pre-miRNA Information
pre-miRNA hsa-mir-5691   
Genomic Coordinates chr11: 9090312 - 9090379
Description Homo sapiens miR-5691 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-5691
Sequence 9| UUGCUCUGAGCUCCGAGAAAGC |30
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs1042238449 3 dbSNP
rs554804494 11 dbSNP
rs1172229307 13 dbSNP
rs112511786 14 dbSNP
Putative Targets

Gene Information
Gene Symbol CCDC142   
Synonyms -
Description coiled-coil domain containing 142
Transcript NM_032779   
Expression
Putative miRNA Targets on CCDC142
3'UTR of CCDC142
(miRNA target sites are highlighted)
>CCDC142|NM_032779|3'UTR
   1 GGAGCCTGGGACCAGGAGCCAGAAAGTTAAGAGCTCCCCATCTCTAGCTGGAAAATCCAGACATTTGGAATTGCATATTA
  81 AGGAAGCCCAGAACTGGAAGCTTGGAGGAAAGCATACTGGAGAATAAGCTACAAAGAGCCTGGGCTTAAGAATCCAAGAT
 161 TAGGGGCTGGGCGAGGTGGCTCACGCCTGTAATCCAGCACTTTGGGAGACCGAGGCAGGCGGATCATGAGGTCAGGAGAT
 241 CAAGACCATCCTGGCTAACACGGTGAAACCCTGTTTCCACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCGGGTGCC
 321 TGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGTGTGAACCTGGGAGGCGGAGCTTGCAGTGAGCTGAGATCC
 401 AGCCACAGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAATCCAAGATTAGGCAGG
 481 GCATGGTGGCTCACACCTATAATCCCAGCACTTTGGGAGGCTGAGGCAGGCGGATCACCTGAGGTCGGGAGTTCCAGACC
 561 AGCCTGACCAACATGGAGAAACCCCGTCTCTACTAAAAATACAAAATTAGCCAGGTGTGGTGGCGCATGCCTGTAATCCC
 641 AGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCTAGGAGGCGAAGGTTGCGGAGAGCCGAGATTGTGCCATTGC
 721 ACTCCAGCCTGGGCAACAAGGGCAAAACTTCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAATCCAAGATCACTCCAGCA
 801 CCTGGAATCCAGAGTAAAGAGCAAGACCATAGCCTGGAACCTGAAGGTCAGACCCTTGGGAGGTTCAGGCCTAGTTCTCC
 881 ATCACTGAAGATATCTCAGGGATAAAGAGTTGAGTGCTCGGCCAGGTGAGGGGGCTCACGCCTGCTCACGCCTGTAATCC
 961 CAGCACTTTGGGAGGCCTAGAGGGGCGGATCACGAGGTCCGATCAAGACCATCCTGGCTAACGCGGTGAAACCCCGCCTC
1041 TACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCACGCGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGCATGAGAA
1121 TCGCTTGAACCCGGGAGGCAGAGATTGCAGTGAGCCGAGATCGCGCCACTGCACTCCTGCCTGGGCAACAAGAGCAAAAC
1201 TTCGTCTCAAAAAAAGAAAACTGGCTAGAATGCACTTCAACTTAAGTCCTGGGAGCTACGCTAATTCATGGAGAACCACA
1281 GAGGTTTAATAGGCATTTCTATACCTGGATCAGCCCCAAGGACAGTATTACCCTGTACTGCCCTTCCTATTACTATTTTC
1361 AGTCATTTACTAATATTGGGCTGTAGTACTTTCACGTTTAAGCTTTGGCTATTCAGAGCTCACTACGTTTAATCTTCAGT
1441 TACCTGAATGGTGTTTACCTTCTGGTGTGGATCATCCCGGCTTGTGTTAGTGCTCTCTCTTTGGAAGAAGCCAGGATTTA
1521 AGATCGAGTTAGCCTAGATGTGGCCCAGCAGGGTACAGAAGGGGAAAGGCTGCAGAAAACGGGCGTATTTTCGTGCAAAG
1601 AGGTTTTTGCGCCATTTATTTATGGTTTTCACCGTCGTATGAGAGGACTATTCATGATAGGCTGTATTTGCTGACAGCCT
1681 ACTTTGGGCTCCCCCATGCGTTGTGCCGAAACCA
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' cgaaaGAGCCUCGAGUCUCGUu 5'
               || || |  ||||||| 
Target 5' ccagcCTGGGTG-ACAGAGCAa 3'
413 - 433 148.00 -16.40
2
miRNA  3' cgaaaGAGCCUCGAGUCUCGUu 5'
               | :||| : |||||:| 
Target 5' cagcaCCTGGAATCCAGAGTAa 3'
796 - 817 137.00 -14.20
3
miRNA  3' cgAAA----GAGCC--UCGAGUCUCGuu 5'
            |||    :|:||  | :|||||||  
Target 5' cgTTTAAGCTTTGGCTA-TTCAGAGCtc 3'
1395 - 1421 131.00 -15.20
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30468742 8 COSMIC
COSN30154435 16 COSMIC
COSN30496585 34 COSMIC
COSN30525807 36 COSMIC
COSN30474868 58 COSMIC
COSN19256329 83 COSMIC
COSN31559717 113 COSMIC
COSN31500257 138 COSMIC
COSN21649750 346 COSMIC
COSN18778330 444 COSMIC
COSM9101092 586 COSMIC
COSN17078492 657 COSMIC
COSN7082991 1432 COSMIC
COSN27163487 1525 COSMIC
COSM4164586 1630 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs769392763 4 dbSNP
rs745480815 5 dbSNP
rs1365894690 6 dbSNP
rs1318126376 7 dbSNP
rs766888214 10 dbSNP
rs1240502115 11 dbSNP
rs1213211276 12 dbSNP
rs780857185 15 dbSNP
rs180792036 16 dbSNP
rs758265593 18 dbSNP
rs1309676799 19 dbSNP
rs371886895 20 dbSNP
rs368450432 21 dbSNP
rs779977284 23 dbSNP
rs374532838 26 dbSNP
rs756246933 34 dbSNP
rs1162866391 36 dbSNP
rs750622503 37 dbSNP
rs1417145578 39 dbSNP
rs1461868828 49 dbSNP
rs188435383 60 dbSNP
rs1352482876 62 dbSNP
rs879235181 67 dbSNP
rs1461174152 70 dbSNP
rs1003696017 73 dbSNP
rs1375052914 77 dbSNP
rs1032377540 80 dbSNP
rs1412437608 100 dbSNP
rs1000866090 101 dbSNP
rs905134659 102 dbSNP
rs1041495648 109 dbSNP
rs1306060984 111 dbSNP
rs1009950126 128 dbSNP
rs370794146 130 dbSNP
rs538523273 131 dbSNP
rs1299930248 137 dbSNP
rs1451036353 142 dbSNP
rs1344046147 145 dbSNP
rs1044992090 146 dbSNP
rs1165056934 148 dbSNP
rs1481729783 153 dbSNP
rs892822030 161 dbSNP
rs1054500564 175 dbSNP
rs537038671 182 dbSNP
rs1013442681 184 dbSNP
rs896268714 185 dbSNP
rs1046818847 197 dbSNP
rs1427760193 205 dbSNP
rs567798366 211 dbSNP
rs919680851 212 dbSNP
rs1432436044 215 dbSNP
rs867805746 217 dbSNP
rs376916232 218 dbSNP
rs1375462964 220 dbSNP
rs534362179 221 dbSNP
rs1188761171 223 dbSNP
rs566985362 231 dbSNP
rs767891270 233 dbSNP
rs1214402873 241 dbSNP
rs1296703229 242 dbSNP
rs1309520782 249 dbSNP
rs1260155085 256 dbSNP
rs551859314 261 dbSNP
rs944536511 263 dbSNP
rs1486075901 265 dbSNP
rs933508580 270 dbSNP
rs1232500317 272 dbSNP
rs1240335157 273 dbSNP
rs1475024709 281 dbSNP
rs1186919114 286 dbSNP
rs923401972 287 dbSNP
rs1297668686 288 dbSNP
rs1380401016 290 dbSNP
rs1360666061 295 dbSNP
rs1172559424 296 dbSNP
rs1395305376 296 dbSNP
rs1293675323 298 dbSNP
rs533172945 300 dbSNP
rs988319488 301 dbSNP
rs957046306 302 dbSNP
rs1343994990 305 dbSNP
rs569229455 311 dbSNP
rs952206431 313 dbSNP
rs1032410289 314 dbSNP
rs979457478 315 dbSNP
rs1461275559 316 dbSNP
rs920620114 319 dbSNP
rs1303019667 320 dbSNP
rs991215468 321 dbSNP
rs1221054399 328 dbSNP
rs969352698 332 dbSNP
rs1446379639 337 dbSNP
rs1023558693 338 dbSNP
rs1035269216 342 dbSNP
rs1013886121 350 dbSNP
rs1253293082 351 dbSNP
rs1003762878 355 dbSNP
rs1156337814 359 dbSNP
rs1427184538 372 dbSNP
rs1400638903 376 dbSNP
rs10211358 377 dbSNP
rs1191899455 380 dbSNP
rs1439219864 384 dbSNP
rs1325611425 393 dbSNP
rs1372039487 415 dbSNP
rs75865964 418 dbSNP
rs1277867511 423 dbSNP
rs1469857014 430 dbSNP
rs1251410209 432 dbSNP
rs1270003874 433 dbSNP
rs1332563078 438 dbSNP
rs1212885228 440 dbSNP
rs1273542960 442 dbSNP
rs1213249687 443 dbSNP
rs1267992649 444 dbSNP
rs869038525 445 dbSNP
rs1179157985 462 dbSNP
rs1021109905 465 dbSNP
rs1164687316 465 dbSNP
rs1178405123 465 dbSNP
rs1335386681 465 dbSNP
rs1414884892 465 dbSNP
rs1431734147 465 dbSNP
rs1470248381 465 dbSNP
rs36104438 465 dbSNP
rs1010001678 477 dbSNP
rs942411832 487 dbSNP
rs892862456 492 dbSNP
rs1353521661 496 dbSNP
rs80130461 497 dbSNP
rs1306905289 515 dbSNP
rs1054149949 519 dbSNP
rs996240561 520 dbSNP
rs1193841560 523 dbSNP
rs1235902755 531 dbSNP
rs192706789 532 dbSNP
rs1206720643 536 dbSNP
rs370051180 545 dbSNP
rs1474519522 546 dbSNP
rs1187772057 547 dbSNP
rs1324826417 550 dbSNP
rs986554225 552 dbSNP
rs1446988542 555 dbSNP
rs1397656445 556 dbSNP
rs1300335032 560 dbSNP
rs190071582 564 dbSNP
rs1166494168 569 dbSNP
rs1349715119 572 dbSNP
rs900449112 575 dbSNP
rs1373054034 577 dbSNP
rs1373652802 579 dbSNP
rs542432394 585 dbSNP
rs1040276994 586 dbSNP
rs944588794 595 dbSNP
rs907734602 604 dbSNP
rs1047528662 607 dbSNP
rs1193248409 613 dbSNP
rs1230084163 614 dbSNP
rs1440622475 616 dbSNP
rs1252910962 624 dbSNP
rs766513440 624 dbSNP
rs527445621 625 dbSNP
rs1480168536 626 dbSNP
rs1256547081 627 dbSNP
rs1212870871 636 dbSNP
rs1191528329 638 dbSNP
rs1372821768 639 dbSNP
rs1345133833 643 dbSNP
rs559821151 646 dbSNP
rs1170648773 648 dbSNP
rs1240231591 649 dbSNP
rs1434235535 657 dbSNP
rs1337216595 659 dbSNP
rs920658127 666 dbSNP
rs990876187 670 dbSNP
rs1317392261 671 dbSNP
rs1326734635 687 dbSNP
rs1230328951 688 dbSNP
rs959629807 692 dbSNP
rs377643409 696 dbSNP
rs1396169563 697 dbSNP
rs1314036752 698 dbSNP
rs1437055166 704 dbSNP
rs1374169983 705 dbSNP
rs1261479772 710 dbSNP
rs1465686903 716 dbSNP
rs927910036 720 dbSNP
rs1251412798 728 dbSNP
rs1453957306 732 dbSNP
rs982378696 738 dbSNP
rs1379384727 740 dbSNP
rs1157990118 741 dbSNP
rs1385561486 742 dbSNP
rs1437073322 743 dbSNP
rs1323610394 746 dbSNP
rs1173159146 748 dbSNP
rs1440371844 752 dbSNP
rs1369830444 754 dbSNP
rs185231515 755 dbSNP
rs1179871858 756 dbSNP
rs1302789085 756 dbSNP
rs1237701483 757 dbSNP
rs1260717117 757 dbSNP
rs1418306174 758 dbSNP
rs1256519627 759 dbSNP
rs1271603759 769 dbSNP
rs1468215066 773 dbSNP
rs1189985198 777 dbSNP
rs1191920549 779 dbSNP
rs1417465237 782 dbSNP
rs1162556222 783 dbSNP
rs1181148842 783 dbSNP
rs1186805026 783 dbSNP
rs1222753701 783 dbSNP
rs1230711491 783 dbSNP
rs1291826525 783 dbSNP
rs1294997959 783 dbSNP
rs1307031793 783 dbSNP
rs1334683552 783 dbSNP
rs1351667433 783 dbSNP
rs1370713342 783 dbSNP
rs138815406 783 dbSNP
rs1390351980 783 dbSNP
rs1393387344 783 dbSNP
rs1412671935 783 dbSNP
rs1458102451 783 dbSNP
rs1491236312 783 dbSNP
rs34305895 783 dbSNP
rs1185629270 784 dbSNP
rs1195332239 784 dbSNP
rs1479763282 784 dbSNP
rs1484686535 784 dbSNP
rs1491257105 784 dbSNP
rs1417077334 785 dbSNP
rs1424242383 788 dbSNP
rs577608479 793 dbSNP
rs1279503160 794 dbSNP
rs1352430045 799 dbSNP
rs1461127030 801 dbSNP
rs896395888 805 dbSNP
rs1308120887 812 dbSNP
rs1371795637 813 dbSNP
rs1216760066 814 dbSNP
rs1412378582 815 dbSNP
rs1025935288 819 dbSNP
rs1258610673 820 dbSNP
rs1237812196 828 dbSNP
rs1335552633 832 dbSNP
rs1294361838 841 dbSNP
rs1229291993 846 dbSNP
rs1416996611 847 dbSNP
rs966922037 854 dbSNP
rs1021162312 856 dbSNP
rs1226900292 863 dbSNP
rs1275453015 864 dbSNP
rs1484116865 866 dbSNP
rs1011471610 867 dbSNP
rs1354167282 868 dbSNP
rs1312771795 875 dbSNP
rs957181063 885 dbSNP
rs1401389958 889 dbSNP
rs1033166283 893 dbSNP
rs995904388 895 dbSNP
rs1391616221 900 dbSNP
rs1432383531 907 dbSNP
rs1311709531 912 dbSNP
rs1359128008 917 dbSNP
rs900181689 919 dbSNP
rs1157057641 927 dbSNP
rs993994756 928 dbSNP
rs1418837981 929 dbSNP
rs1166898364 931 dbSNP
rs1360230773 936 dbSNP
rs1018544199 937 dbSNP
rs898266294 939 dbSNP
rs1256762306 940 dbSNP
rs1232237202 943 dbSNP
rs1038054845 945 dbSNP
rs942389408 949 dbSNP
rs889412912 950 dbSNP
rs1312711485 951 dbSNP
rs774559470 953 dbSNP
rs1448240629 955 dbSNP
rs1487935866 955 dbSNP
rs1188941206 961 dbSNP
rs1258976732 963 dbSNP
rs1452142035 964 dbSNP
rs1172501816 971 dbSNP
rs1204033451 976 dbSNP
rs1178957084 982 dbSNP
rs1415551856 982 dbSNP
rs933604358 986 dbSNP
rs1457093558 990 dbSNP
rs923544694 993 dbSNP
rs1367645093 994 dbSNP
rs1438901688 996 dbSNP
rs1274339083 1000 dbSNP
rs988739120 1001 dbSNP
rs935500904 1006 dbSNP
rs1221002433 1007 dbSNP
rs1282122271 1009 dbSNP
rs1328350341 1012 dbSNP
rs556110174 1017 dbSNP
rs979471857 1022 dbSNP
rs969385200 1023 dbSNP
rs1293235810 1024 dbSNP
rs951182932 1031 dbSNP
rs899282687 1032 dbSNP
rs544604941 1033 dbSNP
rs1023674820 1036 dbSNP
rs992169548 1037 dbSNP
rs1316395395 1045 dbSNP
rs760749694 1049 dbSNP
rs1055619986 1051 dbSNP
rs960929176 1052 dbSNP
rs1025545373 1053 dbSNP
rs193225742 1057 dbSNP
rs1167325790 1059 dbSNP
rs375759411 1060 dbSNP
rs377306440 1064 dbSNP
rs1416829427 1065 dbSNP
rs1323208057 1067 dbSNP
rs1168433806 1068 dbSNP
rs567023905 1071 dbSNP
rs1016642949 1079 dbSNP
rs1476390176 1079 dbSNP
rs1371253364 1080 dbSNP
rs1349819900 1081 dbSNP
rs1228872180 1082 dbSNP
rs1289989546 1083 dbSNP
rs1191911914 1088 dbSNP
rs1332498597 1090 dbSNP
rs1006563631 1091 dbSNP
rs889526911 1092 dbSNP
rs371205175 1097 dbSNP
rs564100906 1101 dbSNP
rs1272865976 1103 dbSNP
rs902122831 1107 dbSNP
rs1183614502 1108 dbSNP
rs1414815063 1115 dbSNP
rs533004852 1118 dbSNP
rs1474458171 1127 dbSNP
rs539912277 1130 dbSNP
rs1342153751 1131 dbSNP
rs935499914 1132 dbSNP
rs569190969 1133 dbSNP
rs1043909246 1137 dbSNP
rs948157120 1144 dbSNP
rs1018596552 1145 dbSNP
rs1309842344 1152 dbSNP
rs916647055 1156 dbSNP
rs545801523 1157 dbSNP
rs529238618 1159 dbSNP
rs187679799 1162 dbSNP
rs1371760189 1164 dbSNP
rs1243849679 1165 dbSNP
rs1358059120 1166 dbSNP
rs1212363538 1167 dbSNP
rs183406812 1169 dbSNP
rs767808008 1174 dbSNP
rs1483128372 1176 dbSNP
rs918516317 1183 dbSNP
rs1206650307 1192 dbSNP
rs191245557 1203 dbSNP
rs527533201 1204 dbSNP
rs1238354746 1213 dbSNP
rs1473900873 1215 dbSNP
rs17009955 1222 dbSNP
rs886397880 1222 dbSNP
rs1016760794 1224 dbSNP
rs1411428880 1225 dbSNP
rs899011771 1227 dbSNP
rs1006678374 1232 dbSNP
rs1334566441 1243 dbSNP
rs938106002 1244 dbSNP
rs139444785 1246 dbSNP
rs1257344584 1248 dbSNP
rs146276731 1253 dbSNP
rs1454349313 1256 dbSNP
rs1046470239 1260 dbSNP
rs1396300933 1261 dbSNP
rs763070435 1262 dbSNP
rs1453487068 1275 dbSNP
rs891439085 1278 dbSNP
rs562414139 1283 dbSNP
rs1343509766 1312 dbSNP
rs945349538 1317 dbSNP
rs1257477019 1318 dbSNP
rs1444553831 1332 dbSNP
rs1053124164 1339 dbSNP
rs544208048 1340 dbSNP
rs775478613 1343 dbSNP
rs1233081937 1352 dbSNP
rs1450285124 1358 dbSNP
rs1205717981 1359 dbSNP
rs1375946596 1371 dbSNP
rs999813068 1378 dbSNP
rs573635972 1384 dbSNP
rs1173145017 1385 dbSNP
rs1271536963 1389 dbSNP
rs1398773753 1393 dbSNP
rs1195676451 1396 dbSNP
rs1348698895 1407 dbSNP
rs1319596309 1411 dbSNP
rs1305810418 1420 dbSNP
rs1436753577 1427 dbSNP
rs1300632420 1431 dbSNP
rs141818840 1431 dbSNP
rs1370594744 1433 dbSNP
rs1233325359 1434 dbSNP
rs1257149532 1439 dbSNP
rs921447617 1451 dbSNP
rs139465854 1459 dbSNP
rs770865531 1460 dbSNP
rs1267847008 1461 dbSNP
rs1465528921 1462 dbSNP
rs1210888236 1466 dbSNP
rs1265516845 1470 dbSNP
rs1432720506 1472 dbSNP
rs1352494389 1476 dbSNP
rs1328115982 1481 dbSNP
rs13403485 1483 dbSNP
rs1056528003 1487 dbSNP
rs1379330561 1492 dbSNP
rs1018647335 1493 dbSNP
rs558314776 1494 dbSNP
rs1158165222 1499 dbSNP
rs566944658 1501 dbSNP
rs1458613276 1512 dbSNP
rs377091910 1514 dbSNP
rs973137721 1516 dbSNP
rs962642753 1517 dbSNP
rs909787744 1539 dbSNP
rs1386892320 1541 dbSNP
rs1302697978 1543 dbSNP
rs1333361049 1549 dbSNP
rs1178529826 1553 dbSNP
rs1288126773 1559 dbSNP
rs1025954645 1561 dbSNP
rs186823767 1564 dbSNP
rs953854521 1572 dbSNP
rs1029845469 1581 dbSNP
rs1002032833 1583 dbSNP
rs906647640 1584 dbSNP
rs879359768 1585 dbSNP
rs1412616235 1597 dbSNP
rs1486318634 1610 dbSNP
rs1473472922 1614 dbSNP
rs1162403241 1615 dbSNP
rs1367550861 1620 dbSNP
rs575709548 1633 dbSNP
rs1294775428 1636 dbSNP
rs183078378 1642 dbSNP
rs1311639345 1644 dbSNP
rs567858605 1649 dbSNP
rs1408688912 1650 dbSNP
rs535459657 1651 dbSNP
rs892481531 1655 dbSNP
rs1031373561 1658 dbSNP
rs72907224 1660 dbSNP
rs904134479 1664 dbSNP
rs1310980220 1668 dbSNP
rs1043972397 1670 dbSNP
rs1245723414 1672 dbSNP
rs1225622337 1675 dbSNP
rs1370914019 1682 dbSNP
rs548909444 1689 dbSNP
rs936951365 1691 dbSNP
rs973935320 1693 dbSNP
rs921510162 1694 dbSNP
rs534684040 1699 dbSNP
rs1012438316 1700 dbSNP
rs895275952 1704 dbSNP
rs1424038613 1708 dbSNP
rs878914956 1711 dbSNP
rs1428605915 1713 dbSNP
rs944202474 1715 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
     
Conditions HEK293S
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... HITS-CLIP data was present in GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4 ...

- Karginov FV; Hannon GJ, 2013, Genes & development.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1
miRNA  3' cgaaaGAGCCUCGAGUCUCGUu 5'
               || || |  ||||||| 
Target 5' ccagcCUGGGUG-ACAGAGCAa 3'
8 - 28
Article - Karginov FV; Hannon GJ
- Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
CLIP-seq Support 1 for dataset GSM1084047
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_arsenite_rep4
Location of target site ENST00000393965.3 | 3UTR | CAGCACUCCAGCCUGGGUGACAGAGCAAGACUCUGU
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 23824327 / GSE44404
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
91 hsa-miR-5691 Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT091162 TBL1XR1 transducin beta like 1 X-linked receptor 1 2 2
MIRT242227 TTC9 tetratricopeptide repeat domain 9 2 4
MIRT246192 TXNIP thioredoxin interacting protein 2 2
MIRT251553 DCAF7 DDB1 and CUL4 associated factor 7 2 4
MIRT387267 SOX9 SRY-box 9 2 2
MIRT463486 ZC3H11A zinc finger CCCH-type containing 11A 2 12
MIRT494446 BTG2 BTG anti-proliferation factor 2 2 2
MIRT496478 ADAMTS17 ADAM metallopeptidase with thrombospondin type 1 motif 17 2 2
MIRT501825 NCOA3 nuclear receptor coactivator 3 2 2
MIRT503072 C6orf120 chromosome 6 open reading frame 120 2 2
MIRT504755 TEP1 telomerase associated protein 1 2 4
MIRT505971 RAB11FIP1 RAB11 family interacting protein 1 2 4
MIRT511868 GOLGA7 golgin A7 2 6
MIRT512900 UBL4A ubiquitin like 4A 2 2
MIRT513048 LYPD6 LY6/PLAUR domain containing 6 2 6
MIRT523772 FAM83D family with sequence similarity 83 member D 2 2
MIRT525126 RPS11 ribosomal protein S11 2 2
MIRT525816 VIMP selenoprotein S 2 10
MIRT531222 HIST1H2BD histone cluster 1 H2B family member d 2 2
MIRT531729 SLC2A9 solute carrier family 2 member 9 2 2
MIRT536282 LIMA1 LIM domain and actin binding 1 2 2
MIRT537291 G3BP1 G3BP stress granule assembly factor 1 2 2
MIRT537724 ELAVL2 ELAV like RNA binding protein 2 2 2
MIRT547940 HNRNPA0 heterogeneous nuclear ribonucleoprotein A0 2 2
MIRT554177 SLC35E2B solute carrier family 35 member E2B 2 2
MIRT555015 RAB2B RAB2B, member RAS oncogene family 2 2
MIRT576717 Wars tryptophanyl-tRNA synthetase 2 2
MIRT607484 HEBP2 heme binding protein 2 2 2
MIRT610786 KLK2 kallikrein related peptidase 2 2 2
MIRT611491 ZNF440 zinc finger protein 440 2 2
MIRT613986 DBT dihydrolipoamide branched chain transacylase E2 2 2
MIRT615782 KIAA0319L KIAA0319 like 2 2
MIRT620563 WBSCR27 methyltransferase like 27 2 4
MIRT624157 DGKE diacylglycerol kinase epsilon 2 2
MIRT626088 MKLN1 muskelin 1 2 2
MIRT629481 GSN gelsolin 2 2
MIRT636645 CDK4 cyclin dependent kinase 4 2 2
MIRT638074 HS3ST1 heparan sulfate-glucosamine 3-sulfotransferase 1 2 2
MIRT638442 PLXDC2 plexin domain containing 2 2 2
MIRT641025 KLHL7 kelch like family member 7 2 2
MIRT641539 MOCOS molybdenum cofactor sulfurase 2 2
MIRT643004 ZNF829 zinc finger protein 829 2 2
MIRT643092 NDUFB5 NADH:ubiquinone oxidoreductase subunit B5 2 2
MIRT644979 IL2RA interleukin 2 receptor subunit alpha 2 2
MIRT645912 PLXNA3 plexin A3 2 2
MIRT646605 ORAI2 ORAI calcium release-activated calcium modulator 2 2 2
MIRT648033 FADS6 fatty acid desaturase 6 2 2
MIRT657491 HBEGF heparin binding EGF like growth factor 2 2
MIRT658381 FAM26E calcium homeostasis modulator family member 5 2 2
MIRT659695 CD200 CD200 molecule 2 2
MIRT661276 TEX9 testis expressed 9 2 2
MIRT661348 DYRK4 dual specificity tyrosine phosphorylation regulated kinase 4 2 2
MIRT662948 JPH2 junctophilin 2 2 2
MIRT663225 PPY pancreatic polypeptide 2 2
MIRT663280 SPN sialophorin 2 2
MIRT663335 ZNF74 zinc finger protein 74 2 2
MIRT664344 C16orf45 chromosome 16 open reading frame 45 2 2
MIRT664855 TBRG4 transforming growth factor beta regulator 4 2 2
MIRT665484 VPS53 VPS53, GARP complex subunit 2 2
MIRT666428 SH2B3 SH2B adaptor protein 3 2 2
MIRT668162 GDE1 glycerophosphodiester phosphodiesterase 1 2 2
MIRT670170 CCDC142 coiled-coil domain containing 142 2 2
MIRT671277 MTO1 mitochondrial tRNA translation optimization 1 2 2
MIRT672284 GP2 glycoprotein 2 2 2
MIRT672435 RAB10 RAB10, member RAS oncogene family 2 2
MIRT672646 SLC25A16 solute carrier family 25 member 16 2 4
MIRT672760 UBE2V2 ubiquitin conjugating enzyme E2 V2 2 2
MIRT672834 AKR7L aldo-keto reductase family 7 like (gene/pseudogene) 2 2
MIRT672841 ICOSLG inducible T-cell costimulator ligand 2 2
MIRT673080 AK1 adenylate kinase 1 2 2
MIRT673148 C1orf50 chromosome 1 open reading frame 50 2 2
MIRT673323 THAP1 THAP domain containing 1 2 2
MIRT673893 DCTN6 dynactin subunit 6 2 2
MIRT674182 PLEKHM3 pleckstrin homology domain containing M3 2 2
MIRT674607 RBBP4 RB binding protein 4, chromatin remodeling factor 2 2
MIRT674740 SLC16A1 solute carrier family 16 member 1 2 2
MIRT675140 MOGAT1 monoacylglycerol O-acyltransferase 1 2 4
MIRT675194 NKPD1 NTPase KAP family P-loop domain containing 1 2 2
MIRT675886 SNAP29 synaptosome associated protein 29 2 2
MIRT679163 PSMB2 proteasome subunit beta 2 2 2
MIRT680337 ZNF281 zinc finger protein 281 2 2
MIRT706699 GPR155 G protein-coupled receptor 155 2 2
MIRT706911 THAP6 THAP domain containing 6 2 2
MIRT707880 SLC45A4 solute carrier family 45 member 4 2 2
MIRT709097 SEPT4 septin 4 2 2
MIRT709408 FBXL20 F-box and leucine rich repeat protein 20 2 2
MIRT710845 FAM210A family with sequence similarity 210 member A 2 2
MIRT711358 VPS8 VPS8, CORVET complex subunit 2 2
MIRT718590 SCD5 stearoyl-CoA desaturase 5 2 2
MIRT723649 RPTN repetin 2 2
MIRT724208 NUP205 nucleoporin 205 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-5691 Vemurafenib 42611257 NSC761431 approved sensitive cell line (451Lu)

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