pre-miRNA Information
pre-miRNA hsa-mir-4436b-1   
Genomic Coordinates chr2: 110086433 - 110086523
Description Homo sapiens miR-4436b-1 stem-loop
Comment None
RNA Secondary Structure
pre-miRNA hsa-mir-4436b-2   
Genomic Coordinates chr2: 110284853 - 110284943
Description Homo sapiens miR-4436b-2 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4436b-3p
Sequence 60| CAGGGCAGGAAGAAGUGGACAA |81
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs760150076 9 dbSNP
Putative Targets

miRNA Expression profile
Human miRNA Tissue Atlas
Circulating MicroRNA Expression Profiling
Gene Information
Gene Symbol MPHOSPH8   
Synonyms HSMPP8, TWA3, mpp8
Description M-phase phosphoprotein 8
Transcript NM_017520   
Expression
Putative miRNA Targets on MPHOSPH8
3'UTR of MPHOSPH8
(miRNA target sites are highlighted)
>MPHOSPH8|NM_017520|3'UTR
   1 CCAAACAGAAGGGACTGGGCGGAGTTCTCTTCAGACCGATTCCTATACTCTCTTTGACAGCAGTTTGGAATTCTTCTAGC
  81 ACATCTATGTAAAGTTTTGTCTGTAAACCTCTTGCAGTTAAGCCTGTTGTCTGTTGTAGTCTGTAAGATGCGACATAGCT
 161 GTGTCTGTGCCAGTATGCCGGAATCTCAGTGCAGTGTCCAGACTGCGTATTTCAGTTTTTCCACAATGTGGATAGTACAT
 241 ATGAGGATTATTTAAGAAAATTAAAGACTTCACTTTCTTTTTTCTGGAGACGGAGTTTCGCTCTTGTTGCCCAGGCTGGA
 321 GTGCAATGGTGCGATCTCGGCTCACTGCAAGCTCTGCCTCCTGGGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAG
 401 CTGGGATTACAGACACCCGCCATGGCACCCAGCTAATTTTGTATTTTTAGTAGAGATGGGGTTTATCCATGTTGGTCAGG
 481 CTGGTCTTGAACTCCTGACCTCAGGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTTGGATTACAGGCATGAGCCACCGC
 561 ACCCAGCAAGAGTTATTTTCTTAACTTGAAATTTTCTACTAGCCCTGGTGAACTTCTGTGCTTAAAAAAAAAAAAAAAAA
 641 AAGGAAAAATTCAGCTCTAAAACATTTGCTTACAGCAAGGGAGCCATGTTATATTCAAGTTACCCAAGCACCAAATAAAG
 721 TGTGGGTTTGCTGCCCTTGAAAGGGTTGGGAGGCCTGATCTTTTTCTAGTAGACAGTTGCCACACATTCCCCAAGCACAA
 801 AAGGTGGAGATGGCAGTCACTTTGTAAATATGCTGTAGTCACTTATCATCTTTTCAAAGGGTAACAAGAGAATCTAAGAT
 881 GTAGTAAGAATGTAAACCAGTACACTATGAGACCTAAAAGAGAGTATTAAATGTGAACTTTTAGCAGAGCGTGGTGGCTC
 961 ACACCTATAATCCCAGCGCTTTGGAGGCTGAGGTTGGAGGATTGCTTAAGTCCAGGAGTTCAAGACCAGCCTGGGTAACA
1041 TGGGGTGGAACAAGCCTGTAGTCCCAGATACTCAGGAGGCTGAGGTGAAAGGATTGCTTGAGCCAGGGAGGTCAAGGCTG
1121 CAGTGAGCCGTGAAAGGCCACTGCACTCCAGCCTGAGTGACAGAATGAGACCTTGTCTCAAAAAAAAAAAAAAGTTTCTT
1201 GGAACCTATACGGTTTTTTTTTGTTTTTTTTTTTTGAAAAGCCAGACCTTGTGCCCTTGTTTTGAACACCGACTGGGAAG
1281 ATGGGGCTTAGGTAACAGCCAAACCTGGCTGTCAGCTGTGTGGGAGCCACCACCCTCTCTGGGAAGAGTTCCTGCTTCTG
1361 TATGGCAAGCATAAATCAAGCTCAGTCTGGGTTATGGAGAAGTTGAAAATTGTTTTGTTCCTCATTAGTTTATAATTGTA
1441 TGAAATACGATTTTAATGAAAACTTTTCAGAATTCACGTTTGTGTAGATATTTCAGAGAACCATTTTTACTTTACATCCT
1521 AAAACTGCCTTTTCCTATGGTTTTGTCAATAAAACACTATGATGTTGGTCTGTTTCCTTTTATAAAAAAAAAAAAAA
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' aacaggugaaGAAGGACGGGAc 5'
                    :|| ||||||| 
Target 5' aaagtgtgggTTTGCTGCCCTt 3'
717 - 738 148.00 -14.10
2
miRNA  3' aacAGGUGAAGAA---GGACGGGAc 5'
             |::|| || |    |||||:| 
Target 5' tacTTTACATCCTAAAACTGCCTTt 3'
1508 - 1532 135.00 -10.32
3
miRNA  3' aacAGGUGAAGAAGGACGGGac 5'
             |:|:| |||| :|||||  
Target 5' agtTTCGC-TCTTGTTGCCCag 3'
294 - 314 130.00 -18.30
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN30452567 3 COSMIC
COSN30478081 22 COSMIC
COSN30527829 22 COSMIC
COSN30113205 47 COSMIC
COSN30490605 51 COSMIC
COSN30180726 54 COSMIC
COSN27940064 152 COSMIC
COSN31587718 208 COSMIC
COSN30093892 229 COSMIC
COSN5722754 461 COSMIC
COSN17363982 552 COSMIC
COSN31778996 773 COSMIC
COSN16324844 900 COSMIC
COSN19666043 1214 COSMIC
COSN16234703 1224 COSMIC
COSN20637075 1325 COSMIC
COSN21010556 1443 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs1176765081 14 dbSNP
rs1272162900 21 dbSNP
rs372284464 21 dbSNP
rs762843409 22 dbSNP
rs774483617 23 dbSNP
rs761399873 24 dbSNP
rs767072111 25 dbSNP
rs1422127154 26 dbSNP
rs749970414 33 dbSNP
rs760199334 35 dbSNP
rs766090704 38 dbSNP
rs374241530 39 dbSNP
rs1370462649 40 dbSNP
rs779277000 41 dbSNP
rs182194718 46 dbSNP
rs1222797800 48 dbSNP
rs371541617 48 dbSNP
rs1243740556 49 dbSNP
rs752065295 51 dbSNP
rs758918300 53 dbSNP
rs1304116197 64 dbSNP
rs1445140890 67 dbSNP
rs912825042 68 dbSNP
rs1298728528 69 dbSNP
rs942964516 71 dbSNP
rs1350215618 89 dbSNP
rs975656986 91 dbSNP
rs1035403433 95 dbSNP
rs1158693360 102 dbSNP
rs1416201435 104 dbSNP
rs1283873764 108 dbSNP
rs1445470992 110 dbSNP
rs1219360095 115 dbSNP
rs545496796 117 dbSNP
rs1487523514 118 dbSNP
rs960222548 127 dbSNP
rs1248989916 136 dbSNP
rs988754668 136 dbSNP
rs913042184 146 dbSNP
rs1468439617 148 dbSNP
rs968534136 152 dbSNP
rs1192369302 153 dbSNP
rs978591844 154 dbSNP
rs1397427339 174 dbSNP
rs564311754 174 dbSNP
rs936796290 180 dbSNP
rs1358514149 181 dbSNP
rs1157463689 183 dbSNP
rs1405375778 185 dbSNP
rs1458209869 186 dbSNP
rs765778163 188 dbSNP
rs1162866519 194 dbSNP
rs932791505 196 dbSNP
rs1050184377 201 dbSNP
rs146846590 203 dbSNP
rs550502294 207 dbSNP
rs891501736 216 dbSNP
rs944247688 227 dbSNP
rs1261611140 228 dbSNP
rs945740601 239 dbSNP
rs1045109 242 dbSNP
rs1037306072 243 dbSNP
rs1266848369 244 dbSNP
rs540452593 251 dbSNP
rs562040959 254 dbSNP
rs1333561144 256 dbSNP
rs906875744 261 dbSNP
rs1234114788 263 dbSNP
rs1001431571 276 dbSNP
rs1294769083 284 dbSNP
rs1387144554 290 dbSNP
rs867764218 292 dbSNP
rs370211443 293 dbSNP
rs1369394955 294 dbSNP
rs1324168264 299 dbSNP
rs995661811 300 dbSNP
rs1348849067 301 dbSNP
rs1401258741 303 dbSNP
rs529630636 304 dbSNP
rs1055624240 307 dbSNP
rs1177341931 310 dbSNP
rs898347292 313 dbSNP
rs995722176 317 dbSNP
rs1025728834 322 dbSNP
rs1128240 327 dbSNP
rs905611033 334 dbSNP
rs1001327948 339 dbSNP
rs550657834 340 dbSNP
rs1233825961 343 dbSNP
rs951509903 343 dbSNP
rs1128241 345 dbSNP
rs1301027935 351 dbSNP
rs959737786 358 dbSNP
rs1377997404 359 dbSNP
rs45461897 361 dbSNP
rs533238645 362 dbSNP
rs1395790451 373 dbSNP
rs968627345 376 dbSNP
rs1303954890 377 dbSNP
rs1128242 388 dbSNP
rs964019285 391 dbSNP
rs978560719 392 dbSNP
rs1173470279 398 dbSNP
rs1159515646 399 dbSNP
rs1416707165 409 dbSNP
rs975678000 411 dbSNP
rs1180064025 414 dbSNP
rs551917347 415 dbSNP
rs891628288 416 dbSNP
rs921801177 417 dbSNP
rs1166797562 418 dbSNP
rs567007784 419 dbSNP
rs1391389356 420 dbSNP
rs954235914 423 dbSNP
rs143366304 428 dbSNP
rs1390709062 432 dbSNP
rs1354065360 440 dbSNP
rs1311756410 441 dbSNP
rs75278195 449 dbSNP
rs77789090 450 dbSNP
rs1335279667 469 dbSNP
rs1313593361 470 dbSNP
rs1397846357 471 dbSNP
rs985564025 473 dbSNP
rs1374247061 475 dbSNP
rs914067066 481 dbSNP
rs912529337 489 dbSNP
rs756311917 496 dbSNP
rs1468320774 497 dbSNP
rs972759755 498 dbSNP
rs918824375 499 dbSNP
rs1045439101 500 dbSNP
rs187690379 501 dbSNP
rs931593127 504 dbSNP
rs1425034854 508 dbSNP
rs1255321744 509 dbSNP
rs1209997472 510 dbSNP
rs1048588029 512 dbSNP
rs1203136909 513 dbSNP
rs1350304966 516 dbSNP
rs1266259631 517 dbSNP
rs906042443 521 dbSNP
rs937049569 522 dbSNP
rs1056893446 550 dbSNP
rs764506078 552 dbSNP
rs1342907237 556 dbSNP
rs2926297 557 dbSNP
rs1055656814 558 dbSNP
rs898378423 559 dbSNP
rs190814136 560 dbSNP
rs1195678156 563 dbSNP
rs528391384 564 dbSNP
rs1414955513 566 dbSNP
rs1243669513 571 dbSNP
rs949895396 574 dbSNP
rs2991012 581 dbSNP
rs1182227306 586 dbSNP
rs1243762106 588 dbSNP
rs1190841200 591 dbSNP
rs1446143493 593 dbSNP
rs2926296 597 dbSNP
rs1290874630 601 dbSNP
rs1256426023 613 dbSNP
rs1473992077 620 dbSNP
rs1008750047 622 dbSNP
rs1219298475 622 dbSNP
rs1272666125 622 dbSNP
rs764239880 622 dbSNP
rs1491542648 623 dbSNP
rs1019683923 624 dbSNP
rs1247024780 624 dbSNP
rs1268933576 624 dbSNP
rs1421574017 624 dbSNP
rs1465685835 624 dbSNP
rs1474971633 624 dbSNP
rs1491475748 624 dbSNP
rs58492348 624 dbSNP
rs796412781 624 dbSNP
rs1189836906 625 dbSNP
rs1467345322 626 dbSNP
rs1252603354 632 dbSNP
rs1368758744 634 dbSNP
rs1461432555 636 dbSNP
rs1199427763 639 dbSNP
rs1459096652 641 dbSNP
rs1166156356 642 dbSNP
rs1398506904 643 dbSNP
rs1431758849 644 dbSNP
rs1308665228 645 dbSNP
rs1214448050 646 dbSNP
rs1346190129 650 dbSNP
rs535752561 652 dbSNP
rs1232523255 655 dbSNP
rs2780355 658 dbSNP
rs1000077422 659 dbSNP
rs1368419275 663 dbSNP
rs1028742388 666 dbSNP
rs996813582 672 dbSNP
rs556638678 688 dbSNP
rs1355721931 689 dbSNP
rs900570589 692 dbSNP
rs373778923 693 dbSNP
rs985921079 697 dbSNP
rs1019683628 699 dbSNP
rs965869209 703 dbSNP
rs972727156 705 dbSNP
rs1268971836 708 dbSNP
rs914080769 716 dbSNP
rs796251744 717 dbSNP
rs1394712693 719 dbSNP
rs1179432837 722 dbSNP
rs757530681 723 dbSNP
rs1231210397 725 dbSNP
rs1278941504 726 dbSNP
rs1443548646 729 dbSNP
rs1283083561 734 dbSNP
rs931521333 736 dbSNP
rs1347534687 740 dbSNP
rs981169004 744 dbSNP
rs2780356 767 dbSNP
rs928363082 778 dbSNP
rs538665146 790 dbSNP
rs937011121 793 dbSNP
rs539080441 796 dbSNP
rs927432377 797 dbSNP
rs1374576493 798 dbSNP
rs781515822 800 dbSNP
rs1421150996 801 dbSNP
rs937510907 805 dbSNP
rs778457927 806 dbSNP
rs557408686 807 dbSNP
rs1057489210 817 dbSNP
rs919592678 821 dbSNP
rs1186364491 824 dbSNP
rs1485566322 829 dbSNP
rs1287236415 832 dbSNP
rs747331469 845 dbSNP
rs1318411091 846 dbSNP
rs895561973 847 dbSNP
rs1379193683 848 dbSNP
rs945831142 862 dbSNP
rs886968506 866 dbSNP
rs943864243 873 dbSNP
rs1298633067 875 dbSNP
rs1455140053 880 dbSNP
rs183127693 881 dbSNP
rs1374871631 882 dbSNP
rs1041154856 888 dbSNP
rs1432933883 893 dbSNP
rs1304875458 894 dbSNP
rs1420060904 901 dbSNP
rs540417060 904 dbSNP
rs1185857165 906 dbSNP
rs1475193747 909 dbSNP
rs750581476 909 dbSNP
rs899886126 919 dbSNP
rs1188723949 925 dbSNP
rs904199442 926 dbSNP
rs188060613 928 dbSNP
rs1240020082 939 dbSNP
rs1214575225 940 dbSNP
rs1028922584 951 dbSNP
rs756232163 952 dbSNP
rs1274550328 954 dbSNP
rs1382058401 959 dbSNP
rs376764760 968 dbSNP
rs1383719331 969 dbSNP
rs1359545713 971 dbSNP
rs1368011112 975 dbSNP
rs1019234407 978 dbSNP
rs965483851 979 dbSNP
rs1302080643 983 dbSNP
rs893788740 1005 dbSNP
rs1345191510 1008 dbSNP
rs1460978065 1009 dbSNP
rs1010263961 1010 dbSNP
rs1234744795 1019 dbSNP
rs1427136123 1027 dbSNP
rs1419206799 1028 dbSNP
rs77065909 1041 dbSNP
rs1468682887 1042 dbSNP
rs1485313735 1045 dbSNP
rs1254478889 1049 dbSNP
rs1211352362 1052 dbSNP
rs1251840133 1057 dbSNP
rs1467592132 1057 dbSNP
rs192060891 1059 dbSNP
rs1025613760 1063 dbSNP
rs533349309 1069 dbSNP
rs984148510 1074 dbSNP
rs1294642324 1075 dbSNP
rs1465304318 1080 dbSNP
rs1269148563 1088 dbSNP
rs1324052678 1089 dbSNP
rs1192999259 1091 dbSNP
rs202089265 1093 dbSNP
rs1393184447 1095 dbSNP
rs1300455296 1106 dbSNP
rs927547623 1109 dbSNP
rs1460956865 1114 dbSNP
rs768424354 1116 dbSNP
rs778776487 1118 dbSNP
rs551830666 1126 dbSNP
rs958480233 1130 dbSNP
rs546349156 1131 dbSNP
rs917413158 1133 dbSNP
rs1222511646 1135 dbSNP
rs1248676043 1136 dbSNP
rs1479819920 1137 dbSNP
rs1178087060 1138 dbSNP
rs1453300176 1142 dbSNP
rs1238918602 1144 dbSNP
rs1239632988 1145 dbSNP
rs945760845 1147 dbSNP
rs1442053258 1149 dbSNP
rs1162257516 1150 dbSNP
rs1413462518 1156 dbSNP
rs4769866 1157 dbSNP
rs747123212 1159 dbSNP
rs771026550 1161 dbSNP
rs925592628 1165 dbSNP
rs1166382902 1167 dbSNP
rs1352393924 1171 dbSNP
rs1479648833 1172 dbSNP
rs1445655614 1173 dbSNP
rs1167914621 1174 dbSNP
rs1331400996 1175 dbSNP
rs1417977223 1175 dbSNP
rs1427279395 1176 dbSNP
rs1378517544 1177 dbSNP
rs1169871784 1178 dbSNP
rs1211332996 1180 dbSNP
rs1389731166 1180 dbSNP
rs752838814 1180 dbSNP
rs759607064 1180 dbSNP
rs775129319 1180 dbSNP
rs777885636 1180 dbSNP
rs781522390 1182 dbSNP
rs527829595 1184 dbSNP
rs1379543625 1186 dbSNP
rs1050539078 1191 dbSNP
rs1270695932 1192 dbSNP
rs114056778 1193 dbSNP
rs1373984488 1193 dbSNP
rs768560703 1194 dbSNP
rs1258747133 1195 dbSNP
rs1459160753 1196 dbSNP
rs1182220676 1199 dbSNP
rs1237411407 1202 dbSNP
rs774295540 1203 dbSNP
rs1183947578 1204 dbSNP
rs1417873100 1206 dbSNP
rs1464744599 1208 dbSNP
rs983125521 1209 dbSNP
rs1401776009 1210 dbSNP
rs1269580556 1211 dbSNP
rs748042922 1211 dbSNP
rs10706287 1212 dbSNP
rs1188512547 1212 dbSNP
rs1486549951 1212 dbSNP
rs796784133 1212 dbSNP
rs1354086846 1213 dbSNP
rs1417205600 1213 dbSNP
rs1491272362 1213 dbSNP
rs200819958 1213 dbSNP
rs758277337 1213 dbSNP
rs780139930 1213 dbSNP
rs889036614 1213 dbSNP
rs1159876621 1214 dbSNP
rs1451018448 1214 dbSNP
rs1491313926 1214 dbSNP
rs3210772 1214 dbSNP
rs377547462 1214 dbSNP
rs747004340 1214 dbSNP
rs754426334 1214 dbSNP
rs1467779201 1215 dbSNP
rs1362871166 1216 dbSNP
rs772162079 1217 dbSNP
rs1333005241 1218 dbSNP
rs1255306298 1219 dbSNP
rs943862846 1219 dbSNP
rs1340981031 1220 dbSNP
rs1450189851 1221 dbSNP
rs780797217 1222 dbSNP
rs199534355 1223 dbSNP
rs747645481 1223 dbSNP
rs10531847 1224 dbSNP
rs200756396 1224 dbSNP
rs68077392 1224 dbSNP
rs749587484 1224 dbSNP
rs771351054 1224 dbSNP
rs772864727 1224 dbSNP
rs879134777 1224 dbSNP
rs1339628324 1225 dbSNP
rs1319918704 1226 dbSNP
rs201461884 1226 dbSNP
rs1279093602 1227 dbSNP
rs1040936363 1230 dbSNP
rs1201844292 1231 dbSNP
rs760273921 1232 dbSNP
rs765926211 1233 dbSNP
rs776405257 1234 dbSNP
rs760136907 1235 dbSNP
rs1415588410 1236 dbSNP
rs759816667 1237 dbSNP
rs1193851855 1238 dbSNP
rs765526596 1242 dbSNP
rs1479285646 1243 dbSNP
rs753081152 1244 dbSNP
rs1402348550 1245 dbSNP
rs1464660966 1246 dbSNP
rs1416058444 1249 dbSNP
rs568250310 1256 dbSNP
rs1467144579 1258 dbSNP
rs1170513498 1260 dbSNP
rs1316157817 1264 dbSNP
rs1359595677 1268 dbSNP
rs1400388738 1271 dbSNP
rs529343538 1272 dbSNP
rs1342593678 1276 dbSNP
rs1231395526 1292 dbSNP
rs1040175762 1293 dbSNP
rs1342052229 1294 dbSNP
rs1345837109 1295 dbSNP
rs141840243 1300 dbSNP
rs932746701 1303 dbSNP
rs994231490 1304 dbSNP
rs1284514652 1306 dbSNP
rs150607048 1311 dbSNP
rs778037327 1312 dbSNP
rs1217792282 1314 dbSNP
rs1442481398 1319 dbSNP
rs893812821 1325 dbSNP
rs1009546559 1326 dbSNP
rs1410511515 1327 dbSNP
rs952794237 1328 dbSNP
rs76594897 1337 dbSNP
rs75415579 1338 dbSNP
rs78080926 1339 dbSNP
rs760216477 1349 dbSNP
rs1021626519 1355 dbSNP
rs1395930690 1356 dbSNP
rs569085286 1360 dbSNP
rs184657198 1363 dbSNP
rs1246244075 1381 dbSNP
rs1205283410 1384 dbSNP
rs1440117929 1386 dbSNP
rs1323438601 1400 dbSNP
rs1195594297 1404 dbSNP
rs187846462 1412 dbSNP
rs1222144468 1413 dbSNP
rs1250679205 1414 dbSNP
rs1303724353 1424 dbSNP
rs1235992887 1432 dbSNP
rs906750702 1432 dbSNP
rs1003742507 1435 dbSNP
rs1442294992 1438 dbSNP
rs1337468144 1442 dbSNP
rs566188150 1450 dbSNP
rs1033846506 1452 dbSNP
rs1034796331 1455 dbSNP
rs1180077811 1456 dbSNP
rs958950742 1462 dbSNP
rs1424713280 1464 dbSNP
rs1254272359 1469 dbSNP
rs1177926617 1473 dbSNP
rs993488950 1479 dbSNP
rs770422761 1485 dbSNP
rs1026705258 1486 dbSNP
rs1182027223 1489 dbSNP
rs1486222392 1501 dbSNP
rs754902582 1503 dbSNP
rs967532458 1503 dbSNP
rs1187683546 1507 dbSNP
rs1310141886 1516 dbSNP
rs982436442 1519 dbSNP
rs140084511 1523 dbSNP
rs965330698 1538 dbSNP
rs1409173961 1539 dbSNP
rs925687352 1540 dbSNP
rs1166190837 1546 dbSNP
rs976648224 1550 dbSNP
rs935791677 1555 dbSNP
rs1354428387 1559 dbSNP
rs1412700361 1560 dbSNP
rs1050088262 1565 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 GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb ...

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

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 GSM4903833
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_a
Location of target site NM_017520 | 3UTR | UCAAGUUACCCAAGCACCAAAUAAAGUGUGGGUUUGCUGCCCUUGAAAGGGUUGGGAGGCCUGAUCUUUUUCUAGUAGACAGUUGCCACACAUUCCCCAAGCACAAAAGGUGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 2 for dataset GSM4903834
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / CTL_TD_21_b
Location of target site NM_017520 | 3UTR | UGCCCUUGAAAGGGUUGGGAGGCCUGAUCUUUUUCUAGUAGACAGUUGCCACACAUUCCCCAAGCACAAAAGGUGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 3 for dataset GSM4903836
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_a
Location of target site NM_017520 | 3UTR | CUGCCCUUGAAAGGGUUGGGAGGCCUGAUCUUUUUCUAGUAGACAGUUGCCACACAUUCCCCAAGCACAAAAGGUGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 4 for dataset GSM4903837
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_b
Location of target site NM_017520 | 3UTR | UGCCCUUGAAAGGGUUGGGAGGCCUGAUCUUUUUCUAGUAGACAGUUGCCACACAUUCCCCAAGCACAAAAGGUGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 5 for dataset GSM4903838
Method / RBP HITS-CLIP / AGO
Cell line / Condition Dermal fibroblasts / 124_TD_21_c
Location of target site NM_017520 | 3UTR | UUGAAAGGGUUGGGAGGCCUGAUCUUUUUCUAGUAGACAGUUGCCACACAUUCCCCAAGCACAAAAGGUGGAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Accession Series GSE161239
CLIP-seq Viewer Link
CLIP-seq Support 6 for dataset GSM1084065
Method / RBP HITS-CLIP / AGO2
Cell line / Condition HEK293S / CLIP_emetine_AbnovaAb
Location of target site ENST00000361479.5 | 3UTR | GUGUGGGUUUGCUGC
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
87 hsa-miR-4436b-3p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT066957 ATXN7L3B ataxin 7 like 3B 2 8
MIRT119284 NABP1 nucleic acid binding protein 1 2 6
MIRT128915 KMT2A lysine methyltransferase 2A 2 2
MIRT150116 MIDN midnolin 2 2
MIRT173040 YTHDF3 YTH N6-methyladenosine RNA binding protein 3 2 2
MIRT253117 BCL2L12 BCL2 like 12 2 2
MIRT256997 RGMB repulsive guidance molecule family member b 2 2
MIRT259746 SNX12 sorting nexin 12 2 2
MIRT267278 TMEM109 transmembrane protein 109 2 2
MIRT441934 C1orf109 chromosome 1 open reading frame 109 2 2
MIRT443625 CPSF2 cleavage and polyadenylation specific factor 2 2 2
MIRT445757 AGO1 argonaute 1, RISC catalytic component 2 2
MIRT447835 CTIF cap binding complex dependent translation initiation factor 2 2
MIRT451230 ZNF444 zinc finger protein 444 2 2
MIRT451966 TMPRSS5 transmembrane protease, serine 5 2 2
MIRT453127 HOXC4 homeobox C4 2 2
MIRT454604 RPL13A ribosomal protein L13a 2 2
MIRT455176 SUV39H1 suppressor of variegation 3-9 homolog 1 2 2
MIRT455547 GJB1 gap junction protein beta 1 2 2
MIRT458197 ATP6V0A2 ATPase H+ transporting V0 subunit a2 2 2
MIRT458356 NOC2L NOC2 like nucleolar associated transcriptional repressor 2 2
MIRT458923 DNM2 dynamin 2 2 2
MIRT461013 SYT7 synaptotagmin 7 2 2
MIRT461643 ZSWIM4 zinc finger SWIM-type containing 4 2 2
MIRT461997 PACSIN1 protein kinase C and casein kinase substrate in neurons 1 2 2
MIRT462367 BCL7B BCL tumor suppressor 7B 2 2
MIRT464915 TXNIP thioredoxin interacting protein 2 2
MIRT466311 TIMM22 translocase of inner mitochondrial membrane 22 2 2
MIRT466591 TBC1D2B TBC1 domain family member 2B 2 2
MIRT467045 SRSF1 serine and arginine rich splicing factor 1 2 2
MIRT468750 SDC2 syndecan 2 2 2
MIRT468943 RPS24 ribosomal protein S24 2 2
MIRT469474 REEP5 receptor accessory protein 5 2 2
MIRT469913 PTRF caveolae associated protein 1 2 2
MIRT473325 MEX3A mex-3 RNA binding family member A 2 2
MIRT473643 MARK2 microtubule affinity regulating kinase 2 2 2
MIRT474064 LMNB2 lamin B2 2 2
MIRT474357 KMT2D lysine methyltransferase 2D 2 2
MIRT475394 ICMT isoprenylcysteine carboxyl methyltransferase 2 4
MIRT476335 GLTSCR1L BRD4 interacting chromatin remodeling complex associated protein like 2 2
MIRT478651 CTDNEP1 CTD nuclear envelope phosphatase 1 2 2
MIRT479585 CDC42SE1 CDC42 small effector 1 2 2
MIRT479943 CBX5 chromobox 5 2 2
MIRT482001 AMOTL2 angiomotin like 2 2 2
MIRT482043 AMER1 APC membrane recruitment protein 1 2 2
MIRT483070 EXT2 exostosin glycosyltransferase 2 2 6
MIRT484323 KCNH1 potassium voltage-gated channel subfamily H member 1 2 4
MIRT487528 GXYLT2 glucoside xylosyltransferase 2 2 2
MIRT489636 ALS2CL ALS2 C-terminal like 2 2
MIRT490693 SSTR1 somatostatin receptor 1 2 2
MIRT490871 UPK2 uroplakin 2 2 2
MIRT492582 PPM1L protein phosphatase, Mg2+/Mn2+ dependent 1L 2 2
MIRT492945 NEUROD2 neuronal differentiation 2 2 2
MIRT498675 SOD2 superoxide dismutase 2 2 4
MIRT499349 RAB25 RAB25, member RAS oncogene family 2 2
MIRT502338 GIGYF1 GRB10 interacting GYF protein 1 2 4
MIRT502976 CCNL1 cyclin L1 2 8
MIRT503706 NUP62 nucleoporin 62 2 2
MIRT505567 SMUG1 single-strand-selective monofunctional uracil-DNA glycosylase 1 2 2
MIRT507808 CDKN1B cyclin dependent kinase inhibitor 1B 2 2
MIRT513242 FBXO41 F-box protein 41 2 6
MIRT513586 EVX1 even-skipped homeobox 1 2 2
MIRT525036 FRK fyn related Src family tyrosine kinase 2 2
MIRT531035 TDGF1P3 teratocarcinoma-derived growth factor 1 pseudogene 3 2 2
MIRT531939 RBMS2 RNA binding motif single stranded interacting protein 2 2 2
MIRT534912 PUM2 pumilio RNA binding family member 2 2 2
MIRT535717 N4BP1 NEDD4 binding protein 1 2 2
MIRT540498 ZMAT4 zinc finger matrin-type 4 2 4
MIRT541465 AURKA aurora kinase A 2 2
MIRT554328 SH3GLB1 SH3 domain containing GRB2 like, endophilin B1 2 2
MIRT561572 SLC6A9 solute carrier family 6 member 9 2 2
MIRT564715 ZNF322P1 zinc finger protein 322 pseudogene 1 2 2
MIRT576176 Hmox1 heme oxygenase 1 2 2
MIRT629712 XKR4 XK related 4 2 2
MIRT636182 THBD thrombomodulin 2 2
MIRT646315 MPHOSPH8 M-phase phosphoprotein 8 2 2
MIRT649174 IQSEC1 IQ motif and Sec7 domain 1 2 2
MIRT666945 PMEPA1 prostate transmembrane protein, androgen induced 1 2 2
MIRT684057 FOLR1 folate receptor 1 2 2
MIRT687585 MAU2 MAU2 sister chromatid cohesion factor 2 2
MIRT689953 ZNF185 zinc finger protein 185 with LIM domain 2 2
MIRT704071 SRCAP Snf2 related CREBBP activator protein 2 2
MIRT704327 DCUN1D5 defective in cullin neddylation 1 domain containing 5 2 2
MIRT705406 ATP1B3 ATPase Na+/K+ transporting subunit beta 3 2 2
MIRT710488 CDH5 cadherin 5 2 2
MIRT718241 LCE1A late cornified envelope 1A 2 2
MIRT723182 CDCA4 cell division cycle associated 4 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4436b-3p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4436b-3p Gemcitabine 60750 NSC613327 approved resistant cell line (Panc1-GR4)

Error report submission