 dbSNP
rs1229107370 1481 dbSNP
rs1305448048 1482 dbSNP
rs1294204422 1484 dbSNP
rs1468292811 1484 dbSNP
rs1384174202 1486 dbSNP
rs1396164180 1486 dbSNP
rs1157431638 1488 dbSNP
rs1339189643 1491 dbSNP
rs1425296600 1491 dbSNP
rs1415721096 1496 dbSNP
rs1451108391 1496 dbSNP
rs1405744177 1497 dbSNP
rs746301084 1497 dbSNP
rs999262098 1499 dbSNP
rs1406066532 1505 dbSNP
rs1371607647 1506 dbSNP
rs1447973569 1506 dbSNP
rs776767556 1506 dbSNP
rs1333787892 1507 dbSNP
rs1052628445 1509 dbSNP
rs1334159158 1515 dbSNP
rs1238647698 1519 dbSNP
rs1245051137 1522 dbSNP
rs1445386019 1522 dbSNP
rs1181617476 1528 dbSNP
rs1275709293 1528 dbSNP
rs745948277 1530 dbSNP
rs1217604964 1531 dbSNP
rs932360626 1532 dbSNP
rs1261176946 1533 dbSNP
rs1479445251 1534 dbSNP
rs539019081 1534 dbSNP
rs547738674 1534 dbSNP
rs748244997 1534 dbSNP
rs986482954 1534 dbSNP
rs61648033 1538 dbSNP
rs1312302965 1548 dbSNP
rs1252647190 1550 dbSNP
rs1382757572 1552 dbSNP
rs1239799617 1554 dbSNP
rs764605456 1555 dbSNP
rs1393561222 1556 dbSNP
rs1435675171 1557 dbSNP
rs1297759072 1558 dbSNP
rs931148196 1563 dbSNP
rs1387115483 1564 dbSNP
rs1180607287 1568 dbSNP
rs746010451 1568 dbSNP
rs997143317 1571 dbSNP
rs1183714965 1575 dbSNP
rs1478715806 1575 dbSNP
rs549772046 1579 dbSNP
rs1417013725 1582 dbSNP
rs566103663 1584 dbSNP
rs1222702542 1588 dbSNP
rs1429116847 1588 dbSNP
rs1466610860 1592 dbSNP
rs57853455 1595 dbSNP
rs1490746414 1596 dbSNP
rs1288925563 1598 dbSNP
rs1221160275 1600 dbSNP
rs1356248340 1601 dbSNP
rs58340197 1601 dbSNP
rs1012980404 1604 dbSNP
rs1173228339 1605 dbSNP
rs1241815338 1605 dbSNP
rs1288142509 1605 dbSNP
rs562182642 1613 dbSNP
rs1367742159 1615 dbSNP
rs1301358847 1620 dbSNP
rs907245545 1620 dbSNP
rs1160166466 1623 dbSNP
rs138693052 1624 dbSNP
rs1481203264 1624 dbSNP
rs58215079 1624 dbSNP
rs532785896 1627 dbSNP
rs545115141 1628 dbSNP
rs1032340576 1629 dbSNP
rs1285766171 1632 dbSNP
rs957609835 1645 dbSNP
rs990737727 1647 dbSNP
rs1028470399 1657 dbSNP
rs1282743681 1661 dbSNP
rs1006456081 1663 dbSNP
rs1322665474 1670 dbSNP
rs954174962 1679 dbSNP
rs986582951 1681 dbSNP
rs1016412905 1688 dbSNP
rs756502857 1689 dbSNP
rs912313358 1693 dbSNP
rs962539559 1696 dbSNP
rs774327641 1700 dbSNP
rs972144732 1701 dbSNP
rs1253048177 1705 dbSNP
rs560008851 1720 dbSNP
rs928719072 1721 dbSNP
rs1426951091 1728 dbSNP
rs1195064936 1730 dbSNP
rs972393503 1731 dbSNP
rs527354394 1739 dbSNP
rs1190449345 1744 dbSNP
rs369430421 1745 dbSNP
rs931225358 1750 dbSNP
rs1196573350 1751 dbSNP
rs57249964 1753 dbSNP
rs991480395 1754 dbSNP
rs1261682056 1759 dbSNP
rs1218823491 1760 dbSNP
rs1196446498 1762 dbSNP
rs1371913906 1763 dbSNP
rs567821330 1772 dbSNP
rs532084471 1779 dbSNP
rs915943253 1780 dbSNP
rs1164204330 1783 dbSNP
rs1393077873 1785 dbSNP
rs947934732 1786 dbSNP
rs1175132982 1787 dbSNP
rs1423000910 1788 dbSNP
rs1410154205 1789 dbSNP
rs202209186 1797 dbSNP
rs550494426 1798 dbSNP
rs571696704 1799 dbSNP
rs1043683794 1801 dbSNP
rs1341175764 1804 dbSNP
rs1401978884 1809 dbSNP
rs1385327058 1815 dbSNP
rs1297619552 1821 dbSNP
rs1184694866 1822 dbSNP
rs538640317 1823 dbSNP
rs1226328341 1824 dbSNP
rs1241650182 1827 dbSNP
rs749397596 1827 dbSNP
rs949212831 1827 dbSNP
rs1213037239 1832 dbSNP
rs1045830344 1836 dbSNP
rs112383488 1836 dbSNP
rs200541194 1836 dbSNP
rs56670678 1836 dbSNP
rs907243060 1844 dbSNP
rs999268238 1844 dbSNP
rs935170149 1845 dbSNP
rs1053097012 1846 dbSNP
rs1181638165 1848 dbSNP
rs765016554 1848 dbSNP
rs751519526 1849 dbSNP
rs893397044 1850 dbSNP
rs554100719 1852 dbSNP
rs1482870333 1853 dbSNP
rs1028566540 1870 dbSNP
rs1292552095 1870 dbSNP
rs761594859 1871 dbSNP
rs566063209 1880 dbSNP
rs536703681 1886 dbSNP
rs1375192064 1889 dbSNP
rs1019382635 1892 dbSNP
rs1408802223 1896 dbSNP
rs555428233 1909 dbSNP
rs1290644896 1914 dbSNP
rs972830019 1915 dbSNP
rs1006403849 1919 dbSNP
rs1422286796 1924 dbSNP
rs1016939997 1926 dbSNP
rs897959147 1927 dbSNP
rs573488327 1935 dbSNP
rs1348802956 1939 dbSNP
rs573747755 1952 dbSNP
rs1401822018 1953 dbSNP
rs60026344 1954 dbSNP
rs990730019 1957 dbSNP
rs189800692 1959 dbSNP
rs1472375272 1968 dbSNP
rs1428458042 1970 dbSNP
rs1188621549 1974 dbSNP
rs1370593887 1985 dbSNP
rs1201863639 1987 dbSNP
rs1489862948 2000 dbSNP
rs1443207500 2002 dbSNP
rs960098685 2003 dbSNP
rs556015953 2008 dbSNP
rs1318697205 2022 dbSNP
rs991595988 2028 dbSNP
rs112552230 2037 dbSNP
rs865819028 2039 dbSNP
rs1361477470 2041 dbSNP
rs1421584487 2050 dbSNP
rs1227618864 2054 dbSNP
rs1345742790 2064 dbSNP
rs968721376 2066 dbSNP
rs979340485 2069 dbSNP
rs1402736593 2081 dbSNP
rs925197114 2102 dbSNP
rs928724056 2107 dbSNP
rs934739127 2113 dbSNP
rs767067192 2116 dbSNP
rs1157380351 2119 dbSNP
rs988369144 2134 dbSNP
rs923156356 2154 dbSNP
rs1313405074 2156 dbSNP
rs1178792352 2160 dbSNP
rs1431692302 2161 dbSNP
rs577749948 2186 dbSNP
rs1243579874 2191 dbSNP
rs1050149974 2192 dbSNP
rs534008412 2193 dbSNP
rs890008198 2197 dbSNP
rs527406312 2203 dbSNP
rs542735203 2204 dbSNP
rs113341233 2205 dbSNP
rs1264799877 2207 dbSNP
rs1323924064 2207 dbSNP
rs749865614 2215 dbSNP
rs1311292755 2224 dbSNP
rs1019772819 2231 dbSNP
rs1383475075 2232 dbSNP
rs1364694819 2236 dbSNP
rs1485805406 2243 dbSNP
rs941706765 2248 dbSNP
rs1201495743 2250 dbSNP
rs993961981 2268 dbSNP
rs111900185 2269 dbSNP
rs1377337373 2284 dbSNP
rs75281656 2284 dbSNP
rs1171214529 2288 dbSNP
rs1430312097 2296 dbSNP
rs375761566 2305 dbSNP
rs1187801284 2327 dbSNP
rs1461740468 2330 dbSNP
rs565454565 2345 dbSNP
rs1036249578 2354 dbSNP
rs147225324 2355 dbSNP
rs896006137 2375 dbSNP
rs1229169813 2378 dbSNP
rs1339381809 2389 dbSNP
rs981928799 2402 dbSNP
rs1228272628 2408 dbSNP
rs188668017 2409 dbSNP
rs935145718 2411 dbSNP
rs1394718868 2414 dbSNP
rs1401948351 2421 dbSNP
rs1298906322 2428 dbSNP
rs113811239 2429 dbSNP
rs914602828 2432 dbSNP
rs1363328275 2433 dbSNP
rs1466662380 2439 dbSNP
rs947379279 2444 dbSNP
rs968669139 2449 dbSNP
rs553798047 2451 dbSNP
rs1422960794 2452 dbSNP
rs1250998966 2454 dbSNP
rs536385874 2458 dbSNP
rs944297975 2461 dbSNP
rs1273253211 2468 dbSNP
rs979169905 2484 dbSNP
rs77862444 2486 dbSNP
rs1267681356 2487 dbSNP
rs956818793 2489 dbSNP
rs988096963 2499 dbSNP
rs1335856182 2505 dbSNP
rs193258632 2506 dbSNP
rs573690127 2507 dbSNP
rs933166965 2508 dbSNP
rs1425456732 2510 dbSNP
rs994740214 2518 dbSNP
rs1026736411 2522 dbSNP
rs1457372454 2523 dbSNP
rs888159912 2524 dbSNP
rs760203826 2531 dbSNP
rs1304465965 2541 dbSNP
rs1315786179 2544 dbSNP
rs537631867 2559 dbSNP
rs985808626 2562 dbSNP
rs552962655 2567 dbSNP
rs1023232974 2568 dbSNP
rs1287162840 2572 dbSNP
rs970349127 2578 dbSNP
rs982022171 2579 dbSNP
rs1230688103 2583 dbSNP
rs941829194 2583 dbSNP
rs1327336249 2586 dbSNP
rs1287892729 2591 dbSNP
rs1405797926 2594 dbSNP
rs1031327031 2605 dbSNP
rs1037760325 2606 dbSNP
rs1321712486 2622 dbSNP
rs1386121106 2623 dbSNP
rs765997170 2623 dbSNP
rs112067607 2624 dbSNP
rs1160077922 2628 dbSNP
rs929525071 2629 dbSNP
rs577864395 2631 dbSNP
rs1176640415 2634 dbSNP
rs1239193725 2635 dbSNP
rs1481232969 2637 dbSNP
rs538888697 2640 dbSNP
rs1481716194 2643 dbSNP
rs947430034 2644 dbSNP
rs553530877 2649 dbSNP
rs985526067 2661 dbSNP
rs1263130851 2663 dbSNP
rs895955246 2666 dbSNP
rs1013095223 2668 dbSNP
rs1044626361 2671 dbSNP
rs796605148 2671 dbSNP
rs904601845 2677 dbSNP
rs1232712169 2678 dbSNP
rs911256694 2681 dbSNP
rs1178689523 2685 dbSNP
rs1431278074 2688 dbSNP
rs1000311762 2691 dbSNP
rs1468189040 2692 dbSNP
rs1175396121 2694 dbSNP
rs572005633 2695 dbSNP
rs1444173382 2703 dbSNP
rs1296079414 2708 dbSNP
rs1372242508 2709 dbSNP
rs956081374 2716 dbSNP
rs1284654831 2717 dbSNP
rs1344116987 2722 dbSNP
rs1223470367 2723 dbSNP
rs1337195541 2726 dbSNP
rs1259311689 2727 dbSNP
rs1009868405 2736 dbSNP
rs1030212849 2744 dbSNP
rs944013387 2750 dbSNP
rs954505106 2757 dbSNP
rs1374311315 2758 dbSNP
rs985923892 2764 dbSNP
rs542773784 2774 dbSNP
rs1488939360 2775 dbSNP
rs963440679 2787 dbSNP
rs1201625254 2792 dbSNP
rs112892211 2793 dbSNP
rs1276683622 2798 dbSNP
rs1200105271 2801 dbSNP
rs918889415 2803 dbSNP
rs1340096393 2804 dbSNP
rs928996266 2805 dbSNP
rs888212726 2820 dbSNP
rs1011974412 2824 dbSNP
rs1364434987 2839 dbSNP
rs755368245 2859 dbSNP
rs1315457831 2860 dbSNP
rs576170884 2861 dbSNP
rs1357223055 2867 dbSNP
rs1333029053 2871 dbSNP
rs867718927 2874 dbSNP
rs544050436 2875 dbSNP
rs565429824 2877 dbSNP
rs1166224953 2879 dbSNP
rs554544945 2882 dbSNP
rs111420075 2884 dbSNP
rs761087422 2892 dbSNP
rs149668262 2895 dbSNP
rs1184755655 2898 dbSNP
rs1473945652 2900 dbSNP
rs1030927335 2904 dbSNP
rs765578727 2905 dbSNP
rs1180084401 2909 dbSNP
rs1276839360 2911 dbSNP
rs956805965 2914 dbSNP
rs1341365650 2921 dbSNP
rs1458113113 2922 dbSNP
rs113480686 2923 dbSNP
rs1229976888 2923 dbSNP
rs1292330496 2923 dbSNP
rs1442451966 2923 dbSNP
rs1304386405 2925 dbSNP
rs1438834981 2932 dbSNP
rs1305631864 2938 dbSNP
rs989347071 2939 dbSNP
rs1403864763 2940 dbSNP
rs1279386995 2941 dbSNP
rs1364708952 2943 dbSNP
rs1213122518 2945 dbSNP
rs1022161809 2946 dbSNP
rs953179557 2948 dbSNP
rs1181691370 2949 dbSNP
rs1473034624 2971 dbSNP
rs1295337792 2973 dbSNP
rs1057364293 2986 dbSNP
rs911308953 2987 dbSNP
rs1224968973 2993 dbSNP
rs548057753 2997 dbSNP
rs8106900 2999 dbSNP
rs1490202661 3001 dbSNP
rs757266843 3002 dbSNP
rs948985220 3004 dbSNP
rs977122257 3005 dbSNP
rs918857419 3007 dbSNP
rs1476359169 3017 dbSNP
rs530014022 3024 dbSNP
rs1286006871 3027 dbSNP
rs1408862494 3033 dbSNP
rs930195205 3036 dbSNP
rs1294814342 3039 dbSNP
rs1044572918 3046 dbSNP
rs112790998 3048 dbSNP
rs910081389 3056 dbSNP
rs1418563438 3063 dbSNP
rs1000662488 3072 dbSNP
rs1414676542 3073 dbSNP
rs1157158328 3093 dbSNP
rs1472406912 3097 dbSNP
rs1425924528 3109 dbSNP
rs755396769 3114 dbSNP
rs1487460463 3116 dbSNP
rs1245984395 3120 dbSNP
rs1053220125 3131 dbSNP
rs1044832470 3146 dbSNP
rs545284779 3154 dbSNP
rs1266044630 3160 dbSNP
rs11542897 3165 dbSNP
rs1227362784 3171 dbSNP
rs906258263 3180 dbSNP
rs1165059384 3188 dbSNP
rs569838699 3189 dbSNP
rs1003223893 3196 dbSNP
rs1293397766 3209 dbSNP
rs1436499503 3210 dbSNP
rs1423385717 3215 dbSNP
rs1318426181 3223 dbSNP
rs1347418440 3225 dbSNP
rs1245938906 3226 dbSNP
rs1456899542 3226 dbSNP
rs200708660 3226 dbSNP
rs57498193 3226 dbSNP
rs750252849 3226 dbSNP
rs1052509247 3231 dbSNP
rs1207942175 3234 dbSNP
rs148440912 3235 dbSNP
rs1011270668 3237 dbSNP
rs1207603805 3237 dbSNP
rs1295718021 3238 dbSNP
rs1429278392 3238 dbSNP
rs1229753322 3239 dbSNP
rs1022215632 3240 dbSNP
rs1434738588 3240 dbSNP
rs6508786 3240 dbSNP
rs953234715 3240 dbSNP
rs1288840171 3241 dbSNP
rs1380324598 3243 dbSNP
rs200784145 3244 dbSNP
rs566372742 3245 dbSNP
rs868010256 3245 dbSNP
rs1358617404 3246 dbSNP
rs7507921 3246 dbSNP
rs1187860312 3250 dbSNP
rs1248698897 3250 dbSNP
rs1007455258 3251 dbSNP
rs1258038093 3251 dbSNP
rs1017368301 3252 dbSNP
rs963256857 3256 dbSNP
rs973528875 3257 dbSNP
rs1482749742 3259 dbSNP
rs1359001491 3263 dbSNP
rs1240893233 3268 dbSNP
rs919017743 3275 dbSNP
rs1018377411 3286 dbSNP
rs1273032798 3288 dbSNP
rs1227369238 3291 dbSNP
rs1341404231 3293 dbSNP
rs965812494 3296 dbSNP
rs976796573 3299 dbSNP
rs779379561 3300 dbSNP
rs552866832 3308 dbSNP
rs1308712598 3316 dbSNP
rs748686726 3326 dbSNP
rs571412927 3328 dbSNP
rs916950332 3336 dbSNP
rs1167832283 3339 dbSNP
rs984812561 3342 dbSNP
rs948928890 3349 dbSNP
rs1162493424 3354 dbSNP
rs1241493278 3372 dbSNP
rs374123864 3376 dbSNP
rs1251998391 3378 dbSNP
rs1183912785 3401 dbSNP
rs948224973 3425 dbSNP
rs926087954 3429 dbSNP
rs4386247 3432 dbSNP
rs927736080 3437 dbSNP
rs939122912 3441 dbSNP
rs182747692 3448 dbSNP
rs747048724 3455 dbSNP
rs1289160274 3468 dbSNP
rs892161673 3474 dbSNP
rs1158599691 3482 dbSNP
rs934111907 3484 dbSNP
rs572106969 3485 dbSNP
rs770986371 3491 dbSNP
rs1409492600 3493 dbSNP
rs1307546197 3497 dbSNP
rs1007401569 3502 dbSNP
rs1392869624 3505 dbSNP
rs1017482254 3507 dbSNP
rs1291570999 3509 dbSNP
rs1457165908 3516 dbSNP
rs1043668759 3517 dbSNP
rs898953126 3523 dbSNP
rs994675860 3536 dbSNP
rs1026597937 3537 dbSNP
rs1007410642 3545 dbSNP
rs950481944 3548 dbSNP
rs1199025913 3550 dbSNP
rs992598608 3553 dbSNP
rs1452687144 3554 dbSNP
rs536270392 3565 dbSNP
rs80215985 3566 dbSNP
rs1468279533 3580 dbSNP
rs1443239709 3584 dbSNP
rs980318067 3586 dbSNP
rs1269196556 3597 dbSNP
rs1230431837 3598 dbSNP
rs1327408644 3601 dbSNP
rs1279023001 3605 dbSNP
rs1281528584 3607 dbSNP
rs1332917399 3608 dbSNP
rs113893651 3624 dbSNP
rs1440117103 3634 dbSNP
rs759766917 3646 dbSNP
rs1322354084 3648 dbSNP
rs12609247 3655 dbSNP
rs951501141 3656 dbSNP
rs1324208027 3662 dbSNP
rs118185142 3667 dbSNP
rs1375452602 3672 dbSNP
rs913419425 3680 dbSNP
rs934059429 3681 dbSNP
rs112392176 3686 dbSNP
rs1454255269 3687 dbSNP
rs889749723 3697 dbSNP
rs1460737045 3704 dbSNP
rs575966054 3705 dbSNP
rs1182057220 3711 dbSNP
rs541386844 3712 dbSNP
rs1234312918 3714 dbSNP
rs942705356 3715 dbSNP
rs1038814990 3724 dbSNP
rs969589596 3739 dbSNP
rs1347160700 3745 dbSNP
rs899072878 3748 dbSNP
rs1273192731 3749 dbSNP
rs1233444269 3755 dbSNP
rs995188816 3763 dbSNP
rs546600630 3776 dbSNP
rs761775772 3780 dbSNP
rs146858066 3786 dbSNP
rs1432546901 3787 dbSNP
rs1325654498 3796 dbSNP
rs80181125 3797 dbSNP
rs144366844 3805 dbSNP
rs1399395607 3808 dbSNP
rs913614385 3829 dbSNP
rs1024070334 3832 dbSNP
rs1434631370 3836 dbSNP
rs1391402984 3838 dbSNP
rs969674205 3839 dbSNP
rs1191064949 3840 dbSNP
rs558545498 3847 dbSNP
rs1334210980 3849 dbSNP
rs1441497952 3850 dbSNP
rs146638525 3870 dbSNP
rs889052706 3872 dbSNP
rs943290129 3880 dbSNP
rs1276572316 3884 dbSNP
rs113259051 3887 dbSNP
rs957632487 3888 dbSNP
rs901707224 3898 dbSNP
rs993341503 3899 dbSNP
rs1026151747 3900 dbSNP
rs887165437 3909 dbSNP
rs187347024 3911 dbSNP
rs1338398861 3928 dbSNP
rs1409837867 3932 dbSNP
rs536898027 3932 dbSNP
rs913370803 3933 dbSNP
rs1170982948 3934 dbSNP
rs955545289 3935 dbSNP
rs1408750539 3936 dbSNP
rs115289983 3940 dbSNP
rs1164256114 3943 dbSNP
rs969348743 3951 dbSNP
rs541732560 3953 dbSNP
rs1180400820 3955 dbSNP
rs1473894327 3957 dbSNP
rs1235879339 3961 dbSNP
rs911303193 3962 dbSNP
rs981024858 3971 dbSNP
rs942820386 3972 dbSNP
rs1035278002 3976 dbSNP
rs1038357176 3980 dbSNP
rs1269014693 3983 dbSNP
rs532742029 3985 dbSNP
rs961164987 3989 dbSNP
rs1354003578 3992 dbSNP
rs1481152708 3994 dbSNP
rs150205625 3995 dbSNP
rs376902070 3998 dbSNP
rs192294701 4009 dbSNP
rs1440625500 4025 dbSNP
rs1354538270 4028 dbSNP
rs1170025642 4040 dbSNP
rs1394543993 4046 dbSNP
rs913656590 4049 dbSNP
rs574987168 4050 dbSNP
rs1274365428 4054 dbSNP
rs1164431563 4063 dbSNP
rs946423631 4073 dbSNP
rs1414249243 4075 dbSNP
rs1014100541 4083 dbSNP
rs536503044 4084 dbSNP
rs1045633677 4085 dbSNP
rs910246402 4086 dbSNP
rs1403248381 4088 dbSNP
rs1223700059 4093 dbSNP
rs554614313 4094 dbSNP
rs1001721465 4096 dbSNP
rs1449610582 4097 dbSNP
rs1032661653 4109 dbSNP
rs957279872 4110 dbSNP
rs1281296453 4114 dbSNP
rs1330842815 4115 dbSNP
rs1010454073 4116 dbSNP
rs1040352275 4120 dbSNP
rs1222637094 4127 dbSNP
rs1367710884 4128 dbSNP
rs1227814886 4143 dbSNP
rs1020957956 4146 dbSNP
rs1439259903 4147 dbSNP
rs1271734737 4155 dbSNP
rs901720078 4158 dbSNP
rs1457955829 4160 dbSNP
rs1336994173 4163 dbSNP
rs183891371 4171 dbSNP
rs569660060 4172 dbSNP
rs1203962095 4177 dbSNP
rs1425994190 4179 dbSNP
rs375954781 4183 dbSNP
rs551247987 4187 dbSNP
rs1024911716 4188 dbSNP
rs1292112869 4197 dbSNP
rs1490693160 4201 dbSNP
rs1219700616 4209 dbSNP
rs964076222 4210 dbSNP
rs1214660116 4214 dbSNP
rs1047533466 4217 dbSNP
rs189969475 4218 dbSNP
rs1195730396 4222 dbSNP
rs1221414247 4223 dbSNP
rs1287286569 4224 dbSNP
rs1303128239 4224 dbSNP
rs1367814642 4224 dbSNP
rs1369506038 4224 dbSNP
rs368082959 4224 dbSNP
rs74737801 4225 dbSNP
rs1005621898 4232 dbSNP
rs1016966827 4233 dbSNP
rs905243741 4234 dbSNP
rs1164441769 4235 dbSNP
rs1002449716 4239 dbSNP
rs1394328413 4246 dbSNP
rs1002122175 4247 dbSNP
rs1259436969 4249 dbSNP
rs1185541543 4250 dbSNP
rs1422752379 4256 dbSNP
rs974578896 4264 dbSNP
rs138716148 4266 dbSNP
rs1235970516 4268 dbSNP
rs1457070074 4272 dbSNP
rs1280177172 4273 dbSNP
rs1229820930 4283 dbSNP
rs1382736192 4284 dbSNP
rs929977603 4285 dbSNP
rs1381846257 4292 dbSNP
rs960961267 4297 dbSNP
rs1320248558 4299 dbSNP
rs1010165899 4303 dbSNP
rs111689328 4309 dbSNP
rs1227464943 4310 dbSNP
rs1315301026 4316 dbSNP
rs1361153281 4318 dbSNP
rs968194238 4320 dbSNP
rs907791678 4328 dbSNP
rs1424025927 4337 dbSNP
rs1257756533 4338 dbSNP
rs949982842 4343 dbSNP
rs1185366798 4347 dbSNP
rs755590466 4352 dbSNP
rs910300301 4353 dbSNP
rs113971670 4357 dbSNP
rs905719033 4357 dbSNP
rs1249966978 4365 dbSNP
rs1227061725 4367 dbSNP
rs1322709097 4368 dbSNP
rs923194283 4372 dbSNP
rs1001268720 4374 dbSNP
rs1231717482 4376 dbSNP
rs1354867029 4380 dbSNP
rs1054621513 4383 dbSNP
rs1308766381 4389 dbSNP
rs1411573100 4399 dbSNP
rs1394332743 4406 dbSNP
rs929264219 4407 dbSNP
rs1458171927 4413 dbSNP
rs1048093572 4417 dbSNP
rs1162302066 4418 dbSNP
rs1474701785 4419 dbSNP
rs1412042364 4421 dbSNP
rs892762758 4431 dbSNP
rs148964544 4432 dbSNP
rs1207387105 4443 dbSNP
rs574803476 4454 dbSNP
rs941867209 4463 dbSNP
rs1212034048 4489 dbSNP
rs1334512575 4494 dbSNP
rs1289064115 4512 dbSNP
rs1241192223 4515 dbSNP
rs143699931 4517 dbSNP
rs955607909 4525 dbSNP
rs1446786141 4527 dbSNP
rs1306144224 4532 dbSNP
rs563391894 4540 dbSNP
rs753462328 4550 dbSNP
rs905253805 4568 dbSNP
rs1018372048 4571 dbSNP
rs1392585187 4572 dbSNP
rs1323707680 4575 dbSNP
rs1184600582 4577 dbSNP
rs1245137272 4580 dbSNP
rs1460586315 4582 dbSNP
rs964571545 4584 dbSNP
rs138370189 4586 dbSNP
rs1450933254 4589 dbSNP
rs1056447881 4591 dbSNP
rs546015421 4627 dbSNP
rs1027489085 4630 dbSNP
rs896457976 4637 dbSNP
rs1434301316 4639 dbSNP
rs754628797 4642 dbSNP
rs1192225220 4653 dbSNP
rs983182418 4657 dbSNP
rs143642772 4661 dbSNP
rs1160211311 4665 dbSNP
rs1382782224 4671 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions HEK293
Disease 9424.0
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 GSM1065669. RNA binding protein: AGO1. Condition:4-thiouridine ...

- Memczak S; Jens M; Elefsinioti A; Torti F; et al., 2013, Nature.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' gcucacacucuAGUGUGGAGGg 5'
                     |: ||||||| 
Target 5' -------caacUUCCACCUCCu 3'
1 - 15
Article - Memczak S; Jens M; Elefsinioti A; Torti F; et al.
- Nature, 2013
Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
LinkOut: [PMID: 23446348]
Experimental Support 2 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' gcucacacucuAGUGUGGAGGg 5'
                     |: ||||||| 
Target 5' -------caacUUCCACCUCCu 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 GSM1065669
Method / RBP PAR-CLIP / AGO1
Cell line / Condition HEK293 / 4-thiouridine, ML_MM_8
Location of target site ENST00000263372.3 | 3UTR | CAACUUCCACCUCCUG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23446348 / GSE43573
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM1462574
Method / RBP PAR-CLIP / AGO2
Cell line / Condition TZM-bl / TZM-bl ami BaL
Location of target site ENST00000263372.3 | 3UTR | CAACUUCCACCUCCUG
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
231 hsa-miR-3689d Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT059166 TXNIP thioredoxin interacting protein 2 4
MIRT080699 KIAA1468 KIAA1468 2 2
MIRT218770 CDKN1A cyclin dependent kinase inhibitor 1A 2 2
MIRT278059 KHNYN KH and NYN domain containing 2 2
MIRT345933 EIF4A1 eukaryotic translation initiation factor 4A1 2 2
MIRT366238 VMA21 VMA21, vacuolar ATPase assembly factor 2 2
MIRT449689 CNNM2 cyclin and CBS domain divalent metal cation transport mediator 2 2 2
MIRT451149 C19orf53 chromosome 19 open reading frame 53 2 2
MIRT451266 NDUFA11 NADH:ubiquinone oxidoreductase subunit A11 2 2
MIRT451375 C19orf43 telomerase RNA component interacting RNase 2 2
MIRT451570 CIAPIN1 cytokine induced apoptosis inhibitor 1 2 2
MIRT451585 HIRIP3 HIRA interacting protein 3 2 2
MIRT451614 MEIS3P1 Meis homeobox 3 pseudogene 1 2 2
MIRT451763 ZNF611 zinc finger protein 611 2 6
MIRT452383 LY6E lymphocyte antigen 6 family member E 2 4
MIRT452573 ZFP69B ZFP69 zinc finger protein B 2 2
MIRT452735 PTGES3L prostaglandin E synthase 3 like 2 6
MIRT452867 LAX1 lymphocyte transmembrane adaptor 1 2 2
MIRT452975 CABP4 calcium binding protein 4 2 2
MIRT453215 CERS1 ceramide synthase 1 2 2
MIRT453259 PARP11 poly(ADP-ribose) polymerase family member 11 2 2
MIRT453449 GLG1 golgi glycoprotein 1 2 2
MIRT453479 PITPNM3 PITPNM family member 3 2 2
MIRT453663 CD207 CD207 molecule 2 6
MIRT453724 RAP1GDS1 Rap1 GTPase-GDP dissociation stimulator 1 2 2
MIRT453760 RANGAP1 Ran GTPase activating protein 1 2 2
MIRT454181 AP1S3 adaptor related protein complex 1 sigma 3 subunit 2 6
MIRT454330 PPARA peroxisome proliferator activated receptor alpha 2 2
MIRT454338 CDKL1 cyclin dependent kinase like 1 2 2
MIRT454427 GTF2F1 general transcription factor IIF subunit 1 2 2
MIRT454665 FBXL18 F-box and leucine rich repeat protein 18 2 2
MIRT454825 POLR2J3 RNA polymerase II subunit J3 2 2
MIRT455130 TBC1D25 TBC1 domain family member 25 2 2
MIRT455166 SUV39H1 suppressor of variegation 3-9 homolog 1 2 2
MIRT455416 RXRB retinoid X receptor beta 2 2
MIRT455668 GLO1 glyoxalase I 2 2
MIRT455999 CYP2C19 cytochrome P450 family 2 subfamily C member 19 2 2
MIRT456446 TMEM81 transmembrane protein 81 2 2
MIRT456642 NOS1AP nitric oxide synthase 1 adaptor protein 2 2
MIRT456728 TMEM239 transmembrane protein 239 2 2
MIRT457131 ASPH aspartate beta-hydroxylase 2 2
MIRT457157 MXRA7 matrix remodeling associated 7 2 2
MIRT457358 POFUT2 protein O-fucosyltransferase 2 2 2
MIRT457458 UNC119B unc-119 lipid binding chaperone B 2 2
MIRT457619 UPK3BL uroplakin 3B like 1 2 2
MIRT457692 ZNF587 zinc finger protein 587 2 2
MIRT457727 SMOX spermine oxidase 2 2
MIRT457788 VWA1 von Willebrand factor A domain containing 1 2 2
MIRT457875 THEM6 thioesterase superfamily member 6 2 4
MIRT457909 ZNF212 zinc finger protein 212 2 2
MIRT458395 ABCF1 ATP binding cassette subfamily F member 1 2 2
MIRT458496 MARVELD2 MARVEL domain containing 2 2 2
MIRT458544 CYP2B6 cytochrome P450 family 2 subfamily B member 6 2 2
MIRT458577 TCOF1 treacle ribosome biogenesis factor 1 2 2
MIRT458732 CES2 carboxylesterase 2 2 2
MIRT458814 ZNF843 zinc finger protein 843 2 2
MIRT458931 SAMD4B sterile alpha motif domain containing 4B 2 2
MIRT459341 ZNF17 zinc finger protein 17 2 2
MIRT459365 MPLKIP M-phase specific PLK1 interacting protein 2 6
MIRT459572 NLGN2 neuroligin 2 2 2
MIRT460015 DTX3L deltex E3 ubiquitin ligase 3L 2 4
MIRT460144 ASB16 ankyrin repeat and SOCS box containing 16 2 2
MIRT460653 IGFBP4 insulin like growth factor binding protein 4 2 2
MIRT460798 VPS33A VPS33A, CORVET/HOPS core subunit 2 2
MIRT461058 KCNK6 potassium two pore domain channel subfamily K member 6 2 4
MIRT461458 SLC19A3 solute carrier family 19 member 3 2 2
MIRT461572 SCO1 SCO1, cytochrome c oxidase assembly protein 2 4
MIRT461927 TNFSF14 TNF superfamily member 14 2 2
MIRT461953 C3 complement C3 2 2
MIRT462278 KRR1 KRR1, small subunit processome component homolog 2 2
MIRT462744 EFNB1 ephrin B1 2 2
MIRT463136 ZNF451 zinc finger protein 451 2 4
MIRT463566 ZBTB39 zinc finger and BTB domain containing 39 2 6
MIRT463866 WNT7B Wnt family member 7B 2 2
MIRT464326 UST uronyl 2-sulfotransferase 2 2
MIRT464796 UBE2F ubiquitin conjugating enzyme E2 F (putative) 2 2
MIRT465034 TTC39C tetratricopeptide repeat domain 39C 2 2
MIRT466207 TMED10 transmembrane p24 trafficking protein 10 2 2
MIRT467007 SSBP2 single stranded DNA binding protein 2 2 2
MIRT467029 SRSF1 serine and arginine rich splicing factor 1 2 4
MIRT468001 SKI SKI proto-oncogene 2 2
MIRT468031 SIKE1 suppressor of IKBKE 1 2 6
MIRT468575 SERBP1 SERPINE1 mRNA binding protein 1 2 6
MIRT468834 RRM2 ribonucleotide reductase regulatory subunit M2 2 2
MIRT468970 RPRD2 regulation of nuclear pre-mRNA domain containing 2 2 2
MIRT469450 REL REL proto-oncogene, NF-kB subunit 2 6
MIRT470888 PLXND1 plexin D1 2 2
MIRT470953 PKM pyruvate kinase, muscle 2 2
MIRT471828 NUFIP2 NUFIP2, FMR1 interacting protein 2 2 2
MIRT472590 NACC1 nucleus accumbens associated 1 2 2
MIRT472805 MTMR12 myotubularin related protein 12 2 2
MIRT472818 MTMR10 myotubularin related protein 10 2 6
MIRT472914 MSN moesin 2 2
MIRT474558 KLHDC3 kelch domain containing 3 2 2
MIRT474716 KIF13A kinesin family member 13A 2 6
MIRT475279 TOR1AIP2 torsin 1A interacting protein 2 2 2
MIRT475300 IFNLR1 interferon lambda receptor 1 2 2
MIRT475759 HDLBP high density lipoprotein binding protein 2 2
MIRT475786 HDGF heparin binding growth factor 2 2
MIRT475933 GXYLT2 glucoside xylosyltransferase 2 2 8
MIRT476212 GNS glucosamine (N-acetyl)-6-sulfatase 2 2
MIRT476238 GNPNAT1 glucosamine-phosphate N-acetyltransferase 1 2 4
MIRT476799 FNDC3B fibronectin type III domain containing 3B 2 2
MIRT477988 DNAL1 dynein axonemal light chain 1 2 2
MIRT478317 DDN dendrin 2 2
MIRT479257 CHSY1 chondroitin sulfate synthase 1 2 2
MIRT479344 CEP97 centrosomal protein 97 2 2
MIRT479522 CDCA4 cell division cycle associated 4 2 2
MIRT479906 CCDC117 coiled-coil domain containing 117 2 6
MIRT481147 AVL9 AVL9 cell migration associated 2 6
MIRT481735 APH1A aph-1 homolog A, gamma-secretase subunit 2 2
MIRT482089 ALG8 ALG8, alpha-1,3-glucosyltransferase 2 2
MIRT482389 AEN apoptosis enhancing nuclease 2 2
MIRT483093 TFPI tissue factor pathway inhibitor 2 2
MIRT484246 ANK1 ankyrin 1 2 2
MIRT484342 EPN1 epsin 1 2 4
MIRT489141 C5orf38 chromosome 5 open reading frame 38 2 2
MIRT489163 MRPL12 mitochondrial ribosomal protein L12 2 4
MIRT489547 SOX11 SRY-box 11 2 4
MIRT489780 GRINA glutamate ionotropic receptor NMDA type subunit associated protein 1 2 2
MIRT489799 KRT80 keratin 80 2 6
MIRT490535 KIAA1715 lunapark, ER junction formation factor 2 2
MIRT492198 SOCS1 suppressor of cytokine signaling 1 2 2
MIRT492283 SHISA6 shisa family member 6 2 4
MIRT501059 SMARCAD1 SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1 2 4
MIRT501094 SLC5A6 solute carrier family 5 member 6 2 4
MIRT503870 CBS cystathionine-beta-synthase 2 2
MIRT507981 BCL2L13 BCL2 like 13 2 4
MIRT508125 AMD1 adenosylmethionine decarboxylase 1 2 2
MIRT508205 SLC35E1 solute carrier family 35 member E1 2 2
MIRT508385 SPTBN2 spectrin beta, non-erythrocytic 2 2 4
MIRT510308 PDRG1 p53 and DNA damage regulated 1 2 2
MIRT510462 ZDHHC18 zinc finger DHHC-type containing 18 2 2
MIRT512227 ATXN3 ataxin 3 2 8
MIRT512665 STEAP3 STEAP3 metalloreductase 2 2
MIRT514184 PGPEP1 pyroglutamyl-peptidase I 2 2
MIRT515053 EBNA1BP2 EBNA1 binding protein 2 2 2
MIRT515138 ZNF799 zinc finger protein 799 2 4
MIRT515452 ZNF747 zinc finger protein 747 2 2
MIRT515791 COL4A3BP collagen type IV alpha 3 binding protein 2 2
MIRT515905 AGTPBP1 ATP/GTP binding protein 1 2 2
MIRT516129 MRPS16 mitochondrial ribosomal protein S16 2 6
MIRT516679 ZNF860 zinc finger protein 860 2 4
MIRT516750 ZNF100 zinc finger protein 100 2 2
MIRT516971 OR7D2 olfactory receptor family 7 subfamily D member 2 2 2
MIRT517491 NPAP1 nuclear pore associated protein 1 2 2
MIRT517774 PROM2 prominin 2 2 2
MIRT517938 ZNF431 zinc finger protein 431 2 4
MIRT518386 ZNF250 zinc finger protein 250 2 2
MIRT520621 TMEM41B transmembrane protein 41B 2 2
MIRT521028 SLC30A5 solute carrier family 30 member 5 2 2
MIRT521454 RAD51 RAD51 recombinase 2 2
MIRT521564 PTPLB 3-hydroxyacyl-CoA dehydratase 2 1 1
MIRT521581 PTBP2 polypyrimidine tract binding protein 2 2 2
MIRT522263 NKRF NFKB repressing factor 2 2
MIRT522410 MXI1 MAX interactor 1, dimerization protein 2 2
MIRT522543 MED28 mediator complex subunit 28 2 6
MIRT522915 KCNE3 potassium voltage-gated channel subfamily E regulatory subunit 3 2 2
MIRT523029 IGF1 insulin like growth factor 1 2 2
MIRT523854 ESPL1 extra spindle pole bodies like 1, separase 2 4
MIRT524184 DFFA DNA fragmentation factor subunit alpha 2 2
MIRT524520 CDK19 cyclin dependent kinase 19 2 2
MIRT524674 C12orf5 TP53 induced glycolysis regulatory phosphatase 2 2
MIRT530257 ZNF620 zinc finger protein 620 2 2
MIRT540691 BMP3 bone morphogenetic protein 3 2 2
MIRT540976 C17orf85 nuclear cap binding subunit 3 2 2
MIRT545505 NAP1L1 nucleosome assembly protein 1 like 1 2 2
MIRT545631 GGCX gamma-glutamyl carboxylase 2 2
MIRT547358 NAA30 N(alpha)-acetyltransferase 30, NatC catalytic subunit 2 2
MIRT550701 MPL MPL proto-oncogene, thrombopoietin receptor 2 4
MIRT550717 PMPCA peptidase, mitochondrial processing alpha subunit 2 4
MIRT551203 NCR3LG1 natural killer cell cytotoxicity receptor 3 ligand 1 2 2
MIRT553999 SRGAP1 SLIT-ROBO Rho GTPase activating protein 1 2 4
MIRT561081 LLPH LLP homolog, long-term synaptic facilitation 2 2
MIRT563523 TAF8 TATA-box binding protein associated factor 8 2 2
MIRT564463 SLC35E2 solute carrier family 35 member E2 2 2
MIRT565233 TRAF6 TNF receptor associated factor 6 2 2
MIRT566618 NKAP NFKB activating protein 2 2
MIRT569527 AP5Z1 adaptor related protein complex 5 zeta 1 subunit 2 2
MIRT569639 QPCT glutaminyl-peptide cyclotransferase 2 2
MIRT570253 SSPN sarcospan 2 2
MIRT570570 OTUD7B OTU deubiquitinase 7B 2 2
MIRT570621 MTF2 metal response element binding transcription factor 2 2 2
MIRT571098 ISLR2 immunoglobulin superfamily containing leucine rich repeat 2 2 2
MIRT575196 Entpd4 ectonucleoside triphosphate diphosphohydrolase 4 2 2
MIRT575554 Cd99 CD99 antigen 2 2
MIRT575634 Gnl3l guanine nucleotide binding protein-like 3 (nucleolar)-like 2 2
MIRT608267 NOP14 NOP14 nucleolar protein 2 2
MIRT609314 FXYD6 FXYD domain containing ion transport regulator 6 2 2
MIRT627670 RPL28 ribosomal protein L28 2 2
MIRT631185 TSPAN14 tetraspanin 14 2 2
MIRT631964 YIPF5 Yip1 domain family member 5 2 2
MIRT632885 GINM1 glycoprotein integral membrane 1 2 2
MIRT642618 CDKN3 cyclin dependent kinase inhibitor 3 2 2
MIRT645609 TSPAN6 tetraspanin 6 2 2
MIRT662227 PGBD4 piggyBac transposable element derived 4 2 2
MIRT662329 MYLK3 myosin light chain kinase 3 2 2
MIRT662725 LRRC3C leucine rich repeat containing 3C 2 2
MIRT665520 USP14 ubiquitin specific peptidase 14 2 2
MIRT666634 RBMS2 RNA binding motif single stranded interacting protein 2 2 2
MIRT668969 CNBP CCHC-type zinc finger nucleic acid binding protein 2 2
MIRT670925 DESI1 desumoylating isopeptidase 1 2 2
MIRT673939 ZNF500 zinc finger protein 500 2 2
MIRT674675 PLCE1 phospholipase C epsilon 1 2 2
MIRT675230 MAK male germ cell associated kinase 2 2
MIRT680864 MACC1 MACC1, MET transcriptional regulator 2 2
MIRT681047 ZDBF2 zinc finger DBF-type containing 2 2 2
MIRT681105 CEP57L1 centrosomal protein 57 like 1 2 2
MIRT683553 HAVCR1 hepatitis A virus cellular receptor 1 2 2
MIRT684508 C1orf174 chromosome 1 open reading frame 174 2 2
MIRT684812 BRIX1 BRX1, biogenesis of ribosomes 2 2
MIRT685981 CCDC77 coiled-coil domain containing 77 2 2
MIRT686709 TBC1D19 TBC1 domain family member 19 2 2
MIRT686867 SLC25A32 solute carrier family 25 member 32 2 2
MIRT688908 C11orf84 chromosome 11 open reading frame 84 2 2
MIRT691208 KLHL30 kelch like family member 30 2 2
MIRT692298 CNNM3 cyclin and CBS domain divalent metal cation transport mediator 3 2 2
MIRT694380 MTA1 metastasis associated 1 2 2
MIRT696497 COX6B1 cytochrome c oxidase subunit 6B1 2 2
MIRT700686 POLR3D RNA polymerase III subunit D 2 2
MIRT701088 PAPOLG poly(A) polymerase gamma 2 2
MIRT703373 GAPVD1 GTPase activating protein and VPS9 domains 1 2 2
MIRT706189 SAR1B secretion associated Ras related GTPase 1B 2 2
MIRT706648 SMIM19 small integral membrane protein 19 2 2
MIRT709466 KRTAP19-1 keratin associated protein 19-1 2 2
MIRT709699 DMWD DM1 locus, WD repeat containing 2 2
MIRT710693 LYRM4 LYR motif containing 4 2 2
MIRT713457 DNAJC11 DnaJ heat shock protein family (Hsp40) member C11 2 2
MIRT722409 RARS2 arginyl-tRNA synthetase 2, mitochondrial 2 2
MIRT725391 MAP3K9 mitogen-activated protein kinase kinase kinase 9 2 2
MIRT725548 DNMT3A DNA methyltransferase 3 alpha 2 2

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