>IMP4|NM_033416|3'UTR
   1 GCACACTCACCACTCAGTCAGGACATGGACTTGGAACTCAGGATGGGGCTGTCATAGACAGACCCACCAGTAGGAACTGT
  81 CACAGAATGGCCTGCTGAACTGGGATGTGGAACTGTGGCGGGTGGAGAGGTCTGAATAAACCGTCTGTGTCATGGCCCCG
 161 CCTGCCTCTGAGTGGTCAGGCCAAGTCTGCAGGGCAAAGCCCATGGGATCCCTTTGGGTGGGGACCTGATGGCTGTGGGA
 241 CGTGCTTGGGCCTGGAGTCAGTGTGGGGGTTAACAGAGAGAGAGATTTGATGCTAACGTCCCCTCAAGAGTGAGGGTCAT
 321 ATGAGCTCTTCAGCAGGCAGATGTGGGTAGCAGGGCCAGCCTGTGTCAGGGGCAGCCCACCAAGTTAACTCACTGAGTGG
 401 AAGCCGCCAGTGTGCCAACGCGGAGGGGACAGGCCACACCCAGTGCTCAGCAGCTGATTCCTCATGTAAGTGGCATCATG
 481 TGGTATTTGTTTTGTGTCTGGCTTATTTCTATTAACATAATGTTCTCCAGGTTCCTCCATGTTATTGCAAATGATAGGAT
 561 TTCTTTCCTTGTAAAAAATAACATGCCACATTTTCTTACCAATCCGTCCACCAATAGACACTTAGGTCGTTTTCATAGTT
 641 TGGCAGTTGTGGAAATGCTGCAGTAAACATGGGAGTATAGCTATCTTTTGAAGATAATGATTTCATCTCTTTTTTATATG
 721 TATACCCAGAAGTGGGATTGCTGCATCAAATGGTGGTTCTATTTTTAATTTTTTGAGGAACCGCCATACTGTTTTCCATA
 801 AAGGCTGTACTAATTTCCATTCTCACCAACAGTTCACTAGGGTTCCCTTTTCTCCACATTGTTGCCAACATTCTTTATCT
 881 TGTGTTTTTTAATAACAGCTATCCTAACAGGTATGAGGTGATCTCTCTCATTGCGGTTTTGATTTGCATTTCCCTAACGG
 961 TTGGTGATACTGAGCATTTTTGCATACACCGGGTCATTTGTTCTTTGTTGTTGACTTGAGTCCCTTATATAGTTTGGATA
1041 CTGCTGTGGCCTGAATGTTTGTGTCCCCCAAAAATTCGTATATTGAACTCTCATCCCTAAGGTCAACAGTTTAGGGAAGC
1121 GATTAGGTCCTGAGGACTCTGCCCTCTTGCATAGAATTAGTGCTCTTATAAAAGATGCCCGAGGGAGCTCTTTTGCCCCT
1201 CCTGCCATGTGAGGACACAGCTAGAAGCTACCATCTGTGAACCAGGAAGCCCCCCTCACCAGACACTGAATCTGCTGGAG
1281 CCACCATCTTGGACTTCCCAGCCTCCAGAGCTGTGAGAAATAAATGCCTGTTGTTTAAGCTACCCAGTCTGTGGTATTTT
1361 GTTAGAACAGCCCAAGTTGAGACAGATAGTAACCCTTTACCAGATACATGGTTTGCAAATAGTTTTTCCCACTCTGTAGA
1441 TATAGCCATTGAGAAGCTCCTCAAGATAGACATTAAATACAAAGAAGCATGGT

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' agugucaacGGUC--GACUCUAAu 5' |||| ||:|||| Target 5' tatgtatacCCAGAAGTGGGATTg 3'	717 - 740	131.00	-12.60
2	miRNA 3' agUGUCAACGGU--CGACUC-UAAu 5' ||:|||| :: ||||| ||| Target 5' taACGGTTGGTGATACTGAGCATTt 3'	955 - 979	130.00	-13.40
3	miRNA 3' agUGUC--AACGG-----UCGACUCUAau 5' |||| | ||| | |||:||| Target 5' tcACAGAATGGCCTGCTGAACTGGGATgt 3'	80 - 108	122.00	-16.95

Mutant ID	Mutant Position	Mutant Source
COSN28740964	9	COSMIC
COSN23061876	33	COSMIC
COSN30160043	43	COSMIC
COSN31561229	130	COSMIC
COSN30105956	137	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs1391186294	2	dbSNP
rs755641127	3	dbSNP
rs777316797	4	dbSNP
rs1367984461	5	dbSNP
rs772871399	6	dbSNP
rs774670284	7	dbSNP
rs11542414	9	dbSNP
rs778773468	11	dbSNP
rs745675261	12	dbSNP
rs1297797896	13	dbSNP
rs771788273	16	dbSNP
rs531555970	17	dbSNP
rs1279517643	19	dbSNP
rs1200124201	21	dbSNP
rs1342897315	24	dbSNP
rs767693563	26	dbSNP
rs1293923798	27	dbSNP
rs1322222896	37	dbSNP
rs543708443	40	dbSNP
rs989484404	41	dbSNP
rs768663794	46	dbSNP
rs1219370421	52	dbSNP
rs1276287926	55	dbSNP
rs35863125	63	dbSNP
rs116215643	77	dbSNP
rs1359528799	82	dbSNP
rs772154814	83	dbSNP
rs1412382211	84	dbSNP
rs1398239122	101	dbSNP
rs1232347856	109	dbSNP
rs1251676118	110	dbSNP
rs982569879	114	dbSNP
rs928067538	120	dbSNP
rs879428970	121	dbSNP
rs1196695326	122	dbSNP
rs1192135539	123	dbSNP
rs902085347	124	dbSNP
rs200806182	127	dbSNP
rs1476367098	130	dbSNP
rs1052041783	132	dbSNP
rs1238432977	135	dbSNP
rs532830806	141	dbSNP
rs1010614378	142	dbSNP
rs894270592	144	dbSNP
rs547708704	149	dbSNP
rs566241684	151	dbSNP
rs1013910979	154	dbSNP
rs1265620277	159	dbSNP
rs1024006692	160	dbSNP
rs1047655301	166	dbSNP
rs547155709	171	dbSNP
rs1194276303	173	dbSNP
rs962032351	175	dbSNP
rs868362458	182	dbSNP
rs1426267382	184	dbSNP
rs944398246	188	dbSNP
rs972301945	190	dbSNP
rs1464590316	192	dbSNP
rs1397543750	193	dbSNP
rs1169099715	195	dbSNP
rs186198743	196	dbSNP
rs952237559	201	dbSNP
rs986300591	204	dbSNP
rs140737730	213	dbSNP
rs1028478676	217	dbSNP
rs944819439	218	dbSNP
rs893989990	219	dbSNP
rs1179498111	223	dbSNP
rs976148493	224	dbSNP
rs913882573	242	dbSNP
rs1215681865	243	dbSNP
rs1385888083	253	dbSNP
rs1289136157	254	dbSNP
rs1226342686	255	dbSNP
rs945373815	265	dbSNP
rs1278549069	269	dbSNP
rs1041603466	274	dbSNP
rs1309479355	275	dbSNP
rs1445610499	275	dbSNP
rs1021213862	283	dbSNP
rs1327292752	286	dbSNP
rs145790801	287	dbSNP
rs1342173938	294	dbSNP
rs967105512	298	dbSNP
rs1277539178	299	dbSNP
rs191702326	301	dbSNP
rs1223780568	302	dbSNP
rs1439288074	303	dbSNP
rs1192983781	306	dbSNP
rs925897810	306	dbSNP
rs1488856599	310	dbSNP
rs1263777200	312	dbSNP
rs935817940	314	dbSNP
rs760622599	315	dbSNP
rs1035083835	319	dbSNP
rs1219323073	320	dbSNP
rs556188169	323	dbSNP
rs1205982014	326	dbSNP
rs1286437764	327	dbSNP
rs1239206434	331	dbSNP
rs1351044016	342	dbSNP
rs990914322	348	dbSNP
rs1265758510	351	dbSNP
rs145351372	354	dbSNP
rs1219241912	356	dbSNP
rs1366291501	368	dbSNP
rs894216879	369	dbSNP
rs1434973318	376	dbSNP
rs1477075567	379	dbSNP
rs1193559204	388	dbSNP
rs920400256	398	dbSNP
rs1419543669	403	dbSNP
rs149153568	406	dbSNP
rs1045892161	407	dbSNP
rs897454149	408	dbSNP
rs1166213208	411	dbSNP
rs1022468676	420	dbSNP
rs907822580	421	dbSNP
rs1298472675	422	dbSNP
rs944369669	423	dbSNP
rs1215609322	428	dbSNP
rs1487191486	431	dbSNP
rs1257321373	434	dbSNP
rs1040065709	437	dbSNP
rs1362191367	454	dbSNP
rs538906132	457	dbSNP
rs1297364589	458	dbSNP
rs1215887426	461	dbSNP
rs952419511	464	dbSNP
rs879873088	467	dbSNP
rs1279408664	474	dbSNP
rs1007666437	476	dbSNP
rs1017695703	477	dbSNP
rs1359061615	480	dbSNP
rs1304759332	482	dbSNP
rs55872863	484	dbSNP
rs1358843403	499	dbSNP
rs976101061	501	dbSNP
rs1467299760	503	dbSNP
rs913985245	507	dbSNP
rs1192854878	510	dbSNP
rs867736767	512	dbSNP
rs765188854	522	dbSNP
rs572168324	529	dbSNP
rs902787449	532	dbSNP
rs1487510621	536	dbSNP
rs1482723490	537	dbSNP
rs1216258997	538	dbSNP
rs1258670899	540	dbSNP
rs1199923000	541	dbSNP
rs979881591	542	dbSNP
rs1180656527	546	dbSNP
rs542719411	548	dbSNP
rs1422777940	554	dbSNP
rs1315238097	558	dbSNP
rs935933167	559	dbSNP
rs1055733451	564	dbSNP
rs1158857609	567	dbSNP
rs915707800	568	dbSNP
rs1378701940	571	dbSNP
rs959375958	572	dbSNP
rs1401159409	573	dbSNP
rs143301982	574	dbSNP
rs1463978587	580	dbSNP
rs112225933	581	dbSNP
rs1157780781	584	dbSNP
rs951966129	589	dbSNP
rs983345231	591	dbSNP
rs1450094149	596	dbSNP
rs1180163461	600	dbSNP
rs907768041	603	dbSNP
rs758240274	606	dbSNP
rs1301068485	607	dbSNP
rs1045476146	613	dbSNP
rs576123054	614	dbSNP
rs777374395	615	dbSNP
rs1449308263	629	dbSNP
rs751294029	630	dbSNP
rs1330725395	637	dbSNP
rs1444731341	640	dbSNP
rs1311563455	642	dbSNP
rs1392723013	647	dbSNP
rs1351707974	664	dbSNP
rs921578849	666	dbSNP
rs1239724561	670	dbSNP
rs1366525948	672	dbSNP
rs931653213	676	dbSNP
rs1054125441	684	dbSNP
rs149810561	684	dbSNP
rs371436361	684	dbSNP
rs543450663	685	dbSNP
rs565266955	699	dbSNP
rs1270006817	700	dbSNP
rs1210992396	704	dbSNP
rs1034881827	705	dbSNP
rs902691715	706	dbSNP
rs111657186	710	dbSNP
rs756712708	711	dbSNP
rs1482174155	713	dbSNP
rs1237465440	720	dbSNP
rs1236889526	731	dbSNP
rs1056731654	732	dbSNP
rs188136808	744	dbSNP
rs887455640	753	dbSNP
rs1363685652	757	dbSNP
rs1299805317	762	dbSNP
rs1007739997	764	dbSNP
rs1178658119	769	dbSNP
rs14146	778	dbSNP
rs952187389	781	dbSNP
rs966149850	783	dbSNP
rs1177671706	784	dbSNP
rs1197605666	785	dbSNP
rs1433079510	791	dbSNP
rs998128264	792	dbSNP
rs966291566	799	dbSNP
rs116071520	807	dbSNP
rs967221279	827	dbSNP
rs979444502	830	dbSNP
rs1347467213	836	dbSNP
rs148332793	843	dbSNP
rs1275484405	846	dbSNP
rs1358440840	858	dbSNP
rs925246536	867	dbSNP
rs1466087614	869	dbSNP
rs1280031052	870	dbSNP
rs1400310217	871	dbSNP
rs953046480	873	dbSNP
rs750728215	876	dbSNP
rs758833660	877	dbSNP
rs1315724897	878	dbSNP
rs1415797747	886	dbSNP
rs1333391566	901	dbSNP
rs1402519405	902	dbSNP
rs1171478792	904	dbSNP
rs1374804163	905	dbSNP
rs1464118493	905	dbSNP
rs770373271	912	dbSNP
rs1478325344	913	dbSNP
rs1262899352	916	dbSNP
rs35081968	916	dbSNP
rs1191540920	922	dbSNP
rs1279678740	922	dbSNP
rs1444343155	922	dbSNP
rs991370557	924	dbSNP
rs1199882793	926	dbSNP
rs914292589	932	dbSNP
rs1275712283	934	dbSNP
rs915863246	935	dbSNP
rs142986466	936	dbSNP
rs1450035389	940	dbSNP
rs945784806	943	dbSNP
rs6748595	949	dbSNP
rs531421094	959	dbSNP
rs112094397	960	dbSNP
rs929016877	967	dbSNP
rs535033614	969	dbSNP
rs867453916	977	dbSNP
rs1419515453	984	dbSNP
rs1166506489	988	dbSNP
rs191453001	991	dbSNP
rs1048820663	992	dbSNP
rs1238197682	999	dbSNP
rs1180631329	1004	dbSNP
rs1060359	1005	dbSNP
rs1187142425	1014	dbSNP
rs1246994835	1023	dbSNP
rs1459995604	1024	dbSNP
rs1240074667	1025	dbSNP
rs1199393672	1029	dbSNP
rs1317217465	1045	dbSNP
rs1012237066	1052	dbSNP
rs1229754585	1068	dbSNP
rs1356825542	1070	dbSNP
rs887406667	1071	dbSNP
rs1243294518	1072	dbSNP
rs1049122135	1076	dbSNP
rs538569106	1078	dbSNP
rs138201623	1079	dbSNP
rs1424230654	1083	dbSNP
rs1478084155	1093	dbSNP
rs1407391178	1094	dbSNP
rs749635015	1095	dbSNP
rs902144594	1099	dbSNP
rs997677026	1100	dbSNP
rs182498854	1103	dbSNP
rs1398173157	1104	dbSNP
rs1382470224	1107	dbSNP
rs72988304	1109	dbSNP
rs769205942	1121	dbSNP
rs554333084	1125	dbSNP
rs1001333652	1130	dbSNP
rs1223708004	1133	dbSNP
rs774422539	1140	dbSNP
rs1032434829	1144	dbSNP
rs762036204	1145	dbSNP
rs953323158	1147	dbSNP
rs959353139	1148	dbSNP
rs1355395381	1152	dbSNP
rs990857071	1160	dbSNP
rs1238711436	1170	dbSNP
rs990038783	1173	dbSNP
rs1022868721	1175	dbSNP
rs866877729	1181	dbSNP
rs150551849	1182	dbSNP
rs1315528740	1183	dbSNP
rs977162035	1189	dbSNP
rs981393234	1190	dbSNP
rs1194671968	1194	dbSNP
rs919058744	1197	dbSNP
rs1159509128	1199	dbSNP
rs1418530376	1208	dbSNP
rs201708171	1214	dbSNP
rs772185659	1215	dbSNP
rs1478315075	1216	dbSNP
rs1268172287	1217	dbSNP
rs1219907137	1226	dbSNP
rs1489153115	1230	dbSNP
rs537125043	1236	dbSNP
rs1218966264	1237	dbSNP
rs943038515	1238	dbSNP
rs1215470545	1240	dbSNP
rs1038699871	1246	dbSNP
rs371314973	1248	dbSNP
rs916822753	1250	dbSNP
rs1195732492	1251	dbSNP
rs371909145	1275	dbSNP
rs1368899695	1279	dbSNP
rs948259006	1281	dbSNP
rs1403417288	1287	dbSNP
rs1421470343	1289	dbSNP
rs1342800067	1290	dbSNP
rs1299247279	1302	dbSNP
rs558702832	1308	dbSNP
rs1453285173	1318	dbSNP
rs902092066	1321	dbSNP
rs577128509	1322	dbSNP
rs1415126268	1324	dbSNP
rs1428433619	1326	dbSNP
rs757099328	1329	dbSNP
rs1478650783	1331	dbSNP
rs1042663641	1332	dbSNP
rs902646505	1342	dbSNP
rs541364605	1345	dbSNP
rs1001074332	1346	dbSNP
rs1032424710	1348	dbSNP
rs1238901868	1360	dbSNP
rs548341946	1373	dbSNP
rs895254764	1384	dbSNP
rs1036441279	1389	dbSNP
rs901959414	1390	dbSNP
rs1320670492	1405	dbSNP
rs186871324	1408	dbSNP
rs796504058	1419	dbSNP
rs1304815741	1422	dbSNP
rs1448803386	1423	dbSNP
rs1028753709	1429	dbSNP
rs888965866	1444	dbSNP
rs1424324488	1457	dbSNP
rs575202528	1467	dbSNP
rs1011406913	1470	dbSNP
rs542478928	1483	dbSNP
rs1257750959	1493	dbSNP
rs1182115561	1494	dbSNP
rs568485861	1498	dbSNP

- 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.